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Title: | Development and characterization of genic SSR markers from low depth genome sequence of Clarias batrachus (magur) |
Other Titles: | Not Available |
Authors: | SHREYA SRIVASTAVA BASDEO KUSHWAHA JYOTI PRAKASH RAVINDRA KUMAR N. S. NAGPURE SUYASH AGARWAL MANMOHAN PANDEY P.DAS C.G. JOSHI J. K. JENA |
ICAR Data Use Licennce: | http://krishi.icar.gov.in/PDF/ICAR_Data_Use_Licence.pdf |
Author's Affiliated institute: | ICAR-National Bureau of Fish Genetic Resources AMITY University Uttar Pradesh, Lucknow ICAR-Central Institute of Freshwater Aquaculture Anand AgriculturalUniversity, Anand |
Published/ Complete Date: | 2016-09 |
Project Code: | Not Available |
Keywords: | microsatellites next generation sequencing genic region Clarias batrachus (magur) |
Publisher: | Indian Academy of Sciences |
Citation: | Srivastava S., Kushwaha B., Prakash J., Kumar R., Nagpure N. S., Agarwal S., Pandey M., Das P., Joshi C. G. and Jena J. K. 2016. Development and characterization of genic SSR markers from low depth genome sequence of Clarias batrachus (magur). J. Genet.95, 603–609 |
Series/Report no.: | Not Available; |
Abstract/Description: | Indian magur (Clarias batrachus) is an important freshwater catfish, which is listed as endangered under A3cde+4acde ver.3.1 categories by the IUCN (2015) due to decreasing population trend. Micro-satellites or short sequence repeats (SSRs) tagged to genes have been utilized as gene marker. In the present study, 31,814 SSRs of C. batrachus (magur) were identified using microsatellite identification tool programme from the next generation sequencing data generated on Roche 454 and Ion Torrent platforms. A bioinformatics pipeline, with stringent criteria resulted in selection of 1672 microsatellite loci falling in the genic region. Initially, a total of 30 loci were selected for primer development; and of these 14 were successfully amplified and five were found to be polymorphic in 30 individuals of C. batrachus (magur). The observed as well as expected heterozygosity ranged from 0.038 to 0.526 and 0.434 to 0.784, respectively, and the number of observed alleles ranged from three to five.The study reported the application of next generation sequencing technologies for rapid development of microsatellite loci in Indian catfish species,C. batrachus (magur). |
Description: | Not Available |
ISSN: | 0022-1333 (print) 0973-7731 (online) |
Type(s) of content: | Research Paper |
Sponsors: | The financial support provided by Department of Biotechnology, Government of India vide sanction grant no. BT/PR3688/AAQ/3/571/2011 for present work is duly acknowledged |
Language: | English |
Name of Journal: | Journal of Genetics |
Journal Type: | Quarterly, 4 issues per year. The journal covers all areas of genetics and evolution, including molecular genetics and molecular evolution. The journal retains its traditional interest in evolutionary research that is of relevance to geneticists, even if it is not explicitly genetical in nature. It publishes research papers and reviews articles on current topics, commentaries and essays on ideas and trends in genetics and evolutionary biology, historical developments, debates and book reviews. |
NAAS Rating: | 6.99 |
Impact Factor: | 1.166 |
Volume No.: | 95, No. 3 |
Page Number: | 603–609 |
Name of the Division/Regional Station: | Molecular Biology and Biotechnology |
Source, DOI or any other URL: | DOI 10.1007/s12041-016-0672-8 https://www.ias.ac.in/article/fulltext/jgen/095/03/0603-0609 |
URI: | http://krishi.icar.gov.in/jspui/handle/123456789/49476 |
Appears in Collections: | FS-NBFGR-Publication |
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