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Genetic structure and linkage disequilibrium in Korean rice germplasm
Jong-Wook Chung,Anupam Dixit,Gi-An Lee,Kyung-Ho Ma,Jae-Woong Yu,Jung-Ro Lee,Sok-Young Lee,Hee-Kyoung Kang,Nam-Jin Chung,Yong-Gu Cho,Kenneth L. McNally,Jae-Gyun Kwag,Seung-Geun Jong,Yong-Jin Park 한국작물학회 2008 한국작물학회 학술발표대회 논문집 Vol.2008 No.10
The present study was carried out to assess the genetic diversity, population structure and linkage disequilibrium in Korea. In model-based population, Korean rice germplasm were classified into four subpopulaton designated as indica cultivated, japonica cultivated, indica weedy, and japonica weedy were identified. Pair-wise estimates of FST indicated a different degree of differentiation between the four model-based populations with values ranging from 0.073 (between japonica cultivated and japonica weedy) and 0.474 (between japonica weedy and indica weedy). The indica weedy population appeared to be highly differentiated as compared to other populations. The indica cultivated have the highest gene diversity (0.58), followed by japonica cultivated (0.50), japonica weedy (0.42) and indica weedy (0.35). The total number of specific alleles in indica weedy and japonica weedy populations was 39 alleles (23 markers) and 55 alleles (22 markers), respectively. An average of LD (r2) value of indica weedy and japonica weedy type was higher than two other populations, both in inter- and intra-chromosome, indicating the possible reproductive and geographical isolations of sub-populations in cultivated rice fields.
MA, KYUNG-HO,JANG, DUK-HWAN,DIXIT, ANUPAM,CHUNG, JONG-WOOK,LEE, SOK-YOUNG,LEE, JUNG-RO,KANG, HEE-KYOUG,KIM, SEONG-MIN,PARK, YONG-JIN BLACKWELL 2007 MOLECULAR ECOLOGY NOTES Vol.7 No.6
<P>Abstract</P><P>The present study reports the development of 30 polymorphic microsatellite markers for zoysiagrass <I>Zoysia japonica</I> Steud. The 30 markers produced a total of 125 alleles with an average of 4.2 alleles per locus. Values for observed and expected heterozygosities ranged from 0.10 to 0.95 and from 0.15 to 0.81, respectively. At significance threshold (<I>P <</I> 0.05), 11 loci deviated from Hardy–Weinberg equilibrium, whereas significant linkage disequilibrium values were observed between 16 pairs of loci. These markers may provide information needed to select genetically diverse parents for developing breeding and mapping populations of zoysiagrass.</P>