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Biblioteca (s) : |
INIA Tacuarembó. |
Fecha : |
15/09/2014 |
Actualizado : |
09/10/2018 |
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
Autor : |
VIÑOLES, C.; PAGANONI, B.L.; MCNATTY, K.P.; HEATH, D.A.; THOMPSON, A.N.; GLOVER, K.M.M.; MILTON, J.T.B.; MARTIN, G.B. |
Afiliación : |
CAROLINA VIÑOLES GIL, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
Título : |
Follicle development, endocrine profiles and ovulation rate in adult Merino ewes-effects of early nutrition (pre-and post-natal) and supplementation with lupin grain. |
Fecha de publicación : |
2014 |
Fuente / Imprenta : |
Reproduction, 2014, v. 147, no. 1, p. 101-110. |
DOI : |
10.1530/REP-13-0104 |
Idioma : |
Inglés |
Notas : |
History article: Received 14 March 2013; First decision 8 April 2013; Revised manuscript received 17 October 2013; Accepted 23 October 2013. |
Contenido : |
In adult ewes, we tested whether ovarian function, including the response to short-term supplementation, was affected by the nutrition of their mothers during the pre-/postnatal period. A 2x2 factorial was used with nutrition in early life (low or high) and a 6- day supplement (with or without) as factors. All ewes received 3 prostaglandin injections 7 days apart, and the supplement (lupin grain) was fed for 6 days from 2 days after the second until the third prostaglandin injection. We measured reproductive and metabolic hormones, studied follicle dynamics (ultrasonography), and evaluated granulosa cell numbers, aromatase activity and oestradiol concentrations in follicular fluid in healthy follicles at Days 3 and 7 of supplementation. Ovulation rate was increased by 25% by exposure to high pre-/post-natal nutrition (1.5 versus 1.2; P < 0.05), in association with a small decrease in FSH concentrations (P = 0.06) and a small increase in insulin concentrations (P = 0.07). The number of healthy astral follicles was not affected. Acute supplementation increased the number of granulose cells (3.7 ??0.2 vs 3.0 ??0.2 million; P < 0.05) in the largest follicle, and the circulating concentrations of oestradiol (4.6 ??0.3 vs 3.9 ??0.3 pmol/L; P < 0.05) and glucose (3.4 ??0.03 vs 3.3 ??0.03 mmol/L; P < 0.01). Both early life nutrition and acute supplementation appear to affect ovulation rate through changes in glucose-insulin homeostasis that alter follicular responsiveness to FSH and therefore oestradiol-FSH balance. MenosIn adult ewes, we tested whether ovarian function, including the response to short-term supplementation, was affected by the nutrition of their mothers during the pre-/postnatal period. A 2x2 factorial was used with nutrition in early life (low or high) and a 6- day supplement (with or without) as factors. All ewes received 3 prostaglandin injections 7 days apart, and the supplement (lupin grain) was fed for 6 days from 2 days after the second until the third prostaglandin injection. We measured reproductive and metabolic hormones, studied follicle dynamics (ultrasonography), and evaluated granulosa cell numbers, aromatase activity and oestradiol concentrations in follicular fluid in healthy follicles at Days 3 and 7 of supplementation. Ovulation rate was increased by 25% by exposure to high pre-/post-natal nutrition (1.5 versus 1.2; P < 0.05), in association with a small decrease in FSH concentrations (P = 0.06) and a small increase in insulin concentrations (P = 0.07). The number of healthy astral follicles was not affected. Acute supplementation increased the number of granulose cells (3.7 ??0.2 vs 3.0 ??0.2 million; P < 0.05) in the largest follicle, and the circulating concentrations of oestradiol (4.6 ??0.3 vs 3.9 ??0.3 pmol/L; P < 0.05) and glucose (3.4 ??0.03 vs 3.3 ??0.03 mmol/L; P < 0.01). Both early life nutrition and acute supplementation appear to affect ovulation rate through changes in glucose-insulin homeostasis that alter follicular responsiveness to FSH a... Presentar Todo |
Thesagro : |
OVINOS. |
Asunto categoría : |
A50 Investigación agraria |
Marc : |
