Isolation and multiplex genotyping of polymorphic microsatellite DNA markers in the snakehead murrel, Channa striata

Abstract

Seven polymorphic microsatellite loci were isolated and characterized for the snakehead murrel, Channa striata (Channidae), a valuable tropical freshwater fish species. Among 25 specimens collected from Kedah state in Malaysia, the number of alleles per locus ranged from 2 to 7. Observed and expected heterozygosities ranged from 0.120 to 0.880 and 0.117 to 0.698, respectively. A single locus (CS1-C07) was significantly deviated from Hardy-Weinberg equilibrium after Bonferroni correction. These novel markers would be useful for population genetic studies of the C. striata.

Population genetic structure of Asian snakehead fish (Channa striata) in North Borneo: Implications for conservation of local freshwater biodiversity

“…Genomic DNA from fin clippings was isolated using conventional salt‐extraction protocol as outlined in Aljanabi and Martinez (). Nine species‐specific microsatellite loci were employed for genotyping the C. striata , which consisted of six microsatellite markers (CS774A41, CS1‐A05, CSI‐B07, CSI‐C07, CSI‐E11, CSI‐E12, CS1‐F05) described previously (Jamsari, Tan, & Siti‐Azizah, ) and three novel markers (CS774A19, CS774A21, CS774A41) developed herein to complement existing ones (Table ). The latter were isolated from a microsatellite‐enriched DNA library constructed using the 5′‐anchored primer protocol (Brachet, Jubier, Richard, Jung‐Muller, & Frascaria‐Lacoste, ; Fisher, Gardner, & Richardson, ; Kinsuat & Kumar, ), where firstly, a degenerate oligonucleotide 5′‐KKVRVRV(guanine‐adenine, GA) 10 –3′(where K: G/T, V: G/C/A and R: G/A) was used to polymerase chain reaction (PCR)‐amplify regions containing a target motif, followed by cloning of the fragments using TOPO TA Cloning Kit (Invitrogen, Carlsbad, CA) with blue/white screening.…”

Application of Microsatellite Markers in Conservation Genetics and Fisheries Management: Recent Advances in Population Structure Analysis and Conservation Strategies

“…In a cichlid, Eretmodus cyanostictus , Taylor et al [63] determined four polymorphic microsatellite loci for studying nine populations in Lake Tanganyika. In another study, recently, 7 polymorphic microsatellite markers were identified in snakehead murrel, Channa striata, from Malaysia [64]. Similarly, several authors reported population genetic structure of different species of catfish; few of them are in the farmed catfish from Tamaulipas, Mexico [65]; in neotropical catfish [66]; in Pseudoplatystoma reticulatum [67].…”

Genotyping of microsatellite markers to study genetic structure of the wild striped snakehead Channa striata in Malaysia

“…Sampling locations were divided into five regions following Tan et al (2012): (1) DNA templates were isolated by use of AQUAGENOMIC kits (MultiTarget Pharmaceuticals; www.multitargetpharm.com), according to the manufacturer's protocol. Seven microsatellite markers (developed by Jamsari et al, 2011) and two additional GenBank loci (accession numbers GU321680 and HQ993085) were amplified successfully. PCR amplification followed two methods: multiplexing (simultaneous amplification of five loci) and individual PCR, due to the low reproducibility of some loci when amplified in multiplex PCR.…”