Characterization, development and multiplexing of microsatellite markers in three commercially exploited reef fish and their application for stock identification

Taillebois, Laura, Dudgeon, Christine, Maher, Safia, Crook, David A., Saunders, Thor M., Barton, Diane P., Taylor, Jonathan A., Welch, David J., Newman, Stephen J., Travers, Michael J., Saunders, Richard J., and Ovenden, Jennifer (2016) Characterization, development and multiplexing of microsatellite markers in three commercially exploited reef fish and their application for stock identification. PeerJ, 4. e2418. pp. 1-18.

[img]
Preview
PDF (Published Version) - Published Version
Available under License Creative Commons Attribution.

Download (269kB) | Preview
View at Publisher Website: http://dx.doi.org/10.7717/peerj.2418
 
3
41


Abstract

Thirty-four microsatellite loci were isolated from three reef fish species; golden snapper Lutjanus johnii, blackspotted croaker Protonibea diacanthus and grass emperor Lethrinus laticaudis using a next generation sequencing approach. Both IonTorrent single reads and Illumina MiSeq paired-end reads were used, with the latter demonstrating a higher quality of reads than the IonTorrent. From the 1-1.5 million raw re ads per species, we successfully obtained 10-13 polymorphic loci for each species, which satisfied stringent design criteria. We developed multiplex panels for the amplification of the golden snapper and the blackspotted croaker loci, as well as post-amplification pooling panels for the grass emperor loci. The microsatellites characterized in this work were tested across three locations of northern Australia. The microsatellites we developed can detect population differentiation across northern Australia and may be used for genetic structure studies and stock identification.

Item ID: 46084
Item Type: Article (Research - C1)
ISSN: 2167-8359
Keywords: next-generation sequencing, Lutjanus johnii, Protonibea diacanthus, multiplex panels, microsatellite markers, Lethrinus laticaudis
Additional Information:

Copyright 2016 Taillebois et al. Distributed under Creative Commons CC-BY 4.0

Funders: Fisheries Research and Development Corporation (FRDC), North Australia Marine Research Alliance
Projects and Grants: FRDC Project 2013/017
Date Deposited: 19 Oct 2016 07:35
FoR Codes: 06 BIOLOGICAL SCIENCES > 0604 Genetics > 060408 Genomics @ 50%
07 AGRICULTURAL AND VETERINARY SCIENCES > 0704 Fisheries Sciences > 070405 Fish Physiology and Genetics @ 50%
SEO Codes: 83 ANIMAL PRODUCTION AND ANIMAL PRIMARY PRODUCTS > 8301 Fisheries - Aquaculture > 830102 Aquaculture Fin Fish (excl. Tuna) @ 50%
97 EXPANDING KNOWLEDGE > 970106 Expanding Knowledge in the Biological Sciences @ 50%
Downloads: Total: 41
Last 12 Months: 16
More Statistics

Actions (Repository Staff Only)

Item Control Page Item Control Page