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 | Acceso al texto completo restringido a Biblioteca INIA Las Brujas. Por información adicional contacte bibliolb@inia.org.uy. |
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Registro completo
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Biblioteca (s) : |
INIA La Estanzuela; INIA Las Brujas. |
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Fecha : |
20/05/2022 |
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Actualizado : |
30/11/2022 |
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Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
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Autor : |
BERTON, M. P.; DA SILVA, ROSIANE PEREIRA; BANCHERO, G.; MOURÃO, G. B.; FERRAZ, J. B. S.; SCHENKEL, F. S.; BALDI, F. |
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Afiliación : |
MARIANA PIATTO BERTON, Departamento de Zootecnia, Faculdade de Ciências Agrárias e Veterinárias, Universidade Estadual Paulista, Jaboticabal, Brazil; ROSIANE PEREIRA DA SILVA, Faculdade de Zootecnia e Engenharia de Alimentos, Universidade de São Paulo, Pirassununga, Brazil; GEORGGET ELIZABETH BANCHERO HUNZIKER, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; GERSON BARRETO MOURÃO, Departamento de Zootecnia, Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo/ESALQ, Piracicaba, Brazil; JOSE BENTO STERMAN FERRAZ, Faculdade de Zootecnia e Engenharia de Alimentos, Universidade de São Paulo, Pirassununga, Brazil; FLAVIO SCHRAMM SCHENKEL, Centre for Genetic Improvement of Livestock, University of Guelph, Guelph, ON, Canada; FERNANDO BALDI, Departamento de Zootecnia, Faculdade de Ciências Agrárias e Veterinárias, Universidade Estadual Paulista, Jaboticabal, Brazil. |
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Título : |
Genomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep. |
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Fecha de publicación : |
2022 |
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Fuente / Imprenta : |
Journal of Animal Breeding and Genetics, 2022, Volume 139, Issue 5, pages 502-516. doi: https://doi.org/10.1111/jbg.12682 |
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ISSN : |
0931-2668 |
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DOI : |
10.1111/jbg.12682 |
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Idioma : |
Inglés |
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Notas : |
Article history: Received 14 June 2021; Accepted 21 April 2022; First published 09 May 2022; Publisched online September 2022. -- Corresponding author: Berton, M.P.; Departamento de Zootecnia, Faculdade de Ciências Agrárias e Veterinárias, Universidade Estadual Paulista, Jaboticabal, Brazil; email:mapberton@gmail.com -- |
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Contenido : |
ABSTRACT.- This study aimed to integrate GWAS and structural variants to propose possible molecular biomarkers related to gastrointestinal nematode resistance traits in Santa Inês sheep. The phenotypic records FAMACHA, haematocrit, white blood cell count, red blood cell count, haemoglobin, platelets and egg counts per gram of faeces were collected from 700 naturally infected animals, belonging to four Brazilian flocks. A total of 576 animals were genotyped using the Ovine SNP12k BeadChip and were imputed using a reference population with Ovine SNP50 BeadChip. The GWAS approaches were based on SNPs, haplotypes, CNVs and ROH. The overlapping between the significant genomic regions detected from all approaches was investigated, and the results were integrated using a network analysis. Genes related to the immune system were found, such as ABCB1, IL6, WNT5A and IRF5. Genomic regions containing candidate genes and metabolic pathways involved in immune responses, inflammatory processes and immune cells affecting parasite resistance traits were identified. The genomic regions, biological processes and candidate genes uncovered could lead to biomarkers for selecting more resilient sheep and improving herd welfare and productivity. The results obtained are the start point to identify molecular biomarkers related to indicator traits of gastrointestinal nematode resistance in Santa Inês sheep. © 2022 Wiley-VCH GmbH. |
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Palabras claves : |
Copy number variant; GWAS; GWAS - Genome-wide association study; Haplotype; Integration analyses; Run of homozygosity; System biology. |
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Thesagro : |
OVEJA. |
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Asunto categoría : |
--
L10 Genética y mejoramiento animal |
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Marc : |
LEADER 02796naa a2200325 a 4500
001 1063154
005 2022-11-30
008 2022 bl uuuu u00u1 u #d
022 $a0931-2668
024 7 $a10.1111/jbg.12682$2DOI
100 1 $aBERTON, M. P.
