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Expression data from the longuissimus dorsi muscle of Qinchuan cattle, Qinghai yak and Guangxi buffalo at 36 months

ABSTRACT: Sex condition has been demonstrated to alter meat quality and sex is a major factor that affects the fatty acid composition of lipids of carcass dissectible or intramuscular depot fats. But the possible genetic molecular mechanism of gender causing meat quality differences is not well defined. Qinchuan cattle, Qinghai yak and Guangxi buffalo are three typical indigenous species of cattle in China. Obivious differences of meat quality exist among the three species of cattle. Few studies have been conducted to elucidate the muscle tissue expression of genes involved in pathways and mechanisms leading to meat quality differences beyond the phenotype properties of beef. Bovine Genome Arrays were used to construct muscle expression profiles of the longuissimus dorsi from Qinchuan cattle at 36 months and screen differentially expressed genes in the longuissimus dorsi muscle tissues among different genders of Qinchuan cattle, between Qinchuan cattle and Qinghai yak, and between Qinchuan cattle and Guangxi buffalo.

ORGANISM(S): Bos taurus Bubalus bubalis Bos grunniens

PROVIDER: GSE19586 | GEO | 2009/12/23

SECONDARY ACCESSION(S): PRJNA122361

REPOSITORIES: GEO

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Expression data from the longuissimus dorsi muscle of Qinchuan cattle, Qinghai yak and Guangxi buffalo at 36 months

Project description:Expression data from the longuissimus dorsi muscle of Qinchuan cattle, Qinghai yak and Guangxi buffalo at 36 months

| PRJNA122361 | ENA

Expression of lncRNAs between buffalo and yellow cattle muscle

Project description:Long non-coding RNAs (lncRNAs) have been identified in various tissues and cell types from human, monkey, porcine and mouse. However, expression profile of lncRNAs across Guangxi native cattle and swamp buffalo muscle development has never been investigated. Here, we examine the expression of lncRNA in cattle and buffalo muscle at adult stage(12 months), exhibiting the first report of lncRNA in the Guangxi native cattle and swamp buffalo muscle development of a large animal. 16,236 lncRNA candidates were obtained from buffalo skeletal muscle samples, of which a number of lncRNAs were highly abundant, and 2,161 lncRNAs were differentially expressed between buffalo and cattle. Real-time quantitative PCR (qPCR) analysis confirmed the expression profile of these lncRNAs, including several highly abundant lncRNAs, and a subset of differently expressed lncRNAs according to the high-throughput RNA sequencing (RNA-seq) data. These results indicate that abundant lncRNA is differentially expressed in bovine muscle, indicating important and diverse functions in mammalian muscle development.

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Project description:Buffalo breeding has become an important branch of beef cattle industry. It is of great significance to study buffalo meat production and meat quality. However, the important role of mRNA and lncRNA molecules in muscle stem cells (MuSCs) development in buffalo has not been explored. Then, we performed mRNA and lncRNA expression profiling analysis on the proliferation and differentiation of MuSCs in buffalo. The results showed that there were 4,820 differentially genes, 12,227 mRNAs, and 1,352 lncRNAs. These differentially expressed mRNAs are enriched in biological processes such as cell cycle, p53 signaling pathway, RNA transport, and Calcium signaling pathway and others. We also identified a number of genes, such as MCMC4, SERDINE1, ISLR, LOC102394806, and LOC102403551, and found that interference with MYLPF expression significantly inhibited the differentiation of MuSCs. In conclusion, our research revealed the role of mRNA and lncRNA expression in the differentiation of buffalo MuSCs. This study can be used as an important reference for the study of RNA regulation during muscle development in buffalo.

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Whole Genome Bisulfite Sequencing of Longissimus Dorsi Muscles between Japanese Black (Wagyu) and Chinese Red Steppes Cattle

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2008-11-01 | E-GEOD-9256 | biostudies-arrayexpress

The developmental transcriptome profiling reveals an abundant GosB that regulates cell cycle, proliferation and apoptosis

Project description:Background: In bovines, the development and growth of skeletal muscle involves many physiological processes and plays an extremely important role in the quality of beef, however, the regulatory mechanisms underlying the differences in meat quality are largely unknown. Therefore, a cattle muscle transcriptome analysis was performed to compare gene expression profiles between embryonic stage and adult stage. Results: Total RNAs from the Qinchuan cattle skeletal muscle at fetal and adult stages were used to construct libraries for Illumina next-generation sequencing using Ribo-Zero RNA sequencing (RNA-Seq) method. We found a total of 19,695 genes were expressed in the embryo and adult, and 3,299 and 433 genes were present only in the embryo and adult, respectively. Over 5,000 unigenes were significantly different (P < 0.05) when comparing fetal and adult patterns. We further characterized GosB, which was abundant in skeletal muscle, as the candidate gene to explore its role in cattle development. GosB increased the number of C2C12 myoblasts in S phase, and decreased the proportion of cells in G0/G1 phase. GosB promoted proliferation and protect the C2C12 cells from apoptosis via regulating Bcl-2 expression and controlling the intracellular calcium concentration. Conclusions: Modulation of GosB expression in muscle tissue may emerge as potent tool to control myoblast number in the cattle.

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Project description:Cattle plays an important role in providing essential nutrients through meat production. Thus, we focused on epigenetic factors associated with meat yield. To investigating circulating miRNAs that are involved with meat yield and connect biofluids and longissimus dorsi (LD) muscle in Korean cattle, we performed analyses of the carcass characteristics, miRNA array, qPCR, and bioinformatics. Carcass characteristics relative to the yield grade (YG) showed that the yield index and rib eye area were the highest, whereas the backfat thickness was the lowest for YG A (equal to high yield grade) cattle among the three YGs. miRNA array sorted the circulating miRNAs that connect biofluids and LD muscle. miRNA qPCR showed that miR-15a (r = 0.84), miR-26b (r = 0.91), and miR-29c (r = 0.92) had positive relationships with biofluids and LD muscle. In YG A cattle, miR-26b was considered to be a circulating miRNA connecting biofluids and LD muscle because the target genes of miR-26b was more involved with myogenesis. Then, miR-26b targeted genes, DIAPH3 and YOD1 were downregulated in YG A cattle. Our results suggest that miR-15a, miR-26b, and miR-29c are upregulated in biofluids and LD muscle whereas, downregulation of DIAPH3 and YOD1 in the LD muscle of finishing cattle steers.

2016-03-01 | GSE73389 | GEO

Small RNA sequencing Analysis of adipose in six month calf Chinese swamp buffalo

Project description:Background: Intramuscular fat (IMF) content is an important index for beef quality. However, the genetics of IMF deposition is complex and still largely unclear, especially in buffalo. To identify miRNAs with potential regulatory role in lipid accumulated in muscle, we performed small RNA sequencing and identified miRNAs expressed in the longissimus dorsi muscle and back fat of Chinese buffalo, which provided vital information for further identification of miRNAs with potential regulatory role in the lipid accumulated in muscle. Results: Three small RNA libraries were constructed. A total of 32762032 raw reads were obtained from adipose groups, respectively. After filtering the adaptor and low quality reads, 32054381 clean reads were retained. In total, 623 miRNAs were identified.

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