Viral synthetic nucleic acid sequences and use thereof
AssigneeSynvaccine Ltd.
InventorsTamir Tuller, Eli Goz, Oriah Mioduser, Alon Diament
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Abstract
Nucleic acid molecules comprising a coding sequence with at least one codon substituted to a synonymous codon, a modified form of a virus comprising the nucleic acid molecules of the invention, and methods for producing these nucleic acid molecules, and viruses, are provided.
Claims18
A method for producing a nucleic acid molecule optimized or deoptimized for expression in a particular cellular context within a cell, the method comprising:
- a. selecting a coding sequence,
- b. selecting a reference set of genes expressed in a particular cellular context within a cell wherein said reference set is a subset of said cell's total genome or is a set of viral genes coordinately expressed in said cellular context and which are a subset of a virus's genome,
- c. for each codon of said coding sequence, computing a parameter that effects translation rate for said codon and its synonymous codons over all sequences in the reference set, and
- d. substituting at least one codon of said coding sequence with a synonymous codon with a faster rate of translation in said particular cellular context, in order to optimize said coding sequence or substituting at least one codon of said coding sequence with a synonymous codon with a slower rate of translation in said particular cellular context, in order to deoptimize said coding sequence,
- thereby producing a nucleic acid molecule optimized or deoptimized for expression in a particular cellular context.
A method for producing a nucleic acid molecule optimized or deoptimized for expression in a specific period of a cell's life cycle, the method comprising:
- a. selecting a coding sequence,
- b. selecting a reference set of genes expressed in specific period of a cell's life cycle wherein said reference set is a subset of said cell's total genome or is a set of viral genes coordinately expressed in said specific period of a cell's life cycle and which are a subset of a virus's genome, wherein said set of genes have a common temporal expression during a virus's life cycle,
- c. for each codon of said coding sequence, computing a parameter that effects translation rate for said codon and its synonymous codons over all sequences in the reference set, wherein said parameter is relative synonymous codons frequencies (RSCF), and
- d. substituting at least one codon of said coding sequence with a synonymous codon with a faster rate of translation in said specific period of a cell's life cycle, in order to optimize said coding sequence or substituting at least one codon of said coding sequence with a synonymous codon with a slower rate of translation in said specific period of a cell's life cycle, in order to deoptimize said coding sequence,
- thereby producing a nucleic acid molecule optimized or deoptimized for expression in a specific period of a cell's life cycle.
A method for producing a nucleic acid molecule optimized for expression in a specific period of a cell's life cycle, the method comprising:
- a. selecting a coding sequence,
- b. selecting a reference set of genes expressed in a specific period of a cell's life cycle wherein said reference set is a subset of said cell's total genome or is a set of viral genes coordinately expressed in said cellular context and which are a subset of a virus's genome, wherein said set of genes have a common temporal expression during a virus's life cycle,
- c. for each codon of said coding sequence, computing a parameter that effects translation rate for said codon and its synonymous codons over all sequences in the reference set, wherein said parameter is relative synonymous codons frequencies (RSCF), and
- d. substituting at least one codon of said coding sequence with a synonymous codon with a faster rate of translation in said specific period of a cell's life cycle, in order to optimize said coding sequence,
- thereby producing a nucleic acid molecule optimized for expression in specific period of a cell's life cycle.
Dependencies are inferred from the claim text.