Patent Application
20200048318
The fusion of plasma membranes appears necessary for numerous biological processes from conception to the development of skeletal muscle, osteoclasts, trophoblasts, and giant cells. The molecular regulation of fusion is not as understood as it could be and the reconstitution of fusogenicity has not been achieved with mammalian proteins. Specifically, certain factors that participate in membrane coalescence have not been identified. Also, discoveries of specific fusion proteins and development of reconstitution systems have been historically helpful to decipher multiple types of membrane fusion; however, these systems are lacking for mammalian cellular fusion.
Myoblast fusion is a highly regulated process essential for muscle formation during development and regeneration. While numerous proteins have been shown to contribute to mammalian myoblast fusion, myomaker is the only known muscle-specific protein absolutely required for this process. Expression of myomaker in fibroblasts or mesenchymal stromal cells (MSCs) induces their fusion with muscle cells. Myomaker-expressing fibroblasts do not fuse to each other indicating that these cells harbor a competency to fuse, but only in the presence of a fusogenic cell (such as muscle cell). Thus, additional myocyte factors that confer fusogenicity appear to be required for reconstitution of fusion in myomaker+ fibroblasts.
Certain embodiments of the invention address one or more of the deficiencies described above. For example, some embodiments of the invention include polypeptides comprising a myomerger polypeptide. Other embodiments of the invention include myomerger nucleic acid molecules encoding polypeptides comprising a myomerger polypeptide. Other embodiments of the invention include myomerger vectors comprising a myomerger nucleic acid molecule. Still other embodiments of the invention include modified cells comprising a myomerger nucleic acid molecule, a myomerger vector, or a myomerger polypeptide. Yet other embodiments of the invention include methods of making modified cells and methods of using modified cells. Additional embodiments of the invention are also discussed herein.
Some embodiments of the invention include a polypeptide comprising a myomerger polypeptide. In certain embodiments, the polypeptide is not a wt-myomerger polypeptide or is a mutant-myomerger polypeptide. In other embodiments, the polypeptide comprises at least one amino acid modification relative to a wt-myomerger polypeptide. In yet other embodiments, the polypeptide comprises at least one amino acid modification relative to a wt-myomerger polypeptide and the at least one amino acid modification is an insertion, a deletion, or a substitution. In still other embodiments, the polypeptide is selected from SEQ ID Nos: 32-38. In other embodiments, the polypeptide is not a polypeptide is selected from SEQ ID Nos: 32-38. In certain embodiments, the wt-myomerger polypeptide is selected from SEQ ID Nos: 32-38. In other embodiments, the polypeptide sequence has at least an 80% sequence identity to a wt-myomerger polypeptide. In yet other embodiments, the polypeptide sequence has at least a 90% sequence identity to a wt-myomerger polypeptide.
Some embodiments of the invention include a myomerger nucleic acid molecule encoding an inventive polypeptide (e.g., myomerger polypeptide) disclosed herein. In certain embodiments, the myomerger nucleic acid sequence has at least an 80% identity to one or more sequences selected from SEQ ID Nos: 39-49. In other embodiments, the myomerger nucleic acid sequence encoding the polypeptide is selected from SEQ ID NO: 39-49. In still other embodiments, the myomerger nucleic acid sequence is a cDNA, or the myomerger nucleic acid sequence is not SEQ ID NO: 46, SEQ ID NO: 47, SEQ ID NO: 48, or SEQ ID NO: 49. In yet other embodiments, the myomerger nucleic acid molecule is in a cell, an insect cell, a mammalian cell, a human cell, or an sf9 insect cell. In some embodiments, the myomerger nucleic acid molecule is in a non-muscle cell, a muscle cell, a fibroblast, a mesenchymal stem cell (MSC), a hematopoietic stem cell, a blood cell, a bone marrow cell, or an adipose stem cell. In other embodiments, the myomerger nucleic acid molecule is in a modified cell. In yet other embodiments, the myomerger nucleic acid molecule is included in a vector, a viral vector, or a plasmid.
Some embodiments of the invention include a myomerger vector comprising a myomerger nucleic acid molecule disclosed herein.
Some embodiments of the invention include a modified cell comprising a myomerger nucleic acid molecule or a myomerger vector. In some embodiments, the myomerger nucleic acid molecule is exogenous. In other embodiments, the modified cell further comprises a myomaker nucleic acid molecule and at least one modification of the modified cell was the addition of a myomerger nucleic acid molecule or a myomerger vector. In other embodiments, the modified cell further comprises a myomaker nucleic acid molecule. In other embodiments, the modified cell further comprises a myomaker nucleic acid molecule, where optionally at least one modification of the modified cell was the addition of the myomaker nucleic acid molecule. In other embodiments, the modified cell further comprises a myomaker nucleic acid molecule, where at least one modification of the modified cell was the addition of the myomaker nucleic acid molecule. In certain embodiments, the modified cell is an insect cell, a mammalian cell, or a human cell. In yet other embodiments, the modified cell is a non-muscle cell, a muscle cell, a fibroblast, a mesenchymal stem cell (MSC), a hematopoietic stem cell, a blood cell, a bone marrow cell, or an adipose stem cell. In still other embodiments, at least part of the myomerger nucleic acid molecule is under control of a promoter. In certain embodiments, the promotor is a constitutive promoter, a synthetic promoter, an inducible promotor, a tissue specific promoter, a chemically regulated promotor, or a physically regulated promoter. In yet other embodiments, the modified cell comprises a myomerger polypeptide, a myomaker polypeptide, or both, and prior to modification the modified cell did not comprise a myomaker polypeptide, a myomerger polypeptide, or both. In some embodiments, the modified cell comprises a myomaker nucleic acid molecule. In other embodiments, the myomaker nucleic acid molecule is exogenous. In certain embodiments, the modification to the modified cell comprises one or more of (a) diminishing the effect of a first nucleic acid molecule, (b) addition of a second nucleic acid molecule encoding a myomaker polypeptide, or (c) addition of a third nucleic acid molecule encoding a myomerger polypeptide. In other embodiments, the modified cell (a) is a cell (e.g., a muscle cell or a non-muscle cell) that has a diminished effect of a first nucleic acid molecule, (b) a cell (e.g., a muscle cell or a non-muscle cell) that has a diminished effect of a first myomerger nucleic acid molecule, (c) a cell (e.g., a muscle cell or a non-muscle cell) that has a diminished effect of a first myomaker nucleic acid molecule, (d) a cell (e.g., a muscle cell, a non-muscle cell, or a fibroblast) that has an addition of a second myomerger nucleic acid molecule, or (e) a cell (e.g., a muscle cell, a non-muscle cell, or a fibroblast) that has an addition of a third myomerger nucleic acid molecule and that has an addition of a second myomaker nucleic acid molecule, or (f) combinations thereof.
Some embodiments of the invention include a method of preparing a modified cell (e.g., as disclosed herein) comprising adding a myomerger nucleic acid molecule to a first cell. In other embodiments, the first cell is a cell that has been previously modified.
Some embodiments of the invention include a composition comprising an inventive polypeptide (e.g., as disclosed herein), a myomerger nucleic acid molecule, or a modified cell. In other embodiments, the amount of the inventive polypeptide, the myomerger nucleic acid molecule, or the modified cell is from about 0.0001% (by weight total composition) to about 99%.
Some embodiments of the invention include a pharmaceutical composition comprising an inventive polypeptide (e.g., as disclosed here), a myomerger nucleic acid molecule, or a modified cell. In other embodiments, the amount of the inventive polypeptide, the myomerger nucleic acid molecule, or the modified cell is from about 0.0001% (by weight total composition) to about 50%.
Some embodiments of the invention include a method for fusing two or more cells comprising contacting a first cell with a second cell to form a third cell. In some embodiments, the first cell is a modified cell comprising a first myomerger polypeptide and a first myomaker polypeptide; the second cell comprises a second myomaker polypeptide and optionally comprises a second myomerger polypeptide; and the third cell is a multinucleated cell. In certain embodiments, the second cell comprises the second myomerger polypeptide. In other embodiments, the first cell is a non-muscle cell, the second cell is a non-muscle cell, or both. In yet other embodiments, the first cell is a non-muscle cell and the second cell is a muscle cell. In still other embodiments, the second cell is an isolated muscle cell. In some embodiments, the second cell is a myoblast. In yet other embodiments, the second cell is a muscle cell and is part of a muscle or muscle tissue. In certain embodiments, the contacting occurs in vitro or the contacting occurs in vivo.
Some embodiments of the invention include a method for delivering a gene of interest comprising contacting a first cell with a second cell, which fuse to form a third cell. In certain embodiments, the first cell is a modified cell comprising a first myomerger polypeptide, a first myomaker polypeptide, and a gene of interest; the second cell comprises a second myomaker polypeptide and optionally comprises a second myomerger polypeptide; and the third cell is a multinucleated cell and the gene of interest is delivered to the third cell upon fusion of the first cell with the second cell. In some embodiments, the second cell comprises the second myomerger polypeptide. In other embodiments, the first cell is a non-muscle cell, the second cell is a non-muscle cell, or both. In still other embodiments, the first cell is a non-muscle cell and the second cell is a muscle cell. In yet other embodiments, the second cell is an isolated muscle cell. In certain embodiments, the second cell is a myoblast. In other embodiments, the second cell is a muscle cell and is part of a muscle or muscle tissue. In still other embodiments, the contacting occurs in vitro or the contacting occurs in vivo. In some embodiments, the contacting occurs ex vivo and the method further comprises implanting the third cell in an animal. In other embodiments, the second cell underexpresses the gene of interest, does not express the gene of interest, or expresses a defective version of the gene of interest. In still other embodiments, the delivery comprises an injection or an intramuscular injection. In certain embodiments, the delivery comprises an injection comprising the first cell, the second cell, or both, or the delivery comprises an intramuscular injection comprising the first cell, the second cell, or both. In yet other embodiments, the delivery further comprises one or more of the contacting steps.
Other embodiments of the invention are also discussed herein.
The following drawings form part of the present specification and are included to further demonstrate certain aspects of the present invention. The invention may be better understood by reference to one or more of these drawings in combination with the description of specific embodiments presented herein.
While embodiments encompassing the general inventive concepts may take diverse forms, various embodiments will be described herein, with the understanding that the present disclosure is to be considered merely exemplary, and the general inventive concepts are not intended to be limited to the disclosed embodiments.
Some embodiments of the invention include polypeptides comprising a myomerger polypeptide. Other embodiments of the invention include myomerger nucleic acid molecules encoding polypeptides comprising a myomerger polypeptide. Other embodiments of the invention include myomerger vectors comprising a myomerger nucleic acid molecule. Still other embodiments of the invention include modified cells comprising a myomerger nucleic acid molecule, a myomerger vector, or a myomerger polypeptide. Yet other embodiments of the invention include methods of making modified cells and methods of using modified cells. Additional embodiments of the invention are also discussed herein.
Inventive Polypeptides, Nucleic Acid Molecules, and Compositions
Some embodiments of the invention include inventive polypeptides comprising a myomerger polypeptide. In some embodiments, the myomerger polypeptide can be defined as a polypeptide that (a) induces fusogenicity (e.g., by inducing the fusion of myomaker-expressing fibroblasts), (b) can confer fusogenic activity to normally non-fusogenic cells, (c) is expressed during developmental myogenesis, (d) is expressed during regenerative myogenesis, (e) is expressed only during developmental myogenesis, (f) is expressed only during regenerative myogenesis, or (g) combinations thereof. The term “myomerger polypeptide” encompasses “wt-myomerger polypeptides” (i.e., myomerger polypeptides found in nature without any purposely human-made modification) and “mutant myomerger polypeptides” (e.g., with one or more modifications made to a wt-myomerger polypeptide). Nonlimiting examples of wt-myomerger polypeptides are found in Table 1A. In other embodiments, the myomerger polypeptide has at least one amino acid modification relative to a wt-myomerger polypeptide. A wt-myomerger polypeptide can, in some embodiments, be a myomerger polypeptide from any animal including but not limited to a mammal, a rat, a cat, a rabbit, a human, a cow, a chicken, a turkey, a monkey, a tree shrew, a dog, a pig, a shrew, an elephant, or an opossum. Table 1A provides nonlimiting examples of wt-myomerger polypeptides and Tables 1B and 1C provide nonlimiting examples of related nucleic acid sequences (including start and stop codons).
ggccacaagtcctgg
ggccacgggtcctggaaacagcaacgcccatcaa
One or more modifications, in some instances, can include an insertion, a deletion, a substitution, or combinations thereof. In certain embodiments, one or more modifications to a wt-myomerger polypeptide can comprise an insertion, such, but not limited to an insertion at the C-terminus or at the N-terminus of the wt-myomerger polypeptide. In some examples of the embodiments, an insertion can include (e.g., at the C-terminus, at the N-terminus, or at another place in the polypeptide) about 1, about 2, about 3, about 4, about 5, about 6, about 7, about 8, about 9, about 10, about 11, about 12, about 13, about 14, about 15, about 16, about 17, about 18, about 19, or about 20 amino acids (e.g., natural amino acids, or modified or unusual amino acids).
