NDLI: Identification and characterization of SSRs in Clarias batrachus and their application in population study

Content Provider	Springer Nature Link
Author	Srivastava, Shreya Kushwaha, Basdeo Prakash, Jyoti Pandey, Manmohan Agarwal, Suyash Kumar, Ravindra Nagpure, N. S. Singh, Mahender Das, Paramananda Joshi, Chaitanya Jena, Joy Krushna
Copyright Year	2017
Abstract	Magur Clarias batrachus is an indigenous catfish, commonly found in India, Nepal, Bhutan and Bangladesh. Presently, the populations of magur have declined rapidly in their natural habitat mainly due to overexploitation and habitat degradation. Understanding the population genetic structure of the species has significance in improvement of stocks and in conservation of the species. In the present study, simple sequence repeat (SSR) markers were used to differentiate the populations of magur, collected from three geographic locations. For this, a total of 31,814 SSRs were mined from the de novo assembled pooled of whole genome sequence data of C. batrachus. A bioinformatics pipeline with stringent criteria was applied to analyze the data which resulted in selection of 30,142 microsatellite loci falling in the intergenic region. Out of the 25 loci selected for primer development, 16 loci were successfully amplified and 9 loci were found to be polymorphic in this species. The average observed as well as expected heterozygosity in the loci across different stocks varied from 0.652 to 0.688 and 0.864 to 0.873, respectively. These three populations were further segregated into two clusters based on the NJ genetic distance. The Lucknow population formed one cluster, while the Bhubaneswar and Kolkata populations constituted another cluster. A comparable finding was also deduced from the STRUCTURE analyses. The results revealed significant variation among the populations of C. batrachus under study.
Starting Page	265
Ending Page	272
Page Count	8
File Format	PDF
ISSN	09199268
Journal	Fisheries Science
Volume Number	83
Issue Number	2
e-ISSN	14442906
Language	English
Publisher	Springer Japan
Publisher Date	2017-01-27
Publisher Place	Tokyo
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Clarias batrachus Intergenic region Microsatellites NGS Fish & Wildlife Biology & Management Freshwater & Marine Ecology Food Science
Content Type	Text
Resource Type	Article
Subject	Aquatic Science

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Population structure and stock identification of chum salmon Oncorhynchus keta from Japan determined by microsatellite DNA variation

Application of supercooling to long-term storage of fish meat

Quantitative loop-mediated isothermal amplification method for the detection of Vibrio nigripulchritudo in shrimp

Effects of red clover extract on growth performance and body composition of African catfish Clarias gariepinus

In memoriam: Professor Chiaki Koizumi (1934–2016)

In Memoriam: Professor Akira Kawai (1926–2010)

In Memoriam: Professor Michizo Suyama (1923–2011)

In Memoriam: Professor Tamotsu Tamura (1917–2009)

In Memoriam: Professor Akio Kanazawa (1930–2009)

Identification and characterization of SSRs in Clarias batrachus and their application in population study

Similar Documents

Population structure and stock identification of chum salmon Oncorhynchus keta from Japan determined by microsatellite DNA variation

Application of supercooling to long-term storage of fish meat

Quantitative loop-mediated isothermal amplification method for the detection of Vibrio nigripulchritudo in shrimp

Effects of red clover extract on growth performance and body composition of African catfish Clarias gariepinus

In memoriam: Professor Chiaki Koizumi (1934–2016)

In Memoriam: Professor Akira Kawai (1926–2010)

In Memoriam: Professor Michizo Suyama (1923–2011)

In Memoriam: Professor Tamotsu Tamura (1917–2009)

In Memoriam: Professor Akio Kanazawa (1930–2009)

Identification and characterization of SSRs in Clarias batrachus and their application in population study