RNA-seq based detection of differentially expressed genes in the skeletal muscle of Duroc pigs with distinct lipid profiles

被引:44
作者
Cardoso, T. F. [1 ,2 ]
Canovas, A. [1 ]
Canela-Xandri, O. [3 ]
Gonzalez-Prendes, R. [1 ]
Amills, M. [1 ,4 ]
Quintanilla, R. [3 ]
机构
[1] Univ Autonoma Barcelona, Ctr Res Agr Genom CSIC IRTA UAB UB, Dept Anim Genet, Bellaterra 08193, Spain
[2] CAPES Fdn, Minist Educ Brazil, BR-70040020 Brasilia, DF, Brazil
[3] Inst Res & Technol Food & Agr IRTA, Anim Breeding & Genet Program, Caldes De Montbui 08140, Spain
[4] Univ Autonoma Barcelona, Dept Ciencia Anim Dels Aliments, Bellaterra 08193, Spain
关键词
LONG NONCODING RNAS; PEROXISOME PROLIFERATOR; EXTREME PHENOTYPES; TRANSCRIPTOME; METABOLISM; RECEPTORS; PROTEIN; ROLES;
D O I
10.1038/srep40005
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
We have used a RNA-seq approach to investigate differential expression in the skeletal muscle of swine (N = 52) with divergent lipid profiles i.e. HIGH (increased intramuscular fat and muscle saturated and monounsaturated fatty acid contents, higher serum lipid concentrations and fatness) and LOW pigs (leaner and with an increased muscle polyunsaturated fatty acid content). The number of mRNAs and non-coding RNAs (ncRNAs) expressed in the porcine gluteus medius muscle were 18,104 and 1,558, respectively. At the nominal level of significance (P-value <= 0.05), we detected 1,430 mRNA and 12 non-coding RNA (ncRNA) transcripts as differentially expressed (DE) in the gluteus medius muscle of HIGH vs LOW pigs. This smaller contribution of ncRNAs to differential expression may have biological and technical reasons. We performed a second analysis, that was more stringent (P-value <= 0.01 and fold-change >= 1.5), and only 96 and 0 mRNA-and ncRNA-encoding genes happened to be DE, respectively. The subset of DE mRNA genes was enriched in pathways related with lipid (lipogenesis and triacylglycerol degradation) and glucose metabolism. Moreover, HIGH pigs showed a more lipogenic profile than their LOW counterparts.
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页数:9
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