In some embodiments, the inventive polypeptide does not encompass one or more naturally occurring polypeptides (e.g., does not encompass one or more of the wt-myomerger polypeptides). In other embodiments, the inventive polypeptide does not encompass any of the wt-myomerger polypeptides. In some embodiments, the inventive polypeptide does not encompass any naturally occurring polypeptide (e.g., does not encompass any of the wt-myomerger polypeptides or any other naturally occurring polypeptide).
In some embodiments, one or more modifications to a wt-myomerger polypeptide can include one or more substitutions, one or more insertions, or one or more deletions (or combinations thereof) to one or more amino acids in a hydrophobic region of a wt-myomerger polypeptide, in a signal region of a wt-myomerger polypeptide, in a transmembrane region of a wt-myomerger polypeptide, or in a combination thereof. In some embodiments, one or more modifications to a wt-myomerger polypeptide can include one or more substitutions or one or more deletions (or combinations thereof) to one or more amino acids in a hydrophobic region of a wt-myomerger polypeptide, in a signal region of a wt-myomerger polypeptide, in a transmembrane region of a wt-myomerger polypeptide, or in a combination thereof.
In some embodiments, the inventive polypeptide can have a polypeptide sequence with an amino acid sequence identity to a wt-myomerger polypeptide (e.g., SEQ ID NO:32, SEQ ID NO:33, SEQ ID NO:34, and SEQ ID NO:36) of about 70%, about 75%, about 80%, about 85%, 0%, a 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, about 99%, about 99.1%, about 99.2%, about 99.3%, about 99.4%, about 99.5%, about 99.6%, about 99.7%, about 99.8%, about 99.9%, about 99.95%, about 99.99%, less than about 100%, at least about 70%, at least about 80%, at least about 90%, at least about 95%, at least about 99%, or at least about 99.5%. In some embodiments, the inventive polypeptide sequence has an amino acid sequence identity to SEQ ID NO:32, SEQ ID NO:33, SEQ ID NO:34, or SEQ ID NO:36 of about 70%, about 75%, about 80%, about 85%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, about 99%, about 99.1%, about 99.2%, about 99.3%, about 99.4%, about 99.5%, about 99.6%, about 99.7%, about 99.8%, about 99.9%, about 99.95%, about 99.99%, less than about 100%, at least about 70%, at least about 80%, at least about 90%, at least about 95%, at least about 99%, or at least about 99.5%. The amino acid sequence identity (e.g., percent identity) can be determined by any suitable method, such as using BLAST, BLAST-2, ALIGN, ALIGN-2, Clustal Omega, or Megalign software. Unless otherwise indicated, the amino acid sequence identity (e.g., percent identity) is determined using BLAST-2.
In some embodiments, the inventive polypeptide has (e.g., as compared to a wt-myomerger polypeptide or as compared to the absence of a myomerger polypeptide) an increased ability to activate fusion, a decreased ability to activate fusion, an increased ability to confer fusogenicity, a decreased ability to confer fusogenicity, an increased level of expression during embryonic development, a decreased level of expression during embryonic development, an increased level of expression during myogenesis in adult organisms (e.g., older than embryonic), a decreased level of expression during myogenesis in adult organisms (e.g., older than embryonic), an increased level of induction of myogenesis in adult organisms (e.g., older than embryonic), a decreased of induction of myogenesis in adult organisms (e.g., older than embryonic), an increased affinity for membranes, a decreased affinity for membranes, an increased level of association with membrane compartment, a decreased level association with membrane compartment, or combinations thereof. In other embodiments, the inventive polypeptide has (e.g., as compared to a wt-myomerger polypeptide or as compared to the absence of a myomerger polypeptide) an increased ability to activate fusion, an increased ability to confer fusogenicity, an increased level of expression during embryonic development, an increased level of expression during myogenesis in adult organisms (e.g., older than embryonic), an increased level of induction of myogenesis in adult organisms (e.g., older than embryonic), an increased affinity for membranes, an increased level of association with membrane compartment, or combinations thereof.
Some embodiments of the invention include nucleic acid molecules that can encode for the inventive polypeptide (“myomerger nucleic acid molecules”). In certain embodiments, the myomerger nucleic acid molecule is included in a vector (e.g., a viral vector, a retroviral vector, a lentiviral vector, an adenoviral vector, an adeno-associated viral vector, a herpesviral vector, a chimeric viral vector, a plasmid, a cosmid, an artificial chromosome, a bacteriophage, an animal virus, a plant virus, an expression vector, a conjugative vector, or a nonconjugative vector). In certain embodiments, the myomerger nucleic acid molecule is in a cell, such as an insect cell (e.g., an Sf9 cell) or a mammalian cell (e.g., a human cell, a rat cell a mouse cell, a muscle cell, a non-muscle cell, a myoblast, a fibroblast, a C2C12 cell, a 10T ½ fibroblast, an NIH/3T3 cell, a CHO cell, a mesenchymal stem cell (MSC), a hematopoietic stem cell, a blood cell, a bone marrow cell, or an adipose stem cell).
In other embodiments, the myomerger nucleic acid molecule comprises one or more nucleic acid sequences that are not used to encode for the inventive polypeptide (e.g., one or more introns). For example, the myomerger nucleic acid molecule can comprise a nucleic acid sequence as found in nature (e.g., including introns). In certain embodiments, the myomerger nucleic acid molecule differs from the one or more nucleic acid molecules in nature because the myomerger nucleic acid molecule does not include one or more introns. In some embodiments, the myomerger nucleic acid molecule is a cDNA molecule (“myomerger cDNA molecule”). In certain embodiments, the myomerger cDNA molecule is identical to a nucleic acid molecule found in nature. In other embodiments, the myomerger cDNA molecule is not identical to a nucleic acid molecule found in nature (e.g., due to the myomerger cDNA molecule not including one or more introns in the nucleic acid molecule found in nature).
In some embodiments, the myomerger nucleic acid molecule sequence has a sequence identity to a nucleic acid molecule encoding a wt-myomerger polypeptide (e.g., SEQ ID NO:39, SEQ ID NO:40, SEQ ID NO:41, SEQ ID NO:43, SEQ ID NO:46, SEQ ID NO:47, SEQ ID NO:48, or SEQ ID NO:49) of about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, about 99%, about 99.1%, about 99.2%, about 99.3%, about 99.4%, about 99.5%, about 99.6%, about 99.7%, about 99.8%, about 99.9%, about 99.95%, about 99.99%, less than about 100%, at least about 90%, at least about 95%, at least about 99%, or at least about 99.5%. In some embodiments, the myomerger nucleic acid molecule sequence has a sequence identity to SEQ ID NO:39, SEQ ID NO:40, SEQ ID NO:41, SEQ ID NO:43, SEQ ID NO:46, SEQ ID NO:47, SEQ ID NO:48, or SEQ ID NO:49 of about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, about 99%, about 99.1%, about 99.2%, about 99.3%, about 99.4%, about 99.5%, about 99.6%, about 99.7%, about 99.8%, about 99.9%, about 99.95%, about 99.99%, less than about 100%, at least about 90%, at least about 95%, at least about 99%, or at least about 99.5%. Nonlimiting examples of wt-myomerger polypeptides and wt-myomerger nucleic acid molecules can be found in Table 1. The nucleic acid sequence identity (e.g., percent identity) can be determined by any suitable method, such as using BLAST, BLAST-2, ALIGN, ALIGN-2, Clustal Omega, or Megalign software. Unless otherwise indicated, the nucleic acid sequence identity (e.g., percent identity) is determined using BLAST-2.
In some embodiments, the myomerger nucleic acid molecule encodes for an inventive polypeptide that has one or more modifications to wt-myomerger polypeptide in a hydrophobic region, in a signal region, in a transmembrane region, or in a combination thereof.
The myomerger nucleic acid molecule can be made using any suitable technique, such as but not limited to, chemical synthesis, enzymatic production or biological production. Chemical synthesis of a nucleic acid molecule can include, for example, a nucleic acid molecule made by in vitro chemical synthesis using phosphotriester, phosphite or phosphoramidite chemistry and solid phase techniques, or via deoxynucleoside H-phosphonate intermediates. Enzymatically produced nucleic acid molecules can be accomplished using any suitable method including but not limited to Polymerase Chain Reaction (PCR). Biologically produced nucleic acid molecules can be accomplished using any suitable method including but not limited to a recombinant nucleic acid produced (i.e., replicated) in a living cell, such as a recombinant DNA vector replicated in bacteria.
Modifications or changes made in the structure of the nucleic acid molecules and/or polypeptides of the present invention are encompassed within some embodiments of the present invention. In certain embodiments, a polypeptide can be modified (e.g., by one or more insertions, one or more deletions, or one or more substitutions (e.g., conservative substitutions)). In some embodiments, the polypeptide which was modified does not have an appreciable loss (e.g., a decrease in a function of less than about 1%, less than about 5%, less than about 10%, less than about 25%, less than about 50%, less than about 75%, less than about 90%, less than about 95%, less than about 99%, or less than about 100%) of one or more chosen functions of the unmodified polypeptide such as, for example, the ability to form a pore in a cell (e.g., in a cell membrane), the ability to make changes to the cytoskeleton of the cell (e.g., reorganizing the cytoskeleton, rearranging the cytoskeleton, making changes to the cytoskeleton to allow the cell to fuse), the ability to activate fusion of two cells, the ability to make a cell fusion capable (e.g., a protein confers fusion capable properties to a cell if upon adding the protein, the cell is capable of fusing to another cell if that other cell comprises myomaker and myomerger), the ability to confer fusogenicity to a cell (e.g., a protein confers fusogenic properties to a cell if upon adding the protein, the cell will fuse with another cell if that other cell comprises myomaker), the level of expression during embryonic development, the level of expression during myogenesis in adult organisms (e.g., older than embryonic), the level of induction of myogenesis in adult organisms (e.g., older than embryonic), the affinity for membranes, or the level of association with membrane compartment. In some embodiments, the polypeptide which was modified retains desired levels (e.g., at least about 20%, at least about 40%, at least about 50%, at least about 75%, at least about 80%, at least about 90%, at least about 95%, or at least about 99%) of one or more functions of the unmodified polypeptide, such as, for example, the ability to form a pore in a cell (e.g., in a cell membrane), the ability to make changes to the cytoskeleton of the cell (e.g., reorganizing the cytoskeleton, rearranging the cytoskeleton, making changes to the cytoskeleton to allow the cell to fuse), the ability to activate fusion of two cells, the ability to make a cell fusion capable (e.g., a protein confers fusion capable properties to a cell if upon adding the protein, the cell is capable of fusing to another cell if that other cell comprises myomaker and myomerger), the ability to confer fusogenicity to a cell (e.g., a protein confers fusogenic properties to a cell if upon adding the protein, the cell will fuse with another cell if that other cell comprises myomaker), the level of expression during embryonic development, the level of expression during myogenesis in adult organisms (e.g., older than embryonic), the level of induction of myogenesis in adult organisms (e.g., older than embryonic), the affinity for membranes, or the level of association with membrane compartment. In some embodiments, the polypeptide after modification has an increased level of one or more functions as compared to the unmodified polypeptide. Nucleic acid molecules can be designed to encode for such a modified polypeptide, and such nucleic acid molecules are encompassed by the present invention.
A “functional polypeptide” is defined as a polypeptide (e.g., a myomerger polypeptide or a modified polypeptide) that has desired levels (e.g., at least about 20%, at least about 40%, at least about 50%, at least about 75%, at least about 80%, at least about 90%, at least about 95%, or at least about 99%, as compared to another polypeptide, such as a naturally occurring polypeptide) of one or more functions such as, for example, the ability to form a pore in a cell (e.g., in a cell membrane), the ability to make changes to the cytoskeleton of the cell (e.g., reorganizing the cytoskeleton, rearranging the cytoskeleton, making changes to the cytoskeleton to allow the cell to fuse), the ability to activate fusion of two cells, the ability to make a cell fusion capable (e.g., a protein confers fusion capable properties to a cell if upon adding the protein, the cell is capable of fusing to another cell if that other cell comprises myomaker and myomerger), the ability to confer fusogenicity to a cell (e.g., a protein confers fusogenic properties to a cell if upon adding the protein, the cell will fuse with another cell if that other cell comprises myomaker), the level of expression during embryonic development, the level of expression during myogenesis in adult organisms (e.g., older than embryonic), the level of induction of myogenesis in adult organisms (e.g., older than embryonic), the affinity for membranes, or the level of association with membrane compartment. In some embodiments, the function polypeptide has an increased level of one or more functions as compared to another polypeptide (e.g., a naturally occurring polypeptide). Nucleic acid molecules can be designed to encode for functional polypeptides, and such nucleic acid molecules are encompassed by the present invention.
