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Frameshift and wild-type proteins are highly similar because the genetic code and genomes were optimized for frameshift tolerance

https://doi.org/10.1101/067736
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Selecting the Right Similarity‐Scoring Matrix
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Comparing expression level‐dependent features in codon usage with protein abundance: An analysis of ‘predictive proteomics’
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Detecting Frame Shifts by Amino Acid Sequence Comparison
inferredcites →https://doi.org/10.1007/bf02103132openalex-snapshot
A quantitative measure of error minimization in the genetic code
inferredcites →https://doi.org/10.1007/pl00006381openalex-snapshot
The Genetic Code Is One in a Million
inferredcites →https://doi.org/10.1007/s00239-004-0271-9openalex-snapshot
Global mRNA Stability Is Not Associated with Levels of Gene Expression in Drosophila melanogaster But Shows a Negative Correlation with Codon Bias
inferredcites →https://doi.org/10.1007/s00239-008-9179-0openalex-snapshot
Recoding of Translation in Turtle Mitochondrial Genomes: Programmed Frameshift Mutations and Evidence of a Modified Genetic Code
inferredcites →https://doi.org/10.1007/s10709-017-9996-4openalex-snapshot
Codon usage and amino acid usage influence genes expression level
inferredcites →https://doi.org/10.1016/0022-2836(70)90388-8openalex-snapshot
Amino acid substitutions resulting from suppression of nonsense mutations
inferredcites →https://doi.org/10.1016/0305-0491(93)90122-lopenalex-snapshot
Evolutionary changes in the genetic code
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Temperature-sensitive amber suppression of ompF′-′lacZ fused gene expression in a supE mutant of Escherichia coli K12
inferredcites →https://doi.org/10.1016/j.biosystems.2012.03.001openalex-snapshot
The genetic code and its optimization for kinetic energy conservation in polypeptide chains
inferredcites →https://doi.org/10.1016/j.tig.2003.12.009openalex-snapshot
Driving change: the evolution of alternative genetic codes
inferredcites →https://doi.org/10.1016/j.tig.2005.05.013openalex-snapshot
Functional divergence of proteins through frameshift mutations
inferredcites →https://doi.org/10.1016/j.ygeno.2015.05.009openalex-snapshot
Comparison of codon usage bias across Leishmania and Trypanosomatids to understand mRNA secondary structure, relative protein abundance and pathway functions
inferredcites →https://doi.org/10.1016/s0021-9258(19)76574-0openalex-snapshot
Mechanism of expression of the overlapping genes of Bacillus subtilis aspartokinase II.
inferredcites →https://doi.org/10.1016/s0092-8674(00)80866-1openalex-snapshot
The Early Evolution of the Genetic Code
inferredcites →https://doi.org/10.1016/s0960-9822(06)00416-7openalex-snapshot
Programmed translational frameshifting in a gene required for yeast telomere replication
inferredcites →https://doi.org/10.1038/nature13428openalex-snapshot
Dynamic pathways of −1 translational frameshifting
inferredcites →https://doi.org/10.1038/scientificamerican0769-86openalex-snapshot
Computer Analysis of Protein Evolution
inferredcites →https://doi.org/10.1073/pnas.1911203117openalex-snapshot
Frameshifting preserves key physicochemical properties of proteins
inferredcites →https://doi.org/10.1073/pnas.64.2.584openalex-snapshot
THE GENETIC CODE AND ERROR TRANSMISSION
inferredcites →https://doi.org/10.1073/pnas.83.10.3395openalex-snapshot
Methyl-directed repair of frameshift mutations in heteroduplex DNA.
inferredcites →https://doi.org/10.1073/pnas.86.10.3699openalex-snapshot
Nonrandom utilization of codon pairs in Escherichia coli.
inferredcites →https://doi.org/10.1073/pnas.89.22.10915openalex-snapshot
Amino acid substitution matrices from protein blocks.
