single nucleotide polymorphisms for assessing genetic diversity in castor bean (ricinus communis)单核苷酸多态性的遗传多样性评估蓖麻子(蓖麻).pdfVIP

Foster et al. BMC Plant Biology 2010, 10:13 /1471-2229/10/13 RESEARCH ARTICLE Open Access Single nucleotide polymorphisms for assessing genetic diversity in castor bean (Ricinus communis) 1 2 3 3,4,5 3,4,6 7 Jeffrey T Foster , Gerard J Allan , Agnes P Chan , Pablo D Rabinowicz , Jacques Ravel , Paul J Jackson , Paul Keim1* Abstract Background: Castor bean (Ricinus communis) is an agricultural crop and garden ornamental that is widely cultivated and has been introduced worldwide. Understanding population structure and the distribution of castor bean cultivars has been challenging because of limited genetic variability. We analyzed the population genetics of R. communis in a worldwide collection of plants from germplasm and from naturalized populations in Florida, U.S. To assess genetic diversity we conducted survey sequencing of the genomes of seven diverse cultivars and compared the data to a reference genome assembly of a widespread cultivar (Hale). We determined the population genetic structure of 676 samples using single nucleotide polymorphisms (SNPs) at 48 loci. Results: Bayesian clustering indicated five main groups worldwide and a repeated pattern of mixed genotypes in most countries. High levels of population differentiation occurred between most populations but this structure was not geographically based. Most molecular variance occurred within populations (74%) followed by 22% among populations, and 4% among continents. Samples from naturalized populations in Florida indicated significant population structuring consistent with local demes. There was significant population differentiation for 56 of 78 comparisons in Florida (pairwise population jPT values, p 0.01).