A “functionally equivalent” polypeptide (e.g., a myomerger polypeptide) is defined as a polypeptide that has been modified (e.g., by one or more insertions, one or more deletions, or one or more substitutions (e.g., conservative substitutions)) from an original polypeptide (e.g., a wt-myomerger plypeptide) and that modified polypeptide retains desired levels (e.g., at least about 20%, at least about 40%, at least about 50%, at least about 75%, at least about 80%, at least about 90%, at least about 95%, or at least about 99%) of one or more functions of the original polypeptide, such as, for example, the ability to form a pore in a cell (e.g., in a cell membrane), the ability to make changes to the cytoskeleton of the cell (e.g., reorganizing the cytoskeleton, rearranging the cytoskeleton, making changes to the cytoskeleton to allow the cell to fuse), the ability to activate fusion of two cells, the ability to make a cell fusion capable (e.g., a protein confers fusion capable properties to a cell if upon adding the protein, the cell is capable of fusing to another cell if that other cell comprises myomaker and myomerger), the ability to confer fusogenicity to a cell (e.g., a protein confers fusogenic properties to a cell if upon adding the protein, the cell will fuse with another cell if that other cell comprises myomaker), the level of expression during embryonic development, the level of expression during myogenesis in adult organisms (e.g., older than embryonic), the level of induction of myogenesis in adult organisms (e.g., older than embryonic), the affinity for membranes, or the level of association with membrane compartment. In some embodiments, the functionally equivalent polypeptide has an increased level of one or more functions compared to the original polypeptide. Nucleic acid molecules can be designed to encode for functionally equivalent polypeptides, and such nucleic acid molecules are encompassed by the present invention.
In certain embodiments, the shorter the length of a polypeptide, the fewer the modifications (e.g., substitutions) that can be made within the polypeptide while retaining, for example, a desired level of a chosen function. In some instances, longer domains can have a greater number of such changes while retaining, for example, a desired level of a chosen function. In other embodiments, a full-length polypeptide can have more tolerance for a fixed number of changes while retaining, for example, a desired level of a chosen function, as compared to a shorter length of that polypeptide.
The design of substitutions can take many forms, including but not limited to those described herein. In some embodiments, the hydropathic index of amino acids may be considered in designing substitutions. In the hydropathic index, each amino acid is assigned a hydropathic index on the basis of their hydrophobicity or charge characteristics, as follows: isoleucine (+4.5); valine (+4.2); Leucine (+3.8); phenylalanine (+2.8); cysteine/cystine (+2.5); methionine (+1.9); alanine (+1.8); glycine (−0.4); threonine (−0.7); serine (−0.8); tryptophan (−0.9); tyrosine (−1.3); proline (−1.6); histidine (−3.2); glutamate (−3.5); glutamine (−3.5); aspartate (−3.5); asparagine (−3.5); lysine (−3.9); or arginine (−4.5). In some instances, certain amino acids may be substituted for other amino acids having a similar hydropathic index. In making changes based upon the hydropathic index, the substitution of amino acids with hydropathic indices can be made with amino acids that have an index difference of no more than ±2, no more than ±1, or no more than ±0.5.
In some embodiments, substitutions can also be made based on hydrophilicity values. As detailed in U.S. Pat. No. 4,554,101, the following hydrophilicity values have been assigned to amino acid residues: arginine (+3.0); lysine (+3.0); aspartate (+3.0±1); glutamate (+3.0±1); serine (+0.3); asparagine (+0.2); glutamine (+0.2); glycine (0); threonine (−0.4); proline (−0.5±1); alanine (−0.5); histidine (−0.5); cysteine (−1.0); methionine (−1.3); valine (−1.5); leucine (−1.8); isoleucine (−1.8); tyrosine (−2.3); phenylalanine (−2.5); tryptophan (−3.4). In making changes based upon similar hydrophilicity values, the substitution of amino acids with hydrophilicity values can be made with amino acids that have a value of no more than 12, no more than ±1, or no more than ±0.5.
A “conservative substitution” in an amino acid sequence or polypeptide indicates that a given amino acid residue is replaced by a residue having similar physiochemical characteristics (e.g., no more than ±1 when based on hydropathic index or no more than ±1 when base on hydrophilicity values). Examples of conservative substitutions include (a) substitution of one aliphatic residue for another with an aliphatic residue, (b) substitution of one of Ile, Val, Leu, or Ala for one another of Ile, Val, Leu, or Ala, (c) substitution of one of Gly, Ile, Val, Leu, or Ala for one another of Gly, Ile, Val, Leu, or Ala, (d) substitution of one polar residue for another polar residue, (e) substitution of one of Lys and Arg with another of Lys and Arg, (f) substitution of one of Glu and Asp with another of Glu and Asp, (g) substitution of one of Gln and Asn with another of Gln and Asn, (h) substitution of one hydroxyl or sulfur containing residue with another hydroxyl or sulfur containing residue, (i) substitution of one of Ser, Cys, Thr, or Met with another of Ser, Cys, Thr, or Met, (j) substitution of one aromatic residue for another with an aromatic residue, (k) substitution of one of Phe, Tyr, or Trp with another of Phe, Tyr, or Trp, (l) substitution of one basic residue for another basic residue, (m) substitution of one of His, Lys, or Arg with another of His, Lys, or Arg, (n) substitution of an acidic/amide residue with another acidic/amide residue, (o) substitution of one of Asp, Glu, Asn, or Gln with another of Asp, Glu, Asn, or Gln, (p) substitution of a residue with another residue of a similar size, and (q) substitution of one of Ala, Gly, or Ser with another of Ala, Gly, or Ser. In some embodiments, each amino acid in a hydrophobic region of a polypeptide can be substituted with conservative substitutions (e.g., any combination of conservative substitutions relating to hydrophobic residues).
While discussion has focused on amino acid changes, it will be appreciated that these changes may occur by alteration of the encoding DNA; taking into consideration also that the genetic code is degenerate and that two or more codons may code for the same amino acid. A table of amino acids and their codons is presented below for use in such embodiments, as well as for other uses, such as in the design of probes and primers and the like.
The term “functionally equivalent codon” is used herein to refer to codons that encode the same amino acid, such as the six codons for arginine or serine.
In certain instances, the nucleic acid molecule can be engineered to contain distinct sequences while at the same time retaining the capacity to encode a desired inventive polypeptide. In some embodiments, this can be accomplished owing to the degeneracy of the genetic code (i.e., the presence of multiple codons) which encode for the same amino acids. In other instances, it can be accomplished by including, adding, or excluding introns in the nucleic acid molecule.
In certain embodiments, a restriction enzyme recognition sequence can be introduced into a nucleic acid sequence while maintaining the ability of that nucleic acid molecule to encode a desired polypeptide. In other embodiments, a CRISPR system (e.g., a CRISPR system comprising one or more of guide RNA, crRNA, tracrRNA, sgRNA, DNA repair template, and Cas protein, such as but not limited to CRISPR/Cas9) can be used to introduce a nucleic acid molecule while maintaining the ability of that nucleic acid molecule to encode a desired polypeptide.
It will also be understood that amino acid sequences (e.g., polypeptides) and nucleic acid sequences may include additional residues, such as additional N- or C-terminal amino acids or 5′ or 3′ sequences, and yet still be essentially as set forth in one of the sequences disclosed herein, so long as the sequence meets the criteria set forth above, such as including the maintenance of biological activity where polypeptide expression is concerned. The addition of terminal sequences particularly applies to nucleic acid sequences that may, for example, include various non-coding sequences flanking either of the 5′ or 3′ portions of the coding region or may include various internal sequences, (i.e., introns) which can occur within genes.
Some embodiments of the present invention rely on or use synthesis of polypeptides in cyto, via transcription and translation of appropriate nucleic acid molecules (e.g., nucleic acid sequences as discussed herein). These polypeptides will include the twenty “natural” amino acids, and post-translational modifications thereof. In vitro peptide synthesis permits the use of modified or unusual amino acids. In some embodiments, the inventive polypeptide encompasses modifications (e.g., one or more substitutions or one or more insertions) that include one or more modified or unusual amino acids. A table of exemplary, but not limiting, modified or unusual amino acids is provided in Table C.
The presently disclosed subject matter further includes a method of producing an inventive polypeptide (e.g., a mutant myomerger polypeptide or a wt-myomeger polypeptide). Any suitable method can used to make the inventive polypeptides including but not limited to expression through any suitable molecular biological technique (e.g., using a prokaryotic or eukaryotic expression system), isolation from a source in nature, or chemical synthesis. Eukaryotic expression systems include plant-based systems; insect cell systems via recombinant baculoviruses; whole insect systems via recombinant baculoviruses; genetically engineered yeast systems, including but not limited to Saccharomyces sp. and Picchia spp.; and mammalian cell systems, including but not limited to C2C12 cells, 10T ½ fibroblasts, NIH/3T3 fibroblasts, mesenchymal stem cells (MSCs), hematopoietic stem cells, Chinese hamster ovary cells or other cell lines commonly used for industrial scale expression of recombinant proteins. In some embodiments, useful plant-based expression systems can include transgenic plant systems. In some embodiments, useful plant-based expression systems can include transplastomic plant systems.
In some embodiments, a method of producing the inventive polypeptide includes providing a host cell comprising a nucleic acid molecule, as disclosed herein, operatively linked to a promoter operable under conditions whereby the encoded polypeptide is expressed; and recovering the polypeptide from the host cell.
Myomaker Polypeptides and Myomaker Nucleic Acid Molecules
Some embodiments of the invention include compositions comprising the myomaker polypeptide, the myomaker nucleic acid molecule, or both, cells comprising the myomaker polypeptide, the myomaker nucleic acid molecule, or both, or using the myomaker polypeptide, the myomaker nucleic acid molecule, or both. In certain embodiments, the myomaker polypeptide, the myomaker nucleic acid molecule, or both, are used or part of a composition or a cell, with a myomerger polypeptide, a myomerger nucleic acid molecule, or both. In some embodiments, the myomaker polypeptide is the myomaker protein disclosed in WO 2014/210448 A1, which is herein incorporated by reference in its entirety. In other embodiments, myomaker polypeptide is the myomaker protein disclosed in Table 10A of WO 2014/210448 A1. The term “myomaker polypeptide” encompasses “wt-myomaker polypeptides” (i.e., myomaker polypeptides found in nature without any purposely human-made modification) and “mutant myomaker polypeptides” (e.g., with one or more modifications made to a wt-myomaker polypeptide). Nonlimiting examples of wt-myomaker polypeptides are found in Table 10A of WO 2014/210448 A1 or in Table 2A. In other embodiments, the myomaker polypeptide has at least one amino acid modification relative to a wt-myomaker polypeptide. A wt-myomaker polypeptide can, in some embodiments, be a myomaker polypeptide from any animal including but not limited to a mammal, a rat, a cat, a rabbit, a human, a cow, a chicken, a turkey, a monkey, a tree shrew, a dog, a pig, a shrew, an elephant, or an opossum. Table 2A provides nonlimiting examples of wt-myomaker polypeptides and Tables 2B and 2C provide nonlimiting examples of related nucleic acid sequences (including start and stop codons).
tgctgcgcc
ctatacccccccacacacacacacacaccaggcccctgccttcctg
One or more modifications, in some instances, can include an insertion, a deletion, a substitution, or combinations thereof. In some embodiments, the inventive polypeptide does not encompass one or more naturally occurring polypeptides (e.g., does not encompass one or more of the wt-myomaker polypeptides). In other embodiments, the inventive polypeptide does not encompass any of the wt-myomaker polypeptides. In some embodiments, the inventive polypeptide does not encompass any naturally occurring polypeptide (e.g., does not encompass any of the wt-myomaker polypeptides or any other naturally occurring polypeptide).
In some embodiments, one or more modifications to a wt-myomaker polypeptide can include one or more substitutions, one or more insertions, or one or more deletions (or combinations thereof) to one or more amino acids in a hydrophobic region of a wt-myomaker polypeptide, to one or more amino acids in a hydrophilic region of a wt-myomaker polypeptide, or in a combination thereof. In some embodiments, one or more modifications to a wt-myomaker polypeptide can include one or more substitutions or one or more deletions (or combinations thereof) to one or more amino acids in a hydrophobic region of a wt-myomaker polypeptide, to one or more amino acids in a hydrophilic region of a wt-myomaker polypeptide, or in a combination thereof.
In some embodiments, the myomaker polypeptide can have a polypeptide sequence with an amino acid sequence identity to a wt-myomaker polypeptide (e.g., SEQ ID NO:50 or SEQ ID NO:53) of about 70%, about 75%, about 80%, about 85%, about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, about 99%, about 99.1%, about 99.2%, about 99.3%, about 99.4%, about 99.5%, about 99.6%, about 99.7%, about 99.8%, about 99.9%, about 99.95%, about 99.99%, less than about 100%, at least about 70%, at least about 80%, at least about 90%, at least about 95%, at least about 99%, or at least about 99.5%. In some embodiments, the myomaker polypeptide sequence has an amino acid sequence identity to SEQ ID NO:50 or SEQ ID NO:53 of about 70%, about 75%, about 80%, about 85%, about 90%, 1%, a 91%, about 92%, about 93%, 4%, a 94%, about 95%, about 96%, about 97%, about 98%, about 99%, about 99.1%, about 99.2%, about 99.3%, about 99.4%, about 99.5%, about 99.6%, about 99.7%, about 99.8%, about 99.9%, about 99.95%, about 99.99%, less than about 100%, at least about 70%, at least about 80%, at least about 90%, at least about 95%, at least about 99%, or at least about 99.5%. The amino acid sequence identity (e.g., percent identity) can be determined by any suitable method, such as using BLAST, BLAST-2, ALIGN, ALIGN-2, Clustal Omega, or Megalign software. Unless otherwise indicated, the amino acid sequence identity (e.g., percent identity) is determined using BLAST-2.
