Identification of Microsatellite Markers and Their Application in Yellow Catfish ( Richardson, 1846) Population Genetics of Korea

Overview

Journal J Genet

Specialty Genetics

Date 2019 Apr 5

PMID 30945683

Citations 1

Authors

Jeong-Nam Yu

Sang-Ki Kim

Jin Sagong

Shi Hyun Ryu

Byungsoo Chae

Affiliations

Soon will be listed here.

Abstract

Microsatellite markers from a fresh water yellow catfish, , were developed by whole-genome sequencing in the Ion S5 system. Of the 40 chosen sets of microsatellite markers, with tetra-repeat and penta-repeat motifs, from a total 19,743 sequence, only 13 markers were successfully applied in 78 individual fish sampled to detect genomic variability from four natural populations of Korea. On an average, the number of alleles per marker was 6.7. The observed heterozygosity varied from 0.048 to 0.810. Twelve microsatellite markers conformed to Hardy-Weinberg equilibrium and none exhibited significant linkage disequilibrium. In yellow catfish, genetic differentiation among four natural populations was further supported by ( < 0.05) and STRUCTURE analysis. The microsatellite markers identified could facilitate genetic diversity and population structure studies and thus aid in conservation of the yellow catfish.

Citing Articles

North India Cancer Risk: A Detailed Review with Focus on Jammu and Kashmir Demographics.

Sudershan A, Bharti S, Sudershan S, Bhagat M, Bhagat S, Behlam I Asian Pac J Cancer Prev. 2024; 25(10):3489-3506.

PMID: 39471015 PMC: 11711370. DOI: 10.31557/APJCP.2024.25.10.3489.

Genetic Structure and Diversity of Hatchery and Wild Populations of Yellow Catfish (Siluriformes: Bagridae) from Korea.

Kim K, Kim K, Song H Int J Mol Sci. 2024; 25(7).

PMID: 38612732 PMC: 11011370. DOI: 10.3390/ijms25073923.

References

Chambers J, Eda S, Bassett P, Karim Y, Thompson S, Gallimore J . C-reactive protein, insulin resistance, central obesity, and coronary heart disease risk in Indian Asians from the United Kingdom compared with European whites. Circulation. 2001; 104(2):145-50. DOI: 10.1161/01.cir.104.2.145. View

Ford E, Giles W, Myers G, Rifai N, Ridker P, Mannino D . C-reactive protein concentration distribution among US children and young adults: findings from the National Health and Nutrition Examination Survey, 1999-2000. Clin Chem. 2003; 49(8):1353-7. DOI: 10.1373/49.8.1353. View

Tabassum R, Chauhan G, Dwivedi O, Mahajan A, Jaiswal A, Kaur I . Genome-wide association study for type 2 diabetes in Indians identifies a new susceptibility locus at 2q21. Diabetes. 2012; 62(3):977-86. PMC: 3581193. DOI: 10.2337/db12-0406. View

Mahajan A, Tabassum R, Chavali S, Dwivedi O, Chauhan G, Ghosh S . Common variants in CRP and LEPR influence high sensitivity C-reactive protein levels in North Indians. PLoS One. 2011; 6(9):e24645. PMC: 3169613. DOI: 10.1371/journal.pone.0024645. View

Ridker P, Wilson P, Grundy S . Should C-reactive protein be added to metabolic syndrome and to assessment of global cardiovascular risk?. Circulation. 2004; 109(23):2818-25. DOI: 10.1161/01.CIR.0000132467.45278.59. View

Tabassum R, Mahajan A, Chauhan G, Dwivedi O, Dubey H, Sharma V . No association of TNFRSF1B variants with type 2 diabetes in Indians of Indo-European origin. BMC Med Genet. 2011; 12:110. PMC: 3179441. DOI: 10.1186/1471-2350-12-110. View

