Application of mitochondrial control region in population genetic studies of the shrimp Penaeus

Abstract

This study reports a primer set for amplifying a partial fragment of about 610 bp in the fast mutating mitochondrial control region in shrimps of the genus Penaeus (Decapoda: Penaeidae). The utility of this amplified fragment for studying population differentiation and structuring, compared with more conservative mitochondrial genes (16S rRNA and COI), was explored in P. merguiensis populations over a vast geographical range based on sequence and RFLP analyses. The results indicate that the mitochondrial control region provides more informative sites and reveals more haplotypes, making it most useful for evaluating genetic variations within and between populations of Penaeus species.

Mitochondrial and nuclear DNA variability in the living fossil Triops cancriformis (Bosc, 1801) (Crustacea, Branchiopoda, Notostraca)

“…unexpected for the mitochondrial control region, a marker widely used for population analysis (Chu et al, 2003;Kang et al, 2005;Vianna et al, 2006). Also, the widening of the analysis to a higher number of individuals per population for the 16S gene confirms the low differentiation.…”

“…We, therefore, use different mitochondrial genes (the cytochrome oxidase I gene and the mitochondrial control region) and some previously identified dinucleotide microsatellite loci from the nuclear genome . The mitochondrial markers have proved very useful in previous crustacean genetic studies (Remigio and Hebert, 2000;Chu et al, 2003), while microsatellites are known for their high polymorphism and usually provide a powerful tool for population genetic studies.…”

Verification of the cryptic species Penaeus pulchricaudatus in the commercially important kuruma shrimp P. japonicus (Decapoda : Penaeidae) using molecular taxonomy

“…The extracted DNA was kept at À20 C until analyses. The primers PCRÀ1R and 12SÀ2 (Chu et al 2003) were adopted to amplify a 5 0 segment of the mitochondrial control region (CR) (563 bp). PCR amplification was conducted in a reaction mixture containing 10 ng template DNA, 10 mL Mg 2+ free PCR buffer, 2.5 mM MgCl 2 , 0.12 mM of each primer, 400 mM of dNTPs, 1 unit of Taq polymerase (Promega, Madison, Wisconsin), and ddH 2 O added up to 50 mL.…”

Lack of genetic differentiation of blue spiny lobster Panulirus inflatus along the Pacific coast of Mexico inferred from mtDNA sequences

“…Sarver et al (1998) showed that the 16S gene clearly helped to discriminate between 2 clades of P. argus. The control region (also known as the 'AT-rich' region) in invertebrates -which does not code for a functional gene and therefore is under fewer functional and structural restrictions -leads to high average substitution rates (Saccone et al 1987, Diniz et al 2005, and has also proved to be useful for population genetic studies among crustaceans (Grabowski & Stuck 1999, Chu et al 2003, McMillenJackson & Bert 2003, Grabowski et al 2004, Diniz et al 2005. Diniz et al (2005), using the control region, showed that, in spite of the small sample size, there is very high diversity and genetic structure for P. argus concordant with that found using more conservative DNA sequences.…”