A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis
- Autores
- Polat, Meripet; Takeshima, Shin-nosuke; Hosomichi, Kazuyoshi; Kim, Jiyun; Miyasaka, Taku; Yamada, Kazunori; Arainga, Mariluz; Murakami, Tomoyuki; Matsumoto, Yuki; de la Barra Diaz, Verónica; Panei, Carlos Javier; Gonzalez, Ester Teresa; Kanemaki, Misao; Onuma, Misao; Giovambattista, Guillermo; Aida, Yoko
- Año de publicación
- 2016
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- Background: Bovine leukemia virus (BLV) is a member of retroviridae family, together with human T cell leukemia virus types 1 and 2 (HTLV-1 and -2) belonging to the genes deltaretrovirus, and infects cattle worldwide. Previous studies have classified the env sequences of BLV provirus from different geographic locations into eight genetic groups. To investigate the genetic variability of BLV in South America, we performed phylogenetic analyses of whole genome and partial env gp51 sequences of BLV strains isolated from Peru, Paraguay and Bolivia, for which no the molecular characteristics of BLV have previously been published, and discovered a novel BLV genotype, genotype-9, in Bolivia. Results: In Peru and Paraguay, 42.3 % (139/328) and over 50 % (76/139) of samples, respectively, were BLV positive. In Bolivia, the BLV infection rate was up to 30 % (156/507) at the individual level. In Argentina, 325/420 samples were BLV positive, with a BLV prevalence of 77.4 % at the individual level and up to 90.9 % at herd level. By contrast, relatively few BLV positive samples were detected in Chile, with a maximum of 29.1 % BLV infection at the individual level. We performed phylogenetic analyses using two different approaches, maximum likelihood (ML) tree and Bayesian inference, using 35 distinct partial env gp51 sequences from BLV strains isolated from Peru, Paraguay, and Bolivia, and 74 known BLV strains, representing eight different BLV genotypes from various geographical locations worldwide. The results indicated that Peruvian and Paraguayan BLV strains were grouped into genotypes-1, -2, and -6, while those from Bolivia were clustered into genotypes-1, -2, and -6, and a new genotype, genotype-9. Interestingly, these results were confirmed using ML phylogenetic analysis of whole genome sequences obtained by next generation sequencing of 25 BLV strains, assigned to four different genotypes (genotypes-1, -2, -6, and -9) from Peru, Paraguay, and Bolivia. Comparative analyses of complete genome sequences clearly showed some specific substitutions, in both structural and non-structural BLV genes, distinguishing the novel genotype-9 from known genotypes. Conclusions: Our results demonstrate widespread BLV infection in South American cattle and the existence of a new BLV genotype-9 in Bolivia. We conclude that at least seven BLV genotypes (genotypes-1, -2, -4, -5, -6, -7, and -9) are circulating in South America.
Fil: Polat, Meripet. University of Tokyo; Japón. RIKEN; Japón
Fil: Takeshima, Shin-nosuke. University of Tokyo; Japón. RIKEN; Japón
Fil: Hosomichi, Kazuyoshi. Kanazawa University; Japón
Fil: Kim, Jiyun. RIKEN; Japón
Fil: Miyasaka, Taku. RIKEN; Japón
Fil: Yamada, Kazunori. RIKEN; Japón
Fil: Arainga, Mariluz. RIKEN; Japón
Fil: Murakami, Tomoyuki. RIKEN; Japón
Fil: Matsumoto, Yuki. RIKEN; Japón
Fil: de la Barra Diaz, Verónica. Laboratorio Veterinario Lavet; Chile
Fil: Panei, Carlos Javier. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - CONICET - La Plata. Instituto de Genética Veterinaria Ing. Fernando Noel Dulout; Argentina. Universidad Nacional de La Plata. Facultad de Ciencias Veterinarias. Departamento de Microbiología. Cátedra de Virología; Argentina
Fil: Gonzalez, Ester Teresa. Universidad Nacional de La Plata. Facultad de Ciencias Veterinarias. Departamento de Microbiología. Cátedra de Virología; Argentina
Fil: Kanemaki, Misao. Institute for Animal Science; Japón
Fil: Onuma, Misao. RIKEN; Japón
Fil: Giovambattista, Guillermo. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - CONICET - La Plata. Instituto de Genética Veterinaria Ing. Fernando Noel Dulout; Argentina