inferredcites →https://doi.org/10.1074/jbc.m402337200openalex-snapshot
A Frameshift Mutation and Alternate Splicing in Human Brain Generate a Functional Form of the Pseudogene Cytochrome P4502D7 That Demethylates Codeine to Morphine
inferredcites →https://doi.org/10.1080/15476286.2015.1068497openalex-snapshot
Translational readthrough potential of natural termination codons in eucaryotes – The impact of RNA sequence
inferredcites →https://doi.org/10.1089/1044549042476910openalex-snapshot
The Ambush Hypothesis: Hidden Stop Codons Prevent Off-Frame Gene Reading
inferredcites →https://doi.org/10.1089/cmb.1995.2.459openalex-snapshot
Improving the Practical Space and Time Efficiency of the Shortest-Paths Approach to Sum-of-Pairs Multiple Sequence Alignment
inferredcites →https://doi.org/10.1093/bioinformatics/bti1000openalex-snapshot
Identification of nine human-specific frameshift mutations by comparative analysis of the human and the chimpanzee genome sequences
inferredcites →https://doi.org/10.1093/nar/11.23.8283openalex-snapshot
supGandsupLinEscherichia colicode for mutant lysine tRNAs
inferredcites →https://doi.org/10.1093/nar/gkaa169openalex-snapshot
Frame-shifted proteins of a given gene retain the same function
inferredcites →https://doi.org/10.1093/nar/gkg642openalex-snapshot
Structural diversification and neo-functionalization during floral MADS-box gene evolution by C-terminal frameshift mutations
inferredcites →https://doi.org/10.1093/nar/gkt274openalex-snapshot
Identification of the nature of reading frame transitions observed in prokaryotic genomes
inferredcites →https://doi.org/10.1093/nar/gku608openalex-snapshot
Evidence of efficient stop codon readthrough in four mammalian genes
inferredcites →https://doi.org/10.1101/gr.119974.110openalex-snapshot
Evidence of abundant stop codon readthrough in Drosophila and other metazoa
inferredcites →https://doi.org/10.1101/gr.5987307openalex-snapshot
The genetic code is nearly optimal for allowing additional information within protein-coding sequences
inferredcites →https://doi.org/10.1128/jb.103.1.32-36.1970openalex-snapshot
Genetic Mapping and Dominance of the Amber Suppressor, Su1 ( supD ), in Escherichia coli K-12
inferredcites →https://doi.org/10.1128/jb.144.1.300-305.1980openalex-snapshot
UGA suppressor that maps within a cluster of ribosomal protein genes
inferredcites →https://doi.org/10.1128/jvi.63.9.3983-3990.1989openalex-snapshot
Overlapping genes in a yeast double-stranded RNA virus
inferredcites →https://doi.org/10.1186/1471-2105-6-134openalex-snapshot
Empirical codon substitution matrix
inferredcites →https://doi.org/10.1186/1471-2164-15-721openalex-snapshot
Overlapping genes: a window on gene evolvability
inferredcites →https://doi.org/10.1186/1471-2164-9-463openalex-snapshot
Preferred and avoided codon pairs in three domains of life
inferredcites →https://doi.org/10.1371/journal.pgen.1006196openalex-snapshot
Functional Translational Readthrough: A Systems Biology Perspective
inferredcites →https://doi.org/10.7287/peerj.preprints.806v1openalex-snapshot
The shiftability of protein coding genes: the genetic code was optimized for frameshift tolerating
inferredcites →https://doi.org/10.7717/peerj.4825openalex-snapshot
On the efficiency of the genetic code after frameshift mutations

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1002/bies.201900201openalex-snapshot
Why Is AUG the Start Codon?
inferred← citeshttps://doi.org/10.1007/s00114-020-01676-zopenalex-snapshot
First arrived, first served: competition between codons for codon-amino acid stereochemical interactions determined early genetic code assignments
inferred← citeshttps://doi.org/10.1007/s00239-019-09892-6openalex-snapshot
More Pieces of Ancient than Recent Theoretical Minimal Proto-tRNA-Like RNA Rings in Genes Coding for tRNA Synthetases
inferred← citeshttps://doi.org/10.1007/s00239-019-09925-0openalex-snapshot
Pentamers with Non-redundant Frames: Bias for Natural Circular Code Codons
inferred← citeshttps://doi.org/10.1016/j.sbi.2020.11.010openalex-snapshot
Structure and function of naturally evolved de novo proteins
inferred← citeshttps://doi.org/10.1073/pnas.1911203117openalex-snapshot
Frameshifting preserves key physicochemical properties of proteins
inferred← citeshttps://doi.org/10.1093/molbev/msab164openalex-snapshot
On the Origin of Frameshift-Robustness of the Standard Genetic Code
inferred← citeshttps://doi.org/10.1093/molbev/msac031openalex-snapshot
Pairs of Mutually Compensatory Frameshifting Mutations Contribute to Protein Evolution
inferred← citeshttps://doi.org/10.1101/2020.12.25.424394openalex-snapshot
Pairs of mutually compensatory frameshifting mutations contribute to protein evolution in vertebrates and insects
inferred← citeshttps://doi.org/10.1101/684076openalex-snapshot
Invariants of Frameshifted Variants
inferred← citeshttps://doi.org/10.1177/10556656221089156openalex-snapshot
SF3B4 Frameshift Variants Represented a More Severe Clinical Manifestation in Nager Syndrome
inferred← citeshttps://doi.org/10.5772/intechopen.80871openalex-snapshot
Directed Mutations Recode Mitochondrial Genes: From Regular to Stopless Genetic Codes
inferred← citeshttps://doi.org/10.5802/crbiol.1openalex-snapshot
Theoretical minimal RNA rings mimick molecular evolution before tRNA-mediated translation: codon-amino acid affinities increase from early to late RNA rings
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