Alexandre Hassanin, Vuong Tan Tu, Tamás Görföl, Lam Quang Ngon, Phu Van Pham, Chu Thi Hang, Tran Anh Tuan, Mathieu Prot, Etienne Simon-Lorière, Gábor Kemenesi, Gábor Endre Tóth, Laurent Moulin, Sébastien Wurtzer
{"title":"越南及其邻国马蹄蝠沙棘病毒的系统地理学。对 SARS-CoV 和 SARS-CoV-2 起源的影响。","authors":"Alexandre Hassanin, Vuong Tan Tu, Tamás Görföl, Lam Quang Ngon, Phu Van Pham, Chu Thi Hang, Tran Anh Tuan, Mathieu Prot, Etienne Simon-Lorière, Gábor Kemenesi, Gábor Endre Tóth, Laurent Moulin, Sébastien Wurtzer","doi":"10.1111/mec.17486","DOIUrl":null,"url":null,"abstract":"<p>Previous studies on horseshoe bats (<i>Rhinolophus</i> spp.) have described many coronaviruses related to SARS-CoV (<i>SARSCoVr</i>) in China and only a few coronaviruses related to SARS-CoV-2 (<i>SARSCoV2r</i>) in Yunnan (southern China), Cambodia, Laos and Thailand. Here, we report the results of several field missions carried out in 2017, 2021 and 2022 across Vietnam during which 1218 horseshoe bats were sampled from 19 locations. Sarbecoviruses were detected in 11% of faecal RNA extracts, with much more positives among <i>Rhinolophus thomasi</i> (46%). We assembled 38 <i>Sarbecovirus</i> genomes, including 32 <i>SARSCoVr</i>, four <i>SARSCoV2r</i>, and two recombinants of <i>SARSCoVr</i> and <i>SARSCoV2r</i> (<i>RecSar</i>), one showing a Spike protein very similar to SARS-CoV-2. We detected a bat co-infected with four coronaviruses, including two sarbecoviruses. Our analyses revealed that <i>Sarbecovirus</i> genomes evolve in Vietnam under strong geographical and host constraints. First, we found evidence for a deep separation between viruses from northern Vietnam and those from central and southern Vietnam. Second, we detected only <i>SARSCoVr</i> in <i>Rhinolophus thomasi</i>, both <i>SARSCoVr</i> and <i>SARSCoV2r</i> in <i>Rhinolophus affinis</i>, and only <i>RecSar</i> in <i>Rhinolophus pusillus</i> captured close to the border with China. Third, the bias in favour of Uracil in synonymous third codon positions of <i>SARSCoVr</i> extracted from <i>R. thomasi</i> showed a negative correlation with latitudes. Our results also provided support for an emergence of SARS-CoV in horseshoe bats from northern Yunnan and emergence of SARS-CoV-2 in horseshoe bats from northern Indochina subtropical forests (southern Yunnan, northern Laos and north-western Vietnam).</p>","PeriodicalId":210,"journal":{"name":"Molecular Ecology","volume":null,"pages":null},"PeriodicalIF":4.5000,"publicationDate":"2024-08-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1111/mec.17486","citationCount":"0","resultStr":"{\"title\":\"Phylogeography of horseshoe bat sarbecoviruses in Vietnam and neighbouring countries. 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Phylogeography of horseshoe bat sarbecoviruses in Vietnam and neighbouring countries. Implications for the origins of SARS-CoV and SARS-CoV-2
Previous studies on horseshoe bats (Rhinolophus spp.) have described many coronaviruses related to SARS-CoV (SARSCoVr) in China and only a few coronaviruses related to SARS-CoV-2 (SARSCoV2r) in Yunnan (southern China), Cambodia, Laos and Thailand. Here, we report the results of several field missions carried out in 2017, 2021 and 2022 across Vietnam during which 1218 horseshoe bats were sampled from 19 locations. Sarbecoviruses were detected in 11% of faecal RNA extracts, with much more positives among Rhinolophus thomasi (46%). We assembled 38 Sarbecovirus genomes, including 32 SARSCoVr, four SARSCoV2r, and two recombinants of SARSCoVr and SARSCoV2r (RecSar), one showing a Spike protein very similar to SARS-CoV-2. We detected a bat co-infected with four coronaviruses, including two sarbecoviruses. Our analyses revealed that Sarbecovirus genomes evolve in Vietnam under strong geographical and host constraints. First, we found evidence for a deep separation between viruses from northern Vietnam and those from central and southern Vietnam. Second, we detected only SARSCoVr in Rhinolophus thomasi, both SARSCoVr and SARSCoV2r in Rhinolophus affinis, and only RecSar in Rhinolophus pusillus captured close to the border with China. Third, the bias in favour of Uracil in synonymous third codon positions of SARSCoVr extracted from R. thomasi showed a negative correlation with latitudes. Our results also provided support for an emergence of SARS-CoV in horseshoe bats from northern Yunnan and emergence of SARS-CoV-2 in horseshoe bats from northern Indochina subtropical forests (southern Yunnan, northern Laos and north-western Vietnam).
期刊介绍:
Molecular Ecology publishes papers that utilize molecular genetic techniques to address consequential questions in ecology, evolution, behaviour and conservation. Studies may employ neutral markers for inference about ecological and evolutionary processes or examine ecologically important genes and their products directly. We discourage papers that are primarily descriptive and are relevant only to the taxon being studied. Papers reporting on molecular marker development, molecular diagnostics, barcoding, or DNA taxonomy, or technical methods should be re-directed to our sister journal, Molecular Ecology Resources. Likewise, papers with a strongly applied focus should be submitted to Evolutionary Applications. Research areas of interest to Molecular Ecology include:
* population structure and phylogeography
* reproductive strategies
* relatedness and kin selection
* sex allocation
* population genetic theory
* analytical methods development
* conservation genetics
* speciation genetics
* microbial biodiversity
* evolutionary dynamics of QTLs
* ecological interactions
* molecular adaptation and environmental genomics
* impact of genetically modified organisms