Fil: Aida, Yoko. University of Tokyo; Japón. RIKEN; Japón - Materia
-
BLV WHOLE GENOME ANALYSIS
BOVINE LEUKEMIA VIRUS (BLV)
GP51 ENV SEQUENCING
NEXT GENERATION SEQUENCING
PHYLOGENETIC ANALYSIS
SOUTH AMERICA - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- https://creativecommons.org/licenses/by/2.5/ar/
- Repositorio
.jpg)
- Institución
- Consejo Nacional de Investigaciones Científicas y Técnicas
- OAI Identificador
- oai:ri.conicet.gov.ar:11336/53978
Ver los metadatos del registro completo
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A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysisPolat, MeripetTakeshima, Shin-nosukeHosomichi, KazuyoshiKim, JiyunMiyasaka, TakuYamada, KazunoriArainga, MariluzMurakami, TomoyukiMatsumoto, Yukide la Barra Diaz, VerónicaPanei, Carlos JavierGonzalez, Ester TeresaKanemaki, MisaoOnuma, MisaoGiovambattista, GuillermoAida, YokoBLV WHOLE GENOME ANALYSISBOVINE LEUKEMIA VIRUS (BLV)GP51 ENV SEQUENCINGNEXT GENERATION SEQUENCINGPHYLOGENETIC ANALYSISSOUTH AMERICAhttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Background: Bovine leukemia virus (BLV) is a member of retroviridae family, together with human T cell leukemia virus types 1 and 2 (HTLV-1 and -2) belonging to the genes deltaretrovirus, and infects cattle worldwide. Previous studies have classified the env sequences of BLV provirus from different geographic locations into eight genetic groups. To investigate the genetic variability of BLV in South America, we performed phylogenetic analyses of whole genome and partial env gp51 sequences of BLV strains isolated from Peru, Paraguay and Bolivia, for which no the molecular characteristics of BLV have previously been published, and discovered a novel BLV genotype, genotype-9, in Bolivia. Results: In Peru and Paraguay, 42.3 % (139/328) and over 50 % (76/139) of samples, respectively, were BLV positive. In Bolivia, the BLV infection rate was up to 30 % (156/507) at the individual level. In Argentina, 325/420 samples were BLV positive, with a BLV prevalence of 77.4 % at the individual level and up to 90.9 % at herd level. By contrast, relatively few BLV positive samples were detected in Chile, with a maximum of 29.1 % BLV infection at the individual level. We performed phylogenetic analyses using two different approaches, maximum likelihood (ML) tree and Bayesian inference, using 35 distinct partial env gp51 sequences from BLV strains isolated from Peru, Paraguay, and Bolivia, and 74 known BLV strains, representing eight different BLV genotypes from various geographical locations worldwide. The results indicated that Peruvian and Paraguayan BLV strains were grouped into genotypes-1, -2, and -6, while those from Bolivia were clustered into genotypes-1, -2, and -6, and a new genotype, genotype-9. Interestingly, these results were confirmed using ML phylogenetic analysis of whole genome sequences obtained by next generation sequencing of 25 BLV strains, assigned to four different genotypes (genotypes-1, -2, -6, and -9) from Peru, Paraguay, and Bolivia. Comparative analyses of complete genome sequences clearly showed some specific substitutions, in both structural and non-structural BLV genes, distinguishing the novel genotype-9 from known genotypes. Conclusions: Our results demonstrate widespread BLV infection in South American cattle and the existence of a new BLV genotype-9 in Bolivia. We conclude that at least seven BLV genotypes (genotypes-1, -2, -4, -5, -6, -7, and -9) are circulating in South America.Fil: Polat, Meripet. University of Tokyo; Japón. RIKEN; JapónFil: Takeshima, Shin-nosuke. University of Tokyo; Japón. RIKEN; JapónFil: Hosomichi, Kazuyoshi. Kanazawa University; JapónFil: Kim, Jiyun. RIKEN; JapónFil: Miyasaka, Taku. RIKEN; JapónFil: Yamada, Kazunori. RIKEN; JapónFil: Arainga, Mariluz. RIKEN; JapónFil: Murakami, Tomoyuki. RIKEN; JapónFil: Matsumoto, Yuki. RIKEN; JapónFil: de la Barra Diaz, Verónica. Laboratorio Veterinario Lavet; ChileFil: Panei, Carlos Javier. