Global phylogeography and ancient evolution of the widespread human gut virus crAssphage
Microbiomes are vast communities of microorganisms and viruses that populate all natural ecosystems. Viruses have been considered to be the most variable component of microbiomes, as supported by virome surveys and examples of high genomic mosaicism. However, recent evidence suggests that the human...
| Autores: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Tipo de recurso: | artículo |
| Estado: | Versión aceptada para publicación |
| Fecha de publicación: | 2019 |
| País: | España |
| Institución: | Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya) |
| Repositorio: | Recercat. Dipósit de la Recerca de Catalunya |
| OAI Identifier: | oai:recercat.cat:2445/197289 |
| Acceso en línea: | https://hdl.handle.net/2445/197289 |
| Access Level: | acceso abierto |
| Palabra clave: | Microbiota intestinal Filogeografia Genomes Gastrointestinal microbiome Phylogeography |
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oai:recercat.cat:2445/197289 |
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España |
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| dc.title.none.fl_str_mv |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage |
| title |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage |
| spellingShingle |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage Edwards, Robert A. Microbiota intestinal Filogeografia Genomes Gastrointestinal microbiome Phylogeography Genomes |
| title_short |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage |
| title_full |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage |
| title_fullStr |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage |
| title_full_unstemmed |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage |
| title_sort |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphage |
| dc.creator.none.fl_str_mv |
Edwards, Robert A. Vega, Alejandro A. Norman, Holly M. Ohaeri, Maria Levi, Kyle Dinsdale, Elizabeth A. Cinek, Ondrej Aziz, Ramy K McNair, Katelyn Barr, Jeremy J. Bibby, Kyle Monteiro, Silvia Moreira-Grez, Benjamin Ugochi Ibekwe, MaryAnn Morris, Megan Mugisha, Lawrence Muniesa Pérez, Ma. Teresa Neve, Horst Nguyen, Nam-Phuong Nigro, Olivia D. Twaddle, Alan Torres, Pedro J. Nilsson, Anders S. O'Connell, Taylor Odeh, Rasha Oliver, Andrew Piuri. Mariana Zschach, Henrike Prussin li, Aaron J. Quimron, Udi Quan, Zhe-Xue Rainetova, Petra Stumpf, Rebecca Ramírez-Rojas, Adán Raya, Raul Reasor, Kim Strain, Ronan Stachler, Elyse N. O'Rice, Gillian A. Rossi, Alessandro Stene, Lars C. Santos, Ricardo Zambrano, Maria M. Shimashita, John Brouns, Stan J. J. Cazares, Adrian de Jonge, Patrick A. Desnues, Christelle Díaz Muñoz, Samuel L. Fineran, Peter C. Kurilshikov, Alexander Lavigne, Rob Reyes Muñoz, Alejandro Mazankova, Karla McCarthy, David T. Nobrega, Franklin L. Wijmenga, Cisca Tapia, German Trefault, Nicole Tyakht, Alexander V. Vinuesa, Pablo Wagemans, Jeroen Zhernakova, Alexandra Aarestrup, Frank M. Ahmadov, Gunduz Alassaf, Abeer Billings, Emma K. Anton, Josefa Asangba, Abigail Whiteson, Katrine L. Cantu, Vito Adrian Carlton, Jane M. Cazares, Daniel Cho, Gyu-Sung Condeff, Tess Cortés, Pilar Cranfield, Mark Cuevas, Daniel A. De la Iglesia, Rodrigo Doane, Michael P. Decewicz, Przemyslaw Whiteley, Andy Dominy, Nathaniel J. Dziewit, Lukasz Elwasila, Bashir Mukhtar Eren, A. Murat Franz, Charles Fu, Jingyuan García Aljaro, Cristina Ghedin, Elodie Gulino, Kristen M. Haggerty, John M. White, Bryan Head, Steven R. Hendriksen, Rene S. Hill, Colin Hyöty, Heikki Ilina, Elena N. Irwin, Mitchell T. Jeffries, Thomas C. Jofre i Torroella, Joan Wandro, Stephen Junge, Randall E. Kelley, Scott T. Mirzaei, Mohammadali Khan Kowalewski, Martin Kumaresan, Deepak Leigh, Steven R. Lipson, David Lisitsyna, Eugenia S. Villagra, Nicolás Llagostera, Montserrat Maritz, Julia M. Marr, Linsey C. McCann, Angela Molshanski-Mor, Shahar Dutilh, Bas E. |
