Combined transcriptome and proteome analyses reveal differences in the longissimus dorsi muscle between Kazakh cattle and Xinjiang brown cattle
Open Access
- 1 September 2021
- journal article
- research article
- Published by Asian Australasian Association of Animal Production Societies in Animal Bioscience
- Vol. 34 (9), 1439-1450
- https://doi.org/10.5713/ab.20.0751
Abstract
Objective: With the rapid development of proteomics sequencing and RNA sequencing technology, multi-omics analysis has become a current research hotspot. Our previous study indicated that Xinjiang brown cattle have better meat quality than Kazakh cattle. In this study, Xinjiang brown cattle and Kazakh cattle were used as the research objects. Methods: Proteome sequencing and RNA sequencing technology were used to analyze the proteome and transcriptome of the longissimus dorsi muscle of the two breeds of adult steers (n = 3). Results: In this project, 22,677 transcripts and 1,874 proteins were identified through quantitative analysis of the transcriptome and proteome. By comparing the identified transcriptome and proteome, we found that 1,737 genes were identified at both the transcriptome and proteome levels. The results of the study revealed 12 differentially expressed genes and proteins: troponin I1, crystallin alpha B, cysteine, and glycine rich protein 3, phosphotriesterase-related, myosin-binding protein H, glutathione s-transferase mu 3, myosin light chain 3, nidogen 2, dihydropyrimidinase like 2, glutamate-oxaloacetic transaminase 1, receptor accessory protein 5, and aspartoacylase. We performed functional enrichment of these differentially expressed genes and proteins. The Kyoto encyclopedia of genes and genomes results showed that these differentially expressed genes and proteins are enriched in the fatty acid degradation and histidine metabolism signaling pathways. We performed parallel reaction monitoring (PRM) verification of the differentially expressed proteins, and the PRM results were consistent with the sequencing results. Conclusion: Our study provided and identified the differentially expressed genes and proteins. In addition, identifying functional genes and proteins with important breeding value will provide genetic resources and technical support for the breeding and industrialization of new genetically modified beef cattle breeds.Keywords
This publication has 48 references indexed in Scilit:
- Beef quality with different intramuscular fat content and proteomic analysis using isobaric tag for relative and absolute quantitation of differentially expressed proteinsMeat Science, 2016
- Nutrigenomics and Beef Quality: A Review about LipogenesisInternational Journal of Molecular Sciences, 2016
- Expression Marker-Based Strategy to Improve Beef QualityThe Scientific World Journal, 2016
- Molecular cloning and mRNA expression analysis of sheep MYL3 and MYL4 genesGene, 2016
- Effects of Dietary Linseed Oil and Propionate Precursors on Ruminal Microbial Community, Composition, and Diversity in Yanbian Yellow CattlePLOS ONE, 2015
- Expression of New Loci Associated With Obesity in Diet‐Induced Obese Rats: From Genetics to PhysiologyObesity, 2012
- A missense mutation (p.G274R) in gene ASPA causes Canavan disease in a Pakistani familyMolecular Biology Reports, 2012
- Association of toll‐like receptor 2 polymorphisms with somatic cell score in Xinjiang Brown cattleAnimal Science Journal, 2011
- Role of fatty acid uptake and fatty acid β-oxidation in mediating insulin resistance in heart and skeletal muscleBiochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids, 2010
- Differential expression of entactin-1/nidogen-1 and entactin-2/nidogen-2 in myogenic differentiationDifferentiation, 2006