LEADER 02402naa a2200241 a 4500 001 1050229 005 2018-10-09 008 2014 bl uuuu u00u1 u #d 024 7 $a10.1530/REP-13-0104$2DOI 100 1 $aVIÑOLES, C. 245 $aFollicle development, endocrine profiles and ovulation rate in adult Merino ewes-effects of early nutrition (pre-and post-natal) and supplementation with lupin grain. 260 $c2014 500 $aHistory article: Received 14 March 2013; First decision 8 April 2013; Revised manuscript received 17 October 2013; Accepted 23 October 2013. 520 $aIn adult ewes, we tested whether ovarian function, including the response to short-term supplementation, was affected by the nutrition of their mothers during the pre-/postnatal period. A 2x2 factorial was used with nutrition in early life (low or high) and a 6- day supplement (with or without) as factors. All ewes received 3 prostaglandin injections 7 days apart, and the supplement (lupin grain) was fed for 6 days from 2 days after the second until the third prostaglandin injection. We measured reproductive and metabolic hormones, studied follicle dynamics (ultrasonography), and evaluated granulosa cell numbers, aromatase activity and oestradiol concentrations in follicular fluid in healthy follicles at Days 3 and 7 of supplementation. Ovulation rate was increased by 25% by exposure to high pre-/post-natal nutrition (1.5 versus 1.2; P < 0.05), in association with a small decrease in FSH concentrations (P = 0.06) and a small increase in insulin concentrations (P = 0.07). The number of healthy astral follicles was not affected. Acute supplementation increased the number of granulose cells (3.7 ??0.2 vs 3.0 ??0.2 million; P < 0.05) in the largest follicle, and the circulating concentrations of oestradiol (4.6 ??0.3 vs 3.9 ??0.3 pmol/L; P < 0.05) and glucose (3.4 ??0.03 vs 3.3 ??0.03 mmol/L; P < 0.01). Both early life nutrition and acute supplementation appear to affect ovulation rate through changes in glucose-insulin homeostasis that alter follicular responsiveness to FSH and therefore oestradiol-FSH balance. 650 $aOVINOS 700 1 $aPAGANONI, B.L. 700 1 $aMCNATTY, K.P. 700 1 $aHEATH, D.A. 700 1 $aTHOMPSON, A.N. 700 1 $aGLOVER, K.M.M. 700 1 $aMILTON, J.T.B. 700 1 $aMARTIN, G.B. 773 $tReproduction, 2014$gv. 147, no. 1, p. 101-110.
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INIA Tacuarembó (TBO) |
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Biblioteca (s) : |
INIA La Estanzuela. |
Fecha actual : |
21/02/2014 |
Actualizado : |
05/12/2018 |
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
Circulación / Nivel : |
A - 1 |
Autor : |
BRANDARIZ , S.; GONZÁLEZ RAYMÚNDEZ, A.; LADO, B.; MALOSETTI, M.; FRANCO GARCIA, A.; QUINCKE, M.; VON ZITZEWITZ, J.; CASTRO, M.; MATUS,I.; DEL POZO, A.; CASTRO, A.J.; GUTIÉRREZ, L. |
Afiliación : |
SOFÍA P. BRANDARIZ, Universidad de la República (UdelaR); Facultad de Agronomía, Uruguay.; AGUSTÍN GONZÁLEZ REYMÚNDEZ; BETTINA LADO; MARCOS MALOSETTI; ANTONIO AUGUSTO FRANCO GARCIA; MARTIN CONRADO QUINCKE WALDEN, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; JARISLAV RAMON VON ZITZEWITZ VON SALVIATI, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; MARINA CASTRO DERENYI, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; IVÁN MATUS; ALEJANDRO DEL POZO; ARIEL J. CASTRO; LUCÍA GUTIÉRREZ. |
Título : |
Ascertainment bias from imputation methods evaluation in wheat. |
Fecha de publicación : |
2016 |
Fuente / Imprenta : |
BMC Genomics, 2016, v. 17, p.773. |
DOI : |
10.1186/s12864-016-3120-5 |
Idioma : |
Inglés |
Notas : |
OPEN ACCESS. Article history: Received 2016 Feb 24 // Accepted 2016 Sep 23. |
Contenido : |
Abstract
BACKGROUND:
Whole-genome genotyping techniques like Genotyping-by-sequencing (GBS) are being used for genetic studies such as Genome-Wide Association (GWAS) and Genomewide Selection (GS), where different strategies for imputation have been developed. Nevertheless, imputation error may lead to poor performance (i.e. smaller power or higher false positive rate) when complete data is not required as it is for GWAS, and each marker is taken at a time. The aim of this study was to compare the performance of GWAS analysis for Quantitative Trait Loci (QTL) of major and minor effect using different imputation methods when no reference panel is available in a wheat GBS panel.
RESULTS:
In this study, we compared the power and false positive rate of dissecting quantitative traits for imputed and not-imputed marker score matrices in: (1) a complete molecular marker barley panel array, and (2) a GBS wheat panel with missing data. We found that there is an ascertainment bias in imputation method comparisons. Simulating over a complete matrix and creating missing data at random proved that imputation methods have a poorer performance. Furthermore, we found that when QTL were simulated with imputed data, the imputation methods performed better than the not-imputed ones. On the other hand, when QTL were simulated with not-imputed data, the not-imputed method and one of the imputation methods performed better for dissecting quantitative traits. Moreover, larger differences between imputation methods were detected for QTL of major effect than QTL of minor effect. We also compared the different marker score matrices for GWAS analysis in a real wheat phenotype dataset, and we found minimal differences indicating that imputation did not improve the GWAS performance when a reference panel was not available.