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - CONICET - La Plata. Instituto de Genética Veterinaria Ing. Fernando Noel Dulout; Argentina. Universidad Nacional de La Plata. Facultad de Ciencias Veterinarias. Departamento de Microbiología. Cátedra de Virología; ArgentinaFil: Gonzalez, Ester Teresa. Universidad Nacional de La Plata. Facultad de Ciencias Veterinarias. Departamento de Microbiología. Cátedra de Virología; ArgentinaFil: Kanemaki, Misao. Institute for Animal Science; JapónFil: Onuma, Misao. RIKEN; JapónFil: Giovambattista, Guillermo. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - CONICET - La Plata. Instituto de Genética Veterinaria Ing. Fernando Noel Dulout; ArgentinaFil: Aida, Yoko. University of Tokyo; Japón. RIKEN; JapónBioMed Central2016-01info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/53978Polat, Meripet; Takeshima, Shin-nosuke; Hosomichi, Kazuyoshi; Kim, Jiyun; Miyasaka, Taku; et al.; A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis; BioMed Central; Retrovirology; 13; 1; 1-2016; 1-231742-4690CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://retrovirology.biomedcentral.com/articles/10.1186/s12977-016-0239-zinfo:eu-repo/semantics/altIdentifier/doi/10.1186/s12977-016-0239-zinfo:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-03T10:05:35Zoai:ri.conicet.gov.ar:11336/53978instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-03 10:05:35.502CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse |
| dc.title.none.fl_str_mv |
A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis |
| title |
A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis |
| spellingShingle |
A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis Polat, Meripet BLV WHOLE GENOME ANALYSIS BOVINE LEUKEMIA VIRUS (BLV) GP51 ENV SEQUENCING NEXT GENERATION SEQUENCING PHYLOGENETIC ANALYSIS SOUTH AMERICA |
| title_short |
A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis |
| title_full |
A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis |
| title_fullStr |
A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis |
| title_full_unstemmed |
A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis |
| title_sort |
A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis |
| dc.creator.none.fl_str_mv |
Polat, Meripet Takeshima, Shin-nosuke Hosomichi, Kazuyoshi Kim, Jiyun Miyasaka, Taku Yamada, Kazunori Arainga, Mariluz Murakami, Tomoyuki Matsumoto, Yuki de la Barra Diaz, Verónica Panei, Carlos Javier Gonzalez, Ester Teresa Kanemaki, Misao Onuma, Misao Giovambattista, Guillermo Aida, Yoko |
| author |
Polat, Meripet |
| author_facet |
Polat, Meripet Takeshima, Shin-nosuke Hosomichi, Kazuyoshi Kim, Jiyun Miyasaka, Taku Yamada, Kazunori Arainga, Mariluz Murakami, Tomoyuki Matsumoto, Yuki de la Barra Diaz, Verónica Panei, Carlos Javier Gonzalez, Ester Teresa Kanemaki, Misao Onuma, Misao Giovambattista, Guillermo Aida, Yoko |
| author_role |
author |
| author2 |
Takeshima, Shin-nosuke Hosomichi, Kazuyoshi Kim, Jiyun Miyasaka, Taku Yamada, Kazunori Arainga, Mariluz Murakami, Tomoyuki Matsumoto, Yuki de la Barra Diaz, Verónica Panei, Carlos Javier Gonzalez, Ester Teresa Kanemaki, Misao Onuma, Misao Giovambattista, Guillermo Aida, Yoko |
| author2_role |
author author author author author author author author author author author author author author author |
| dc.subject.none.fl_str_mv |
BLV WHOLE GENOME ANALYSIS BOVINE LEUKEMIA VIRUS (BLV) GP51 ENV SEQUENCING NEXT GENERATION SEQUENCING PHYLOGENETIC ANALYSIS SOUTH AMERICA |
| topic |
BLV WHOLE GENOME ANALYSIS BOVINE LEUKEMIA VIRUS (BLV) GP51 ENV SEQUENCING NEXT GENERATION SEQUENCING PHYLOGENETIC ANALYSIS SOUTH AMERICA |
| purl_subject.fl_str_mv |
https://purl.org/becyt/ford/1.6 https://purl.org/becyt/ford/1 |
| dc.description.none.fl_txt_mv |
