Development of two microsatellite multiplex systems for black tiger shrimp Penaeus monodon and its application in genetic diversity study for two populations

Li, Yutao, Wongprasert, Kanokpan, Shekhar, Mudagandur, Ryan, Jennifer, Dierens, Leanne, Meadows, Jennifer, Preston, Nigel, Coman, Greg and Lyons, Russell E. (2007) Development of two microsatellite multiplex systems for black tiger shrimp Penaeus monodon and its application in genetic diversity study for two populations. Aquaculture, 266 1-4: 279-288. doi:10.1016/j.aquaculture.2007.01.038


Author Li, Yutao
Wongprasert, Kanokpan
Shekhar, Mudagandur
Ryan, Jennifer
Dierens, Leanne
Meadows, Jennifer
Preston, Nigel
Coman, Greg
Lyons, Russell E.
Title Development of two microsatellite multiplex systems for black tiger shrimp Penaeus monodon and its application in genetic diversity study for two populations
Journal name Aquaculture   Check publisher's open access policy
ISSN 0044-8486
Publication date 2007-06-01
Sub-type Article (original research)
DOI 10.1016/j.aquaculture.2007.01.038
Volume 266
Issue 1-4
Start page 279
End page 288
Total pages 10
Language eng
Subject 1104 Complementary and Alternative Medicine
Abstract Despite large numbers of putative microsatellites currently listed in databases for Penaeus monodon, there are no publications on assessing these markers for multiplexed high throughput systems either for fingerprinting or population genetics study purposes in P. monodon. Accordingly, we started our investigation on the development of high throughput systems for P. monodon. Ninety publicly-available P. monodon microsatellite sequences were initially screened for suitability. They were assessed for the presence of tri- or tetra-nucleotide repeats, repeat number and type, suitability of flanking sequences for primer design and estimated size of product (100 to 350 bp). Nineteen sequences were chosen for preliminary assessment on a panel of 15 animals. Of the 19 tested, only 12 were suitable for further investigation. Therefore a 2-step enrichment library approach was adopted to develop additional microsatellites. Of 42 new unique microsatellite sequences obtained, eight sequences were assessed and seven showed polymorphism. Together, these 19 markers were examined further for their ease of amplification and reliability of allele calling for inclusion in high throughput systems. Thirteen polymorphic markers were incorporated into two multiplex systems (six and seven markers, respectively). These multiplexed systems were then used to evaluate the genetic diversity between two populations of P. monodon, one from the East Coast of Australia and a single pond containing farmed animals from Thailand. There were significant differences between the two populations. Three markers in system 1 showed Hardy-Weinberg disequilibrium in both populations, indicating their unsuitability as high throughput system markers. Using two systems and the UPGMA clustering methods revealed the existence of sub-populations within the Australian wild population. The results indicate the usefulness of the two multiplexed microsatellite systems in genetic diversity studies. Crown Copyright
Keyword Genetic diversity
Microsatellite markers
Multiplex systems
Penaeus monodon
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Unknown

Document type: Journal Article
Sub-type: Article (original research)
Collections: ResearcherID Downloads
Scopus Import
 
Versions
Version Filter Type
Citation counts: TR Web of Science Citation Count  Cited 23 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 25 times in Scopus Article | Citations
Google Scholar Search Google Scholar
Created: Tue, 09 Dec 2014, 11:46:58 EST by System User