CONCLUSIONS:
Poorer performance was found in GWAS analysis when an imputed marker score matrix was used, no reference panel is available, in a wheat GBS panel. MenosAbstract
BACKGROUND:
Whole-genome genotyping techniques like Genotyping-by-sequencing (GBS) are being used for genetic studies such as Genome-Wide Association (GWAS) and Genomewide Selection (GS), where different strategies for imputation have been developed. Nevertheless, imputation error may lead to poor performance (i.e. smaller power or higher false positive rate) when complete data is not required as it is for GWAS, and each marker is taken at a time. The aim of this study was to compare the performance of GWAS analysis for Quantitative Trait Loci (QTL) of major and minor effect using different imputation methods when no reference panel is available in a wheat GBS panel.
RESULTS:
In this study, we compared the power and false positive rate of dissecting quantitative traits for imputed and not-imputed marker score matrices in: (1) a complete molecular marker barley panel array, and (2) a GBS wheat panel with missing data. We found that there is an ascertainment bias in imputation method comparisons. Simulating over a complete matrix and creating missing data at random proved that imputation methods have a poorer performance. Furthermore, we found that when QTL were simulated with imputed data, the imputation methods performed better than the not-imputed ones. On the other hand, when QTL were simulated with not-imputed data, the not-imputed method and one of the imputation methods performed better for dissecting quantitative traits. Moreover, larger differences between ... Presentar Todo |
Palabras claves : |
FALSE POSITIVE; FALSO POSITIVO; GBS; GWAS; POWER; QTLs. |
Thesagro : |
MEJORAMIENTO DE TRIGO. |
Asunto categoría : |
F30 Genética vegetal y fitomejoramiento |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/12122/1/s12864-016-3120-5.pdf
https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-016-3120-5
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Marc : |
LEADER 02972nam a2200349 a 4500 001 1047336 005 2018-12-05 008 2016 bl uuuu u0uu1 u #d 024 7 $a10.1186/s12864-016-3120-5$2DOI 100 1 $aBRANDARIZ , S. 245 $aAscertainment bias from imputation methods evaluation in wheat.$h[electronic resource] 260 $aBMC Genomics, 2016, v. 17, p.773.$c2016 500 $aOPEN ACCESS. Article history: Received 2016 Feb 24 // Accepted 2016 Sep 23. 520 $aAbstract BACKGROUND: Whole-genome genotyping techniques like Genotyping-by-sequencing (GBS) are being used for genetic studies such as Genome-Wide Association (GWAS) and Genomewide Selection (GS), where different strategies for imputation have been developed. Nevertheless, imputation error may lead to poor performance (i.e. smaller power or higher false positive rate) when complete data is not required as it is for GWAS, and each marker is taken at a time. The aim of this study was to compare the performance of GWAS analysis for Quantitative Trait Loci (QTL) of major and minor effect using different imputation methods when no reference panel is available in a wheat GBS panel. RESULTS: In this study, we compared the power and false positive rate of dissecting quantitative traits for imputed and not-imputed marker score matrices in: (1) a complete molecular marker barley panel array, and (2) a GBS wheat panel with missing data. We found that there is an ascertainment bias in imputation method comparisons. Simulating over a complete matrix and creating missing data at random proved that imputation methods have a poorer performance. Furthermore, we found that when QTL were simulated with imputed data, the imputation methods performed better than the not-imputed ones. On the other hand, when QTL were simulated with not-imputed data, the not-imputed method and one of the imputation methods performed better for dissecting quantitative traits. Moreover, larger differences between imputation methods were detected for QTL of major effect than QTL of minor effect. We also compared the different marker score matrices for GWAS analysis in a real wheat phenotype dataset, and we found minimal differences indicating that imputation did not improve the GWAS performance when a reference panel was not available. CONCLUSIONS: Poorer performance was found in GWAS analysis when an imputed marker score matrix was used, no reference panel is available, in a wheat GBS panel. 650 $aMEJORAMIENTO DE TRIGO 653 $aFALSE POSITIVE 653 $aFALSO POSITIVO 653 $aGBS 653 $aGWAS 653 $aPOWER 653 $aQTLs 700 1 $aGONZÁLEZ RAYMÚNDEZ, A. 700 1 $aLADO, B. 700 1 $aMALOSETTI, M. 700 1 $aFRANCO GARCIA, A. 700 1 $aQUINCKE, M. 700 1 $aVON ZITZEWITZ, J. 700 1 $aCASTRO, M. 700 1 $aMATUS,I. 700 1 $aDEL POZO, A. 700 1 $aCASTRO, A.J. 700 1 $aGUTIÉRREZ, L.
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