Understanding the genomic architecture of clinical mastitis in Bos indicus

Kour, Aneet; Deb, S. M.; Nayee, Nilesh; Raina, V. S.; Yadav, Vandana; Niranjan, S. K.

doi:10.1007/s13205-021-03012-2

Cited by 5 publications

(3 citation statements)

References 86 publications

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“…PLAU gene mediates cell proliferation and migration through the intracellular signal transduction and chemokine activation in dairy cows infected with S. uberis, also FABP3 gene involved in mammary gland lipid metabolism are down-regulated during mastitis [33,102]. RBPJ has been investigated as a potential candidate for mastitis phenotypes due to role in the mastitis infection based on GWAS, DEGs, QTL and proteome studies [103,104]. Function analysis indicated that ZFP36L2 and HYI genes were clustered into in ammatory responses and with a role in innate immunity and in ammation in dairy cows [105].…”

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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“…This protein binds to focal adhesion kinase and mediates the activity of the GTP binding proteins RhoA and Cdc42 [ 63 ]. It was recently identified as a candidate gene for clinical mastitis in Sahiwal cattle, a Bos indicus breed [ 64 ].…”

Section: Discussionmentioning

confidence: 99%

Transcriptomic Analysis of Circulating Leukocytes Obtained during the Recovery from Clinical Mastitis Caused by Escherichia coli in Holstein Dairy Cows

Cheng

Palma-Vera²,

Buggiotti³

et al. 2022

Animals

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The risk and severity of clinical infection with Escherichia coli as a causative pathogen for bovine mastitis is influenced by the hosts’ phenotypic and genotypic variables. We used RNA-Seq analysis of circulating leukocytes to investigate global transcriptomic profiles and genetic variants from Holstein cows with naturally occurring cases of clinical mastitis, diagnosed using clinical symptoms and milk microbiology. Healthy lactation-matched cows served as controls (CONT, n = 6). Blood samples were collected at two time periods during the recovery phase post diagnosis: EARLY (10.3 ± 1.8 days, n = 6) and LATE (46.7 ± 11 days, n = 3). Differentially expressed genes (DEGs) between the groups were identified using CLC Genomics Workbench V21 and subjected to enrichment analysis. Variant calling was performed following GATKv3.8 best practice. The comparison of E. coli(+) EARLY and CONT cows found the up-regulation of 1090 DEGs, mainly with immune and inflammatory functions. The key signalling pathways involved NOD-like and interleukin-1 receptors and chemokines. Many up-regulated DEGs encoded antimicrobial peptides including cathelicidins, beta-defensins, S100 calcium binding proteins, haptoglobin and lactoferrin. Inflammation had largely resolved in the E. coli(+) LATE group, with only 29 up-regulated DEGs. Both EARLY and LATE cows had up-regulated DEGs encoding ATP binding cassette (ABC) transporters and haemoglobin subunits were also up-regulated in LATE cows. Twelve candidate genetic variants were identified in DEGs between the infected and CONT cows. Three were in contiguous genes WIPI1, ARSG and SLC16A6 on BTA19. Two others (RAC2 and ARHGAP26) encode a Rho-family GTPase and Rho GTPase-activating protein 26. These results show that the initial inflammatory response to E. coli continued for at least 10 days despite prompt treatment and provide preliminary evidence for genetic differences between cows that may predispose them to infection.

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“…It has been reported that ZMAT4 is associated with milk yield at the beginning of lactation, milking speed, and temperament in dairy cattle [ 39 , 40 ]. Previous studies showed that ELMO and TRPV2 are associated with resistance to mastitis in dairy cattle [ 41 , 42 ].…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Association Study for Lactation Performance in the Early and Peak Stages of Lactation in Holstein Dairy Cows

Zare

Atashi

Hostens

2022

Animals

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This study aimed to detect genomic loci associated with the lactation performance during 9 to 50 days in milk (DIM) in Holstein dairy cows. Daily milk yield (MY), fat yield (FY), and protein yield (PY) during 9 to 50 DIM were recorded on 134 multiparous Holstein dairy cows distributed in four research herds. Fat- and protein-corrected milk (FPCM), fat-corrected milk (FCM), and energy-corrected milk (ECM) were predicted. The records collected during 9 to 25 DIM were put into the early stage of lactation (EARLY) and those collected during 26 to 50 DIM were put into the peak stage of lactation (PEAK). Then, the mean of traits in each cow included in each lactation stage (EARLY and PEAK) were estimated and used as phenotypic observations for the genome-wide association study. The included animals were genotyped with the Illumina BovineHD Genotyping BeadChip (Illumina Inc., San Diego, CA, USA) for a total of 777,962 single nucleotide polymorphisms (SNPs). After quality control, 585,109 variants were analyzed using GEMMA software in a mixed linear model. Although there was no SNP associated with traits included at the 5% genome-wide significance threshold, 18 SNPs were identified to be associated with milk yield and composition at the suggestive genome-wide significance threshold. Candidate genes identified for milk production traits showed contrasting results between the EARLY and PEAK stages of lactation. This suggests that differential sets of candidate genes underlie the phenotypic expression of the considered traits in the EARLY and PEAK stages of lactation. Although further functional studies are needed to validate our findings in independent populations, it can be concluded that in any genomic study it should be taken into account that the genetic effects of genes related to the lactation performance are not constant during the lactation period.

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Understanding the genomic architecture of clinical mastitis in Bos indicus

Cited by 5 publications

References 86 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

Transcriptomic Analysis of Circulating Leukocytes Obtained during the Recovery from Clinical Mastitis Caused by Escherichia coli in Holstein Dairy Cows

Genome-Wide Association Study for Lactation Performance in the Early and Peak Stages of Lactation in Holstein Dairy Cows

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