Nucleic acid molecules that encode for the myomaker polypeptide are termed “myomaker nucleic acid molecules.” In certain embodiments, the myomaker nucleic acid molecule is included in a vector (e.g., a viral vector, a retroviral vector, a lentiviral vector, an adenoviral vector, an adeno-associated viral vector, a herpesviral vector, a chimeric viral vector, a plasmid, an expression vector, a conjugative vector, or a nonconjugative vector). In certain embodiments, the myomerger nucleic acid molecule is in the same vector as the myomaker nucleic acid molecule. In certain embodiments, the myomaker nucleic acid molecule is in a cell, such as an insect cell (e.g., an Sf9 cell) or mammalian cell (e.g., a human cell, a rat cell a mouse cell, a muscle cell, a non-muscle cell, a myoblast, a fibroblast, a C2C12 cell, a 10T ½ fibroblast, a NIH/3T3 cell, a CHO cell, a mesenchymal stem cell (MSC), a hematopoietic stem cell, a blood cell, a bone marrow cell, or an adipose stem cell). In certain embodiments, the myomerger nucleic acid molecule is in the same cell as the myomaker nucleic acid molecule.
In other embodiments, the myomaker nucleic acid molecule comprises one or more nucleic acid sequences that are not used to encode for the myomaker polypeptide (e.g., one or more introns). For example, the myomaker nucleic acid molecule can include one or more nucleic acid molecules as found in nature (e.g., including introns). In certain embodiments, the myomaker nucleic acid molecule differs from the one or more nucleic acid molecules in nature because the myomaker nucleic acid molecule does not include one or more introns. In some embodiments, the myomaker nucleic acid molecule is a cDNA molecule (“myomaker cDNA molecule”). In certain embodiments, the myomaker cDNA molecule is identical to a nucleic acid molecule found in nature. In other embodiments, the myomaker cDNA molecule is not identical to a nucleic acid molecule found in nature (e.g., due to the myomaker cDNA molecule not including one or more introns in the nucleic acid molecule found in nature).
In some embodiments, the myomaker nucleic acid molecule sequence has a sequence identity to a nucleic acid molecule encoding a wt-myomaker polypeptide (e.g., SEQ ID NO:56, SEQ ID NO:59, SEQ ID NO:62, SEQ ID NO:63, SEQ ID NO:64, or SEQ ID NO:65) of about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, about 99%, about 99.1%, about 99.2%, about 99.3%, about 99.4%, about 99.5%, about 99.6%, about 99.7%, about 99.8%, about 99.9%, about 99.95%, about 99.99%, less than about 100%, at least about 90%, at least about 95%, at least about 99%, or at least about 99.5%. In some embodiments, the myomaker nucleic acid molecule sequence has a sequence identity to SEQ ID NO:56, SEQ ID NO:59, SEQ ID NO:62, SEQ ID NO:63, SEQ ID NO:64, or SEQ ID NO:65 of about 90%, about 91%, about 92%, a, ab 93%, about 94%, about 95%, about 96%, about 97%, about 98%, about 99%, about 99.1%, about 99.2%, about 99.3%, about 99.4%, about 99.5%, about 99.6%, about 99.7%, about 99.8%, about 99.9%, about 99.95%, about 99.99%, less than about 100%, at least about 90%, at least about 95%, at least about 99%, or at least about 99.5%. Nonlimiting examples of wt-myomaker polypeptides and wt-myomaker nucleic acid molecules can be found in Table 2. The nucleic acid sequence identity (e.g., percent identity) can be determined by any suitable method, such as using BLAST, BLAST-2, ALIGN, ALIGN-2, Clustal Omega, CRISPor Megalign software. Unless otherwise indicated, the nucleic acid sequence identity (e.g., percent identity) is determined using BLAST-2.
In some embodiments, the myomaker nucleic acid molecule encodes for a myomaker polypeptide that has one or more modifications to wt-myomaker polypeptide in a hydrophobic region, in a hydrophilic region, or in a combination thereof.
The myomaker nucleic acid molecule can be made using any suitable technique, such as but not limited to, those found in WO 2014/210448 A1, chemical synthesis, enzymatic production or biological production. Chemical synthesis of a nucleic acid molecule can include, for example, a nucleic acid molecule made by in vitro chemical synthesis using phosphotriester, phosphite or phosphoramidite chemistry and solid phase techniques, or via deoxynucleoside H-phosphonate intermediates. Enzymatically produced nucleic acid molecules can be accomplished using any suitable method including but not limited to Polymerase Chain Reaction (PCR). Biologically produced nucleic acid molecules can be accomplished using any suitable method including but not limited to a recombinant nucleic acid produced (i.e., replicated) in a living cell, such as a recombinant DNA vector replicated in bacteria.
Modifications or changes made in the structure of the myomaker nucleic acid molecules and/or myomaker polypeptides can be used in the present invention. In certain embodiments, a myomaker polypeptide can be modified (e.g., by one or more insertions, one or more deletions, or one or more substitutions (e.g., conservative substitutions)). In some embodiments, the myomaker polypeptide which was modified does not have an appreciable loss (e.g., a decrease in a function of less than about 1%, less than about 5%, less than about 10%, less than about 25%, less than about 50%, less than about 75%, less than about 90%, less than about 95%, less than about 99%, or less than about 100%) of one or more functions of the unmodified myomaker polypeptide such as, for example, the ability to activate fusion of two cells, the ability to make a cell fusion capable (e.g., a protein confers fusion capable properties to a cell if upon adding the protein, the cell is capable of fusing to another cell if that other cell comprises myomaker and myomerger), the ability to confer fusogenicity to a cell (e.g., a protein confers fusogenic properties to a cell if upon adding the protein, the cell will fuse with another cell if that other cell comprises myomaker), the level of expression during embryonic development, the level of expression during myogenesis in adult organisms (e.g., older than embryonic), the level of induction of myogenesis in adult organisms (e.g., older than embryonic), the affinity for membranes, or the level of association with membrane compartment. In some embodiments, the myomaker polypeptide which was modified retains desired levels (e.g., at least about 20%, at least about 40%, at least about 50%, at least about 75%, at least about 80%, at least about 90%, at least about 95%, or at least about 99%) of one or more functions of the unmodified myomaker polypeptide, such as, for example, the ability to activate fusion of two cells, the ability to make a cell fusion capable (e.g., a protein confers fusion capable properties to a cell if upon adding the protein, the cell is capable of fusing to another cell if that other cell comprises myomaker and myomerger), the ability to confer fusogenicity to a cell (e.g., a protein confers fusogenic properties to a cell if upon adding the protein, the cell will fuse with another cell if that other cell comprises myomaker), the level of expression during embryonic development, the level of expression during myogenesis in adult organisms (e.g., older than embryonic), the level of induction of myogenesis in adult organisms (e.g., older than embryonic), the affinity for membranes, or the level of association with membrane compartment. In some embodiments, the myomaker polypeptide after modification has an increased level of one or more functions as compared to the unmodified myomaker polypeptide. Nucleic acid molecules can be designed to encode for such a modified myomaker polypeptide, and such nucleic acid molecules can be used in the present invention.
A “functional myomaker polypeptide” is defined as a myomaker polypeptide (e.g., a modified polypeptide) that has desired levels (e.g., at least about 20%, at least about 40%, at least about 50%, at least about 75%, at least about 80%, at least about 90%, at least about 95%, or at least about 99%, as compared to another myomaker polypeptide, such as a naturally occurring myomaker polypeptide) of one or more functions such as, for example, the ability to activate fusion of two cells, the ability to make a cell fusion capable (e.g., a protein confers fusion capable properties to a cell if upon adding the protein, the cell is capable of fusing to another cell if that other cell comprises myomaker and myomerger), the ability to confer fusogenicity to a cell (e.g., a protein confers fusogenic properties to a cell if upon adding the protein, the cell will fuse with another cell if that other cell comprises myomaker), the level of expression during embryonic development, the level of expression during myogenesis in adult organisms (e.g., older than embryonic), the level of induction of myogenesis in adult organisms (e.g., older than embryonic), the affinity for membranes, or the level of association with membrane compartment. In some embodiments, the function myomaker polypeptide has an increased level of one or more functions as compared to another myomaker polypeptide (e.g., a naturally occurring myomaker polypeptide). Nucleic acid molecules can be designed to encode for functional myomaker polypeptides, and such nucleic acid molecules can be used in the present invention.
A “functionally equivalent myomaker polypeptide” is defined as a myomaker polypeptide that has been modified (e.g., by one or more insertions, one or more deletions, or one or more substitutions (e.g., conservative substitutions)) from an original myomaker polypeptide and that modified myomaker polypeptide retains desired levels (e.g., at least about 20%, at least about 40%, at least about 50%, at least about 75%, at least about 80%, at least about 90%, at least about 95%, or at least about 99%) of one or more functions of the original myomaker polypeptide, such as, for example, the ability to activate fusion of two cells, the ability to make a cell fusion capable (e.g., a protein confers fusion capable properties to a cell if upon adding the protein, the cell is capable of fusing to another cell if that other cell comprises myomaker and myomerger), the ability to confer fusogenicity to a cell (e.g., a protein confers fusogenic properties to a cell if upon adding the protein, the cell will fuse with another cell if that other cell comprises myomaker), the level of expression during embryonic development, the level of expression during myogenesis in adult organisms (e.g., older than embryonic), the level of induction of myogenesis in adult organisms (e.g., older than embryonic), the affinity for membranes, or the level of association with membrane compartment. In some embodiments, the functionally equivalent myomaker polypeptide can have an increased level of one or more functions compared to the original myomaker polypeptide. Nucleic acid molecules can be designed to encode for functionally equivalent myomaker polypeptides, and such nucleic acid molecules can be used in the present invention.
In certain embodiments, the shorter the length of a myomerger polypeptide, the fewer the modifications (e.g., substitutions) that can be made within the polypeptide while retaining, for example, a desired level of a chosen function. In some instances, longer domains can have a greater number of such changes while retaining, for example, a desired level of a chosen function. In other embodiments, a full-length polypeptide can have more tolerance for a fixed number of changes while retaining, for example, a desired level of a chosen function, as compared to a shorter length of that polypeptide.
The design of substitutions can take many forms, including but not limited to those described herein. In some embodiments, the hydropathic index of amino acids may be considered in designing substitutions. In the hydropathic index, each amino acid is assigned a hydropathic index on the basis of their hydrophobicity or charge characteristics, as follows: isoleucine (+4.5); valine (+4.2); Leucine (+3.8); phenylalanine (+2.8); cysteine/cystine (+2.5); methionine (+1.9); alanine (+1.8); glycine (−0.4); threonine (−0.7); serine (−0.8); tryptophan (−0.9); tyrosine (−1.3); proline (−1.6); histidine (−3.2); glutamate (−3.5); glutamine (−3.5); aspartate (−3.5); asparagine (−3.5); lysine (−3.9); or arginine (−4.5). In some instances, certain amino acids may be substituted for other amino acids having a similar hydropathic index. In making changes based upon the hydropathic index, the substitution of amino acids with hydropathic indices can be made with amino acids that have an index difference of no more than ±2, no more than ±1, or no more than ±0.5.
In some embodiments, substitutions can also be made based on hydrophilicity values. As detailed in U.S. Pat. No. 4,554,101, the following hydrophilicity values have been assigned to amino acid residues: arginine (+3.0); lysine (+3.0); aspartate (+3.0±1); glutamate (+3.0±1); serine (+0.3); asparagine (+0.2); glutamine (+0.2); glycine (0); threonine (−0.4); proline (−0.5±1); alanine (−0.5); histidine (−0.5); cysteine (−1.0); methionine (−1.3); valine (−1.5); leucine (−1.8); isoleucine (−1.8); tyrosine (−2.3); phenylalanine (−2.5); tryptophan (−3.4). In making changes based upon similar hydrophilicity values, the substitution of amino acids with hydrophilicity values can be made with amino acids that have a value of no more than ±2, no more than ±1, or no more than ±0.5.