| author |
Edwards, Robert A. |
| author_facet |
Edwards, Robert A. Vega, Alejandro A. Norman, Holly M. Ohaeri, Maria Levi, Kyle Dinsdale, Elizabeth A. Cinek, Ondrej Aziz, Ramy K McNair, Katelyn Barr, Jeremy J. Bibby, Kyle Monteiro, Silvia Moreira-Grez, Benjamin Ugochi Ibekwe, MaryAnn Morris, Megan Mugisha, Lawrence Muniesa Pérez, Ma. Teresa Neve, Horst Nguyen, Nam-Phuong Nigro, Olivia D. Twaddle, Alan Torres, Pedro J. Nilsson, Anders S. O'Connell, Taylor Odeh, Rasha Oliver, Andrew Piuri. Mariana Zschach, Henrike Prussin li, Aaron J. Quimron, Udi Quan, Zhe-Xue Rainetova, Petra Stumpf, Rebecca Ramírez-Rojas, Adán Raya, Raul Reasor, Kim Strain, Ronan Stachler, Elyse N. O'Rice, Gillian A. Rossi, Alessandro Stene, Lars C. Santos, Ricardo Zambrano, Maria M. Shimashita, John Brouns, Stan J. J. Cazares, Adrian de Jonge, Patrick A. Desnues, Christelle Díaz Muñoz, Samuel L. Fineran, Peter C. Kurilshikov, Alexander Lavigne, Rob Reyes Muñoz, Alejandro Mazankova, Karla McCarthy, David T. Nobrega, Franklin L. Wijmenga, Cisca Tapia, German Trefault, Nicole Tyakht, Alexander V. Vinuesa, Pablo Wagemans, Jeroen Zhernakova, Alexandra Aarestrup, Frank M. Ahmadov, Gunduz Alassaf, Abeer Billings, Emma K. Anton, Josefa Asangba, Abigail Whiteson, Katrine L. Cantu, Vito Adrian Carlton, Jane M. Cazares, Daniel Cho, Gyu-Sung Condeff, Tess Cortés, Pilar Cranfield, Mark Cuevas, Daniel A. De la Iglesia, Rodrigo Doane, Michael P. Decewicz, Przemyslaw Whiteley, Andy Dominy, Nathaniel J. Dziewit, Lukasz Elwasila, Bashir Mukhtar Eren, A. Murat Franz, Charles Fu, Jingyuan García Aljaro, Cristina Ghedin, Elodie Gulino, Kristen M. Haggerty, John M. White, Bryan Head, Steven R. Hendriksen, Rene S. Hill, Colin Hyöty, Heikki Ilina, Elena N. Irwin, Mitchell T. Jeffries, Thomas C. Jofre i Torroella, Joan Wandro, Stephen Junge, Randall E. Kelley, Scott T. Mirzaei, Mohammadali Khan Kowalewski, Martin Kumaresan, Deepak Leigh, Steven R. Lipson, David Lisitsyna, Eugenia S. Villagra, Nicolás Llagostera, Montserrat Maritz, Julia M. Marr, Linsey C. McCann, Angela Molshanski-Mor, Shahar Dutilh, Bas E. |
| author_role |
author |
| author2 |
Vega, Alejandro A. Norman, Holly M. Ohaeri, Maria Levi, Kyle Dinsdale, Elizabeth A. Cinek, Ondrej Aziz, Ramy K McNair, Katelyn Barr, Jeremy J. Bibby, Kyle Monteiro, Silvia Moreira-Grez, Benjamin Ugochi Ibekwe, MaryAnn Morris, Megan Mugisha, Lawrence Muniesa Pérez, Ma. Teresa Neve, Horst Nguyen, Nam-Phuong Nigro, Olivia D. Twaddle, Alan Torres, Pedro J. Nilsson, Anders S. O'Connell, Taylor Odeh, Rasha Oliver, Andrew Piuri. Mariana Zschach, Henrike Prussin li, Aaron J. Quimron, Udi Quan, Zhe-Xue Rainetova, Petra Stumpf, Rebecca Ramírez-Rojas, Adán Raya, Raul Reasor, Kim Strain, Ronan Stachler, Elyse N. O'Rice, Gillian A. Rossi, Alessandro Stene, Lars C. Santos, Ricardo Zambrano, Maria M. Shimashita, John Brouns, Stan J. J. Cazares, Adrian de Jonge, Patrick A. Desnues, Christelle Díaz Muñoz, Samuel L. Fineran, Peter C. Kurilshikov, Alexander Lavigne, Rob Reyes Muñoz, Alejandro Mazankova, Karla McCarthy, David T. Nobrega, Franklin L. Wijmenga, Cisca Tapia, German Trefault, Nicole Tyakht, Alexander V. Vinuesa, Pablo Wagemans, Jeroen Zhernakova, Alexandra Aarestrup, Frank M. Ahmadov, Gunduz Alassaf, Abeer Billings, Emma K. Anton, Josefa Asangba, Abigail Whiteson, Katrine L. Cantu, Vito Adrian Carlton, Jane M. Cazares, Daniel Cho, Gyu-Sung Condeff, Tess Cortés, Pilar Cranfield, Mark Cuevas, Daniel A. De la Iglesia, Rodrigo Doane, Michael P. Decewicz, Przemyslaw Whiteley, Andy Dominy, Nathaniel J. Dziewit, Lukasz Elwasila, Bashir Mukhtar Eren, A. Murat Franz, Charles Fu, Jingyuan García Aljaro, Cristina Ghedin, Elodie Gulino, Kristen M. Haggerty, John M. White, Bryan Head, Steven R. Hendriksen, Rene S. Hill, Colin Hyöty, Heikki Ilina, Elena N. Irwin, Mitchell T. Jeffries, Thomas C. Jofre i Torroella, Joan Wandro, Stephen Junge, Randall E. Kelley, Scott T. Mirzaei, Mohammadali Khan Kowalewski, Martin Kumaresan, Deepak Leigh, Steven R. Lipson, David Lisitsyna, Eugenia S. Villagra, Nicolás Llagostera, Montserrat Maritz, Julia M. Marr, Linsey C. McCann, Angela Molshanski-Mor, Shahar Dutilh, Bas E. |
