Fine scale genetic structure in a wild soybean (Glycine soja) population and the implications for conservation

Abstract

Summary• The fine-scale spatial distribution of a wild soybean ( Glycine soja Sieb. et Zucc) population was measured using kinship coefficients and spatial autocorrelation coefficients to reveal fine-scale spatial patterns of genetic structure for guiding collection in ex situ conservation.• Individual families (100) of a single population were sampled in Jiangwan (Shanghai, China) and their specific locations mapped. Individual plants were genotyped for 331 ISSR loci from 15 selective ISSR primers; 45% were demonstrated to be polymorphic.• Pairwise kinship coefficients between individuals were calculated, and then regressed based on the spatial distance between individuals. The results indicated a close genetic relationship among individual families in the patch with a diameter of c. 30 m. Spatial autocorrelation analysis suggested that there were significant clusters of genes within the population; c. 81.4% of the loci were found to be positively correlated in the first two distance classes (0 -10 m).• The results suggest, for conservation genetics, sampling within a wild soybean population should be conducted at 10 m intervals across the entire population to optimize the genetic diversity in collections taken from that population.

Spatial structure of microsatellite variability within and among populations of wild radish Raphanus sativus L. var. hortensis Backer f. raphanistroides Makino (Brassicaceae) in Japan

“…This approach would be applicable to the management of wild relatives of crops in both ex situ and in situ conservation frameworks; the latter has been recognized to be of primary importance in the last two decades (Meilleur and Hodgkin 2004). However, spatial genetic analyses of wild relatives of crops are limited to some species such as wild soybean (Glycine soja) (Jin et al 2003) and wild rice (Oryza rufipogon) (Xu et al 2006). For wild radish, a survey of 15 populations along the coastline of Japan has shown a latitudinal cline in the frequency of genes related to the lyrately pinnated leaf morph (Yamaguchi 1987), suggesting the existence of a moderate level of spatial genetic structure (SGS) at a regional scale.…”

Genetic diversity of wild soybean (Glycine soja Sieb. et Zucc.) and Japanese cultivated soybeans [G. max (L.) Merr.] based on microsatellite (SSR) analysis and the selection of a core collection

“…White circle (b) is the location of accessions in the selected main core collection haplotype analysis of chloroplast DNA cultivated soybean appears to have multiple origins from different wild soybean populations (Xu et al 2002). In addition to SSR markers being used in genetic diversity studies they have also been used to study the population diversity in soybean and wild soybean and gene flow between cultivated and wild soybean in Japan and China (Jin et al 2003;Kuroda et al 2006Kuroda et al , 2008. SSR markers are amenable to high throughput genotyping and are useful genetic markers for characterization of germplasm.…”

Fine- and landscape-scale spatial genetic structure of cushion rockjasmine, Androsace tapete (Primulaceae), across southern Qinghai-Tibetan Plateau

“…Inter simple sequence repeat (ISSR) markers are effective in investigating the spatial genetic pattern in plant species (Jin et al 2003;Chung et al 2006;Culley et al 2007). In this study, we use ISSR markers to explore the spatial genetic structure of A. tapete at both fine-and landscape-scales across southern Q-T Plateau.…”