Discovery and characterization of functional modules associated with body weight in broilers

Abstract Aim of the present study was to investigate whether body weight (BW) in broilers is associated with functional modular genes. To this end, first a GWAS for BW was conducted using 6,598 broilers and the high density SNP array. The next step was to search for positional candidate genes and QT...

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Autores principales:	Eirini Tarsani, Andreas Kranis, Gerasimos Maniatis, Santiago Avendano, Ariadne L. Hager-Theodorides, Antonios Kominakis
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2019
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/4a858f1c5f6a470ba51c136151eaa8d6
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spelling	oai:doaj.org-article:4a858f1c5f6a470ba51c136151eaa8d62021-12-02T15:07:55ZDiscovery and characterization of functional modules associated with body weight in broilers10.1038/s41598-019-45520-52045-2322https://doaj.org/article/4a858f1c5f6a470ba51c136151eaa8d62019-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-019-45520-5https://doaj.org/toc/2045-2322Abstract Aim of the present study was to investigate whether body weight (BW) in broilers is associated with functional modular genes. To this end, first a GWAS for BW was conducted using 6,598 broilers and the high density SNP array. The next step was to search for positional candidate genes and QTLs within strong LD genomic regions around the significant SNPs. Using all positional candidate genes, a network was then constructed and community structure analysis was performed. Finally, functional enrichment analysis was applied to infer the functional relevance of modular genes. A total number of 645 positional candidate genes were identified in strong LD genomic regions around 11 genome-wide significant markers. 428 of the positional candidate genes were located within growth related QTLs. Community structure analysis detected 5 modules while functional enrichment analysis showed that 52 modular genes participated in developmental processes such as skeletal system development. An additional number of 14 modular genes (GABRG1, NGF, APOBEC2, STAT5B, STAT3, SMAD4, MED1, CACNB1, SLAIN2, LEMD2, ZC3H18, TMEM132D, FRYL and SGCB) were also identified as related to body weight. Taken together, current results suggested a total number of 66 genes as most plausible functional candidates for the trait examined.Eirini TarsaniAndreas KranisGerasimos ManiatisSantiago AvendanoAriadne L. Hager-TheodoridesAntonios KominakisNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 9, Iss 1, Pp 1-12 (2019)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Eirini Tarsani Andreas Kranis Gerasimos Maniatis Santiago Avendano Ariadne L. Hager-Theodorides Antonios Kominakis Discovery and characterization of functional modules associated with body weight in broilers
description	Abstract Aim of the present study was to investigate whether body weight (BW) in broilers is associated with functional modular genes. To this end, first a GWAS for BW was conducted using 6,598 broilers and the high density SNP array. The next step was to search for positional candidate genes and QTLs within strong LD genomic regions around the significant SNPs. Using all positional candidate genes, a network was then constructed and community structure analysis was performed. Finally, functional enrichment analysis was applied to infer the functional relevance of modular genes. A total number of 645 positional candidate genes were identified in strong LD genomic regions around 11 genome-wide significant markers. 428 of the positional candidate genes were located within growth related QTLs. Community structure analysis detected 5 modules while functional enrichment analysis showed that 52 modular genes participated in developmental processes such as skeletal system development. An additional number of 14 modular genes (GABRG1, NGF, APOBEC2, STAT5B, STAT3, SMAD4, MED1, CACNB1, SLAIN2, LEMD2, ZC3H18, TMEM132D, FRYL and SGCB) were also identified as related to body weight. Taken together, current results suggested a total number of 66 genes as most plausible functional candidates for the trait examined.
format	article
author	Eirini Tarsani Andreas Kranis Gerasimos Maniatis Santiago Avendano Ariadne L. Hager-Theodorides Antonios Kominakis
author_facet	Eirini Tarsani Andreas Kranis Gerasimos Maniatis Santiago Avendano Ariadne L. Hager-Theodorides Antonios Kominakis
author_sort	Eirini Tarsani
title	Discovery and characterization of functional modules associated with body weight in broilers
title_short	Discovery and characterization of functional modules associated with body weight in broilers
title_full	Discovery and characterization of functional modules associated with body weight in broilers
title_fullStr	Discovery and characterization of functional modules associated with body weight in broilers
title_full_unstemmed	Discovery and characterization of functional modules associated with body weight in broilers
title_sort	discovery and characterization of functional modules associated with body weight in broilers
publisher	Nature Portfolio
publishDate	2019
url	https://doaj.org/article/4a858f1c5f6a470ba51c136151eaa8d6
work_keys_str_mv	AT eirinitarsani discoveryandcharacterizationoffunctionalmodulesassociatedwithbodyweightinbroilers AT andreaskranis discoveryandcharacterizationoffunctionalmodulesassociatedwithbodyweightinbroilers AT gerasimosmaniatis discoveryandcharacterizationoffunctionalmodulesassociatedwithbodyweightinbroilers AT santiagoavendano discoveryandcharacterizationoffunctionalmodulesassociatedwithbodyweightinbroilers AT ariadnelhagertheodorides discoveryandcharacterizationoffunctionalmodulesassociatedwithbodyweightinbroilers AT antonioskominakis discoveryandcharacterizationoffunctionalmodulesassociatedwithbodyweightinbroilers
_version_	1718388312758026240

Discovery and characterization of functional modules associated with body weight in broilers

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