Blood transcriptome analysis and identification of genes associated with supernumerary teats in Chinese Holstein cows

Chen, Q.Z.; Yang, Manman; Liu, X.Q.; Zhang, J.N.; Mi, Shuangli; Wang, Y.J.; Xiao, Wei; Yu, Ying

doi:10.3168/jds.2022-22346

Cited by 2 publications

(1 citation statement)

References 52 publications

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“…HIC2 gene is revealed that had co-associated with milk composition in cows [90]. Blood transcriptome analysis in Chinese Holstein encoded BRWD3 gene that was signi cantly down-regulated in supernumerary teats [91]. OSMR gene was discovered as a candidate gene in innate immunity in dairy sheep [92], also the potential role of this gene was determined in resistance to udder infection in dairy cattle [93].…”

Section: Discussionmentioning

confidence: 99%

A meta-analysis of differentially expressed microRNA during mastitis disease in dairy cattle

Panahi,

hasanpour,

ghahramani

et al. 2023

Preprint

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Background: Bovine mastitis is an important inflammation disease that affects the mammary gland and causing adverse effects on the quality and quantity of the produced milk, leads to a major economic lost in dairy industry. Streptococcus uberisis one of the bacteria commonly responsible for inducing mastitis in dairy cattle. Susceptibility to develop mastitis is a complex multifactorial phenotype and the improvement of the miRNAs and their target genes has not been comprehensively illustrated. Methods and Results:The purpose of this investigation was to perform a meta-analysis of the miRNAs expression profiling datasets to detect the key miRNAs, targets, and regulatory networks associated with mastitis. To this, publicly available miRNA datasets belong to three experiments on dairy cattle which challenged with S. uberiswere included in our meta-analyzed. The identified differentially expressed miRNAs were used in TargetScan to identify their target genes. The functional impacts of the meta-miRNAs were further analyzed using Gene ontology and Protein-Protein Interaction network analysis. Three meta-miRNAs, namely bta-miR-98, bta-miR-138 and bta-miR-193a-3p, were obtained to be associated with the progress of the immune system and cell differentiation of the mammary gland during the mastitis. A total of 2061 target genes were identified that which bta-miR-98, bta-miR-138 and bta-miR-193a-3p were regulated 1121, 268 and 672 target genes respectively. Gene ontology analysis results were represented 237 biological process, 41 molecular function, 54 cellular component roles and nine KEGG pathways in mastitis disease. A total of 319, 113 and 124 target genes for bta-miR-98, bta-miR-193a-3p and bta-miR-138, respectively were inputted to cytoscape. The resulted network analysis showed that bta-miR-98 and bta-miR-138 have nine, bta-miR-138 and bta-miR-193a-3p have six, and bta-miR-193a-3p and bta-miR-98 have four common target genes. Twenty-one common genes were revealed by combing 360 common meta-genes in our previous research and 2061 meta-miRNA target genes. The procedure reported in this research offers a comprehensive scheme for the identification of the key miRNAs and target genes in mastitis disease by using global transcriptome data, meta-analysis, gene ontology, enrichment analysis and protein protein interaction. Conclusion: The findings of the current work suggest miRNAs are crucial amplifiers of inflammatory response by controlling metabolic pathway and inhibitors of several biological processes during S. uberis infection.

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Section: Discussionmentioning

confidence: 99%

A meta-analysis of differentially expressed microRNA during mastitis disease in dairy cattle

Panahi,

hasanpour,

ghahramani

et al. 2023

Preprint

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Identification of Goat Supernumerary Teat Phenotype Using Wide-Genomic Copy Number Variants

Xu,

Zhang,

Zhang

et al. 2024

Animals

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Supernumerary teats (SNTs) or nipples often emerge around the mammary line. This study performed a genome-wide selective sweep analysis (GWS) at the copy number variant (CNV) level using two selected signal calculation methods (VST and FST) to identify candidate genes associated with SNTs in goats. A total of 12,310 CNVs were identified from 37 animals and 123 CNVs, with the top 1% VST values including 84 candidate genes (CDGs). Of these CDGs, minichromosome maintenance complex component 3, ectodysplasin A receptor associated via death domain, and cullin 5 demonstrated functions closely related to mammary gland development. In addition, 123 CNVs with the top 1% FST values were annotated to 97 CDGs. 5-Hydroxytryptamine receptor 2A, CCAAT/enhancer-binding protein alpha, and the polymeric immunoglobulin receptor affect colostrum secretion through multiple signaling pathways. Two genes, namely, RNA-binding motif protein 46 and β-1,3-galactosyltransferase 5, showed a close relation to mammary gland development. Six CNVs were identified and annotated to five genes by intersecting the top 1% of candidate CNVs with both parameters. These genes include LOC102185621, LOC102190481, and UDP-glucose pyrophosphorylase 2, which potentially affect the occurrence of BC through multiple biological processes, such as cell detoxification, glycogen synthesis, and phospholipid metabolism. In conclusion, we discovered numerous genes related to mammary development and breast cancer (BC) through a GWS, which suggests the mechanism of SNTs in goats and a certain association between mammary cancer and SNTs.

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Blood transcriptome analysis and identification of genes associated with supernumerary teats in Chinese Holstein cows

Cited by 2 publications

References 52 publications

A meta-analysis of differentially expressed microRNA during mastitis disease in dairy cattle

A meta-analysis of differentially expressed microRNA during mastitis disease in dairy cattle

Identification of Goat Supernumerary Teat Phenotype Using Wide-Genomic Copy Number Variants

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