I-SSR Markers Revealed Inconsistent Phylogeographic Patterns among Populations of Japanese Red Pines in Korea

Abstract

To monitor the level and distribution pattern of genetic diversity in countrywide populations of Japanese red pines in Korea, 80 I-SSR variants were analyzed from 192 individuals in 11 populations. The previously reported data, obtained from the 8 populations of this species, were incorporated into the estimation of the population genetic statistics. Relatively higher level of genetic diversity was observed in 19 populations of Japanese red pines (mean of 0.453) than those in other tree species. From the results of AMOVA, majority of genetic diversity (92%) was allocated within populations, which brought about the moderate degree of population differentiation (ϕST= 0.08). Two genetic groups were observed from the dendrogram reconstructed by UPGMA. Overall correlation between genetic relationships and geographic affinity was inconsistent among the 19 populations. Some probable genetic disturbances, induced by either human interference or the natural process of regeneration for the species after devastation, might be responsible for the discrepancy between genetic relationships and geographical distribution of the populations. These results suggested that simple geographic or ecological grouping might not represent the genetic zone of the Korean populations of Japanese red pines, and that more careful approach should be made for designating in situ gene conservation of this species in Korea.

Comparative assessment of SSR, ISSR and AFLP markers for characterization of selected genotypes of Himalayan Chir pine (Pinus roxburghii Sarg.) based on resin yield

“…A variety of molecular markers have been used for estimating the genetic diversity in different Pinus species such as RAPD (GOMEZ et al, 2001;NKONGOLO et al, 2002;PENG et al, 2003;KANDEDMIR et al, 2004;KIM et al, 2005;NAUGZEMYS et al, 2006;), ISSR (HONG et al, 2004;HONG et al, 2007;RANGER et al, 2008;ZHANG et al, 2005;PARASHARMI and THENGANE, 2012), AFLP (MARIETTE et al, 2001;LERCETEAU and SZMIDT, 1999) and SSR (PROVAN et al, 1998;PROVAN et al, 1999;BOYS et al, 2005). The use of a particular molecular marker type for estimating the genetic diversity of germplasm collections however depends on many factors including costs on genotyping the large populations with a marker assay (GUPTA et al, 2002).…”

“…Based on polymorphism, finally 9 ISSR markers were used to conduct the present study ( Table 3). PCR was performed in a 20 µl reaction volume (HONG et al, 2007) containing 15 ng of template DNA, 1X Taq buffer, 1.75 mM MgCl 2 , 0.2 mM dNTPs, 0.4 µM primer and 0.6U of Taq DNA polymerase (Bangalore Genei Pvt. Ltd., Bangalore, India).…”

An Effective and Low-Cost Method for Genomic DNA Extraction from Cyclanthera Pedata Species (A Nutraceutical Plant) without Liquid Nitrogen for Inter Simple Sequence Repeat Analyses

“…The ISSR primer (the University of British Columbia, UBC-825 Sequence: 5'ACACACACACACACACT-3' was used for the amplification 6 . The PCR amplification was carried out in a 20µl reaction mixture (Table 1).…”

Association mapping for identification of ISSR and AFLP markers linked with resin yield in Himalayan Chir Pine (Pinus roxburghii Sarg

“…Based on reproducibility and polymorphism, 9 ISSR markers were used to conduct the present study. PCR was performed in a 20 µl reaction volume (HONG et al, 2007) containing 15 ng of template DNA, 1X Taq buffer, 1.75 mM MgCl 2 , 0.2 mM dNTPs, 0.4 µM primer and 0.6U of Taq DNA polymerase (Bangalore Genei Pvt. Ltd., Bangalore, India).…”