245 $aGenomic integration to identify molecular biomarkers associated with indicator traits of gastrointestinal nematode resistance in sheep.$h[electronic resource]
260 $c2022
500 $aArticle history: Received 14 June 2021; Accepted 21 April 2022; First published 09 May 2022; Publisched online September 2022. -- Corresponding author: Berton, M.P.; Departamento de Zootecnia, Faculdade de Ciências Agrárias e Veterinárias, Universidade Estadual Paulista, Jaboticabal, Brazil; email:mapberton@gmail.com --
520 $aABSTRACT.- This study aimed to integrate GWAS and structural variants to propose possible molecular biomarkers related to gastrointestinal nematode resistance traits in Santa Inês sheep. The phenotypic records FAMACHA, haematocrit, white blood cell count, red blood cell count, haemoglobin, platelets and egg counts per gram of faeces were collected from 700 naturally infected animals, belonging to four Brazilian flocks. A total of 576 animals were genotyped using the Ovine SNP12k BeadChip and were imputed using a reference population with Ovine SNP50 BeadChip. The GWAS approaches were based on SNPs, haplotypes, CNVs and ROH. The overlapping between the significant genomic regions detected from all approaches was investigated, and the results were integrated using a network analysis. Genes related to the immune system were found, such as ABCB1, IL6, WNT5A and IRF5. Genomic regions containing candidate genes and metabolic pathways involved in immune responses, inflammatory processes and immune cells affecting parasite resistance traits were identified. The genomic regions, biological processes and candidate genes uncovered could lead to biomarkers for selecting more resilient sheep and improving herd welfare and productivity. The results obtained are the start point to identify molecular biomarkers related to indicator traits of gastrointestinal nematode resistance in Santa Inês sheep. © 2022 Wiley-VCH GmbH.
650 $aOVEJA
653 $aCopy number variant
653 $aGWAS
653 $aGWAS - Genome-wide association study
653 $aHaplotype
653 $aIntegration analyses
653 $aRun of homozygosity
653 $aSystem biology
700 1 $aDA SILVA, ROSIANE PEREIRA
700 1 $aBANCHERO, G.
700 1 $aMOURÃO, G. B.
700 1 $aFERRAZ, J. B. S.
700 1 $aSCHENKEL, F. S.
700 1 $aBALDI, F.
773 $tJournal of Animal Breeding and Genetics, 2022, Volume 139, Issue 5, pages 502-516. doi: https://doi.org/10.1111/jbg.12682
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INIA Las Brujas (LB) |
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Registro completo
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Biblioteca (s) : |
INIA La Estanzuela. |
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Fecha actual : |
28/09/2020 |
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Actualizado : |
28/09/2020 |
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Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
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Circulación / Nivel : |
Internacional - -- |
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Autor : |
SILVA, R.P.; ESPIGOLAN, R.; BERTON, M.P.; STAFUZZA, N.B.; SANTOS, F.S.; NEGREIROS, M.P.; SCHUCHMANN, R.K.; RODRIGUEZ, J.D.; LÔBO, R.B.; BANCHERO, G.; PEREIRA, A.S.C.; BERGMANN, J.A.G.; BALDI, F. |
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Afiliación : |
ROSIANE P. SILVA, Department of Veterinary Medicine, College of Animal Science and Food Engineer, University of São Paulo (USP), 225 Duque de Caxias Norte Avenue, Jardim Elite, 13635-900, Pirassununga/SP, Brazil.; RAFAEL ESPIGOLAN, Department of Veterinary Medicine, College of Animal Science and Food Engineer, University of São Paulo (USP), 225 Duque de Caxias Norte Avenue, Jardim Elite, 13635-900, Pirassununga/SP, Brazil.; MARIANA PIATTO BERTON, Department of Animal Science, College of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Via de Acesso Professor Paulo Donato Castellane s/n, 14884-900, Jaboticabal/SP, Brazil.; NEDENIA STAFUZZA, Department of Animal Science, College of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Via de Acesso Professor Paulo Donato Castellane s/n, 14884-900, Jaboticabal/SP, Brazil.; F. S. SANTOS, Department of Veterinary Medicine, College of Animal Science and Food Engineer, University of São Paulo (USP), 225 Duque de Caxias Norte Avenue, Jardim Elite, 13635-900, Pirassununga/SP, Brazil.; Department of Veterinary Medicine, College of Animal Science and Food Engineer, University of São Paulo (USP), 225 Duque de Caxias Norte Avenue, Jardim Elite, 13635-900, Pirassununga/SP, Brazil.; Department of Animal Science, College of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Via de Acesso Professor Paulo Donato Castellane s/n, 14884-900, Jaboticabal/SP, Brazil.; Department of Animal Science, College of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Via de Acesso Professor Paulo Donato Castellane s/n, 14884-900, Jaboticabal/SP, Brazil.; RAYSILDO B. LÔBO, Nacional Association of Breeders and Researchers (ANCP), 463 João Godoy Street, Jardim América, 14020-230, Ribeirão Preto/SP, Brazil.; GEORGGET ELIZABETH BANCHERO HUNZIKER, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; ANGÉLICA SIMONE CRAVO PEREIRA, Department of Veterinary Medicine, College of Animal Science and Food Engineer, University of São Paulo (USP), 225 Duque de Caxias Norte Avenue, Jardim Elite, 13635-900, Pirassununga/SP, Brazil.; JOSÉ AURÉLIO GARCIA BERGMANN, Department of Animal Science, Minas Gerais Federal University (UFMG), Escola de Veterinária da UFMG, Pampulha, 31270-901, Caixa Postal 567, Belo Horizonte/MG, Brazil.; FERNANDO BALDI, Department of Animal Science, College of Agricultural and Veterinarian Sciences, São Paulo State University (UNESP), Via de Acesso Professor Paulo Donato Castellane s/n, 14884-900, Jaboticabal/SP, Brazil. |
