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Title: | Genomic diversity and selection sweeps identified in Indian swamp buffaloes reveals it's uniqueness with riverine buffaloes |
Other Titles: | Not Available |
Authors: | Kumar, D. Ravi Devadasan, M. Joel Surya, T. Vineeth, M. R. Choudhary, Anjali Sivalingam, Jayakumar Kataria, R. S. Niranjan, S. K. Tantia, M. S. Verma, Archana |
ICAR Data Use Licennce: | http://krishi.icar.gov.in/PDF/ICAR_Data_Use_Licence.pdf |
Author's Affiliated institute: | ICAR::National Dairy Research Institute ICAR::National Bureau of Animal Genetic Resources |
Published/ Complete Date: | 2020-05 |
Project Code: | Not Available |
Keywords: | Genomic diversity ddRAD Buffalo SNP Admixture |
Publisher: | GENOMICS, ACADEMIC PRESS INC ELSEVIER SCIENCE, 525 B ST, STE 1900, SAN DIEGO, CA 92101-4495 USA |
Citation: | Kumar, D. Ravi; Devadasan, M. Joel; Surya, T.; Vineeth, M. R.; Choudhary, Anjali; Sivalingam, Jayakumar; Kataria, R. S.; Niranjan, S. K.; Tantia, M. S.; Verma, Archana. Genomic diversity and selection sweeps identified in Indian swamp buffaloes reveals it's uniqueness with riverine buffaloes, GENOMICS, 112 (3), 2385-2392. doi:10.1016/j.ygeno.2020.01.010 |
Series/Report no.: | Not Available |
Abstract/Description: | The present investigation was focused to study genomic diversity of Indian swamp buffalo populations through reduced representation approach (ddRAD). The heterozygosity (F-ST) among the swamp buffaloes was 0.11 between Assam and Manipuri; 0.20 between swamp (Manipuri) and riverine buffaloes; 0.30 between swamp (Manipuri) and cattle. The average observed and expected heterozygosity in swamp buffalo populations was 0.254 and 0.221 respectively. The Inbreeding coefficient (F-IS) value was 0.02 among the swamp buffaloes. PCA and structure analysis revealed Manipuri swamp buffalo was genetically distinct and closely related to Nagaland swamp buffalo and least to Assam swamp buffalo. Identification of selective sweeps revealed 1087 regions to have undergone selection related to immune response, adaptation and nervous system. A total of 3451 SSRs were identified in the genome of swamp buffaloes. The study evidenced the genomic diversity in the swamp buffalo populations and its uniqueness in comparison with riverine buffalo and cattle. |
Description: | The present work was funded by ICAR-NDRI and the authors thank Directors of ICAR-NDRI and ICAR-NBAGR for the support to carry out this research work. The authors also express their sincere gratitude to Dr Parameswari B, Senior Scientist (Plant Pathology) and Dr Neeraj Kulshreshtha, Principal Scientist (Plant Breeding) and Head, Sugarcane Breeding Institute Regional center, Karnal, Haryana for providing the computational facilities for this work. |
ISSN: | Not Available |
Type(s) of content: | Article |
Sponsors: | ICAR-NDRI ICAR-NBAGR |
Language: | English |
Name of Journal: | Genomics |
NAAS Rating: | 12.21 |
Volume No.: | 112 (3) |
Page Number: | 2385-2392 |
Name of the Division/Regional Station: | Not Available |
Source, DOI or any other URL: | https://doi.org/10.1016/j.ygeno.2020.01.010 |
URI: | http://krishi.icar.gov.in/jspui/handle/123456789/38863 |
Appears in Collections: | AS-NDRI-Publication |
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