Comparative Analysis of Two Populations of the Brittle Star Amphiura filiformis (Echinodermata: Ophiuroidea) with Different Life History Strategies Using RAPD Markers

McCormack, Grace P.; Powell, Richard; Keegan, Brendan F.

doi:10.1007/s101269900013

Cited by 35 publications

(59 citation statements)

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“…Amphiura filiformis)(McCormack et al, 2000). In this study, the average number of distinct fragments was 25.67 per primer in the Chinese echiuran population, while the number of recorded fragments varied from 7 to 12 per primer in four species from the Mullidae family(Mamuris et al, 1999).…”

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confidence: 53%

“…Detailed information on genetic markers specific to lines, breeds, species, and/or geographical populations has been used for the identification and discrimination of individuals and populations, as well as hybrid pedigrees, and for molecular genetic testing (Mamuris et al, 1999;Klinbunga et al, 2000a;Nozaki et al, 2000;Yoon & Park, 2002;Kim et al, 2004;Park et al, 2005;Yoon & Kim, 2010;Yoon et al, 2012;Song & Yoon, 2013;Oh & Yoon, 2014). Accordingly, adaptations of PCR methods to the mariculture and fishing industry have been used to estimate genetic distances (GDs) among some finfish species and/or invertebrate animals from different geographical locations (Callejas & Ochando, 1998;Tassanakajon et al, 1998;Klinbunga et al, 2000b;McCormack et al, 2000;Yoon & Park, 2002;Kim et al, 2004;Park et al, 2005;Song & Yoon, 2013;Oh & Yoon, 2014). In this study, to evaluate the GDs and dissimilarities between geographical echiuran populations, clustering analysis of two Urechis spp.…”

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confidence: 99%

“…Polymorphisms are determined based on banding patterns of primer-amplified products at specific sites (Mamuris et al, 1999;Klinbunga et al, 2000a;Nozaki et al, 2000;Yoon, 2001;Yoon & Park, 2002;Kim et al, 2004;Oh & Yoon, 2014). Several studies have reported the sizes of PCR fragments for black tiger shrimp (Penaeus monodon) (Tassanakajon et al, 1998), the brittle (McCormack et al, 2000), and lobster species (Park et al, 2005). Unambiguous data, resulting from variations in DNA polymorphisms, were found to be meaningful in the identification of individuals and/or populations (Tassanakajon et al, 1998;Mamuris et al, 1999;Yoon & Park, 2002;Chenyambuga et al, 2004;Kim et al, 2004;Yoon & Kim, 2010;Yoon et al, 2012;Song & Yoon, 2013).…”

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Genetic Distances between Two Echiuran Populations Discriminated by PCR

Yoon

2019

Dev. Reprod.

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Genomic DNA extracted from representatives of two populations, Gunsan and Chinese, of Urechis spp. was amplified using PCR with several primers. The band-sharing (BS) value between individuals no. 05 from the Gunsan population and no. 22 from the Chinese population was 0.206, which was the lowest recognized value. Oligonucleotides primer OPC-04 revealed 44 unique loci, which distinguished the Chinese population. Primer OPB-17 allowed the discovery of 22 loci shared by the two populations, which were present in all samples. Based on the average BS results, individuals from the Gunsan population demonstrated lower BS values (0.661±0.012) than did those from the Chinese population (0.788±0.014; p<0.05). The shortest genetic distance (GD) displaying a noteworthy molecular difference was between individuals CHINESE no. 12 and no. 13 (GD=0.027). Individual no. 06 from the Gunsan population was most distantly related to CHINESE no. 22 (GD=0.703). A group tree of the two populations was constructed by UPGMA Euclidean GD analysis based on a total of 543 fragments generated using six primers. The explicit markers recognized in this study will be used for genetic analysis, as well as to evaluate the species security and proliferation of echiuran individuals in intertidal regions of the Korean Peninsula.

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Genetic Distances between Two Echiuran Populations Discriminated by PCR

Yoon

2019

Dev. Reprod.