A “conservative substitution” in an amino acid sequence or polypeptide indicates that a given amino acid residue is replaced by a residue having similar physiochemical characteristics (e.g., no more than ±1 when based on hydropathic index or no more than ±1 when base on hydrophilicity values). Examples of conservative substitutions include (a) substitution of one aliphatic residue for another with an aliphatic residue, (b) substitution of one of Ile, Val, Leu, or Ala for one another of Ile, Val, Leu, or Ala, (c) substitution of one of Gly, Ile, Val, Leu, or Ala for one another of Gly, Ile, Val, Leu, or Ala, (d) substitution of one polar residue for another polar residue, (e) substitution of one of Lys and Arg with another of Lys and Arg, (f) substitution of one of Glu and Asp with another of Glu and Asp, (g) substitution of one of Gln and Asn with another of Gln and Asn, (h) substitution of one hydroxyl or sulfur containing residue with another hydroxyl or sulfur containing residue, (i) substitution of one of Ser, Cys, Thr, or Met with another of Ser, Cys, Thr, or Met, (j) substitution of one aromatic residue for another with an aromatic residue, (k) substitution of one of Phe, Tyr, or Trp with another of Phe, Tyr, or Trp, (l) substitution of one basic residue for another basic residue, (m) substitution of one of His, Lys, or Arg with another of His, Lys, or Arg, (n) substitution of an acidic/amide residue with another acidic/amide residue, (o) substitution of one of Asp, Glu, Asn, or Gln with another of Asp, Glu, Asn, or Gln, (p) substitution of a residue with another residue of a similar size, and (q) substitution of one of Ala, Gly, or Ser with another of Ala, Gly, or Ser. In some embodiments, each amino acid in a hydrophobic region of a polypeptide can be substituted with conservative substitutions (e.g., any combination of conservative substitutions relating to hydrophobic residues).
While discussion has focused on amino acid changes, it will be appreciated that these changes may occur by alteration of the encoding DNA; taking into consideration also that the genetic code is degenerate and that two or more codons may code for the same amino acid. Tables A and B of amino acids and their codons are presented herein for use in such embodiments, as well as for other uses, such as in the design of probes and primers and the like.
The term “functionally equivalent codon” is used herein to refer to codons that encode the same amino acid, such as the six codons for arginine or serine.
In certain instances, the nucleic acid molecule can be engineered to contain distinct sequences while at the same time retaining the capacity to encode a desired inventive polypeptide. In some embodiments, this can be accomplished owing to the degeneracy of the genetic code (i.e., the presence of multiple codons) which encode for the same amino acids. In other instances, it can be accomplished by including, adding, or excluding introns in the nucleic acid molecule.
In certain embodiments, a restriction enzyme recognition sequence can be introduced into a nucleic acid sequence while maintaining the ability of that nucleic acid molecule to encode a desired polypeptide. In other embodiments, a CRISPR system (e.g., a CRISPR system comprising one or more of guide RNA, crRNA, tracrRNA, sgRNA, DNA repair template, and Cas protein, such as but not limited to CRISPR/Cas9) can be used to introduce a nucleic acid molecule while maintaining the ability of that nucleic acid molecule to encode a desired polypeptide.
It will also be understood that amino acid sequences (e.g., polypeptides) and nucleic acid sequences may include additional residues, such as additional N- or C-terminal amino acids or 5′ or 3′ sequences, and yet still be essentially as set forth in one of the sequences disclosed herein, so long as the sequence meets the criteria set forth above, including the maintenance of biological activity where polypeptide expression is concerned. The addition of terminal sequences particularly applies to nucleic acid sequences that may, for example, include various non-coding sequences flanking either of the 5′ or 3′ portions of the coding region or may include various internal sequences, (i.e., introns) which can occur within genes.
Some embodiments use synthesis of polypeptides in cyto, via transcription and translation of appropriate nucleic acid molecules (e.g., nucleic acid sequences as discussed herein). These polypeptides will include the twenty “natural” amino acids, and post-translational modifications thereof. In vitro peptide synthesis permits the use of modified or unusual amino acids. In some embodiments, the myomaker polypeptide encompasses modifications (e.g., one or more substitutions or one or more insertions) that include one or more modified or unusual amino acids. A table of exemplary, but not limiting, modified or unusual amino acids is provided in Table C (disclosed herein).
The presently disclosed subject matter further includes a method of producing a myomaker polypeptide (e.g., a mutant myomaker polypeptide or a wt-myomaker polypeptide). Any suitable method can used to make the myomaker polypeptides including but not limited to expression through any suitable molecular biological technique (e.g., using a prokaryotic or eukaryotic expression system), isolation from a source in nature, or chemical synthesis. Eukaryotic expression systems include plant-based systems; insect cell systems via recombinant baculoviruses; whole insect systems via recombinant baculoviruses; genetically engineered yeast systems, including but not limited to Saccharomyces sp. and Picchia spp.; and mammalian cell systems, including but not limited to C2C12 cells, 10T ½ fibroblasts, NIH/3T3 fibroblasts, mesenchymal stem cells (MSCs), hematopoietic stem cells, Chinese hamster ovary cells or other cell lines commonly used for industrial scale expression of recombinant proteins. In some embodiments, useful plant-based expression systems can include transgenic plant systems. In some embodiments, useful plant-based expression systems can include transplastomic plant systems.
In some embodiments, a method of producing the myomaker polypeptide includes providing a host cell comprising a myomaker nucleic acid molecule, as disclosed herein, operatively linked to a promoter operable under conditions whereby the encoded myomaker polypeptide is expressed; and recovering the myomaker polypeptide from the host cell.
Cells Including Modified Cells
Some embodiments of the invention include cells such as modified cells. In certain embodiments, a modified cell is a cell that comprises one or more modifications of a cell, where at least one of the one or more modifications was implemented by a human (e.g., by human activity, either directly or indirectly). In some embodiments, the cell to be modified can be an unmodified cell or can be a cell that has been previously modified (e.g. modified as disclosed herein). A cell can be modified in any desired manner, including but not limited to (a) adding a nucleic acid molecule such as but not limited to one or more nucleic acid molecules disclosed herein, (b) diminishing the effect of one or more nucleic acid molecules (e.g., a naturally occurring nucleic acid molecule or an added nucleic acid molecule) such as a gene, (c) adding one or more polypeptides, including but not limited to polypeptides disclosed herein, (d) diminishing the effect of one or more polypeptides (e.g., a naturally occurring polypeptide or an added polypeptide), or (e) a combination thereof. In some instances, a modified cell can result from a further modification of another modified cell.
Adding a nucleic acid molecule to modify a cell can be accomplished using any suitable method including but not limited to one or more of transformation (as used herein transfection methods are encompassed by the term transformation), viral transformation (e.g., using a viral vector, a retroviral vector, a lentiviral vector, an adenoviral vector, an adeno-associated viral vector, a herpesviral vector, a chimeric viral vector, a plasmid, a cosmid, an artificial chromosome, a bacteriophage, a virus, an animal virus, a plant virus, an expression vector, a conjugative vector, or a nonconjugative vector), injection, microinjection, electroporation, sonication, calcium ion treatment, calcium phosphate precipitation, PEG-DMSO treatment, DE-Dextran treatment, liposome mediated transformation, or a receptor mediated transformation. Adding a polypeptide to modify a cell can be accomplished using any suitable method including but not limited to one or more of injection, microinjection, electroporation, sonication, calcium ion treatment, calcium phosphate precipitation, PEG-DMSO treatment, DE-Dextran treatment, or liposome mediated. The added nucleic acid molecule can be part of a vector (e.g., a viral vector, a retroviral vector, a lentiviral vector, an adenoviral vector, an adeno-associated viral vector, a herpesviral vector, a chimeric viral vector, a plasmid, a cosmid, an artificial chromosome, a bacteriophage, an animal virus, a plant virus, an expression vector, a conjugative vector, or a nonconjugative vector), a plasmid, a cosmid, an artificial chromosome, a bacteriophage, a virus, an animal virus, or a plant virus. In some embodiments, the added nucleic acid molecule is exogenous; “exogenous” means (a) that the added nucleic acid molecule originates from outside of the cell (e.g., is foreign to the cell) or (b) that the added nucleic acid molecule can be found inside the cell, but the added nucleic acid molecule is placed in the cell where it is not normally found (e.g., a different part of the chromosome or on an added plasmid). In some embodiments, the added polypeptide is exogenous; “exogenous” in this context means that the added polypeptide originates from outside of the cell (e.g., is foreign to the cell).
In some embodiments, the modification to the cell can be the diminution of the effect of a nucleic acid molecule in the cell; the nucleic acid molecule can be added to the cell or not, or can be exogenous. Diminishing the effect of a nucleic acid molecule includes but is not limited to decreasing (e.g., stopping) the expression of a polypeptide (e.g., myomaker, myomerger, or both) or expressing a less active form of a polypeptide (e.g., by changing the polypeptide's amino acid sequence or expressing only a fragment of a polypeptide). Diminishing the effect of a nucleic acid molecule can be accomplished using any suitable method including but not limited to removal of the nucleic acid molecule (e.g., from a chromosome or from a plasmid), removal of one or more parts of the nucleic acid molecule (e.g., from a chromosome or from a plasmid), altering the nucleic acid sequence of the nucleic acid molecule, diminishing or preventing transcription of the nucleic acid molecule (e.g., via a repressor, inhibitor, blocker (e.g., via a molecule that blocks part of the transcription), or stabilization of a non-transcribing form), or diminishing or preventing translation (e.g., via an inhibitor or an RNA inhibitor).
The cell to be modified can be any suitable cell including but not limited to an insect cell (e.g., an Sf9 cell), a vertebrate cell, or a mammalian cell (e.g., a human cell, a rat cell a mouse cell, a muscle cell, a non-muscle cell, a myoblast, a fibroblast, a C2C12 cell, a 10T ½ fibroblast, a NIH/3T3 cell, a CHO cell, a mesenchymal stem cell (MSC), a hematopoietic stem cell, a blood cell, a bone marrow cell, a stem cell, or an adipose stem cell). In certain embodiments, an unmodified cell can be any suitable cell including but not limited insect cell, a vertebrate cell, or a mammalian cell (e.g., a human cell, a rat cell a mouse cell, a muscle cell, a non-muscle cell, a myoblast, a fibroblast, a NIH/3T3 cell, a CHO cell, a mesenchymal stem cell (MSC), a hematopoietic stem cell, a blood cell, a bone marrow cell, a stem cell, or an adipose stem cell).
In some embodiments, a modified cell can be but is not limited to a modified animal cell, a modified vertebrate cell, a modified mammalian cell, a modified human cell, a modified rat cell, a modified mouse cell, a modified muscle cell, a modified non-muscle cell, a modified myoblast, a modified fibroblast, a C2C12 cell, a modified C2C12 cell, a 10T ½ fibroblast, a modified 10T ½ fibroblast, a modified NIH/3T3 cell, a modified CHO cell, a modified mesenchymal stem cell (MSC), a modified hematopoietic stem cell, a modified blood cell, a modified bone marrow cell, a modified stem cell, or a modified adipose stem cell. In other embodiments, the modified cell is a modified non-muscle cell (e.g., a modified fibroblast, a 10T ½ fibroblast, a modified 10T ½ fibroblast, a modified NIH/3T3 cell, a modified CHO cell, a modified mesenchymal stem cell (MSC), a modified hematopoietic stem cell, a modified blood cell, a modified bone marrow cell, a modified stem cell, or a modified adipose stem cell).
In some embodiments, the modified cell is a non-muscle cell with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous), a stem cell with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous), a fibroblast with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous), a muscle cell with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous), or a myoblast cell with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous).
In other embodiments, the modified cell is a non-muscle cell with a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous), a stem cell with a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous), a fibroblast with a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous), a muscle cell with a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous), or a myoblast cell with a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous),
In still other embodiments, the modified cell is a non-muscle cell with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous) and a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous), a stem cell with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous) and a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous), a fibroblast with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous) and a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous), a muscle cell with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous) and a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous), or a myoblast cell with a myomerger nucleic acid molecule added (e.g., where the myomerger nucleic acid molecule is exogenous) and a myomaker nucleic acid molecule added (e.g., where the myomaker nucleic acid molecule is exogenous).
The modified cell can be prepared using any suitable method including but not limited to those disclosed herein.
Compositions Including Pharmaceutical Compositions
One or more inventive polypeptides (e.g., a wt-myomerger polypeptide or mutant myomerger polypeptide) or one or more myomerger nucleic acid molecules (e.g., in the form of a bare nucleic acid molecule, a vector, a virus, a plasmid or any suitable form) can be part of a composition and can be in an amount (by weight of the total composition) of at least about 0.0001%, at least about 0.001%, at least about 0.10%, at least about 0.15%, at least about 0.20%, at least about 0.25%, at least about 0.50%, at least about 0.75%, at least about 1%, at least about 10%, at least about 25%, at least about 50%, at least about 75%, at least about 90%, at least about 95%, at least about 99%, at least about 99.99%, no more than about 75%, no more than about 90%, no more than about 95%, no more than about 99%, or no more than about 99.99%, from about 0.0001% to about 99%, from about 0.0001% to about 50%, from about 0.01% to about 95%, from about 1% to about 95%, from about 10% to about 90%, or from about 25% to about 75%. In certain embodiments, a myomaker polypeptide, myomaker nucleic acid molecule (e.g., added as another vector or as part of the vector comprising myomerger nucleic acid), or both can be part of the composition (e.g., together with a myomerger polypeptide in the composition or a myomerger nucleic acid molecule in the composition) at any amount indicated herein (e.g., indicated above). In certain embodiments, cells, such as modified cells (e.g., as disclosed herein) can be part of the composition at any amount indicated herein (e.g., indicated above).
