Evaluation of two bovine SNP genotyping arrays for breed clustering and stratification analysis in well-known <i>taurine</i> and <i>indicine</i> breeds

Ahmad, Sheikh Firdous; Panigrahi, Manjit; Dar, Rouf Rashid; Narayanan, K.; Bhushan, Bharat

doi:10.1080/10495398.2019.1578227

Cited by 6 publications

(2 citation statements)

References 18 publications

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“…This is not suitable for meat analytics where profit margins are low and results are required within days of sampling. However, array-based technologies have already proven their cost-effectiveness for livestock breeding ( 59 , 60 ) and have the capacity to provide the high throughput and robustness required to determine quantitative methylation profiles on livestock genomes. The development of such arrays is currently underway, but limited by its restriction to evolutionary conserved methylation marks ( 49 , 61 ).…”

Section: Application Potential Of Dna Methylation Biomarkers In Anima...mentioning

confidence: 99%

Epigenetic biomarkers for animal welfare monitoring

et al. 2023

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Biomarkers for holistic animal welfare monitoring represent a considerable unmet need in veterinary medicine. Epigenetic modifications, like DNA methylation, provide important information about cellular states and environments, which makes them highly attractive for biomarker development. Up until now, much of the corresponding research has been focused on human cancers. However, the increasing availability of animal genomes and epigenomes has greatly improved our capacity for epigenetic biomarker development. In this review, we provide an overview about animal DNA methylation patterns and the technologies that enable the analysis of these patterns. We also describe the key frameworks for compound DNA methylation biomarkers, DNA methylation clocks and environment-specific DNA methylation signatures, that allow complex, context-dependent readouts about animal health and disease. Finally, we provide practical examples for how these biomarkers could be applied for health and environmental exposure monitoring, two key aspects of animal welfare assessments. Taken together, our article provides an overview about the molecular and biological foundations for the development of epigenetic biomarkers in veterinary science and their application potential in animal welfare monitoring.

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Section: Application Potential Of Dna Methylation Biomarkers In Anima...mentioning

confidence: 99%

Epigenetic biomarkers for animal welfare monitoring

et al. 2023

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“…The modern domestic cattle is composed by two distinct subspecies, Bos primigenius taurus (taurine cattle) and Bos primigenius indicus (indicine cattle), originated from European and Asian continent, respectively [1]. These subspecies show many differences in morphophysiological and genetic parameters [2,3] which influence infection and parasitic diseases outcome in bovine cattle [3][4][5]. Even within subspecies, breeds show differences in the amount and response of immune cells as well as inflammatory mediators production [6][7][8][9].…”

Section: Introductionmentioning

confidence: 99%

Lipopolysaccharide triggers different transcriptional signatures in taurine and indicine cattle macrophages: Reactive oxygen species and potential outcomes to the development of immune response to infections

Daibert¹,

Biagi

Vieira³

et al. 2020

PLoS ONE

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Macrophages are classified upon activation as classical activated M1 and M2 anti-inflammatory regulatory populations. This macrophage polarization is well characterized in humans and mice, but M1/M2 profile in cattle has been far less explored. Bos primigenius taurus (taurine) and Bos primigenius indicus (indicine) cattle display contrasting levels of resistance to infection and parasitic diseases such as C57BL/6J and Balb/c murine experimental models of parasite infection outcomes based on genetic background. Thus, we investigated the differential gene expression profile of unstimulated and LPS stimulated monocyte-derived macrophages (MDMs) from Holstein (taurine) and Gir (indicine) breeds using RNA sequencing methodology. For unstimulated MDMs, the contrast between Holstein and Gir breeds identified 163 Differentially Expressed Genes (DEGs) highlighting the higher expression of C-C chemokine receptor type five (CCR5) and BOLA-DQ genes in Gir animals. LPS-stimulated MDMs from Gir and Holstein animals displayed 1,257 DEGs enriched for cell adhesion and inflammatory responses. Gir MDMs cells displayed a higher expression of M1 related genes like Nitric Oxide Synthase 2 (NOS2), Toll like receptor 4 (TLR4), Nuclear factor NF-kappa-B 2 (NFKB2) in addition to higher levels of transcripts for proinflammatory cytokines, chemokines, complement factors and the acute phase protein Serum Amyloid A (SAA). We also showed that gene expression of inflammatory M1 population markers, complement and SAA genes was higher in Gir in buffy coat peripheral cells in addition to nitric oxide concentration in MDMs supernatant and animal serum. Co-expression analyses revealed that Holstein and Gir animals showed different transcriptional signatures in the MDMs response to LPS that impact on cell cycle regulation, leukocyte migration and extracellular matrix organization biological processes. Overall, the results suggest that Gir animals show a natural propensity to generate a more pronounced M1 inflammatory response than Holstein, which might account for a faster immune response favouring resistance to many infection diseases.

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Bioinformatics: Unveiling the Systems Biology

Kumar,

Ahmad

2023

Livestock Diseases and Management

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Evaluation of two bovine SNP genotyping arrays for breed clustering and stratification analysis in well-known taurine and indicine breeds

Cited by 6 publications

References 18 publications

Epigenetic biomarkers for animal welfare monitoring

Epigenetic biomarkers for animal welfare monitoring

Lipopolysaccharide triggers different transcriptional signatures in taurine and indicine cattle macrophages: Reactive oxygen species and potential outcomes to the development of immune response to infections

Bioinformatics: Unveiling the Systems Biology

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