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Registro Completo |
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Biblioteca(s): |
Embrapa Gado de Leite. |
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Data corrente: |
16/01/2014 |
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Data da última atualização: |
09/02/2024 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
PORTO-NETO, L. R.; SONSTEGARD, T. S.; LIU, G. E.; BICKHART, D. M.; SILVA, M. V. G. B.; MACHADO, M. A.; UTSUNOMIYA, Y. T.; GARCIA, J. F.; GONDRO, C.; VAN TASSELL, C. P. |
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Afiliação: |
LAERCIO R. PORTO-NETO, UNIVERSITY OF QUEENSLAND; TAD S. SONSTEGARD, USDA; GEORGE E. LIU, USDA; DEREK M. BICKHART, USDA; MARCOS VINICIUS GUALBERTO B SILVA, CNPGL; MARCO ANTONIO MACHADO, CNPGL; YURI T. UTSUNOMIYA, UNESP; JOSÉ F. GARCIA, UNESP; CEDRIC GONDRO, UNIVERSITY OF NEW ENGLAND; CURTIS P. VAN TASSELL, USDA. |
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Título: |
Genomic divergence of zebu and taurine cattle identified through high-density SNP genotyping. |
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Ano de publicação: |
2013 |
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Fonte/Imprenta: |
BMC Genomics, v. 14, article 876, 2013. |
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DOI: |
https://doi.org/10.1186/1471-2164-14-876 |
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Idioma: |
Inglês |
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Notas: |
Disponível em: http://www.biomedcentral.com/1471-2164/14/876 |
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Conteúdo: |
Background - Natural selection has molded evolution across all taxa. At an arguable date of around 330,000 years ago there were already at least two different types of cattle that became ancestors of nearly all modern cattle, the Bos taurus taurus more adapted to temperate climates and the tropically adapted Bos taurus indicus. After domestication, human selection exponentially intensified these differences. To better understand the genetic differences between these subspecies and detect genomic regions potentially under divergent selection, animals from the International Bovine HapMap Experiment were genotyped for over 770,000 SNP across the genome and compared using smoothed FST. The taurine sample was represented by ten breeds and the contrasting zebu cohort by three breeds. Results - Each cattle group evidenced similar numbers of polymorphic markers well distributed across the genome. Principal components analyses and unsupervised clustering confirmed the well-characterized main division of domestic cattle. The top 1% smoothed FST, potentially associated to positive selection, contained 48 genomic regions across 17 chromosomes. Nearly half of the top FST signals (n = 22) were previously detected using a lower density SNP assay. Amongst the strongest signals were the BTA7:~50 Mb and BTA14:~25 Mb; both regions harboring candidate genes and different patterns of linkage disequilibrium that potentially represent intrinsic differences between cattle types. The bottom 1% of the smoothed FST values, potentially associated to balancing selection, included 24 regions across 13 chromosomes. These regions often overlap with copy number variants, including the highly variable region at BTA23:~24 Mb that harbors a large number of MHC genes. Under these regions, 318 unique Ensembl genes are annotated with a significant overrepresentation of immune related pathways. Conclusions - Genomic regions that are potentially linked to purifying or balancing selection processes in domestic cattle were identified. These regions are of particular interest to understand the natural and human selective pressures to which these subspecies were exposed to and how the genetic background of these populations evolved in response to environmental challenges and human manipulation. MenosBackground - Natural selection has molded evolution across all taxa. At an arguable date of around 330,000 years ago there were already at least two different types of cattle that became ancestors of nearly all modern cattle, the Bos taurus taurus more adapted to temperate climates and the tropically adapted Bos taurus indicus. After domestication, human selection exponentially intensified these differences. To better understand the genetic differences between these subspecies and detect genomic regions potentially under divergent selection, animals from the International Bovine HapMap Experiment were genotyped for over 770,000 SNP across the genome and compared using smoothed FST. The taurine sample was represented by ten breeds and the contrasting zebu cohort by three breeds. Results - Each cattle group evidenced similar numbers of polymorphic markers well distributed across the genome. Principal components analyses and unsupervised clustering confirmed the well-characterized main division of domestic cattle. The top 1% smoothed FST, potentially associated to positive selection, contained 48 genomic regions across 17 chromosomes. Nearly half of the top FST signals (n = 22) were previously detected using a lower density SNP assay. Amongst the strongest signals were the BTA7:~50 Mb and BTA14:~25 Mb; both regions harboring candidate genes and different patterns of linkage disequilibrium that potentially represent intrinsic differences between cattle types. The bottom 1% of th... Mostrar Tudo |
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Palavras-Chave: |
Bovinos; FST. |
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Thesagro: |
Seleção. |
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Categoria do assunto: |
L Ciência Animal e Produtos de Origem Animal |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/doc/976438/1/Genomic-divergence-of-zebu-and-taurine-cattle.pdf
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Marc: |
LEADER 03168naa a2200289 a 4500
001 1976438
005 2024-02-09
008 2013 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1186/1471-2164-14-876$2DOI
100 1 $aPORTO-NETO, L. R.
