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Expression of lncRNAs between buffalo and yellow cattle muscle

ABSTRACT: Expression of lncRNAs between buffalo and yellow cattle muscle

PROVIDER: PRJNA510097 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8318863_1.fastq.gz	Fastqsanger.gz
	SRR8318863_2.fastq.gz	Fastqsanger.gz
	SRR8318864_1.fastq.gz	Fastqsanger.gz
	SRR8318864_2.fastq.gz	Fastqsanger.gz
	SRR8318865_1.fastq.gz	Fastqsanger.gz

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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.

2019-12-20 | GSE123869 | GEO

Comparative transcriptome analysis in adipose and muscle between Chinese buffalo and cattle.

Project description:Background: Intramuscular fat (IMF) content is highly valued as it improves meat product quality by enhancing taste, juiciness, and tenderness. IMF content can be significantly different between breeds. Thought many lipid metabolism-related genes are stated to be associated with IMF deposition, the molecular mechanism of IMF deposition is still poorly understood. To date, no gene or mutation loci responsible for the difference of IMF content among cattle breeds has been identified. To identify transcripts with potential regulatory role in lipid accumulated in muscle tissue, RNA sequencing was performed to compare the mRNAs, lncRNAs, and circRNAs expression patterns in the longissimus dorsi muscle and back fat between Chinese buffalo and cattle. Results: A total of 12 cDNA libraries were constructed. A total of 925,441,106 and 512,507,068 raw reads were obtained from buffalo and cattle, respectively. After filtering the adaptor and low quality reads, 909,040,352 and 491,967,820 clean reads were retained. In total, 19,917 mRNAs, 43,975 lncRNAs, and 10,701 circRNAs were identified in buffalo and 19,383 mRNAs, 8,265 lncRNAs, and 18,535 circRNAs were identified in cattle.

2020-10-20 | GSE139102 | GEO

Comparative analysis of microRNA expression profiles of adult Schistosoma japonicum isolated from water buffalo and yellow cattle

Project description:To investigate microRNAs (miRNAs) involving in the regulation of the schistosome development and survival, we compared miRNA expression profiles of adult Schistosoma japonicum derived from yellow cattle and water buffalo using high-throughput sequencing with Illumina Hiseq Xten.

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Comparison and analysis of gene expression between cattle and buffalo after infection with schistosoma japonicum

Project description:The microarray analysis of gene expression difference between cattle and buffalo, provide us a profiling as a new platform to discover the difference between their compatibility with schistosoma japonicum.

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

Project description: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.

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Quantitative proteomics reveals significant variation in host responses of cattle with differing buffalo fly susceptibility

Project description:This project aimed to characterise the immune response of cattle to buffalo fly infestation using cattle serum samples. The cattle were phenotyped into two groups, high buffalo fly burden and low buffalo fly burden cattle, following exposure to buffalo flies. The SWATH analysis was sued to measure the relative abundance of proteins in serum samples of the two groups at different time points.

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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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Comparative proteomic analysis of erythrocyte proteins of buffalo, cattle, cow and Babesia orientalis-infected buffalo by shotgun LC-MS/MS approach

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Comparative transcriptome analysis in adipose and muscle between Chinese buffalo and cattle.

Project description:Comparative transcriptome analysis in adipose and muscle between Chinese buffalo and cattle.

| PRJNA578388 | ENA

whole-transcriptome analysis of Granulosa Cells Between the Healthy and Atresia Follicles in Chinese Buffalo

Project description:GCs were collected from HFs and AFs , to use second-generation high-throughput sequencing for whole-transcriptome analysis, respectively. In total, 1861 and 1075 mRNAs, 159 and 24 miRNAs, 123 and 100 lncRNAs, and 58 and 54 circRNAs were identified to be differentially expressed (DE) in up-regulated and down-regulated. Enrichment of functions and signaling pathways of the DEgenes showed that most of DEmRNAs and targets of DEmiRNAs, DElncRNAs and DEcricRNAs were annotated to the categories of ‘PI3K-Akt signaling pathway’, ‘ECM-receptor interaction’, ‘Focal adhesion’, ‘mTOR signaling pathway ’ ‘TGF-beta signaling pathway’, ‘Rap1 signaling pathway’, and ‘Estrogen signaling pathway’. The ceRNA (competing endogenous RNA) network was constructed based on ceRNA theory further revealed regulatory roles of these DERNAs in granulosa cells of buffalo atretic follicles. A large number of mRNAs, lncRNAs, circRNAs, and miRNAs in buffalo granulosa were altered in healthy and atretic follicles, which may play crucial roles in atretic of buffalo follicles through the ceRNA regulatory network.

2021-03-16 | GSE157686 | GEO

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