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 | Acceso al texto completo restringido a Biblioteca INIA La Estanzuela. Por información adicional contacte bib_le@inia.org.uy. |
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Registro completo
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Biblioteca (s) : |
INIA La Estanzuela. |
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Fecha : |
13/09/2017 |
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Actualizado : |
18/09/2017 |
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Tipo de producción científica : |
Abstracts/Resúmenes |
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Autor : |
BERTON, MP.; DE OLIVEIRA SILVA, R.M.; PERIPOLLI, E.; STAFUZZA, N.B.; FERNÁNDEZ, J.; SAURA, S.; VILLANUEVA, B.; TORO, M.A.; BANCHERO, G.; OLIVEIRA, P.S.; ELER, J.P.; BALDI, F.; FERRAZ, J.B.S. |
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Afiliación : |
Department of Animal Science, School of Agricultural and Veterinarian Sciences, Sao Paulo State University, Jaboticabal, Brazil.; Department of Animal Science, School of Agricultural and Veterinarian Sciences, Sao Paulo State University, Jaboticabal, Brazil.; Department of Animal Science, School of Agricultural and Veterinarian Sciences, Sao Paulo State University, Jaboticabal, Brazil.; Departamento de Ciências Exatas, Faculdade de Ciências Agrárias e Veterinárias, Universidade Estadual Paulista, Jaboticabal, Brazil.; Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Madrid, España.; Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Madrid, España.; Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Madrid, España.; Animal Production Department, Universidad Politécnica de Madrid, Madrid, España.; GEORGGET ELIZABETH BANCHERO HUNZIKER, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; University of Sao Paulo, Pirassununga, Brazil.; NAP-GMABT/ FZEA/University of Sao Paulo, Pirassununga, Brazil.; FERNANDO BALDI, Department of Animal Science, School of Agricultural and Veterinarian Sciences, Sao Paulo State University, Jaboticabal, Brazil.; NAP-GMABT/ FZEA/University of Sao Paulo, Pirassununga, Brazil. |
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Título : |
Genomic regions and pathways associated with resistance to gastrointestinal parasites in tropical sheep breed. |
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Fecha de publicación : |
2017 |
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Fuente / Imprenta : |
Journal of Animal Science, 2017, v.95, suppl.4.p.107. |
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DOI : |
10.2527/asasann.2017.216 |
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Idioma : |
Inglés |
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Contenido : |
Abstract.
The aim of this study was to estimate variance components and to identify genomic regions and pathways associated with
resistance to gastrointestinal parasites, particularly Haemonchus contortus, in Santa Inês sheep, a Brazilian breed adapted
to tropical climate. The degree of anemia assessed by the FAMACHA card (FAM) and the egg counts per gram of feces
(EPG) were evaluated to verify the resistance to gastrointestinal parasites. A total of 576 animals were genotyped using
12,785 SNPs of the Ovine SNP12k BeadChip (Illumina, Inc.). The variance components were estimated using a single trait
model by single step genomic BLUP (ssGBLUP) procedure.The overall LD mean between marker pairs measured by r2
was 0.23. Heritability estimates were low for EPG (0.11) and high for FAM (0.35). A total of 22 and 21 important windows
for EPG and FAM traits were identified. The results of the enriched genes and functional grouping analyses showed that
genes associated with FAM and OPG are involved in functions related to the body?s immune and defense response. The
CCL28 gene located in OAR16 identified both for EPG and FAM acts as a chemotactic for CD4 and CD8 inactive T cells.
The metabolic pathway involved in the CCL28 gene and in other genes associated with EPG and FAM, which are related
to immunoglobulin synthesis in the intestine. The high heritability observed for FAM suggests that good genetic progress
should be possible in selective breeding programs for Santa Inês sheep besides the fact that the FAM is the most
precise method to identify an infection by Haemonchus when compared to EPG. This study reported for the first time estimates
of linkage disequilibrium between markers and genetic parameters for traits related to gastrointestinal parasite resistance
in the Santa Inês sheep breed. MenosAbstract.
The aim of this study was to estimate variance components and to identify genomic regions and pathways associated with
resistance to gastrointestinal parasites, particularly Haemonchus contortus, in Santa Inês sheep, a Brazilian breed adapted
to tropical climate. The degree of anemia assessed by the FAMACHA card (FAM) and the egg counts per gram of feces
(EPG) were evaluated to verify the resistance to gastrointestinal parasites. A total of 576 animals were genotyped using
12,785 SNPs of the Ovine SNP12k BeadChip (Illumina, Inc.). The variance components were estimated using a single trait
model by single step genomic BLUP (ssGBLUP) procedure.The overall LD mean between marker pairs measured by r2
was 0.23. Heritability estimates were low for EPG (0.11) and high for FAM (0.35). A total of 22 and 21 important windows
for EPG and FAM traits were identified. The results of the enriched genes and functional grouping analyses showed that
genes associated with FAM and OPG are involved in functions related to the body?s immune and defense response. The
CCL28 gene located in OAR16 identified both for EPG and FAM acts as a chemotactic for CD4 and CD8 inactive T cells.
