About: Molecular epidemiology, evolution and phylogeny of SARS coronavirus

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Molecular epidemiology, evolution and phylogeny of SARS coronavirus
Creator	Li, Xin Fung, Joshua Lau, Susanna Luk, Hayes Woo, Patrick
Source	Elsevier; Medline; PMC
abstract	Shortly after its emergence in southern China in 2002/2003, Severe Acute Respiratory Syndrome coronavirus (SARS-CoV) was confirmed to be the cause of SARS. Subsequently, SARS-related CoVs (SARSr-CoVs) were found in palm civets from live animal markets in Guangdong and in various horseshoe bat species, which were believed to be the ultimate reservoir of SARSr-CoV. Till November 2018, 339 SARSr-CoV genomes have been sequenced, including 274 from human, 18 from civets and 47 from bats [mostly from Chinese horseshoe bats (Rhinolophus sinicus), n = 30; and greater horseshoe bats (Rhinolophus ferrumequinum), n = 9]. The human SARS-CoVs and civet SARSr-CoVs were collected in 2003/2004, while bat SARSr-CoVs were continuously isolated in the past 13 years even after the cessation of the SARS epidemic. SARSr-CoVs belong to the subgenus Sarbecovirus (previously lineage B) of genus Betacoronavirus and occupy a unique phylogenetic position. Overall, it is observed that the SARSr-CoV genomes from bats in Yunnan province of China possess the highest nucleotide identity to those from civets. It is evident from both multiple alignment and phylogenetic analyses that some genes of a particular SARSr-CoV from bats may possess higher while other genes possess much lower nucleotide identity to the corresponding genes of SARSr-CoV from human/civets, resulting in the shift of phylogenetic position in different phylogenetic trees. Our current model on the origin of SARS is that the human SARS-CoV that caused the epidemic in 2002/2003 was probably a result of multiple recombination events from a number of SARSr-CoV ancestors in different horseshoe bat species.
has issue date	2019-03-04(xsd:dateTime)
bibo:doi	10.1016/j.meegid.2019.03.001
bibo:pmid	30844511
has license	no-cc
sha1sum (hex)	671291d6b0141d9920ffc82e45bc9aef32c6b391
schema:url	https://doi.org/10.1016/j.meegid.2019.03.001
resource representing a document's title	Molecular epidemiology, evolution and phylogeny of SARS coronavirus
has PubMed Central identifier	PMC7106202
has PubMed identifier	30844511
schema:publication	Infect Genet Evol
resource representing a document's body	covid:671291d6b0141d9920ffc82e45bc9aef32c6b391#body_text
is schema:about of	named entity 'MOLECULAR EPIDEMIOLOGY' named entity 'PHYLOGENY' named entity 'SARS CORONAVIRUS' named entity 'EVOLUTION' named entity 'greater horseshoe bats' named entity 'genome size' named entity 'SARS-CoV' named entity 'receptor' named entity 'phylogeny' named entity 'phylogeny' named entity 'Molecular epidemiology' named entity 'Asian' named entity 'Guangdong' named entity 'civet' named entity 'bat' named entity 'genome' named entity 'genome' named entity 'phylogenetic tree' named entity 'intermediate host' named entity 'SARS-CoV' named entity 'SARSr-CoV' named entity 'esterase' named entity 'horseshoe bats' named entity 'SARSr-CoV' named entity 'cytopathic' named entity 'molecular epidemiology' named entity 'cross-species transmission' named entity 'ACE2' named entity 'World Health Organization' named entity 'civet' named entity 'RBD' named entity 'SARSr-CoV' named entity 'viruses' named entity 'Shanxi' named entity 'bat' named entity 'C-C motif chemokine' named entity 'horseshoe bats' named entity 'apoptosis' named entity 'RdRp' named entity 'horseshoe bats' named entity 'NTD' named entity 'SARSr-CoV' named entity 'intestine' named entity 'Aselliscus stoliczkanus' named entity 'SARS-CoV' named entity 'ORF1' named entity 'infectivity' named entity 'epidemic' named entity 'CCL5' named entity 'DNA synthesis' named entity 'C-terminal' named entity 'SARSr-CoV' named entity 'RBD' named entity 'civet' named entity 'viral tropism' named entity 'gene sequences' named entity 'orthologous' named entity 'human monoclonal antibody' named entity 'serum samples' named entity 'mammals' named entity 'Luxembourg' named entity 'Italy' named entity 'SARS-CoV' named entity 'Yunnan' named entity 'Embecovirus' named entity 'genome' named entity 'SARS-CoV' named entity 'proteases' named entity 'Trimers' named entity 'evolution' named entity 'papain' named entity 'phylogenetically' named entity 'civet' named entity 'genome' named entity 'sampling error' named entity 'bat' named entity 'gene'

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