245 $aGenomic divergence of zebu and taurine cattle identified through high-density SNP genotyping.$h[electronic resource]
260 $c2013
500 $aDisponível em: http://www.biomedcentral.com/1471-2164/14/876
520 $aBackground - Natural selection has molded evolution across all taxa. At an arguable date of around 330,000 years ago there were already at least two different types of cattle that became ancestors of nearly all modern cattle, the Bos taurus taurus more adapted to temperate climates and the tropically adapted Bos taurus indicus. After domestication, human selection exponentially intensified these differences. To better understand the genetic differences between these subspecies and detect genomic regions potentially under divergent selection, animals from the International Bovine HapMap Experiment were genotyped for over 770,000 SNP across the genome and compared using smoothed FST. The taurine sample was represented by ten breeds and the contrasting zebu cohort by three breeds. Results - Each cattle group evidenced similar numbers of polymorphic markers well distributed across the genome. Principal components analyses and unsupervised clustering confirmed the well-characterized main division of domestic cattle. The top 1% smoothed FST, potentially associated to positive selection, contained 48 genomic regions across 17 chromosomes. Nearly half of the top FST signals (n = 22) were previously detected using a lower density SNP assay. Amongst the strongest signals were the BTA7:~50 Mb and BTA14:~25 Mb; both regions harboring candidate genes and different patterns of linkage disequilibrium that potentially represent intrinsic differences between cattle types. The bottom 1% of the smoothed FST values, potentially associated to balancing selection, included 24 regions across 13 chromosomes. These regions often overlap with copy number variants, including the highly variable region at BTA23:~24 Mb that harbors a large number of MHC genes. Under these regions, 318 unique Ensembl genes are annotated with a significant overrepresentation of immune related pathways. Conclusions - Genomic regions that are potentially linked to purifying or balancing selection processes in domestic cattle were identified. These regions are of particular interest to understand the natural and human selective pressures to which these subspecies were exposed to and how the genetic background of these populations evolved in response to environmental challenges and human manipulation.
650 $aSeleção
653 $aBovinos
653 $aFST
700 1 $aSONSTEGARD, T. S.
700 1 $aLIU, G. E.
700 1 $aBICKHART, D. M.
700 1 $aSILVA, M. V. G. B.
700 1 $aMACHADO, M. A.
700 1 $aUTSUNOMIYA, Y. T.
700 1 $aGARCIA, J. F.
700 1 $aGONDRO, C.
700 1 $aVAN TASSELL, C. P.
773 $tBMC Genomics$gv. 14, article 876, 2013.
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Registro original: |
Embrapa Gado de Leite (CNPGL) |
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| Registros recuperados : 27 | |
| 21. |  | CUNHA, F. M.; BACCHIN, A. L. G.; HORTA, A. C. L.; ZANGIROLAMI, T. C.; BADINO, A. C.; FARINAS, C. S. Indirect method for quantification of cellular biomass in a solids-containing medium used as pre-culture for cellulase production. Biotechnology and Bioprocess Engineering, [S. l.], v. 17, p. 100-108, 2012.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 1 |
| Biblioteca(s): Embrapa Instrumentação. |
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| 22. | | ESPERANÇA, M. N. CUNHA, F. M. CERRI, M. O. ZANGIROLAMI, T. C.; FARINAS, C. S.; BADINO, A. C. Gas hold-up and oxygen mass transfer in three pneumatic bioreactors operating with sugarcane bagasse suspensions. Bioprocess and Biosystems Engineering, Berlin, v. 37, p. 805-812, 2014.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Instrumentação. |
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| 23. | | ESPERANÇA, M. N.; FARINAS, C. S.; CERRI, M. O.; BADINO, A. C.; CUNHA, F. M.; ZANGIROLAMI, T. C. Estudo da transferência de oxigênio em reator airlift contendo bagaço de cana de açúcar. In: CONGRESSO BRASILEIRO DE ENGENHARIA QUÍMICA - COBEQ, 18., 2010, Foz do Iguaçu, PR. [Anais...] Maringá: UEM, 2010. p. 1414-1422.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Instrumentação. |
|  |
| 24. | | CUNHA, F. M. da; CERRI, M. O.; ZANGIROLAMI, T. C.; BADINO JUNIOR, A. C.; FARINAS, C. S. Cultivo de Aspergillus niger em biorreator airlift para produção de celulases a partir de bagaço de cana-de-açúcar. In: JORNADA CIENTÍFICA-EMBRAPA SÃO CARLOS, 2009, São Carlos, SP. Anais... São Carlos: Embrapa Pecuária Sudeste: Embrapa Instrumentação Agropecuária, 2009. p. 58 (Embrapa Pecuária Sudeste. Documentos, 90)| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Instrumentação. |
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| 25. | | ESPERANÇA, M. N.; FARINAS, C. S.; CERRI, M. O.; BADINO, A. C.; CUNHA, A. C.; ZANGIROLAMI, T. C. Oxygen transfer in airlift reactor with sugarcane bagasse suspensions In: WORKSHOP DO PROJETO TEMÁTICO FAPESP, 1., 2010, São Carlos, São Paulo. Bioprocess systems engineering (BSE) applied to the production of bioethanol from sugarcane bagasse. São Carlos: UFSCar, 2010.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Instrumentação. |
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| 27. | | KLAIC, R.; GIROTO, A. S.; GUIMARÃES, G. G. F.; PLOTEGHER, F.; OLIVEIRA, C. R. de; ZANGIROLAMI, T. C.; FARINAS, C. S. Nanocomposite of starch-phosphate rock bioactivated for environmentally-friendly fertilization. Minerals Engineering, v. 128, p. 230-237, 2018. 230-237| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
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| Registros recuperados : 27 | |
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