The metabolic pathway involved in the CCL28 gene and in other genes associated with EPG and FAM, which are related
to immunoglobulin synthesis in the intestine. The high heritability observed for FAM suggests that good genetic progress
should be possible in selective breeding programs for Santa Inês sheep bes... Presentar Todo |
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Palabras claves : |
GWAS; LINKAGE DISEQUILIBRIUM; RAZAS DE OVEJAS TROPICALES; RESISTENCIA A PARÁSITOS GASTROINTESTINALES. |
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Asunto categoría : |
E16 Enfermedades de los animales |
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Marc : |
LEADER 02797naa a2200325 a 4500
001 1057562
005 2017-09-18
008 2017 bl uuuu u00u1 u #d
024 7 $a10.2527/asasann.2017.216$2DOI
100 1 $aBERTON, MP.
245 $aGenomic regions and pathways associated with resistance to gastrointestinal parasites in tropical sheep breed.$h[electronic resource]
260 $c2017
520 $aAbstract. The aim of this study was to estimate variance components and to identify genomic regions and pathways associated with resistance to gastrointestinal parasites, particularly Haemonchus contortus, in Santa Inês sheep, a Brazilian breed adapted to tropical climate. The degree of anemia assessed by the FAMACHA card (FAM) and the egg counts per gram of feces (EPG) were evaluated to verify the resistance to gastrointestinal parasites. A total of 576 animals were genotyped using 12,785 SNPs of the Ovine SNP12k BeadChip (Illumina, Inc.). The variance components were estimated using a single trait model by single step genomic BLUP (ssGBLUP) procedure.The overall LD mean between marker pairs measured by r2 was 0.23. Heritability estimates were low for EPG (0.11) and high for FAM (0.35). A total of 22 and 21 important windows for EPG and FAM traits were identified. The results of the enriched genes and functional grouping analyses showed that genes associated with FAM and OPG are involved in functions related to the body?s immune and defense response. The CCL28 gene located in OAR16 identified both for EPG and FAM acts as a chemotactic for CD4 and CD8 inactive T cells. The metabolic pathway involved in the CCL28 gene and in other genes associated with EPG and FAM, which are related to immunoglobulin synthesis in the intestine. The high heritability observed for FAM suggests that good genetic progress should be possible in selective breeding programs for Santa Inês sheep besides the fact that the FAM is the most precise method to identify an infection by Haemonchus when compared to EPG. This study reported for the first time estimates of linkage disequilibrium between markers and genetic parameters for traits related to gastrointestinal parasite resistance in the Santa Inês sheep breed.
653 $aGWAS
653 $aLINKAGE DISEQUILIBRIUM
653 $aRAZAS DE OVEJAS TROPICALES
653 $aRESISTENCIA A PARÁSITOS GASTROINTESTINALES
700 1 $aDE OLIVEIRA SILVA, R.M.
700 1 $aPERIPOLLI, E.
700 1 $aSTAFUZZA, N.B.
700 1 $aFERNÁNDEZ, J.
700 1 $aSAURA, S.
700 1 $aVILLANUEVA, B.
700 1 $aTORO, M.A.
700 1 $aBANCHERO, G.
700 1 $aOLIVEIRA, P.S.
700 1 $aELER, J.P.
700 1 $aBALDI, F.
700 1 $aFERRAZ, J.B.S.
773 $tJournal of Animal Science, 2017$gv.95, suppl.4.p.107.
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INIA La Estanzuela (LE) |
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Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
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Fecha actual : |
18/12/2017 |
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Actualizado : |
15/10/2019 |
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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 : |
LOURENCO, D.A.L.; FRAGOMENI, B.O.; BRADFORD, H.L.; MENEZES I.R.; FERRAZ, J.B.S.; AGUILAR, I.; MISZTAL, I. |
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Afiliación : |
D.A.L. LOURENCO, Universidad de Georgia (UG); B.O. FRAGOMENI, Universidad de Georgia (UG); H.L. BRADFORD, Universidad de Georgia (UG); I.R. MENEZES, FZEA, University of Sao Paulo.; J.B.S. FERRAZ, FZEA, University of Sao Paulo.; IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; I. MISZTAL, Universidad de Georgia (UG). |
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Título : |
Implications of SNP weighting on single-step genomic predictions for different reference population sizes. |
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Fecha de publicación : |
2017 |
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Fuente / Imprenta : |
Journal of Animal Breeding and Genetics, 2017, v. 134 (6), p. 463-471. |
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DOI : |
10.1111/jbg.12288 |
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Idioma : |
Inglés |
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Notas : |
Article history: Received: 28 February 2017 / Accepted: 19 July 2017.