One or more inventive polypeptides (e.g., a wt-myomerger polypeptide or mutant myomerger polypeptide) or one or more myomerger nucleic acid molecules (e.g., in the form of a bare nucleic acid molecule, a vector, a virus, a plasmid or any suitable form) can be purified or isolated in an amount (by weight of the total composition) of at least about 0.0001%, at least about 0.001%, at least about 0.10%, at least about 0.15%, at least about 0.20%, at least about 0.25%, at least about 0.50%, at least about 0.75%, at least about 1%, at least about 10%, at least about 25%, at least about 50%, at least about 75%, at least about 90%, at least about 95%, at least about 99%, at least about 99.99%, no more than about 75%, no more than about 90%, no more than about 95%, no more than about 99%, no more than about 99.99%, from about 0.0001% to about 99%, from about 0.0001% to about 50%, from about 0.01% to about 95%, from about 1% to about 95%, from about 10% to about 90%, or from about 25% to about 75%. In some embodiments, isolated or purified means that impurities (e.g., cell components or unwanted solution components if chemically synthesized) were removed by one or more of any suitable technique (e.g., column chromatography, HPLC, centrifugation, fractionation, gel, precipitation, or salting out).
Some embodiments of the present invention include compositions comprising one or more inventive polypeptides (e.g., a wt-myomerger polypeptide or mutant myomerger polypeptide) or one or more myomerger nucleic acid molecules (e.g., in the form of a bare nucleic acid molecule, a vector, a virus, a plasmid or any suitable form). In certain embodiments, the composition is a pharmaceutical composition, such as compositions that are suitable for administration to animals (e.g., mammals, primates, monkeys, humans, canine, porcine, mice, rabbits, or rats). In some embodiments, there may be inherent side effects (e.g., it may harm the patient or may be toxic or harmful to some degree in some patients).
In some embodiments, one or more inventive polypeptides (e.g., a wt-myomerger polypeptide or mutant myomerger polypeptide) or one or more myomerger nucleic acid molecules (e.g., in the form of a bare nucleic acid molecule, a vector, a virus, a plasmid or any suitable form) can be part of a pharmaceutical composition and can be in an amount (by weight of the total composition) of at least about 0.0001%, at least about 0.001%, at least about 0.10%, at least about 0.15%, at least about 0.20%, at least about 0.25%, at least about 0.50%, at least about 0.75%, at least about 1%, at least about 10%, at least about 25%, at least about 50%, at least about 75%, at least about 90%, at least about 95%, at least about 99%, at least about 99.99%, no more than about 75%, no more than about 90%, no more than about 95%, no more than about 99%, no more than about 99.99%, from about 0.001% to about 99%, from about 0.001% to about 50%, from about 0.1% to about 99%, from about 1% to about 95%, from about 10% to about 90%, or from about 25% to about 75%. In certain embodiments, a myomaker polypeptide, myomaker nucleic acid molecule (e.g., added as another vector or as part of the vector comprising myomerger nucleic acid), or both can be part of the pharmaceutical composition (e.g., together with a myomerger polypeptide in the pharmaceutical composition or a myomerger nucleic acid molecule in the pharmaceutical composition) at any amount indicated herein (e.g., indicated above). In some embodiments, cells, such as modified cells (e.g., as disclosed herein) can be part of the pharmaceutical composition at any amount indicated herein (e.g., indicated above).
In some embodiments, the pharmaceutical composition can be presented in a dosage form which is suitable for the topical, subcutaneous, intrathecal, intraperitoneal, oral, parenteral, rectal, cutaneous, nasal, vaginal, or ocular administration route. In other embodiments, the pharmaceutical composition can be presented in a dosage form which is suitable for parenteral administration, a mucosal administration, intravenous administration, subcutaneous administration, topical administration, intradermal administration, oral administration, sublingual administration, intranasal administration, or intramuscular administration. The pharmaceutical composition can be in the form of, for example, tablets, capsules, pills, powders granulates, suspensions, emulsions, solutions, gels (including hydrogels), pastes, ointments, creams, plasters, drenches, delivery devices, suppositories, enemas, injectables, implants, sprays, aerosols or other suitable forms.
In some embodiments, the pharmaceutical composition can include one or more formulary ingredients. A “formulary ingredient” can be any suitable ingredient (e.g., suitable for the drug(s), for the dosage of the drug(s), for the timing of release of the drugs(s), for the disease, for the disease state, for the organ, or for the delivery route) including, but not limited to, water (e.g., boiled water, distilled water, filtered water, pyrogen-free water, or water with chloroform), sugar (e.g., sucrose, glucose, mannitol, sorbitol, xylitol, or syrups made therefrom), ethanol, glycerol, glycols (e.g., propylene glycol), acetone, ethers, DMSO, surfactants (e.g., anionic surfactants, cationic surfactants, zwitterionic surfactants, or nonionic surfactants (e.g., polysorbates)), oils (e.g., animal oils, plant oils (e.g., coconut oil or arachis oil), or mineral oils), oil derivatives (e.g., ethyl oleate, glyceryl monostearate, or hydrogenated glycerides), excipients, preservatives (e.g., cysteine, methionine, antioxidants (e.g., vitamins (e.g., A, E, or C), selenium, retinyl palmitate, sodium citrate, citric acid, chloroform, or parabens, (e.g., methyl paraben or propyl paraben)), or combinations thereof. In some embodiments, the concentration of any individual formulary ingredient in a composition (e.g., pharmaceutical composition) can be in an amount (by weight of the total composition) of at least about 0.0001%, at least about 0.001%, at least about 0.10%, at least about 0.15%, at least about 0.20%, at least about 0.25%, at least about 0.50%, at least about 0.75%, at least about 1%, at least about 10%, at least about 25%, at least about 50%, at least about 75%, at least about 90%, at least about 95%, at least about 99%, at least about 99.99%, no more than about 75%, no more than about 90%, no more than about 95%, no more than about 99%, no more than about 99.99%, from about 0.001% to about 99%, from about 0.001% to about 50%, from about 0.1% to about 99%, from about 1% to about 95%, from about 10% to about 90%, or from about 25% to about 75%. In some embodiments, the concentration of at least one formulary ingredient is not that same as that found in the natural system in which inventive polypeptide (e.g., wt-myomerger polypeptide) is found. In some embodiments, the concentration of at least one formulary ingredient is not that same as that found in one or more natural systems (e.g., any natural system found in nature) in which the nucleic acid molecule which encodes an inventive polypeptide (e.g., wt-myomerger polypeptide) is found.
In certain embodiments, pharmaceutical compositions can be formulated to release the active ingredient (e.g., one or more compounds of Formula (I)) substantially immediately upon the administration or any substantially predetermined time or time after administration. Such formulations can include, for example, controlled release formulations such as various controlled release compositions and coatings.
Other formulations (e.g., formulations of a pharmaceutical composition) can, in certain embodiments, include those incorporating the drug (or control release formulation) into food, food stuffs, feed, or drink.
Methods of Using Cells Including Modified Cells
Some embodiments of the invention include methods of using cells, such as modified cells.
Some embodiments of the invention include methods for fusing two or more cells comprising contacting a first cell with a second cell to form a third cell, where the first cell is a modified cell (e.g., as disclosed herein). In certain embodiments, the term “fuse” (and related terms such as “fusing”, “fusion” etc.) means to combine two cells to form a a third cell. In certain embodiments of fusion, fusion results in a multinuclear cell (e.g., syncytium). In certain embodiments of fusion, fusion does not result in a multinuclear cell. In some embodiments, the first cell comprises a first myomerger polypeptide, a first myomaker polypeptide, or both. In some embodiments, the first cell comprises a first myomerger polypeptide and a first myomaker polypeptide. In other embodiments, the second cell comprises a second myomaker polypeptide, a second myomerger polypeptide, or both. In some embodiments, the second cell comprises a second myomaker polypeptide and a second myomerger polypeptide. In other embodiments, the third cell is a multinucleated cell. In still other embodiments, the third cell is not a multinucleated cell.
In some embodiments, the first cell, the second cell, or both can be any suitable cell including but not limited to an insect cell (e.g., an Sf9 cell), a vertebrate cell, or a mammalian cell (e.g., a human cell, a rat cell a mouse cell, a muscle cell, a non-muscle cell, a myoblast, a fibroblast, a C2C12 cell, a 10T ½ fibroblast, a NIH/3T3 cell, a CHO cell, a dendritic cell, a cancer cell, a mesenchymal stem cell (MSC), a hematopoietic stem cell, a blood cell, a bone marrow cell, a stem cell, or an adipose stem cell). In some embodiments, the first cell and the second cell are the same type of cell (e.g., homotypic cell fusion which can in certain instances form syncytium). In other embodiments, the first cell and the second cell are different types of cell (e.g., heterotypic cell fusion). Cell fusion can, in some instances, result in nuclear fusion. In other instances, cell fusion does not result in nuclear fusion.
In some embodiments, the first cell, the second, cell or both can be a modified cell that can be but is not limited to a modified animal cell, a modified vertebrate cell, a modified mammalian cell, a modified human cell, a modified rat cell, a modified mouse cell, a modified muscle cell, a modified non-muscle cell, a modified myoblast, a modified fibroblast, a C2C12 cell, a modified C2C12 cell, a 10T ½ fibroblast, a modified 10T ½ fibroblast, a modified NIH/3T3 cell, a modified CHO cell, a modified dendritic cell, a modified cancer cell, a modified mesenchymal stem cell (MSC), a modified hematopoietic stem cell, a modified blood cell, a modified bone marrow cell, a modified stem cell, or a modified adipose stem cell. In other embodiments, the first cell, the second, cell or both can be a modified cell that is a modified non-muscle cell (e.g., a modified fibroblast, a 10T ½ fibroblast, a modified 10T ½ fibroblast, a modified NIH/3T3 cell, a modified CHO cell, a modified dendritic cell, a modified cancer cell, a modified mesenchymal stem cell (MSC), a modified hematopoietic stem cell, a modified blood cell, a modified bone marrow cell, a modified stem cell, or a modified adipose stem cell).
In certain embodiments of the method, the first cell is a non-muscle cell, the second cell is a non-muscle cell, or both. In other embodiments of the method, the first cell is a non-muscle cell and the second cell is a muscle cell.
In some instances of the method, the second cell is an isolated muscle cell (e.g., myoblast). In still other embodiments of the method, the second cell is a muscle cell or is a cell that is part of a muscle, muscle tissue, or non-muscle tissue. In some embodiments, the muscle, muscle tissue, or non-muscle tissue is diseased. In other embodiments, the muscle, muscle tissue, or non-muscle tissue (e.g., diseased or not diseased) is part of the circulation system (e.g., heart), respiratory system (e.g., diaphragm), head, neck, gastrointestinal system (e.g., tongue, esophageal muscles, or intestinal muscles), skeletal muscles, or genitourinary tract.
The contacting of the cells in the method can occur by any suitable manner, such as but not limited to those disclosed herein. For example, the contacting can occur in vitro or the contacting can occur in vivo.
Some embodiments of the invention include methods for delivering a gene of interest comprising contacting a first cell with a second cell, which fuse to form a third cell. In certain embodiments, the term “fuse” (and related terms such as “fusing”, “fusion” etc.) means to combine two cells to form a a third cell. In certain embodiments of fusion, fusion results in a multinuclear cell (e.g., syncytium). In certain embodiments of fusion, fusion does not result in a multinuclear cell. In certain embodiments, the first cell is a modified cell (e.g., as disclosed here) and can comprise (a) a gene of interest and (b) a first myomerger polypeptide, a first myomaker polypeptide or both. In certain embodiments, the first cell can be a modified cell (e.g., as disclosed here) and can comprise a first myomerger polypeptide, a first myomaker polypeptide, and a gene of interest. In other embodiments, the second cell can comprise a second myomaker polypeptide, a second myomerger polypeptide, or both. In other embodiments, the second cell can comprise a second myomaker polypeptide and a second myomerger polypeptide. In other embodiments, the third cell is a multinucleated cell. In other embodiments, the third cell is not a multinucleated cell. In some embodiments, the first cell and the second cell are the same type of cell (e.g., homotypic cell fusion which can in certain instances form syncytium). In yet other embodiments, the first cell and the second cell are different types of cell (e.g., heterotypic cell fusion). Cell fusion can, in some instances, result in nuclear fusion. In other instances, cell fusion does not result in nuclear fusion.
In some embodiments, the gene of interest is a nucleic acid sequence that encodes a polypeptide, a protein, or an oligopeptide (e.g., is not a myomerger polypeptide and is not a myomaker polypeptide). In certain embodiments, the gene of interest encodes for a therapeutic polypeptide, a therapeutic protein, or a therapeutic oligopeptide, where the gene of interest can be part of a treatment of a disease. In other embodiments, the gene of interest can be genomic DNA or can be cDNA.
In certain embodiments, the second cell can underexpress the gene of interest, does not express the gene of interest, expresses a defective version of the gene of interest, or a combination thereof. In other embodiments, the second cell does not express the gene of interest.
