Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle.

Scientific Reports
Lili DuHuijiang Gao

Abstract

Water holding capacity (WHC) is an important sensory attribute that greatly influences meat quality. However, the molecular mechanism that regulates the beef WHC remains to be elucidated. In this study, the longissimus dorsi (LD) muscles of 49 Chinese Simmental beef cattle were measured for meat quality traits and subjected to RNA sequencing. WHC had significant correlation with 35 kg water loss (r = - 0.99, p < 0.01) and IMF content (r = 0.31, p < 0.05), but not with SF (r = - 0.20, p = 0.18) and pH (r = 0.11, p = 0.44). Eight individuals with the highest WHC (H-WHC) and the lowest WHC (L-WHC) were selected for transcriptome analysis. A total of 865 genes were identified as differentially expressed genes (DEGs) between two groups, of which 633 genes were up-regulated and 232 genes were down-regulated. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment revealed that DEGs were significantly enriched in 15 GO terms and 96 pathways. Additionally, based on protein-protein interaction (PPI) network, animal QTL database (QTLdb), and relevant literature, the study not only confirmed seven genes (HSPA12A, HSPA13, PPARγ, MYL2, MYPN, TPI, and ATP2A1) influenced WHC in accordance with previous studies...Continue Reading

References

Dec 1, 1992·Protein Science : a Publication of the Protein Society·R FalchettoE Carafoli
Jan 1, 1991·Physiological Reviews·E Carafoli
Aug 1, 1989·Journal of Muscle Research and Cell Motility·A BlanchardD Critchley
May 1, 1995·Journal of Animal Science·R G TaylorD E Goll
Feb 7, 2002·Journal of Agricultural and Food Chemistry·Hanne Christine BertramHenrik Jørgen Andersen
Dec 13, 2003·The Biochemical Journal·Anne Marie CorganJeffrey A Greenwood
Apr 21, 2007·Annals of the New York Academy of Sciences·Emanuel E StrehlerAgnes Enyedi
Dec 6, 2007·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·D G J JennenC Phatsara
Dec 6, 2007·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·E Huff-Lonergan, S M Lonergan
Dec 6, 2007·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·J K Apple
Feb 16, 2008·Critical Reviews in Food Science and Nutrition·Qiaofen Cheng, Da-Wen Sun
Mar 18, 2008·European Journal of Cell Biology·Silvia M GoicoecheaCarol A Otey
Jun 23, 2010·Meat Science·Elisabeth Huff LonerganSteven M Lonergan
Sep 3, 2010·Genetics and Molecular Research : GMR·Y JiaoB L Guo
Nov 26, 2010·Nature·Pakorn KanchanawongClare M Waterman
Jan 1, 1986·Meat Science·K O HonikelP Roncales
Jan 1, 1988·Meat Science·J R Bendall, H J Swatland
Nov 1, 2008·Meat Science·Ida Krestine StraadtHanne Christine Bertram
Mar 30, 2012·Omics : a Journal of Integrative Biology·Guangchuang YuQing-Yu He

❮ Previous
Next ❯

Software Mentioned

SPSS
FeatureCounts
Search Tool for the Retrieval of Interacting Genes ( STRING )
clusterProfiler
DESeq2
HISAT2
Trimmomatic
FastQC
MultiQC
SAMtools

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.