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“…This shows that the method is one of the adequate tools for comparing the DNA of individuals, species and/or populations of clam. As mentioned above, the potential of this analysis to identify diagnostic markers for the identification of three cyclina clam populations has also been demonstrated ( Tassanakajon et al, 1998 ; McCormack et al, 2000 ; Yoon & Park, 2002 ; Jung et al, 2004 ; Yoon, 2008 ). It was reported that the species relationships revealed by the PCR approach should be consistent with previously obtained data using morphological portrait ( Nebauer et al, 2000 ).…”

Section: Resultsmentioning

confidence: 89%

“…Suitable loci with high reproducibility allow the identification of unambiguously different species ( Greig et al, 2005 ). So, this technique has been used for identification and detection of genetic diversity in various shellfish ( Tassanakajon et al, 1998 ; McCormack et al, 2000 ; Yoon and Kim, 2003 ; Kim et al, 2004 ; Park et al, 2005 ) and teleost species ( Callejas & Ochando, 1998 ; Yoon & Kim, 2004 ). Author carried out clustering analyses to clarify the genetic distances among three cyclina clam ( Cyclina sinensis Gmelin) geographical populations from Gochang, Incheon and Chinese site.…”

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Geographic Variations and Genetic Distance of Three Geographic Cyclina Clam (Cyclina sinensis Gmelin) Populations from the Yellow Sea

Yoon

2012

Dev. Reprod.

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The gDNA isolated from Cyclina sinensis from Gochang (GOCHANG), Incheon (INCHEON) and a Chinese site (CHINESE), were amplified by PCR. Here, the seven oligonucleotide decamer primers (BION-66, BION-68, BION-72, BION-73, BION-74, BION-76, and BION-80) were used to generate the unique shared loci to each population and shared loci by the three cyclina clam populations. As regards multiple comparisons of average bandsharing value results, cyclina clam population from Chinese (0.763) exhibited higher bandsharing values than did clam from Incheon (0.681). In this study, the dendrogram obtained by the seven decamer primers indicates three genetic clusters: cluster 1 (GOCHANG 01~ GOCHANG 07), cluster 2 (INCHEON 08~INCHEON 14), cluster 3 (CHINESE 15~CHINESE 21). The shortest genetic distance that displayed significant molecular differences was between individuals 15 and 17 from the Chinese cyclina clam (0.049), while the longest genetic distance among the twenty-one cyclina clams that displayed significant molecular differences was between individuals GOCHANG no. 03 and INCHEON no. 12 (0.575). Individuals of Incheon cyclina clam population was somewhat closely related to that of Chinese cyclina clam population. In conclusion, our PCR analysis revealed a significant genetic distance among the three cyclina clam populations.

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Development and Characterization of RAPD and Microsatellite Markers for Genetic Variation Analysis in the Critically Endangered Yellow Catfish Horabagrus nigricollaris (Teleostei: Horabagridae)

et al. 2010

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Random-amplified polymorphic DNA (RAPD) and microsatellite markers were developed and used for the analysis of genetic variability in the critically endangered yellow catfish Horabagrus nigricollaris, sampled from the Chalakkudy River, Kerala, India. Eight RAPD and five microsatellite markers were detected to genotype the species. In RAPD, the 73 fragments were 20.55% polymorphic, whereas 4 polymorphic loci (80%) were obtained in microsatellites. In microsatellites, the number of alleles across the 5 loci was 1-5, and the range of heterozygosity was 0.25-0.5. The mean observed number of alleles was 2.4, and the effective number was 1.775 per locus. The average heterozygosity across all investigated samples was 0.29, indicating a significant deficiency of heterozygotes in this species. RAPD and microsatellite methods report a low degree of gene diversity and lack of genetic heterogeneity in the population of H. nigricollaris, emphasizing the need for fishery management, conservation, and rehabilitation of this species.

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Comparative Analysis of Two Populations of the Brittle Star Amphiura filiformis (Echinodermata: Ophiuroidea) with Different Life History Strategies Using RAPD Markers

Cited by 35 publications

References 36 publications

Genetic Distances between Two Echiuran Populations Discriminated by PCR

Genetic Distances between Two Echiuran Populations Discriminated by PCR

Geographic Variations and Genetic Distance of Three Geographic Cyclina Clam (Cyclina sinensis Gmelin) Populations from the Yellow Sea

Development and Characterization of RAPD and Microsatellite Markers for Genetic Variation Analysis in the Critically Endangered Yellow Catfish Horabagrus nigricollaris (Teleostei: Horabagridae)

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