PubMed:32294518 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PubMed/sourceid/32294518","sourcedb":"PubMed","sourceid":"32294518","source_url":"https://www.ncbi.nlm.nih.gov/pubmed/32294518","text":"A comprehensive analysis of genome composition and codon usage patterns of emerging coronaviruses.\nAn outbreak of atypical pneumonia caused by a novel Betacoronavirus (βCoV), named SARS-CoV-2 has been declared a public health emergency of international concern by the World Health Organization. In order to gain insight into the emergence, evolution and adaptation of SARS-CoV-2 viruses, a comprehensive analysis of genome composition and codon usage of βCoV circulating in China was performed. A biased nucleotide composition was found for SARS-CoV-2 genome. This bias in genomic composition is reflected in its codon and amino acid usage patterns. The overall codon usage in SARS-CoV-2 is similar among themselves and slightly biased. Most of the highly frequent codons are A- and U-ending, which strongly suggests that mutational bias is the main force shaping codon usage in this virus. Significant differences in relative synonymous codon usage frequencies among SARS-CoV-2 and human cells were found. These differences are due to codon usage preferences.","tracks":[{"project":"LitCovid-OGER-BB","denotations":[{"id":"T1","span":{"begin":28,"end":34},"obj":"SO:0001026"},{"id":"T2","span":{"begin":51,"end":56},"obj":"SO:0000360"},{"id":"T3","span":{"begin":84,"end":97},"obj":"NCBITaxon:11118"},{"id":"T4","span":{"begin":151,"end":166},"obj":"SP_8"},{"id":"T5","span":{"begin":151,"end":166},"obj":"NCBITaxon:694002"},{"id":"T6","span":{"begin":181,"end":191},"obj":"SP_7"},{"id":"T7","span":{"begin":368,"end":378},"obj":"SP_7"},{"id":"T8","span":{"begin":379,"end":386},"obj":"NCBITaxon:10239"},{"id":"T9","span":{"begin":416,"end":422},"obj":"SO:0001026"},{"id":"T10","span":{"begin":439,"end":444},"obj":"SO:0000360"},{"id":"T11","span":{"begin":541,"end":551},"obj":"SP_7"},{"id":"T12","span":{"begin":552,"end":558},"obj":"SO:0001026"},{"id":"T13","span":{"begin":573,"end":580},"obj":"SO:0001026"},{"id":"T14","span":{"begin":613,"end":618},"obj":"SO:0000360"},{"id":"T15","span":{"begin":662,"end":667},"obj":"SO:0000360"},{"id":"T16","span":{"begin":677,"end":687},"obj":"SP_7"},{"id":"T17","span":{"begin":765,"end":771},"obj":"SO:0000360"},{"id":"T18","span":{"begin":864,"end":869},"obj":"SO:0000360"},{"id":"T19","span":{"begin":884,"end":889},"obj":"NCBITaxon:10239"},{"id":"T20","span":{"begin":938,"end":943},"obj":"SO:0001819"},{"id":"T21","span":{"begin":968,"end":978},"obj":"SP_7"},{"id":"T22","span":{"begin":983,"end":988},"obj":"SP_6"},{"id":"T23","span":{"begin":983,"end":988},"obj":"NCBITaxon:9606"},{"id":"T24","span":{"begin":1036,"end":1041},"obj":"SO:0000360"}],"namespaces":[{"prefix":"NCBITaxon","uri":"https://www.ncbi.nlm.nih.gov/taxonomy/"}],"attributes":[{"subj":"T1","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T2","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T3","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T4","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T5","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T6","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T7","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T8","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T9","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T10","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T11","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T12","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T13","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T14","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T15","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T16","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T17","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T18","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T19","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T20","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T21","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T22","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T23","pred":"source","obj":"LitCovid-OGER-BB"},{"subj":"T24","pred":"source","obj":"LitCovid-OGER-BB"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"LitCovid-OGER-BB","color":"#d3ec93","default":true}]}]}}