Plant Science Research Unit, USDA-Agricultural Research Service St. Paul, MN, USA ; Department of Agronomy and Plant Genetics, University of Minnesota St. Paul, MN, USA.
Front Plant Sci. 2013 Jun 25;4:210. doi: 10.3389/fpls.2013.00210. eCollection 2013.
A small fast neutron (FN) mutant population has been established from Phaseolus vulgaris cv. Red Hawk. We leveraged the available P. vulgaris genome sequence and high throughput next generation DNA sequencing to examine the genomic structure of five P. vulgaris cv. Red Hawk FN mutants with striking visual phenotypes. Analysis of these genomes identified three classes of structural variation (SV); between cultivar variation, natural variation within the FN mutant population, and FN induced mutagenesis. Our analyses focused on the latter two classes. We identified 23 large deletions (>40 bp) common to multiple individuals, illustrating residual heterogeneity and regions of SV within the common bean cv. Red Hawk. An additional 18 large deletions were identified in individual mutant plants. These deletions, ranging in size from 40 bp to 43,000 bp, are potentially the result of FN mutagenesis. Six of the 18 deletions lie near or within gene coding regions, identifying potential candidate genes causing the mutant phenotype.
我们从 Phaseolus vulgaris cv. Red Hawk 中建立了一个小型快速中子（FN）突变体群体。我们利用现有的 P. vulgaris 基因组序列和高通量下一代 DNA 测序来研究五个具有明显视觉表型的 P. vulgaris cv. Red Hawk FN 突变体的基因组结构。对这些基因组的分析确定了三类结构变异（SV）；品种间变异、FN 突变体群体内的自然变异以及 FN 诱导的诱变。我们的分析重点关注后两类。我们鉴定了 23 个常见于多个个体的大缺失（>40 bp），说明了普通菜豆 cv. Red Hawk 内的残余异质性和 SV 区域。在个别突变体植物中还鉴定出另外 18 个大缺失。这些缺失的大小从 40 bp 到 43000 bp 不等，可能是 FN 诱变的结果。这 18 个缺失中有 6 个位于或接近基因编码区附近，确定了导致突变体表型的潜在候选基因。