| author2_role |
author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author |
| dc.subject.none.fl_str_mv |
Microbiota intestinal Filogeografia Genomes Gastrointestinal microbiome Phylogeography Genomes |
| topic |
Microbiota intestinal Filogeografia Genomes Gastrointestinal microbiome Phylogeography Genomes |
| description |
Microbiomes are vast communities of microorganisms and viruses that populate all natural ecosystems. Viruses have been considered to be the most variable component of microbiomes, as supported by virome surveys and examples of high genomic mosaicism. However, recent evidence suggests that the human gut virome is remarkably stable compared with that of other environments. Here, we investigate the origin, evolution and epidemiology of crAssphage, a widespread human gut virus. Through a global collaboration, we obtained DNA sequences of crAssphage from more than one-third of the world's countries and showed that the phylogeography of crAssphage is locally clustered within countries, cities and individuals. We also found fully colinear crAssphage-like genomes in both Old-World and New-World primates, suggesting that the association of crAssphage with primates may be millions of years old. Finally, by exploiting a large cohort of more than 1,000 individuals, we tested whether crAssphage is associated with bacterial taxonomic groups of the gut microbiome, diverse human health parameters and a wide range of dietary factors. We identified strong correlations with different clades of bacteria that are related to Bacteroidetes and weak associations with several diet categories, but no significant association with health or disease. We conclude that crAssphage is a benign cosmopolitan virus that may have coevolved with the human lineage and is an integral part of the normal human gut virome. |
| publishDate |
2019 |
| dc.date.none.fl_str_mv |
2019 2023 2023 2023 |
| dc.type.none.fl_str_mv |
info:eu-repo/semantics/article info:eu-repo/semantics/acceptedVersion |
| format |
article |
| status_str |
acceptedVersion |
| dc.identifier.none.fl_str_mv |
https://hdl.handle.net/2445/197289 |
| url |
https://hdl.handle.net/2445/197289 |
| dc.language.none.fl_str_mv |
Inglés |
| language_invalid_str_mv |
Inglés |
| dc.relation.none.fl_str_mv |
Versió postprint del document publicat a: https://doi.org/10.1038/s41564-019-0494-6 Nature Microbiology, 2019, vol. 4, num. 10, p. 1727-1736 https://doi.org/10.1038/s41564-019-0494-6 |
| dc.rights.none.fl_str_mv |
(c) Edwards, Robert A. et al., 2019 info:eu-repo/semantics/openAccess |
| rights_invalid_str_mv |
(c) Edwards, Robert A. et al., 2019 |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
10 p. application/pdf |
| dc.publisher.none.fl_str_mv |
Springer Nature |
| publisher.none.fl_str_mv |
Springer Nature |
| dc.source.none.fl_str_mv |
Articles publicats en revistes (Genètica, Microbiologia i Estadística) reponame:Recercat. Dipósit de la Recerca de Catalunya instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya) |
| instname_str |
Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya) |
| reponame_str |
Recercat. Dipósit de la Recerca de Catalunya |
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Recercat. Dipósit de la Recerca de Catalunya |
| repository.name.fl_str_mv |
|
| repository.mail.fl_str_mv |
|
| _version_ |
1869408444501458944 |
| spelling |
