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BMC Genomics

, 16:177

First Online: 13 March 2015Received: 17 October 2014Accepted: 24 February 2015DOI: 10.1186-s12864-015-1403-x

Cite this article as: Guo, B., Greenwood, P.L., Cafe, L.M. et al. BMC Genomics 2015 16: 177. doi:10.1186-s12864-015-1403-x


BackgroundThis study aimed to identify markers for muscle growth rate and the different cellular contributors to cattle muscle and to link the muscle growth rate markers to specific cell types.

ResultsThe expression of two groups of genes in the longissimus muscle LM of 48 Brahman steers of similar age, significantly enriched for -cell cycle- and -ECM extracellular matrix organization- Gene Ontology GO terms was correlated with average daily gain-kg liveweight ADG-kg of the animals. However, expression of the same genes was only partly related to growth rate across a time course of postnatal LM development in two cattle genotypes, Piedmontese x Hereford high muscling and Wagyu x Hereford high marbling. The deposition of intramuscular fat IMF altered the relationship between the expression of these genes and growth rate. K-means clustering across the development time course with a large set of genes 5,596 with similar expression profiles to the ECM genes was undertaken. The locations in the clusters of published markers of different cell types in muscle were identified and used to link clusters of genes to the cell type most likely to be expressing them. Overall correspondence between published cell type expression of markers and predicted major cell types of expression in cattle LM was high. However, some exceptions were identified: expression of SOX8 previously attributed to muscle satellite cells was correlated with angiogenesis. Analysis of the clusters and cell types suggested that the -cell cycle- and -ECM- signals were from the fibro-adipogenic lineage. Significant contributions to these signals from the muscle satellite cells, angiogenic cells and adipocytes themselves were not as strongly supported. Based on the clusters and cell type markers, sets of five genes predicted to be representative of fibro-adipogenic precursors FAPs and endothelial cells, and-or ECM remodelling and angiogenesis were identified.

ConclusionsGene sets and gene markers for the analysis of many of the major processes-cell populations contributing to muscle composition and growth have been proposed, enabling a consistent interpretation of gene expression datasets from cattle LM. The same gene sets are likely to be applicable in other cattle muscles and in other species.

KeywordsAdipogenesis ADG Angiogenesis Cattle muscle Development Extracellular matrix AbbreviationsADGAverage daily gain

ECMExtracellular matrix

EMAEye muscle area

FAPsfibro-adipogenic progenitors

GOGene ontology

IMFIntramuscular fat

LMLongissimus muscle

NSWNew South Wales

PxHPiedmontese x Hereford


WxHWagyu x Hereford

WAWestern Australia

Electronic supplementary materialThe online version of this article doi:10.1186-s12864-015-1403-x contains supplementary material, which is available to authorized users.

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Autor: Bing Guo - Paul L Greenwood - Linda M Cafe - Guanghong Zhou - Wangang Zhang - Brian P Dalrymple


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