Background: Bovine leukemia virus (BLV) is a member of retroviridae family, together with human T cell leukemia virus types 1 and 2 (HTLV-1 and -2) belonging to the genes deltaretrovirus, and infects cattle worldwide. Previous studies have classified the env sequences of BLV provirus from different geographic locations into eight genetic groups. To investigate the genetic variability of BLV in South America, we performed phylogenetic analyses of whole genome and partial env gp51 sequences of BLV strains isolated from Peru, Paraguay and Bolivia, for which no the molecular characteristics of BLV have previously been published, and discovered a novel BLV genotype, genotype-9, in Bolivia. Results: In Peru and Paraguay, 42.3 % (139/328) and over 50 % (76/139) of samples, respectively, were BLV positive. In Bolivia, the BLV infection rate was up to 30 % (156/507) at the individual level. In Argentina, 325/420 samples were BLV positive, with a BLV prevalence of 77.4 % at the individual level and up to 90.9 % at herd level. By contrast, relatively few BLV positive samples were detected in Chile, with a maximum of 29.1 % BLV infection at the individual level. We performed phylogenetic analyses using two different approaches, maximum likelihood (ML) tree and Bayesian inference, using 35 distinct partial env gp51 sequences from BLV strains isolated from Peru, Paraguay, and Bolivia, and 74 known BLV strains, representing eight different BLV genotypes from various geographical locations worldwide. The results indicated that Peruvian and Paraguayan BLV strains were grouped into genotypes-1, -2, and -6, while those from Bolivia were clustered into genotypes-1, -2, and -6, and a new genotype, genotype-9. Interestingly, these results were confirmed using ML phylogenetic analysis of whole genome sequences obtained by next generation sequencing of 25 BLV strains, assigned to four different genotypes (genotypes-1, -2, -6, and -9) from Peru, Paraguay, and Bolivia. Comparative analyses of complete genome sequences clearly showed some specific substitutions, in both structural and non-structural BLV genes, distinguishing the novel genotype-9 from known genotypes. Conclusions: Our results demonstrate widespread BLV infection in South American cattle and the existence of a new BLV genotype-9 in Bolivia. We conclude that at least seven BLV genotypes (genotypes-1, -2, -4, -5, -6, -7, and -9) are circulating in South America. Fil: Polat, Meripet. University of Tokyo; Japón. RIKEN; Japón Fil: Takeshima, Shin-nosuke. University of Tokyo; Japón. RIKEN; Japón Fil: Hosomichi, Kazuyoshi. Kanazawa University; Japón Fil: Kim, Jiyun. RIKEN; Japón Fil: Miyasaka, Taku. RIKEN; Japón Fil: Yamada, Kazunori. RIKEN; Japón Fil: Arainga, Mariluz. RIKEN; Japón Fil: Murakami, Tomoyuki. RIKEN; Japón Fil: Matsumoto, Yuki. RIKEN; Japón Fil: de la Barra Diaz, Verónica. Laboratorio Veterinario Lavet; Chile Fil: Panei, Carlos Javier. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - CONICET - La Plata. Instituto de Genética Veterinaria Ing. Fernando Noel Dulout; Argentina. Universidad Nacional de La Plata. Facultad de Ciencias Veterinarias. Departamento de Microbiología. Cátedra de Virología; Argentina Fil: Gonzalez, Ester Teresa. Universidad Nacional de La Plata. Facultad de Ciencias Veterinarias. Departamento de Microbiología. Cátedra de Virología; Argentina Fil: Kanemaki, Misao. Institute for Animal Science; Japón Fil: Onuma, Misao. RIKEN; Japón Fil: Giovambattista, Guillermo. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico - CONICET - La Plata. Instituto de Genética Veterinaria Ing. Fernando Noel Dulout; Argentina Fil: Aida, Yoko. University of Tokyo; Japón. RIKEN; Japón |
| description |