In some embodiments, the first cell, the second cell, or both can be any suitable cell including but not limited to an insect cell (e.g., an Sf9 cell), a vertebrate cell, or a mammalian cell (e.g., a human cell, a rat cell a mouse cell, a muscle cell, a non-muscle cell, a myoblast, a fibroblast, a C2C12 cell, a 10T ½ fibroblast, a NIH/3T3 cell, a CHO cell, a dendritic cell, a cancer cell, a mesenchymal stem cell (MSC), a hematopoietic stem cell, a blood cell, a bone marrow cell, a stem cell, or an adipose stem cell).
In some embodiments, the first cell, the second, cell or both can be a modified cell that can be but is not limited to a modified animal cell, a modified vertebrate cell, a modified mammalian cell, a modified human cell, a modified rat cell, a modified mouse cell, a modified muscle cell, a modified non-muscle cell, a modified myoblast, a modified fibroblast, a C2C12 cell, a modified C2C12 cell, a 10T ½ fibroblast, a modified 10T ½ fibroblast, a modified NIH/3T3 cell, a modified CHO cell, a modified dendritic cell, a modified cancer cell, a modified mesenchymal stem cell (MSC), a modified hematopoietic stem cell, a modified blood cell, a modified bone marrow cell, a modified stem cell, or a modified adipose stem cell. In other embodiments, the first cell, the second, cell or both can be a modified cell that is a modified non-muscle cell (e.g., a modified fibroblast, a 10T ½ fibroblast, a modified 10T ½ fibroblast, a modified NIH/3T3 cell, a modified CHO cell, a modified dendritic cell, a modified cancer cell, a modified mesenchymal stem cell (MSC), a modified hematopoietic stem cell, a modified blood cell, a modified bone marrow cell, a modified stem cell, or a modified adipose stem cell).
In certain embodiments of the method, the first cell is a non-muscle cell, the second cell is a non-muscle cell, or both. In other embodiments of the method, wherein the first cell is a non-muscle cell and the second cell is a muscle cell.
In some instances of the method, the second cell is an isolated muscle cell (e.g., myoblast). In still other embodiments of the method, the second cell is a muscle cell or is a cell that is part of a muscle, muscle tissue, or non-muscle tissue. In some embodiments, the muscle, muscle tissue, or non-muscle tissue is diseased. In other embodiments, the muscle, muscle tissue, or non-muscle tissue (e.g., diseased or not diseased) is part of the circulation system (e.g., heart), respiratory system (e.g., diaphragm), head, neck, gastrointestinal system (e.g., tongue, esophageal muscles, or intestinal muscles), skeletal muscles, or genitourinary tract.
The contacting of the cells in the method can occur by any suitable manner such as but not limited to those disclosed herein. For example, the contacting can occur in vitro or the contacting can occur in vivo. In other exemplary embodiments, contacting can occur ex vivo and the method can further comprise placing (e.g., implanting, injecting, or grafting) the third cell in an animal. The placing can be done using any suitable mechanism, such as by any suitable administration route.
Animals include but are not limited to mammals, primates, monkeys (e.g., macaque, rhesus macaque, or pig tail macaque), humans, canine, feline, bovine, porcine, avian (e.g., chicken), mice, rabbits, and rats. As used herein, the term “subject” refers to both human and animal subjects.
In certain embodiments, the method to delivery of a gene of interest can be part of a treatment of a disease. In some embodiments, the disease can be a disease, such as but not limited to, diseases where cells underexpress the gene of interest, do not express the gene of interest, express a defective version of the gene of interest, or a combination thereof. In some embodiments, the disease can be a non-muscle-related disease, such as but not limited to, non-muscle diseases where cells underexpress the gene of interest, do not express the gene of interest, express a defective version of the gene of interest, or a combination thereof. In some embodiments, the disease can be a muscle-related disease, such as but not limited to, muscle diseases where cells underexpress the gene of interest, do not express the gene of interest, express a defective version of the gene of interest, or a combination thereof. In certain embodiments, the treated disease can be a myopathy, muscular dystrophy, amyotrophic lateral sclerosis (ALS or also called Lou Gehrig's disease), glycogen storage disease type II (also called Pompe disease), rhabdomyosarcoma (RMS), sarcopenia, or a combination thereof. In some embodiments, the disease can be cancer. As used herein, the term “treating” (and its variations, such as “treatment”) is to be considered in its broadest context. In particular, the term “treating” does not necessarily imply that an animal is treated until total recovery. Accordingly, “treating” includes amelioration of the symptoms, relief from the symptoms or effects associated with a condition, decrease in severity of a condition, or preventing, preventively ameliorating symptoms, or otherwise reducing the risk of developing a particular condition. As used herein, reference to “treating” an animal includes but is not limited to prophylactic treatment and therapeutic treatment. Any of the methods or compositions (e.g., pharmaceutical compositions) described herein can be used to treat an animal.
In yet other embodiments, the delivery of the gene of interest can occur by any suitable administration route. Administration routes can be, but are not limited to the oral route, the parenteral route, the cutaneous route, the nasal route, the rectal route, the vaginal route, and the ocular route. In other embodiments, administration routes can be parenteral administration, a mucosal administration, intravenous administration, depot injection, subcutaneous administration, topical administration, intradermal administration, oral administration, sublingual administration, intranasal administration, or intramuscular administration (e.g., intramuscular injection). In certain embodiments, the delivery comprises an injection or an intramuscular injection. In certain embodiments, the delivery comprises an injection comprising the first cell, the second cell, or both (e.g., in a composition or in a pharmaceutical composition). In other embodiments, the delivery comprises an intramuscular injection comprising the first cell, the second cell, or both (e.g., in a composition or in a pharmaceutical composition).
In still other embodiments, the delivery can further comprise one or more of the contacting steps.
The presently-disclosed subject matter is further illustrated by the following specific but non-limiting examples. The following examples may include compilations of data that are representative of data gathered at various times during the course of development and experimentation related to the present invention.
Materials and Methods
Cell Culture
C2C12 cells, 10T ½ fibroblasts, and NIH/3T3 fibroblasts were purchased from American Type Culture Collection and propagated in DMEM (Gibco) containing 10% heat-inactivated bovine growth serum (BGS) and supplemented with antibiotics. C2C12 cells were differentiated by switching to media containing 2% heat-inactivated horse serum (HS) and antibiotics. MSCs were a gift from Jose Cancelas. GONZALEZ-NIETO et al., “Connexin-43 in the osteogenic bm niche regulates its cellular composition and the bidirectional traffic of hematopoietic stem cells and progenitors” Blood (2012) Vol. 119, pp. 5144-5154.
Bioinformatic Analysis
Microarray data from the GEO DataSet GSE3490734 was interrogated using GEO2R analysis to identify 1826 genes displaying an increase greater than 1 log fold-change in MyoD-expressing fibroblasts. In parallel, a transcriptional profile of 10T ½ fibroblasts transduced with empty virus was generated using RNA-seq analysis (paired-end library layout using Illumina sequencing platform) and a list of all genes with RPKM values below 1.5 compiled using Strand NGS software (Ver. 2.6; Build: Mouse mm10 (UCSC) using Ensembl transcript annotations). These two gene lists were then compared to generate a final tally comprised of 531 genes that were both upregulated in MyoD-expressing fibroblasts and had low or no detectable expression in 10T ½ fibroblasts. Finally, the top 100 genes were interrogated for genes that contain transmembrane domains and not previously studied for their role during myoblast fusion.
Animals
We used a dual sgRNA targeting strategy to create Gm7325−/− mice. We selected the sgRNAs according to the on- and off-target scores from the web tool CRISPOR. (HAEUSSLER et al. “Evaluation of off-target and on-target scoring algorithms and integration into the guide ma selection tool crispor” Genome Biol (2016) Vol. 17, article 148 (12 pages).) The selected gRNAs were 5′-GCAGCGATCGAAGCACCATC-3′ (SEQ ID NO: 1) and 5′-GAGGCCTCTCCAGAATCCGG-3′ (SEQ ID NO: 2) that target exon 3 of Gm7325. The sgRNAs were in vitro synthesized using the MEGAshortscript T7 kit (ThermoFisher) and purified by the MEGAclear Kit (ThermoFisher). sgRNAs (50 ng/ul of each) were mixed with 100 ng/ul Cas9 protein (ThermoFisher) and incubated at 37° C. for 15 min to form a ribonucleoprotein complex. We then injected the mix into the cytoplasm of one-cell-stage embryos of the C57BL/6 genetic background using a piezo-driven microinjection technique. (YANG et al., “Generating genetically modified mice using crispr/cas-mediated genome engineering” Nat Protoc (2014) Vol. 9, pp. 1956-1968) Injected embryos were immediately transferred into the oviducal ampulla of pseudopregnant CD-1 females. Live born pups were genotyped by PCR with primers spanning the mutated region (Table E1). The edited allele was further confirmed by Sanger sequencing. One heterozygous founder was obtained and mated with WT C57B16 mice to eventually generate KO mice. The gender of analyzed embryos was not determined. Mdx4cv mice were purchased from Jackson Laboratory (#002378) and male mice were used. Muscle overload of the plantaris muscle was achieved through bilateral synergistic ablation of soleus and gastrocnemius muscles. Specifically, the soleus and gastrocnemius muscles were exposed by making an incision on the posterior-lateral aspect of the lower limb. The distal and proximal tendons of the soleus, lateral and medial gastrocnemius were subsequently cut and carefully excised. All animal procedures were approved by Cincinnati Children's Hospital Medical Center's Institutional Animal Care and Use Committee.
CRISPR-Mediated Genome Editing in C2C12 Cells
Freshly plated low passage C2C12 cells were transfected with 4 μg of a modified pX458 plasmid (Addgene #48138, gift from Yueh-Chiang Hu), which contained a high fidelity Cas9, an optimized sgRNA scaffold, and an IRES-GFP cassette. The same gRNAs used to generate KO animals were used for C2C12 cells. 16 μL of Lipofectamine 2000 was used for this transfection. 5×105 C2C12 cells were transfected in a 60 mm culture dish. Forty-eight hours after transfection GFP+ cells were sorted into 96 well plates using FACS. These cells were maintained in DMEM containing 20% FBS with antibiotics at subconfluent densities. The cell lines were genotyped by amplifying a 420 bp region surrounding the site of Cas9 activity using the primers used to genotype Gm7325′−/− animals.
Cloning and Viral Infection
We initially cloned a region of the Gm7325 locus, containing all genomic information for expression of myomerger-short and myomerger-long, from C57B16 mouse genomic DNA. We cloned myomerger-short and long coding sequences from cDNA of differentiating C2C12 cells. Cloning primers are listed in Table E1. Myomerger cDNA and genomic DNA was cloned into the retroviral vector pBabe-X using EcoRI. Myomaker and GFP retroviral plasmids have been described previously. (MILLAY et al. “Myomaker is a membrane activator of myoblast fusion and muscle formation” Nature (2013) Vol. 499, pp. 301-305.) NLS-TdTomato was subcloned from pQC-NLS-TdTomato (Addgene #37347) into the retroviral vector pMX (Cell Biolabs). Plasmids containing cDNA for Tmem182, Tspan33, and Tm6sf1 from the Mammalian Gene Collection were purchased from Open Biosystems and subcloned into pBabe-X. Ten micrograms of retroviral plasmid DNA were transfected with FuGENE 6 (Roche) into Platinum E cells (Cell Biolabs), which were plated 24 hours before transfection on a 10 cm culture dish at a density of 3-4×106 cells per dish. Forty-eight hours after transfection, viral media were collected, filtered through a 0.45 μm cellulose syringe filter and mixed with polybrene (Sigma) at a final concentration of 6 μg/ml. Target cells were plated on 10 cm culture dishes at a density of 4×105 cells per dish 16-18 hours before infection. Eighteen hours after infection, virus was removed, cells were washed with PBS and split into new 10 cm dishes.
Cell Fusion Assays
Cells were split 18 hours after retroviral infection and split again 24-48 hours later. At the second split, cells were seeded for the fusion assay on 35-mm dishes (3-4×105 cells per dish) or on 8-well Ibidi slides (2×104 cells/well). Fusion was assessed 24-48 hours after seeding. For heterologous fusion, cultures of fibroblasts and myoblasts mixed at a ratio of 1:1 (1.5×105 cells for each) were induced to differentiate 24 hours after seeding and fusion was assessed on day 4 of differentiation.
RNA Extraction and Quantitative RT-PCR (qRT-PCR)
Total RNA was extracted from either mouse tissue or cultured cells with TRIZOL (Life Technologies) according to manufacturer's protocol. cDNA was synthesized using High-Capacity cDNA Reverse Transcription Kit (Applied Biosystems) with random primers. Gene expression was assessed using standard quantitative PCR approach with Power Sybr® Green PCR mastermix (Applied Biosystems). Analysis was performed on StepOnePlus Real-Time PCR system (Applied Biosystems) with gene-specific primers (Table E1).
