KRISHI
ICAR RESEARCH DATA REPOSITORY FOR KNOWLEDGE MANAGEMENT
(An Institutional Publication and Data Inventory Repository)
"Not Available": Please do not remove the default option "Not Available" for the fields where metadata information is not available
"1001-01-01": Date not available or not applicable for filling metadata infromation
"1001-01-01": Date not available or not applicable for filling metadata infromation
Please use this identifier to cite or link to this item:
http://krishi.icar.gov.in/jspui/handle/123456789/70229| Title: | De novo Assembly and Genome-Wide SNP Discovery in Rohu Carp, Labeo rohita |
| Other Titles: | Not Available |
| Authors: | Paramananda Das Lakshman Sahoo Sofia P. Das Amrita Bit Chaitanya G. Joshi Basdeo Kushwaha Dinesh Kumar Tejas M. Shah Ankit T. Hinsu Namrata Patel Siddhi Patnaik Suyash Agarwal Manmohan Pandey Shreya Srivastava Prem Kumar Meher Pallipuram Jayasankar Prakash G. Koringa Naresh S. Nagpure Ravindra Kumar Mahender Singh Mir Asif Iquebal Sarika Jaiswal Neeraj Kumar Mustafa Raza Kanta Das Mahapatra Joykrushna Jena |
| ICAR Data Use Licennce: | http://krishi.icar.gov.in/PDF/ICAR_Data_Use_Licence.pdf |
| Author's Affiliated institute: | ICAR::Central Institute of Freshwater Aquaculture Anand Agricultural University, Anand ICAR::National Bureau of Fish Genetic Resources ICAR::Indian Agricultural Statistics Research Institute Krishi Anusandhan Bhawan - II, New Delhi |
| Published/ Complete Date: | 2020-04-21 |
| Project Code: | Not Available |
| Keywords: | rohu carp draft genome de novo assembly orthologous gene family synteny phylogenetics otophysan |
| Publisher: | Not Available |
| Citation: | Das P, Sahoo L, Das SP, Bit A, Joshi CG, Kushwaha B, Kumar D, Shah TM, Hinsu AT, Patel N, Patnaik S, Agarwal S, Pandey M, Srivastava S, Meher PK, Jayasankar P, Koringa PG, Nagpure NS, Kumar R, Singh M, Iquebal MA, Jaiswal S, Kumar N, Raza M, Das Mahapatra K and Jena J (2020) De novo Assembly and Genome-Wide SNP Discovery in Rohu Carp, Labeo rohita. Front. Genet. 11:386. doi: 10.3389/fgene.2020.00386 |
| Series/Report no.: | Not Available; |
| Abstract/Description: | Here we report for the first time the draft genome of Indian major carp, rohu widely cultured in Indian subcontinent. The scaffold N50 was found to be 1.95 Mb and there were 26,400 protein coding genes and 40.63% repeats. Resequencing of 10 riverine rohu populations identified ~5 million SNPs which will provide a valuable resource for undertaking genome wide association studies, genomic selection, population genomics and fine-mapping of QTLs in this species. Phylogenetic analysis taking protein sequences of 335 single copy genes of 14 Otophysans revealed that rohu carp (Labeoninae) was at a position equidistant to the other species in the Otophysi clade, forming a sister group. All the six families and four subfamilies under the four otophysan lineages were monophyletic. |
| Description: | Not Available |
| ISSN: | Not Available |
| Type(s) of content: | Research Paper |
| Sponsors: | Not Available |
| Language: | English |
| Name of Journal: | Frontiers in Genetics |
| Impact Factor: | 4.599 |
| Volume No.: | 11 |
| Page Number: | 386 |
| Name of the Division/Regional Station: | Not Available |
| Source, DOI or any other URL: | https://doi.org/10.3389/fgene.2020.00386 |
| URI: | http://krishi.icar.gov.in/jspui/handle/123456789/70229 |
| Appears in Collections: | AEdu-IASRI-Publication |
Files in This Item:
| File | Description | Size | Format | |
|---|---|---|---|---|
| De novo Assembly and Genome-Wide SNP Discovery in Rohu Carp, Labeo rohita.pdf | 4.09 MB | Adobe PDF | View/Open |
Items in KRISHI are protected by copyright, with all rights reserved, unless otherwise indicated.