Willer C, Li Y, Abecasis G . METAL: fast and efficient meta-analysis of genomewide association scans. Bioinformatics. 2010; 26(17):2190-1. PMC: 2922887. DOI: 10.1093/bioinformatics/btq340. View

Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira M, Bender D . PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet. 2007; 81(3):559-75. PMC: 1950838. DOI: 10.1086/519795. View

Okada Y, Takahashi A, Ohmiya H, Kumasaka N, Kamatani Y, Hosono N . Genome-wide association study for C-reactive protein levels identified pleiotropic associations in the IL6 locus. Hum Mol Genet. 2011; 20(6):1224-31. DOI: 10.1093/hmg/ddq551. View

10.

Khoo C, Sairazi S, Taslim S, Gardner D, Wu Y, Lee J . Ethnicity modifies the relationships of insulin resistance, inflammation, and adiponectin with obesity in a multiethnic Asian population. Diabetes Care. 2011; 34(5):1120-6. PMC: 3114514. DOI: 10.2337/dc10-2097. View

11.

Shen R, Fan J, Campbell D, Chang W, Chen J, Doucet D . High-throughput SNP genotyping on universal bead arrays. Mutat Res. 2005; 573(1-2):70-82. DOI: 10.1016/j.mrfmmm.2004.07.022. View

12.

Pankow J, Folsom A, Cushman M, Borecki I, Hopkins P, Eckfeldt J . Familial and genetic determinants of systemic markers of inflammation: the NHLBI family heart study. Atherosclerosis. 2001; 154(3):681-9. DOI: 10.1016/s0021-9150(00)00586-4. View

13.

Elliott P, Chambers J, Zhang W, Clarke R, Hopewell J, Peden J . Genetic Loci associated with C-reactive protein levels and risk of coronary heart disease. JAMA. 2009; 302(1):37-48. PMC: 2803020. DOI: 10.1001/jama.2009.954. View

14.

Montojo J, Zuberi K, Rodriguez H, Kazi F, Wright G, Donaldson S . GeneMANIA Cytoscape plugin: fast gene function predictions on the desktop. Bioinformatics. 2010; 26(22):2927-8. PMC: 2971582. DOI: 10.1093/bioinformatics/btq562. View

15.

Li S, Goldman N . Regulation of human C-reactive protein gene expression by two synergistic IL-6 responsive elements. Biochemistry. 1996; 35(28):9060-8. DOI: 10.1021/bi953033d. View

16.

Ward L, Kellis M . HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants. Nucleic Acids Res. 2011; 40(Database issue):D930-4. PMC: 3245002. DOI: 10.1093/nar/gkr917. View

17.

Mahajan A, Jaiswal A, Tabassum R, Podder A, Ghosh S, Madhu S . Elevated levels of C-reactive protein as a risk factor for metabolic syndrome in Indians. Atherosclerosis. 2011; 220(1):275-81. DOI: 10.1016/j.atherosclerosis.2011.10.031. View

18.

Dorajoo R, Li R, Ikram M, Liu J, Froguel P, Lee J . Are C-reactive protein associated genetic variants associated with serum levels and retinal markers of microvascular pathology in Asian populations from Singapore?. PLoS One. 2013; 8(7):e67650. PMC: 3699653. DOI: 10.1371/journal.pone.0067650. View

19.

Reiner A, Barber M, Guan Y, Ridker P, Lange L, Chasman D . Polymorphisms of the HNF1A gene encoding hepatocyte nuclear factor-1 alpha are associated with C-reactive protein. Am J Hum Genet. 2008; 82(5):1193-201. PMC: 2427318. DOI: 10.1016/j.ajhg.2008.03.017. View

20.

Giri A, Khan N, Basu A, Tandon N, Scaria V, Bharadwaj D . Pharmacogenetic landscape of clopidogrel in north Indians suggest distinct interpopulation differences in allele frequencies. Pharmacogenomics. 2014; 15(5):643-53. DOI: 10.2217/pgs.13.241. View