Transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle

Abstract The genetic mechanisms controlling residual feed intake (RFI) in beef cattle are still largely unknown. Here we performed whole transcriptome analyses to identify differentially expressed (DE) genes and their functional roles in liver tissues between six extreme high and six extreme low RFI...

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Autores principales:	Robert Mukiibi, Michael Vinsky, Kate A. Keogh, Carolyn Fitzsimmons, Paul Stothard, Sinéad M. Waters, Changxi Li
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/d15d0d7d57df4db189a5b33975fe9182
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spelling	oai:doaj.org-article:d15d0d7d57df4db189a5b33975fe91822021-12-02T11:40:36ZTranscriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle10.1038/s41598-018-25605-32045-2322https://doaj.org/article/d15d0d7d57df4db189a5b33975fe91822018-05-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-25605-3https://doaj.org/toc/2045-2322Abstract The genetic mechanisms controlling residual feed intake (RFI) in beef cattle are still largely unknown. Here we performed whole transcriptome analyses to identify differentially expressed (DE) genes and their functional roles in liver tissues between six extreme high and six extreme low RFI steers from three beef breed populations including Angus, Charolais, and Kinsella Composite (KC). On average, the next generation sequencing yielded 34 million single-end reads per sample, of which 87% were uniquely mapped to the bovine reference genome. At false discovery rate (FDR) < 0.05 and fold change (FC) > 2, 72, 41, and 175 DE genes were identified in Angus, Charolais, and KC, respectively. Most of the DE genes were breed-specific, while five genes including TP53INP1, LURAP1L, SCD, LPIN1, and ENSBTAG00000047029 were common across the three breeds, with TP53INP1, LURAP1L, SCD, and LPIN1 being downregulated in low RFI steers of all three breeds. The DE genes are mainly involved in lipid, amino acid and carbohydrate metabolism, energy production, molecular transport, small molecule biochemistry, cellular development, and cell death and survival. Furthermore, our differential gene expression results suggest reduced hepatic lipid synthesis and accumulation processes in more feed efficient beef cattle of all three studied breeds.Robert MukiibiMichael VinskyKate A. KeoghCarolyn FitzsimmonsPaul StothardSinéad M. WatersChangxi LiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-12 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Robert Mukiibi Michael Vinsky Kate A. Keogh Carolyn Fitzsimmons Paul Stothard Sinéad M. Waters Changxi Li Transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle
description	Abstract The genetic mechanisms controlling residual feed intake (RFI) in beef cattle are still largely unknown. Here we performed whole transcriptome analyses to identify differentially expressed (DE) genes and their functional roles in liver tissues between six extreme high and six extreme low RFI steers from three beef breed populations including Angus, Charolais, and Kinsella Composite (KC). On average, the next generation sequencing yielded 34 million single-end reads per sample, of which 87% were uniquely mapped to the bovine reference genome. At false discovery rate (FDR) < 0.05 and fold change (FC) > 2, 72, 41, and 175 DE genes were identified in Angus, Charolais, and KC, respectively. Most of the DE genes were breed-specific, while five genes including TP53INP1, LURAP1L, SCD, LPIN1, and ENSBTAG00000047029 were common across the three breeds, with TP53INP1, LURAP1L, SCD, and LPIN1 being downregulated in low RFI steers of all three breeds. The DE genes are mainly involved in lipid, amino acid and carbohydrate metabolism, energy production, molecular transport, small molecule biochemistry, cellular development, and cell death and survival. Furthermore, our differential gene expression results suggest reduced hepatic lipid synthesis and accumulation processes in more feed efficient beef cattle of all three studied breeds.
format	article
author	Robert Mukiibi Michael Vinsky Kate A. Keogh Carolyn Fitzsimmons Paul Stothard Sinéad M. Waters Changxi Li
author_facet	Robert Mukiibi Michael Vinsky Kate A. Keogh Carolyn Fitzsimmons Paul Stothard Sinéad M. Waters Changxi Li
author_sort	Robert Mukiibi
title	Transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle
title_short	Transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle
title_full	Transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle
title_fullStr	Transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle
title_full_unstemmed	Transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle
title_sort	transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/d15d0d7d57df4db189a5b33975fe9182
work_keys_str_mv	AT robertmukiibi transcriptomeanalysesrevealreducedhepaticlipidsynthesisandaccumulationinmorefeedefficientbeefcattle AT michaelvinsky transcriptomeanalysesrevealreducedhepaticlipidsynthesisandaccumulationinmorefeedefficientbeefcattle AT kateakeogh transcriptomeanalysesrevealreducedhepaticlipidsynthesisandaccumulationinmorefeedefficientbeefcattle AT carolynfitzsimmons transcriptomeanalysesrevealreducedhepaticlipidsynthesisandaccumulationinmorefeedefficientbeefcattle AT paulstothard transcriptomeanalysesrevealreducedhepaticlipidsynthesisandaccumulationinmorefeedefficientbeefcattle AT sineadmwaters transcriptomeanalysesrevealreducedhepaticlipidsynthesisandaccumulationinmorefeedefficientbeefcattle AT changxili transcriptomeanalysesrevealreducedhepaticlipidsynthesisandaccumulationinmorefeedefficientbeefcattle
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Transcriptome analyses reveal reduced hepatic lipid synthesis and accumulation in more feed efficient beef cattle

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