This study was partially funded by the American Angus Association (St. Joseph, MO), Zoetis (Kalamazoo, MI) and by Agriculture and Food Research Initiative Competitive Grants no. 2015-67015-22936 from the US Department of Agriculture's National Institute of Food and Agriculture. We gratefully acknowledge the very helpful comments by the two anonymous reviewers, and we thank Andra H. Nelson for assisting with data analysis. |
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Contenido : |
ABSTRACT.
We investigated the importance of SNP weighting in populations with 2,000 to 25,000 genotyped animals. Populations were simulated with two effective sizes (20 or 100) and three numbers of QTL (10, 50 or 500). Pedigree information was available for six generations; phenotypes were recorded for the four middle generations. Animals from the last three generations were genotyped for 45,000 SNP. Single-step genomic BLUP (ssGBLUP) and weighted ssGBLUP (WssGBLUP) were used to estimate genomic EBV using a genomic relationship matrix (G). The WssGBLUP performed better in small genotyped populations; however, any advantage for WssGBLUP was reduced or eliminated when more animals were genotyped. WssGBLUP had greater resolution for genome-wide association (GWA) as did increasing the number of genotyped animals. For few QTL, accuracy was greater for WssGBLUP than ssGBLUP; however, for many QTL, accuracy was the same for both methods. The largest genotyped set was used to assess the dimensionality of genomic information (number of effective SNP). The number of effective SNP was considerably less in weighted G than in unweighted G. Once the number of independent SNP is well represented in the genotyped population, the impact of SNP weighting becomes less important.
© 2017 Blackwell Verlag GmbH |
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Palabras claves : |
ACCURAY; BAYES B; SNP WEIGHTING; VARIABLE SELECTION; WEIGTED SSGBLUP. |
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Asunto categoría : |
-- |
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Marc : |
LEADER 02612naa a2200277 a 4500
001 1057902
005 2019-10-15
008 2017 bl uuuu u00u1 u #d
024 7 $a10.1111/jbg.12288$2DOI
100 1 $aLOURENCO, D.A.L.
245 $aImplications of SNP weighting on single-step genomic predictions for different reference population sizes.$h[electronic resource]
260 $c2017
500 $aArticle history: Received: 28 February 2017 / Accepted: 19 July 2017. This study was partially funded by the American Angus Association (St. Joseph, MO), Zoetis (Kalamazoo, MI) and by Agriculture and Food Research Initiative Competitive Grants no. 2015-67015-22936 from the US Department of Agriculture's National Institute of Food and Agriculture. We gratefully acknowledge the very helpful comments by the two anonymous reviewers, and we thank Andra H. Nelson for assisting with data analysis.
520 $aABSTRACT. We investigated the importance of SNP weighting in populations with 2,000 to 25,000 genotyped animals. Populations were simulated with two effective sizes (20 or 100) and three numbers of QTL (10, 50 or 500). Pedigree information was available for six generations; phenotypes were recorded for the four middle generations. Animals from the last three generations were genotyped for 45,000 SNP. Single-step genomic BLUP (ssGBLUP) and weighted ssGBLUP (WssGBLUP) were used to estimate genomic EBV using a genomic relationship matrix (G). The WssGBLUP performed better in small genotyped populations; however, any advantage for WssGBLUP was reduced or eliminated when more animals were genotyped. WssGBLUP had greater resolution for genome-wide association (GWA) as did increasing the number of genotyped animals. For few QTL, accuracy was greater for WssGBLUP than ssGBLUP; however, for many QTL, accuracy was the same for both methods. The largest genotyped set was used to assess the dimensionality of genomic information (number of effective SNP). The number of effective SNP was considerably less in weighted G than in unweighted G. Once the number of independent SNP is well represented in the genotyped population, the impact of SNP weighting becomes less important. © 2017 Blackwell Verlag GmbH
653 $aACCURAY
653 $aBAYES B
653 $aSNP WEIGHTING
653 $aVARIABLE SELECTION
653 $aWEIGTED SSGBLUP
700 1 $aFRAGOMENI, B.O.
700 1 $aBRADFORD, H.L.
700 1 $aMENEZES I.R.
700 1 $aFERRAZ, J.B.S.
700 1 $aAGUILAR, I.
700 1 $aMISZTAL, I.
773 $tJournal of Animal Breeding and Genetics, 2017$gv. 134 (6), p. 463-471.
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