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Título : |
Genetic parameters and genomic regions associated with calving ease in primiparous Nellore heifers. |
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Fecha de publicación : |
2020 |
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Fuente / Imprenta : |
Livestock Science, October 2020, Volume 240, Article number 104183. Doi: https://doi.org/10.1016/j.livsci.2020.104183 |
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DOI : |
10.1016/j.livsci.2020.104183 |
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Idioma : |
Inglés |
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Notas : |
Article history: Received 19 February 2020 /Received in revised form 25 June 2020 /Accepted 1 August 2020/Available online 02 August 2020. /Corresponding author: E-mail address: fernandobaldiuy@gmail.com (F. Baldi). This work was supported by the São Paulo Research Foundation -
FAPESP through grant #2018/18921-9, grant #2017/10493-5 and grant #2019/10438-0 for authors Rafael Espigolan, Mariana P. Berton
and Nedenia B. Stafuzza, respectively. |
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Contenido : |
ABSTRACT: The aim of this study was to estimate genetic parameters and to identify genomic regions associated with the calving ease (CE) in precocious Nellore heifers. A total of 1,277 CE phenotypes were collected and scored into two categories: i- non assisted calving, categorized as success (1) and ii- assisted calving where heifers required any form of assistance or intervention to give birth, categorized as failure (2). A pedigree structure containing the identification of the animal's sire and dam was used, with the relationship matrix comprising a total of 6,511
animals. Genotypic data from 1,201 animals were obtained using low-density panel (Clarifide Nelore 3.1) encompassing over 29,001 single nucleotide polymorphisms (SNP) markers. A threshold sire-maternal grandsire model (S-MGS) was used to estimate the genetic parameters, which included sire, maternal grandsire and residual effects as random effects and the fixed effects of contemporary groups (farm and year of calving, sex) and birth weight of the calf as covariable (linear effect). Genomic breeding values were estimated using an animal model with the direct and maternal genetic variances which were previously obtained by means of a S-MGS threshold model. The direct and maternal heritability estimates for CE were obtained considering the covariance of direct and maternal effects fixed as zero. Regions that accounted for more than 0.5% of the additive genetic variance were used. The direct and maternal heritability estimates for CE were low (0.18) and moderate (0.39)
respectively, indicating that genetic progress for this trait is feasible, and so, it would respond favorably to direct selection. Genes identified within the significant windows, such as CA8, FAM110B, TOX, ARID1A, RBM15, HSF1 and PLAG1 were found to be related with maternal and direct effects on CE. Gene enrichment analysis revealed processes that might directly influence fetal processes involved in female pregnancy and stress response. These results should help to better understand the genetic and physiological mechanisms regulating placenta development and fetal development, and this information might be useful for future genomic studies in Nellore cattle. MenosABSTRACT: The aim of this study was to estimate genetic parameters and to identify genomic regions associated with the calving ease (CE) in precocious Nellore heifers. A total of 1,277 CE phenotypes were collected and scored into two categories: i- non assisted calving, categorized as success (1) and ii- assisted calving where heifers required any form of assistance or intervention to give birth, categorized as failure (2). A pedigree structure containing the identification of the animal's sire and dam was used, with the relationship matrix comprising a total of 6,511
animals. Genotypic data from 1,201 animals were obtained using low-density panel (Clarifide Nelore 3.1) encompassing over 29,001 single nucleotide polymorphisms (SNP) markers. A threshold sire-maternal grandsire model (S-MGS) was used to estimate the genetic parameters, which included sire, maternal grandsire and residual effects as random effects and the fixed effects of contemporary groups (farm and year of calving, sex) and birth weight of the calf as covariable (linear effect). Genomic breeding values were estimated using an animal model with the direct and maternal genetic variances which were previously obtained by means of a S-MGS threshold model. The direct and maternal heritability estimates for CE were obtained considering the covariance of direct and maternal effects fixed as zero. Regions that accounted for more than 0.5% of the additive genetic variance were used. The direct and maternal heritabili... Presentar Todo |
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Palabras claves : |
BEEF CATTLE; CANDIDATE GENES; DISTOCIA; FUNCTIONAL ANALYSES; REPRODUCTION TRAITS. |
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Thesagro : |
GANADO VACUNO. |
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Asunto categoría : |
L01 Ganadería |
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Marc : |
LEADER 03747naa a2200361 a 4500
001 1061351
005 2020-09-28
008 2020 bl uuuu u00u1 u #d
024 7 $a10.1016/j.livsci.2020.104183$2DOI
100 1 $aSILVA, R.P.
