Severe Acute Respiratory Syndrome (SARS) Coronavirus ORF8 Protein Is Acquired from SARS-Related Coronavirus from Greater Horseshoe Bats through Recombination - PubMed (original) (raw)

FIG 2

Phylogenetic analysis of the nucleotide sequences of the 267-nt fragment of RdRp gene regions of the 46 positive samples identified in bats in Yunnan in this study. The tree was constructed by the maximum likelihood method with the model GTR+G. Bootstrap values were calculated from 1,000 trees, and only values of >700 are shown and given at the nodes. The scale bar represents 5 nucleotide substitutions per site. The two SARSr-Rf-BatCoV strains, YNLF_31C and YNLF_34C, are in red. The potentially novel bat CoVs are in purple. AntelopeCoV, sable antelope coronavirus (EF424621); BatCoV CDPHE15/USA/2006, bat coronavirus CDPHE15/USA/2006 (NC_022103.1); BatCoV/SC2013, betacoronavirus/SC2013 (KJ473821.1); Erinaceus CoV/VMC/DEU/2012, betacoronavirus Erinaceus/VMC/DEU/2012 (NC_022643); BCoV, bovine coronavirus (NC_003045); BdHKU22, bottlenose dolphin coronavirus HKU22 (KF793826); BuCoV HKU11, bulbul coronavirus HKU11 (FJ376619); BWCoV SW1, beluga whale coronavirus SW1 (NC_010646); CCoV, canine coronavirus strain CCoV/NTU336/F/2008 (GQ477367.1); CRCoV, canine respiratory coronavirus strain K37 (JX860640.1); CmCoV HKU21, common moorhen coronavirus HKU21 (NC_016996); CoV Neoromicia/PML-PHE1/RSA/2011, coronavirus Neoromicia/PML-PHE1/RSA/2011 (KC869678); DcCoV HKU23, dromedary camel coronavirus HKU23 (KF906251); ECoV, equine coronavirus (NC_010327); FIPV, feline infectious peritonitis virus (AY994055); GiCoV, giraffe coronavirus US/OH3-TC/2006 (EF424622.1); HCoV-229E, human coronavirus 229E (NC_002645); HCoV-HKU1, human coronavirus HKU1 (NC_006577); HCoV-NL63, human coronavirus NL63 (NC_005831); HCoV-OC43, human coronavirus OC43(NC_005147); Hi-BatCoV HKU10, Hipposideros bat coronavirus HKU10 (JQ989269); IBV-beaudette, Beaudette coronavirus (AY692454); Human MERS-CoV, Middle East respiratory syndrome coronavirus (NC_019843.3); Human MERS-CoV EMC/2012, human betacoronavirus 2c_EMC/2012 (JX869059.2); Camel MERS-CoV KSA-CAMEL-363, Middle East respiratory syndrome coronavirus isolate KSA-CAMEL-363 (KJ713298); MRCoV HKU18, magpie robin coronavirus HKU18(NC_016993); BatCoV 1A, Miniopterus bat coronavirus 1A (NC_010437); BatCoV 1B, Miniopterus bat coronavirus 1B(NC_010436); Mi-BatCoV HKU7, Miniopterus bat coronavirus HKU7 (DQ249226); Mi-BatCoV HKU8, Miniopterus bat coronavirus HKU8 (NC_010438); Mink CoV strain WD1127, mink coronavirus strain WD1127 (NC_023760.1); MunCoV HKU13, munia coronavirus HKU13 (FJ376622); MHV-A59, murine hepatitis virus (NC_001846); My-BatCoV HKU6, Myotis bat coronavirus HKU6 (DQ249224); NH CoV HKU19, night heron coronavirus HKU19 (NC_016994); PEDV, porcine epidemic diarrhea virus (NC_003436); PHEV, porcine hemagglutinating encephalomyelitis virus (NC_007732); Pi-BatCoV-HKU5-1, Pipistrellus bat coronavirus HKU5 (NC_009020); PorCoV HKU15, porcine coronavirus HKU15 (NC_016990); PRCV, porcine respiratory coronavirus (DQ811787); RbCoV HKU14, rabbit coronavirus HKU14 (NC_017083); RatCoV parker, rat coronavirus Parker (NC_012936); Rs-BatCoV HKU2, Rhinolophus bat coronavirus HKU2 (EF203064); Ro-BatCoV-HKU9, Rousettus bat coronavirus HKU9 (NC_009021); Ro-BatCoV HKU10, Rousettus bat coronavirus HKU10 (JQ989270); Human SARS-CoV TOR2, SARS-related human coronavirus (NC_004718); Civet SARS-CoV SZ16, SARS-related palm civet coronavirus (AY304488); Badger SARS-CoV, SARS-related badger coronavirus CFB/SZ/94/03 (AY545919.1); SARSr-Rs-BatCoV HKU3, SARS-related Rhinolophus bat coronavirus HKU3 (DQ022305); Scotophilus BatCoV 512, Scotophilus bat coronavirus 512 (NC_009657); SpCoV HKU17, sparrow coronavirus HKU17 (NC_016992); TCoV, turkey coronavirus (NC_010800); TGEV, transmissible gastroenteritis virus (DQ443743); ThCoV HKU12, thrush coronavirus HKU12 (FJ376621); Ty-BatCoV-HKU4-1, Tylonycteris bat coronavirus HKU4 (NC_009019); WECoV HKU16, white-eye coronavirus HKU16 (NC_016991); WiCoV HKU20, widgeon coronavirus HKU20 (NC_016995).