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Sajjanar B, Aalam MT, Khan O, Dhara SK, Ghosh J, Gandham RK, Gupta PK, Chaudhuri P, Dutt T, Singh G, Mishra BP. Genome-wide DNA methylation profiles regulate distinct heat stress response in zebu (Bos indicus) and crossbred (Bos indicus × Bos taurus) cattle. Cell Stress Chaperones 2024; 29:603-614. [PMID: 38936463 PMCID: PMC11264184 DOI: 10.1016/j.cstres.2024.06.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Revised: 05/22/2024] [Accepted: 06/20/2024] [Indexed: 06/29/2024] Open
Abstract
Epigenetic variations result from long-term adaptation to environmental factors. The Bos indicus (zebu) adapted to tropical conditions, whereas Bos taurus adapted to temperate conditions; hence native zebu cattle and its crossbred (B indicus × B taurus) show differences in responses to heat stress. The present study evaluated genome-wide DNA methylation profiles of these two breeds of cattle that may explain distinct heat stress responses. Physiological responses to heat stress and estimated values of Iberia heat tolerance coefficient and Benezra's coefficient of adaptability revealed better relative thermotolerance of Hariana compared to the Vrindavani cattle. Genome-wide DNA methylation patterns were different for Hariana and Vrindavani cattle. The comparison between breeds indicated the presence of 4599 significant differentially methylated CpGs with 756 hypermethylated and 3845 hypomethylated in Hariana compared to the Vrindavani cattle. Further, we found 79 genes that showed both differential methylation and differential expression that are involved in cellular stress response functions. Differential methylations in the microRNA coding sequences also revealed their functions in heat stress responses. Taken together, epigenetic differences represent the potential regulation of long-term adaptation of Hariana (B indicus) cattle to the tropical environment and relative thermotolerance.
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Affiliation(s)
- Basavaraj Sajjanar
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India; ICAR-Indian Veterinary Research Institute, Bengaluru Campus, Bengaluru, Karnataka, India.
| | - Mohd Tanzeel Aalam
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Owais Khan
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Sujoy K Dhara
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Jyotirmoy Ghosh
- ICAR-National Institute of Animal Nutrition and Physiology, Bengaluru, Karnataka, India
| | - Ravi Kumar Gandham
- ICAR-National Bureau of Animal Genetic Resources, Karnal, Haryana, India
| | - Praveen K Gupta
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Pallab Chaudhuri
- ICAR-Indian Veterinary Research Institute, Bengaluru Campus, Bengaluru, Karnataka, India
| | - Triveni Dutt
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India
| | - Gyanendra Singh
- ICAR-Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, India.
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Prihandini PW, Tribudi YA, Hariyono DNH, Sari APZNL, Praharani L, Handiwirawan E, Tiesnamurti B, Romjali E, Matitaputty PR, Wiyono A. Biodiversity of Indonesian indigenous buffalo: First review of the status, challenges, and development opportunities. Vet World 2023; 16:2217-2229. [PMID: 38152276 PMCID: PMC10750752 DOI: 10.14202/vetworld.2023.2217-2229] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2023] [Accepted: 10/03/2023] [Indexed: 12/29/2023] Open
Abstract
In Indonesia, the buffalo is important for small and marginal farmers' livelihood and economic development as a source of food, working animal, and tourist attraction. Therefore, an in-depth study is needed to examine challenges and opportunities for buffalo development in Indonesia. In Indonesia, the buffalo is divided into two types: swamp buffalo and river buffalo. The buffalo population in Indonesia has declined significantly. A decrease of approximately 39.35% was recorded from 2022 to 2017. The decline occurred due to low reproduction rate and suboptimal rearing management systems. There are three buffalo-rearing systems: Intensive, semi-intensive, and extensive. The productivity of buffalo is diverse and closely related to the characteristics of the regional agroecosystem, consistent with existing natural resources and rearing management systems. The diversity of buffalo productivity provides a good opportunity to improve productivity. Improvement of buffalo genetics is urgently needed, by improving mating management, etc., especially to reduce potential inbreeding. In recent years, genetic and molecular research on Indonesian buffalo has made progress, including use of molecular markers, such as microsatellites and single-nucleotide polymorphisms, to evaluate genetic diversity within and among buffalo populations across Indonesia. In addition, studies are being conducted on the relationship of genotype mutations that contribute to appearance and phenotypic performance (heat stress, reproduction, behavior, coat color, and production attributes) in buffaloes. Identification of genetic diversity in local buffaloes can be improved using various genetic and genomic techniques. These findings will form a basis for the targeted conservation of local buffaloes in Indonesia. This study aimed to collect information on the genetic resources of the local buffalo, particularly its status and production system and provide recommendations for developing buffalo production in Indonesia.
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Affiliation(s)
- Peni Wahyu Prihandini
- Research Center for Animal Husbandry, Research Organization for Agriculture and Food, National Research and Innovation Agency, Cibinong, Bogor, 16915, Indonesia
| | - Yuli Arif Tribudi
- Department of Animal Science, Faculty of Agriculture, Universitas Tanjungpura, Pontianak, 78121, Indonesia
| | - Dwi Nur Happy Hariyono
- Department of Animal Science, Faculty of Agriculture, Universitas Khairun, Ternate, 97719, Indonesia
| | | | - Lisa Praharani
- Research Center for Animal Husbandry, Research Organization for Agriculture and Food, National Research and Innovation Agency, Cibinong, Bogor, 16915, Indonesia
| | - Eko Handiwirawan
- Research Center for Animal Husbandry, Research Organization for Agriculture and Food, National Research and Innovation Agency, Cibinong, Bogor, 16915, Indonesia
| | - Bess Tiesnamurti
- Research Center for Animal Husbandry, Research Organization for Agriculture and Food, National Research and Innovation Agency, Cibinong, Bogor, 16915, Indonesia
| | - Endang Romjali
- Research Center for Animal Husbandry, Research Organization for Agriculture and Food, National Research and Innovation Agency, Cibinong, Bogor, 16915, Indonesia
| | - Procula Rudlof Matitaputty
- Research Center for Animal Husbandry, Research Organization for Agriculture and Food, National Research and Innovation Agency, Cibinong, Bogor, 16915, Indonesia
| | - Agus Wiyono
- Research Center for Veterinary Science, Research Organization for Health, National Research and Innovation Agency, Cibinong, Bogor, 16915, Indonesia
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