245 $aGenetic parameters and genomic regions associated with calving ease in primiparous Nellore heifers.$h[electronic resource]
260 $c2020
500 $aArticle history: Received 19 February 2020 /Received in revised form 25 June 2020 /Accepted 1 August 2020/Available online 02 August 2020. /Corresponding author: E-mail address: fernandobaldiuy@gmail.com (F. Baldi). This work was supported by the São Paulo Research Foundation - FAPESP through grant #2018/18921-9, grant #2017/10493-5 and grant #2019/10438-0 for authors Rafael Espigolan, Mariana P. Berton and Nedenia B. Stafuzza, respectively.
520 $aABSTRACT: The aim of this study was to estimate genetic parameters and to identify genomic regions associated with the calving ease (CE) in precocious Nellore heifers. A total of 1,277 CE phenotypes were collected and scored into two categories: i- non assisted calving, categorized as success (1) and ii- assisted calving where heifers required any form of assistance or intervention to give birth, categorized as failure (2). A pedigree structure containing the identification of the animal's sire and dam was used, with the relationship matrix comprising a total of 6,511 animals. Genotypic data from 1,201 animals were obtained using low-density panel (Clarifide Nelore 3.1) encompassing over 29,001 single nucleotide polymorphisms (SNP) markers. A threshold sire-maternal grandsire model (S-MGS) was used to estimate the genetic parameters, which included sire, maternal grandsire and residual effects as random effects and the fixed effects of contemporary groups (farm and year of calving, sex) and birth weight of the calf as covariable (linear effect). Genomic breeding values were estimated using an animal model with the direct and maternal genetic variances which were previously obtained by means of a S-MGS threshold model. The direct and maternal heritability estimates for CE were obtained considering the covariance of direct and maternal effects fixed as zero. Regions that accounted for more than 0.5% of the additive genetic variance were used. The direct and maternal heritability estimates for CE were low (0.18) and moderate (0.39) respectively, indicating that genetic progress for this trait is feasible, and so, it would respond favorably to direct selection. Genes identified within the significant windows, such as CA8, FAM110B, TOX, ARID1A, RBM15, HSF1 and PLAG1 were found to be related with maternal and direct effects on CE. Gene enrichment analysis revealed processes that might directly influence fetal processes involved in female pregnancy and stress response. These results should help to better understand the genetic and physiological mechanisms regulating placenta development and fetal development, and this information might be useful for future genomic studies in Nellore cattle.
650 $aGANADO VACUNO
653 $aBEEF CATTLE
653 $aCANDIDATE GENES
653 $aDISTOCIA
653 $aFUNCTIONAL ANALYSES
653 $aREPRODUCTION TRAITS
700 1 $aESPIGOLAN, R.
700 1 $aBERTON, M.P.
700 1 $aSTAFUZZA, N.B.
700 1 $aSANTOS, F.S.
700 1 $aNEGREIROS, M.P.
700 1 $aSCHUCHMANN, R.K.
700 1 $aRODRIGUEZ, J.D.
700 1 $aLÔBO, R.B.
700 1 $aBANCHERO, G.
700 1 $aPEREIRA, A.S.C.
700 1 $aBERGMANN, J.A.G.
700 1 $aBALDI, F.
773 $tLivestock Science, October 2020, Volume 240, Article number 104183. Doi: https://doi.org/10.1016/j.livsci.2020.104183
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