Western Blot Analysis
Cultured cells were washed two times with ice cold PBS, scraped into a conical tube, pelleted, resuspended in lysis buffer (50 mM Tris-HCl, pH 6.8, 1 mM EDTA, 2% SDS) and sonicated for a total of 15 seconds (three 5 second pulses). Skeletal muscle tissues from mice were homogenized with a bead homogenizer (TissueLyser II; Qiagen) in lysis buffer (10 mM Tris (pH 7.4), 1 mM EDTA, 1 mM dithiothreitol, 0.5% Triton X-100, 2.1 mg/ml NaF) containing protease and phosphatase inhibitor cocktails (5 μl/ml; Sigma-Aldrich). Both cells and tissue lysates were centrifuged to pellet insoluble material and protein concentration was determined using Bradford protein assay. Equal amounts of protein (5 μg for cells and 20 μg for tissues) were prepared with loading buffer (1× Laemmli (Bio-Rad) with reducing agent (5% β-mercaptoethanol for cells and 100 mM DTT for tissues). Samples were heated at 37° C. for 30 minutes and separated on a 20% SDS-PAGE. The gels were subsequently transferred to a PVDF membrane (Millipore), blocked in 5% milk in Tris-buffered saline/0.1% Tween-20 (TBS-T) and incubated with anti-sheep ESGP antibody (1 mg/μl; R&D Systems) overnight at 4° C. Membranes were then washed with TBS-T and incubated with Alexa-Fluor 647 donkey anti-sheep secondary antibody (1:5,000; Invitrogen). Bands were visualized using the Odyssey® infrared detection system (LI-COR Biosciences). GAPDH (1:5,000; Millipore) was used as a loading control.
Subcellular Fractionation
C2C12 cells were harvested on day 2 of differentiation in ice cold hypotonic buffer (10 mM Tris-HCl pH 8, 2 mM EDTA) and lysed using a dounce homogenizer. Lysates were then centrifuged at 800×g for 5 minutes at 4° C. to separate nuclei and cell debris. That supernatant was then centrifuged at 5000×g for 10 minutes to pellet mitochondria and ER. ER and heavy vesicles were further pelleted through centrifugation at 17,000×g for 10 minutes. Finally, plasma membrane, light vesicles, and organelles were pelleted at 100,000×g for 20 minutes and the supernatant from this spin was collected as the cytosolic fraction. All pellets were resuspended in lysis buffer (50 mM Tris-HCl, pH 6.8, 1 mM EDTA, 2% SDS) at volumes equal to the supernatant. Eight μl of each fraction was separated by SDS-PAGE and analyzed for presence of myomerger, caveolin-3, and tubulin. Caveolin-3 antibody (BD Transduction Laboratories #610421) was used at 1:6700 and tubulin (Santa Cruz # SC-8035) at 1:50.
Immunocytochemistry
Cultured cells were rinsed with PBS and fixed in 4% paraformaldehyde (PFA)/PBS for 15 minutes at room temperature. Cells were subsequently permeabilized and blocked in 0.01% Triton X-100/5% donkey serum/PBS for one hour at room temperature. Primary antibody diluted in permeabilization/blocking buffer was incubated overnight. Cells were then washed with PBS and incubated with secondary Alexa-Fluor antibodies (1:250) for 1 hour. A myomaker custom antibody was generated through YenZym Antibodies LLC. Rabbits were immunized with amino acids #137-152 of mouse myomaker (MKEKKGLYPDKSIYTQ (SEQ ID NO: 31)) after conjugation to KLH. We used antigen-specific affinity purified products at a concentration of 4.3 μg/mL for immunostaining. Esgp (myomerger) antibody was used at a concentration of 1 μg/mL. Anti-mouse myosin (my32, MA5-11748, ThermoFisher Scientific) antibody was used at 1:100. Hoechst 33342 solution (ThermoFisher Scientific) was used to stain nuclei. Cells were imaged using Nikon A1R+ confocal on a FN1 microscope (35 mm dishes) or Nikon A1R confocal on Eclipse T1 inverted microscope (Ibidi slides).
Histology and Immunohistochemistry
For cryosections, embryos were dissected, fixed in 4% PFA/PBS overnight at 4° C., washed in PBS, incubated in 30% sucrose/PBS overnight and then in 1:1 mix of optimal cutting temperature (O.C.T.) formulation and 30% sucrose prior to embedding in O.C.T. Sections were cut at 10 μm and then permeabilized with 0.2% Triton X-100/PBS, blocked with 1% BSA/1% heat inactivated goat serum/0.025% Tween20/PBS and incubated with primary antibody overnight. Anti-mouse myosin (my32, MA5-11748, ThermoFisher Scientific) antibody was used at 1:100, whereas myogenin (F5D, Developmental Hybridomas) was used at a concentration of 2.56 μg/mL. Secondary goat anti-mouse IgG1-488 Alexa-Fluor antibody (Invitrogen) was incubated at a dilution of 1:250 for 1 hour. Slides were mounted with VectaShield containing DAPI (Vector Laboratories) and visualized using Nikon A1R confocal on Eclipse T1 inverted microscope. Images were analyzed with Fiji.
Statistical Analysis
For quantitation of cell fusion in
Results
Identification and Fusogenic Activity of Myomerger.
To uncover potential fusion factors, we compared genes induced by expression of MyoD to their level of expression in 10T ½ fibroblasts. Of the top 100 MyoD-regulated genes not expressed in fibroblasts (data not shown), we eliminated genes not likely to be directly involved in fusion (transcription factors, sarcomeric and metabolic genes) and focused on genes with transmembrane domains. This analysis yielded the following five genes: Tmem182, Gm7325, Cdh15, Tspan33, and Tm6sf1, however Cdh15 was omitted from further analysis because it has previously been shown as not necessary for myoblast fusion or muscle formation. We retrovirally expressed each gene in myomaker+ GFP+ fibroblasts and assayed for fusion. Appropriate expression in fibroblasts was verified through quantitative reverse transcription polymerase chain reaction (qRT-PCR) analysis (
Multiple Gm7325 transcripts are annotated in the University of California, Santa Cruz, mouse genome. The shorter transcript contains a single exon and yields a protein with 84 amino acids. In contrast, the longer transcript utilizes an upstream exon with an alternative start site and results in a protein of 108 amino acids (
Given that multi-nucleated cells could arise from fusion or replication associated with incomplete cytokinesis, we designed a system to validate that multi-nucleated cells observed in fibroblasts expressing both myomerger and myomaker were generated through fusion. We engineered two fibroblast cell lines that both express myomaker, with one expressing GFP and the other expressing nuclear-localized TdTomato (NLS-Tom). Myomaker+ GFP+ and myomaker+ NLS-Tom+ fibroblasts were infected with a myomerger retrovirus or a control empty retrovirus, mixed, and fusion was assessed (
We also sought to determine the cell biology of fusion induced by myomaker and myomerger. We mixed myomaker+ myomerger+ GFP+ fibroblasts with NLS-Tom fibroblasts expressing myomaker or myomerger (
Myomerger is Muscle-Specific and Associates with Membranes
We interrogated Gm7325 expression pattern more thoroughly. We performed qRT-PCR on multiple tissues from postnatal (P) day 5 mice with primers to distinguish the two potential mouse transcripts (
We next sought to determine if myomerger is regulated as myoblasts differentiate. In C2C12 cells, both Gm7325 transcripts were significantly elevated during differentiation (
Role of Myomerger in Myoblast Fusion
The ability of myomerger to induce fusion of myomaker-fibroblasts, and its muscle-specific expression in the mouse, suggests that myomerger may play a role during myogenesis. To begin to decipher the role of myomerger in myogenesis, we evaluated its function during myoblast differentiation. We utilized CRISPR/Cas9 genome editing to disrupt myomerger in C2C12 myoblasts. Two guide RNAs (gRNA) were designed to target the largest exon of Gm7325, which resulted in a 166 base pair deletion thereby disrupting both mouse transcripts (
Role of Myomerger in Muscle Formation In Vivo
To examine the function of myomerger in vivo, we disrupted exon 3 using the same CRISPR/Cas9 strategy described for C2C12 myoblasts. Injection of Cas9 and myomerger gRNAs into blastocysts resulted in lethality of 9 of the 10 F0 pups, suggesting that the high efficiency of Cas9 lead to homozygous deletion of myomerger. The one remaining pup was heterozygous for myomerger (
Discussion
In summary, we report the discovery of an additional muscle-specific factor used in myoblast fusion and developmental myogenesis. While myomaker and myomerger appear to be used in muscle formation, E17.5 myomerger KO embryos grossly exhibit more myocytes compared to embryos lacking myomaker suggesting that these two myoblast fusion proteins may have distinct functions. We did not detect robust co-localization indicating that there is no physical interaction between myomaker and myomerger or that any potential interaction is transient or at discrete cellular locations.
Our data from the cell mixing experiments reveal that myomaker appears to be necessary in both fusing cells while myomerger only appears to be required in one fusing cell. This indicates that, for reconstitution of cell fusion, both fusing cells must become fusion competent (amenable to fuse), while only one cell needs to become fusogenic to allow syncytial formation. With this concept in mind, our data suggest that myomaker allows the cell to become fusion competent, whereas myomerger confers fusogencity. The cell mixing experiments also indicate that myomerger may require myomaker activity for fusogenic function because myomerger-expressing fibroblasts do not fuse to fibroblasts expressing both myomaker and myomerger. Without wishing to bound by theory, these data potentially suggest that myomerger acts downstream of myomaker, where myomaker acts as an initiator of fusion and myomerger executes the final steps to drive syncytial formation.
Without wishing to bound by theory, the distinct consequences of myomaker and myomerger expression in fibroblasts are consistent with the idea that the two proteins regulate different aspects of fusion. Membrane fusion appears to be a complex process that often includes membrane apposition and tethering, mixing of the outer membranes (hemifusion), pore formation, and pore expansion. Classical viral fusogens, as well as Eff-1, are large proteins with long ectodomains that are able to accomplish all of the steps necessary for fusion. The discovery of myomerger as an additional myoblast fusion factor could indicate that in higher organisms these multiple functions of viral proteins have been delegated to different myocyte proteins. Without wishing to bound by theory, this evolutionary strategy, at least in the case of muscle fusion, could provide more regulatory control to ascertain that cells are compatible for fusion.
Without wishing to bound by theory, the myomerger association with membranes could indicate that it functions to alter membrane dynamics that overcomes the thermodynamic barriers for fusion. Without wishing to bound by theory, myomerger activation of fusion through cytoskeletal alterations would be consistent with induction of fusogencity, as cytoskeletal alterations provide the necessary tension to induce membrane fusion in various systems.
The headings used in the disclosure are not meant to suggest that all disclosure relating to the heading is found within the section that starts with that heading. Disclosure for any subject may be found throughout the specification.
It is noted that terms like “preferably,” “commonly,” and “typically” are not used herein to limit the scope of the claimed invention or to imply that certain features are critical, essential, or even important to the structure or function of the claimed invention. Rather, these terms are merely intended to highlight alternative or additional features that may or may not be utilized in a particular embodiment of the present invention.
As used in the disclosure, “a” or “an” means one or more than one, unless otherwise specified. As used in the claims, when used in conjunction with the word “comprising” the words “a” or “an” means one or more than one, unless otherwise specified. As used in the disclosure or claims, “another” means at least a second or more, unless otherwise specified. As used in the disclosure, the phrases “such as”, “for example”, and “e.g.” mean “for example, but not limited to” in that the list following the term (“such as”, “for example”, or “e.g.”) provides some examples but the list is not necessarily a fully inclusive list. The word “comprising” means that the items following the word “comprising” may include additional unrecited elements or steps; that is, “comprising” does not exclude additional unrecited steps or elements.
Unless otherwise indicated, all numbers expressing quantities of ingredients, properties such as reaction conditions, and so forth used in the specification and claims are to be understood as being modified in all instances by the term “about”. Accordingly, unless indicated to the contrary, the numerical parameters set forth in this specification and claims are approximations that can vary depending upon the desired properties sought to be obtained by the presently-disclosed subject matter.
As used herein, the term “about,” when referring to a value or to an amount of mass, weight, time, volume, concentration or percentage is meant to encompass variations of in some embodiments ±20%, in some embodiments ±10%, in some embodiments ±5%, in some embodiments ±1%, in some embodiments ±0.5%, and in some embodiments ±0.1% from the specified amount, as such variations are appropriate to perform the disclosed method.
Detailed descriptions of one or more embodiments are provided herein. It is to be understood, however, that the present invention may be embodied in various forms. Therefore, specific details disclosed herein (even if designated as preferred or advantageous) are not to be interpreted as limiting, but rather are to be used as an illustrative basis for the claims and as a representative basis for teaching one skilled in the art to employ the present invention in any appropriate manner. Indeed, various modifications of the invention in addition to those described herein will become apparent to those skilled in the art from the foregoing description and the accompanying figures. Such modifications are intended to fall within the scope of the appended claims.
This application claims the benefit of U.S. Provisional Application No. 62/458,634, filed Feb. 14, 2017 entitled “INDUCTION OF CELL FUSION BY A NOVEL FUSION FACTOR” which is herein incorporated by reference in its entirety.
This invention was made with government support under NIH R01AR068286 awarded by the National Institutes of Health. The government has certain rights in the invention.
| Filing Document | Filing Date | Country | Kind |
|---|---|---|---|
| PCT/US2018/017991 | 2/13/2018 | WO | 00 |
| Number | Date | Country | |
|---|---|---|---|
| 62458634 | Feb 2017 | US |
