About: A Large Variation in the Rates of Synonymous Substitution for RNA Viruses and Its Relationship to a Diversity of Viral Infection and Transmission Modes

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About: A Large Variation in the Rates of Synonymous Substitution for RNA Viruses and Its Relationship to a Diversity of Viral Infection and Transmission Modes Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	A Large Variation in the Rates of Synonymous Substitution for RNA Viruses and Its Relationship to a Diversity of Viral Infection and Transmission Modes
Creator	Suzuki, Yoshiyuki Gojobori, Takashi Hanada, Kousuke
Source	Medline; PMC
abstract	RNA viruses successfully adapt to various environments by repeatedly producing new mutants, often through generating a number of nucleotide substitutions. To estimate the degree of variation in mutation rates of RNA viruses and to understand the source of such variation, we studied the synonymous substitution rate because synonymous substitution is exempt from functional constraints at the protein level, and its rate reflects the mutation rate to a great extent. We estimated the synonymous substitution rates for a total of 49 different species of RNA viruses, and we found that the rates had tremendous variation by 5 orders of magnitude (from 1.3 × 10(−7) to 6.2 × 10(−2) /synonymous site/year). Comparing the synonymous substitution rates with the replication frequencies and replication error rates for the RNA viruses, we found that the main source of the rate variation was differences in the replication frequency because the rates of replication error were roughly constant over different RNA viruses. Moreover, we examined a relationship between viral life strategies and synonymous substitution rates to understand which viral life strategies affect replication frequencies. The results show that the variation of synonymous substitution rates has been influenced most by either the difference in the infection modes or the differences in the transmission modes. In conclusion, the variation of mutation rates for RNA viruses is caused by different replication frequencies, which are affected strongly by the infection and transmission modes.
has issue date	2004-06-01(xsd:dateTime)
bibo:doi	10.1093/molbev/msh109
bibo:pmid	15014142
has license	no-cc
sha1sum (hex)	18e48315d02a3e744ba53a7e739989ac56d4531f
schema:url	https://doi.org/10.1093/molbev/msh109
resource representing a document's title	A Large Variation in the Rates of Synonymous Substitution for RNA Viruses and Its Relationship to a Diversity of Viral Infection and Transmission Modes
has PubMed Central identifier	PMC7107514
has PubMed identifier	15014142
schema:publication	Mol Biol Evol
resource representing a document's body	covid:18e48315d02a3e744ba53a7e739989ac56d4531f#body_text
is schema:about of	named entity 'caused' named entity 'modes' named entity 'variation' named entity 'main source' named entity 'RNA' named entity 'The' named entity 'Modes' named entity 'Viruses' named entity 'RNA VIRUSES' named entity 'PRODUCING' named entity 'EXEMPT' named entity 'GREAT EXTENT' named entity 'GENERATING' named entity 'EITHER' named entity 'TRANSMISSION' named entity 'VARIATION' named entity 'EXAMINED' named entity 'DIFFERENT' named entity 'REPLICATION ERROR' named entity 'REPEATEDLY' named entity 'MUTATION RATE' named entity 'ENVIRONMENTS' named entity 'RNA VIRUSES' named entity 'DEGREE' named entity '1.3' named entity 'CONCLUSION' named entity 'SITE' named entity 'FUNCTIONAL' named entity 'RESULTS' named entity 'FOUND' named entity 'FREQUENCY' named entity 'TRANSMISSION' named entity 'VARIATION' named entity 'AFFECT' covid:arg/18e48315d02a3e744ba53a7e739989ac56d4531f named entity 'CONSTANT' named entity 'MAIN' named entity 'ORDERS' named entity 'NEW' named entity '6.2' named entity 'PROTEIN LEVEL' named entity 'ESTIMATED' named entity 'SYNONYMOUS SUBSTITUTION' named entity 'ESTIMATE' named entity 'RELATIONSHIP' named entity 'NUCLEOTIDE' named entity 'MAGNITUDE' named entity 'LARGE' named entity 'VIRAL INFECTION' named entity 'RATES' named entity 'SYNONYMOUS SUBSTITUTION' named entity 'CAUSED BY' named entity 'VIRAL' named entity 'REFLECTS' named entity 'MUTATION RATES' named entity 'ITS' named entity 'DIVERSITY' named entity 'COMPARING' named entity 'NUMBER OF' named entity 'FREQUENCIES' named entity 'SPECIES' named entity 'TOTAL' named entity 'INFECTION' named entity 'REPLICATION' named entity 'ADAPT' named entity 'RELATIONSHIP' named entity 'MUTANTS' named entity 'ITS' named entity 'STRATEGIES' named entity 'SOURCE' named entity 'RATE' named entity 'LIFE' named entity 'VARIOUS' named entity 'DIFFERENCE' named entity 'AFFECTED' named entity 'UNDERSTAND' named entity 'reflects' named entity 'viruses' named entity 'protein'

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