Background: Bovine leukemia virus (BLV) is a member of retroviridae family, together with human T cell leukemia virus types 1 and 2 (HTLV-1 and -2) belonging to the genes deltaretrovirus, and infects cattle worldwide. Previous studies have classified the env sequences of BLV provirus from different geographic locations into eight genetic groups. To investigate the genetic variability of BLV in South America, we performed phylogenetic analyses of whole genome and partial env gp51 sequences of BLV strains isolated from Peru, Paraguay and Bolivia, for which no the molecular characteristics of BLV have previously been published, and discovered a novel BLV genotype, genotype-9, in Bolivia. Results: In Peru and Paraguay, 42.3 % (139/328) and over 50 % (76/139) of samples, respectively, were BLV positive. In Bolivia, the BLV infection rate was up to 30 % (156/507) at the individual level. In Argentina, 325/420 samples were BLV positive, with a BLV prevalence of 77.4 % at the individual level and up to 90.9 % at herd level. By contrast, relatively few BLV positive samples were detected in Chile, with a maximum of 29.1 % BLV infection at the individual level. We performed phylogenetic analyses using two different approaches, maximum likelihood (ML) tree and Bayesian inference, using 35 distinct partial env gp51 sequences from BLV strains isolated from Peru, Paraguay, and Bolivia, and 74 known BLV strains, representing eight different BLV genotypes from various geographical locations worldwide. The results indicated that Peruvian and Paraguayan BLV strains were grouped into genotypes-1, -2, and -6, while those from Bolivia were clustered into genotypes-1, -2, and -6, and a new genotype, genotype-9. Interestingly, these results were confirmed using ML phylogenetic analysis of whole genome sequences obtained by next generation sequencing of 25 BLV strains, assigned to four different genotypes (genotypes-1, -2, -6, and -9) from Peru, Paraguay, and Bolivia. Comparative analyses of complete genome sequences clearly showed some specific substitutions, in both structural and non-structural BLV genes, distinguishing the novel genotype-9 from known genotypes. Conclusions: Our results demonstrate widespread BLV infection in South American cattle and the existence of a new BLV genotype-9 in Bolivia. We conclude that at least seven BLV genotypes (genotypes-1, -2, -4, -5, -6, -7, and -9) are circulating in South America. |
| publishDate |
2016 |
| dc.date.none.fl_str_mv |
2016-01 |
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info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://purl.org/coar/resource_type/c_6501 info:ar-repo/semantics/articulo |
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article |
| status_str |
publishedVersion |
| dc.identifier.none.fl_str_mv |
http://hdl.handle.net/11336/53978 Polat, Meripet; Takeshima, Shin-nosuke; Hosomichi, Kazuyoshi; Kim, Jiyun; Miyasaka, Taku; et al.; A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis; BioMed Central; Retrovirology; 13; 1; 1-2016; 1-23 1742-4690 CONICET Digital CONICET |
| url |
http://hdl.handle.net/11336/53978 |
| identifier_str_mv |
Polat, Meripet; Takeshima, Shin-nosuke; Hosomichi, Kazuyoshi; Kim, Jiyun; Miyasaka, Taku; et al.; A new genotype of bovine leukemia virus in South America identified by NGS-based whole genome sequencing and molecular evolutionary genetic analysis; BioMed Central; Retrovirology; 13; 1; 1-2016; 1-23 1742-4690 CONICET Digital CONICET |
| dc.language.none.fl_str_mv |
eng |
| language |
eng |
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info:eu-repo/semantics/altIdentifier/url/https://retrovirology.biomedcentral.com/articles/10.1186/s12977-016-0239-z info:eu-repo/semantics/altIdentifier/doi/10.1186/s12977-016-0239-z |
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info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/2.5/ar/ |
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openAccess |
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https://creativecommons.org/licenses/by/2.5/ar/ |
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application/pdf application/pdf |
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BioMed Central |
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BioMed Central |
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CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas |
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dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar |
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