Gene networks for total number born in pigs across divergent environments

Lucas L. Verardo, Marcos S. Lopes, Pramod Mathur, Ole Madsen, Fabyano F. Silva, Martien A.M. Groenen, Egbert F. Knol, Paulo S. Lopes, Simone E.F. Guimarães

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)

Abstract

For reproductive traits such as total number born (TNB), variance due to different environments is highly relevant in animal breeding. In this study, we aimed to perform a gene-network analysis for TNB in pigs across different environments using genomic reaction norm models. Thus, based on relevant single-nucleotide polymorphisms and linkage disequilibrium blocks across environments obtained from GWAS, different sets of candidate genes having biological roles linked to TNB were identified. Network analysis across environment levels resulted in gene interactions consistent with known mammal’s fertility biology, captured relevant transcription factors for TNB biology and pointing out different sets of candidate genes for TNB in different environments. These findings may have important implication for animal production, as optimal breeding may vary depending on later environments. Based on these results, genomic diversity was identified and inferred across environments highlighting differential genetic control in each scenario.

LanguageEnglish
Pages426-435
JournalMammalian Genome
Volume28
Issue number9-10
DOIs
Publication statusPublished - 2017

Fingerprint

Gene Regulatory Networks
Swine
Breeding
Genes
Genome-Wide Association Study
Linkage Disequilibrium
Single Nucleotide Polymorphism
Fertility
Mammals
Transcription Factors

Cite this

Verardo, L. L., Lopes, M. S., Mathur, P., Madsen, O., Silva, F. F., Groenen, M. A. M., ... Guimarães, S. E. F. (2017). Gene networks for total number born in pigs across divergent environments. Mammalian Genome, 28(9-10), 426-435. https://doi.org/10.1007/s00335-017-9696-5
Verardo, Lucas L. ; Lopes, Marcos S. ; Mathur, Pramod ; Madsen, Ole ; Silva, Fabyano F. ; Groenen, Martien A.M. ; Knol, Egbert F. ; Lopes, Paulo S. ; Guimarães, Simone E.F. / Gene networks for total number born in pigs across divergent environments. In: Mammalian Genome. 2017 ; Vol. 28, No. 9-10. pp. 426-435.
@article{4a7625e80b474952b1d7fd4b358f673d,
title = "Gene networks for total number born in pigs across divergent environments",
abstract = "For reproductive traits such as total number born (TNB), variance due to different environments is highly relevant in animal breeding. In this study, we aimed to perform a gene-network analysis for TNB in pigs across different environments using genomic reaction norm models. Thus, based on relevant single-nucleotide polymorphisms and linkage disequilibrium blocks across environments obtained from GWAS, different sets of candidate genes having biological roles linked to TNB were identified. Network analysis across environment levels resulted in gene interactions consistent with known mammal’s fertility biology, captured relevant transcription factors for TNB biology and pointing out different sets of candidate genes for TNB in different environments. These findings may have important implication for animal production, as optimal breeding may vary depending on later environments. Based on these results, genomic diversity was identified and inferred across environments highlighting differential genetic control in each scenario.",
author = "Verardo, {Lucas L.} and Lopes, {Marcos S.} and Pramod Mathur and Ole Madsen and Silva, {Fabyano F.} and Groenen, {Martien A.M.} and Knol, {Egbert F.} and Lopes, {Paulo S.} and Guimar{\~a}es, {Simone E.F.}",
year = "2017",
doi = "10.1007/s00335-017-9696-5",
language = "English",
volume = "28",
pages = "426--435",
journal = "Mammalian Genome",
issn = "0938-8990",
publisher = "Springer Verlag",
number = "9-10",

}

Verardo, LL, Lopes, MS, Mathur, P, Madsen, O, Silva, FF, Groenen, MAM, Knol, EF, Lopes, PS & Guimarães, SEF 2017, 'Gene networks for total number born in pigs across divergent environments', Mammalian Genome, vol. 28, no. 9-10, pp. 426-435. https://doi.org/10.1007/s00335-017-9696-5

Gene networks for total number born in pigs across divergent environments. / Verardo, Lucas L.; Lopes, Marcos S.; Mathur, Pramod; Madsen, Ole; Silva, Fabyano F.; Groenen, Martien A.M.; Knol, Egbert F.; Lopes, Paulo S.; Guimarães, Simone E.F.

In: Mammalian Genome, Vol. 28, No. 9-10, 2017, p. 426-435.

Research output: Contribution to journalArticleAcademicpeer-review

TY - JOUR

T1 - Gene networks for total number born in pigs across divergent environments

AU - Verardo, Lucas L.

AU - Lopes, Marcos S.

AU - Mathur, Pramod

AU - Madsen, Ole

AU - Silva, Fabyano F.

AU - Groenen, Martien A.M.

AU - Knol, Egbert F.

AU - Lopes, Paulo S.

AU - Guimarães, Simone E.F.

PY - 2017

Y1 - 2017

N2 - For reproductive traits such as total number born (TNB), variance due to different environments is highly relevant in animal breeding. In this study, we aimed to perform a gene-network analysis for TNB in pigs across different environments using genomic reaction norm models. Thus, based on relevant single-nucleotide polymorphisms and linkage disequilibrium blocks across environments obtained from GWAS, different sets of candidate genes having biological roles linked to TNB were identified. Network analysis across environment levels resulted in gene interactions consistent with known mammal’s fertility biology, captured relevant transcription factors for TNB biology and pointing out different sets of candidate genes for TNB in different environments. These findings may have important implication for animal production, as optimal breeding may vary depending on later environments. Based on these results, genomic diversity was identified and inferred across environments highlighting differential genetic control in each scenario.

AB - For reproductive traits such as total number born (TNB), variance due to different environments is highly relevant in animal breeding. In this study, we aimed to perform a gene-network analysis for TNB in pigs across different environments using genomic reaction norm models. Thus, based on relevant single-nucleotide polymorphisms and linkage disequilibrium blocks across environments obtained from GWAS, different sets of candidate genes having biological roles linked to TNB were identified. Network analysis across environment levels resulted in gene interactions consistent with known mammal’s fertility biology, captured relevant transcription factors for TNB biology and pointing out different sets of candidate genes for TNB in different environments. These findings may have important implication for animal production, as optimal breeding may vary depending on later environments. Based on these results, genomic diversity was identified and inferred across environments highlighting differential genetic control in each scenario.

U2 - 10.1007/s00335-017-9696-5

DO - 10.1007/s00335-017-9696-5

M3 - Article

VL - 28

SP - 426

EP - 435

JO - Mammalian Genome

T2 - Mammalian Genome

JF - Mammalian Genome

SN - 0938-8990

IS - 9-10

ER -