Global phylogeography and ancient evolution of the widespread human gut virus crAssphageEdwards, Robert A.Vega, Alejandro A.Norman, Holly M.Ohaeri, MariaLevi, KyleDinsdale, Elizabeth A.Cinek, OndrejAziz, Ramy KMcNair, KatelynBarr, Jeremy J.Bibby, KyleMonteiro, SilviaMoreira-Grez, BenjaminUgochi Ibekwe, MaryAnnMorris, MeganMugisha, LawrenceMuniesa Pérez, Ma. TeresaNeve, HorstNguyen, Nam-PhuongNigro, Olivia D.Twaddle, AlanTorres, Pedro J.Nilsson, Anders S.O'Connell, TaylorOdeh, RashaOliver, AndrewPiuri. MarianaZschach, HenrikePrussin li, Aaron J.Quimron, UdiQuan, Zhe-XueRainetova, PetraStumpf, RebeccaRamírez-Rojas, AdánRaya, RaulReasor, KimStrain, RonanStachler, Elyse N.O'Rice, Gillian A.Rossi, AlessandroStene, Lars C.Santos, RicardoZambrano, Maria M.Shimashita, JohnBrouns, Stan J. J.Cazares, Adriande Jonge, Patrick A.Desnues, ChristelleDíaz Muñoz, Samuel L.Fineran, Peter C.Kurilshikov, AlexanderLavigne, RobReyes Muñoz, AlejandroMazankova, KarlaMcCarthy, David T.Nobrega, Franklin L.Wijmenga, CiscaTapia, GermanTrefault, NicoleTyakht, Alexander V.Vinuesa, PabloWagemans, JeroenZhernakova, AlexandraAarestrup, Frank M.Ahmadov, GunduzAlassaf, AbeerBillings, Emma K.Anton, JosefaAsangba, AbigailWhiteson, Katrine L.Cantu, Vito AdrianCarlton, Jane M.Cazares, DanielCho, Gyu-SungCondeff, TessCortés, PilarCranfield, MarkCuevas, Daniel A.De la Iglesia, RodrigoDoane, Michael P.Decewicz, PrzemyslawWhiteley, AndyDominy, Nathaniel J.Dziewit, LukaszElwasila, Bashir MukhtarEren, A. MuratFranz, CharlesFu, JingyuanGarcía Aljaro, CristinaGhedin, ElodieGulino, Kristen M.Haggerty, John M.White, BryanHead, Steven R.Hendriksen, Rene S.Hill, ColinHyöty, HeikkiIlina, Elena N.Irwin, Mitchell T.Jeffries, Thomas C.Jofre i Torroella, JoanWandro, StephenJunge, Randall E.Kelley, Scott T.Mirzaei, Mohammadali KhanKowalewski, MartinKumaresan, DeepakLeigh, Steven R.Lipson, DavidLisitsyna, Eugenia S.Villagra, NicolásLlagostera, MontserratMaritz, Julia M.Marr, Linsey C.McCann, AngelaMolshanski-Mor, ShaharDutilh, Bas E.Microbiota intestinalFilogeografiaGenomesGastrointestinal microbiomePhylogeographyGenomesMicrobiomes are vast communities of microorganisms and viruses that populate all natural ecosystems. Viruses have been considered to be the most variable component of microbiomes, as supported by virome surveys and examples of high genomic mosaicism. However, recent evidence suggests that the human gut virome is remarkably stable compared with that of other environments. Here, we investigate the origin, evolution and epidemiology of crAssphage, a widespread human gut virus. Through a global collaboration, we obtained DNA sequences of crAssphage from more than one-third of the world's countries and showed that the phylogeography of crAssphage is locally clustered within countries, cities and individuals. We also found fully colinear crAssphage-like genomes in both Old-World and New-World primates, suggesting that the association of crAssphage with primates may be millions of years old. Finally, by exploiting a large cohort of more than 1,000 individuals, we tested whether crAssphage is associated with bacterial taxonomic groups of the gut microbiome, diverse human health parameters and a wide range of dietary factors. We identified strong correlations with different clades of bacteria that are related to Bacteroidetes and weak associations with several diet categories, but no significant association with health or disease. We conclude that crAssphage is a benign cosmopolitan virus that may have coevolved with the human lineage and is an integral part of the normal human gut virome.Springer Nature2023202320192023info:eu-repo/semantics/articleinfo:eu-repo/semantics/acceptedVersion10 p.application/pdfhttps://hdl.handle.net/2445/197289Articles publicats en revistes (Genètica, Microbiologia i Estadística)reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésVersió postprint del document publicat a: https://doi.org/10.1038/s41564-019-0494-6Nature Microbiology, 2019, vol. 4, num. 10, p. 1727-1736https://doi.org/10.1038/s41564-019-0494-6(c) Edwards, Robert A. et al., 2019info:eu-repo/semantics/openAccessoai:recercat.cat:2445/1972892026-05-29T05:05:01Z |
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15,81155 |