An exclusive 42 amino acid signature in pp1ab protein provides insights into the evolutive history of the 2019 novel human‐pathogenic coronavirus (SARS‐CoV‐2)

Autor: Hugo Serrano-Posada, Daniel Alejandro Garcia-Rodriguez, Sara Centeno-Leija, Yair Cárdenas-Conejo, Andrómeda Liñán-Rico
Jazyk: angličtina
Rok vydání: 2020
Předmět:
viruses
coronavirus
Coronavirus Papain-Like Proteases
Gene Expression
Viral Nonstructural Proteins
medicine.disease_cause
Virulence factor
SARS‐CoV‐2
0302 clinical medicine
Protein structure
Chiroptera
Papain
030212 general & internal medicine
Clade
Phylogeny
Coronavirus
chemistry.chemical_classification
virus diseases
Amino acid
Infectious Diseases
Severe acute respiratory syndrome-related coronavirus
030211 gastroenterology & hepatology
Coronavirus Infections
Wuhan
Sequence analysis
Short Communication
Pneumonia
Viral
Short Communications
virus
Biology
Virus
Evolution
Molecular
03 medical and health sciences
Betacoronavirus
Viral Proteins
Virology
medicine
Animals
Humans
Amino Acid Sequence
pp1ab protein
Pandemics
Polyproteins
SARS
Base Sequence
Sequence Homology
Amino Acid
SARS-CoV-2
Outbreak
COVID-19
Computational Biology
chemistry
Sequence Alignment
Zdroj: Journal of Medical Virology
ISSN: 1096-9071
0146-6615
Popis: The city of Wuhan, Hubei province, China, was the origin of a severe pneumonia outbreak in December 2019, attributed to a novel coronavirus (severe acute respiratory syndrome coronavirus 2 [SARS‐CoV‐2]), causing a total of 2761 deaths and 81109 cases (25 February 2020). SARS‐CoV‐2 belongs to genus Betacoronavirus, subgenus Sarbecovirus. The polyprotein 1ab (pp1ab) remains unstudied thoroughly since it is similar to other sarbecoviruses. In this short communication, we performed phylogenetic‐structural sequence analysis of pp1ab protein of SARS‐CoV‐2. The analysis showed that the viral pp1ab has not changed in most isolates throughout the outbreak time, but interestingly a deletion of 8 aa in the virulence factor nonstructural protein 1 was found in a virus isolated from a Japanese patient that did not display critical symptoms. While comparing pp1ab protein with other betacoronaviruses, we found a 42 amino acid signature that is only present in SARS‐CoV‐2 (AS‐SCoV2). Members from clade 2 of sarbecoviruses have traces of this signature. The AS‐SCoV2 located in the acidic‐domain of papain‐like protein of SARS‐CoV‐2 and bat‐SL‐CoV‐RatG13 guided us to suggest that the novel 2019 coronavirus probably emerged by genetic drift from bat‐SL‐CoV‐RaTG13. The implication of this amino acid signature in papain‐like protein structure arrangement and function is something worth to be explored.
Highlights The amino acid signature in pp1ab of the novel coronavirus SARS‐CoV‐2 helps to elucidate its evolutive origin.SARS‐CoV‐2 probably rose directly from viruses infecting bats rather than pangolins.The amino acid signature in SARS‐CoV‐2 could be a target for a specific diagnosis of COVID‐19.
Databáze: OpenAIRE
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