Department of Genetics, University of Córdoba, Campus Rabanales Ed. C-5, 14071, Córdoba, Spain.
Crop Development Center, University of Saskatchewan, Saskatoon, SK, S7N 5A8, Canada.
Theor Appl Genet. 2016 Jan;129(1):77-86. doi: 10.1007/s00122-015-2610-1. Epub 2015 Oct 3.
For the first time, fine mapping for sfl locus was carried out using a battery of new STMS and SNP markers. The target region was delimited to 92.6 Kb where seven annotated genes were found that could be candidate genes for the simple/double podding trait in chickpea. Four recombinant inbred populations (RIP-1, RIP-7, RIP-11, and CPR-01) were used to map the double podding gene (sfl) in chickpea. In RIP-1, the gene was initially mapped on linkage group (LG) 6 between the two sequence-tagged microsatellite site (STMS) markers TA120 and TR1. Eight new STMS markers were added onto LG6 in the target region and sfl locus was finally located between CAGM27819 and CAGM27777 markers within an interval of 2 cM. Seven out of the eight markers were mapped in RIP-7 and its reciprocal RIP-11 confirming the location of the sfl locus to a 4.8 cM interval flanked by TR44 and CAGM27705. Furthermore, using a high-density single nucleotide polymorphism (SNP) map of CPR-01, sfl was mapped to the same genomic region in a 5.1 cM interval between TR44 and the SNP scaffold1646p97220. Five pairs of near isogenic lines (NILs) and eight recombinant inbred lines (RILs) were used to refine this region in the chickpea physical map. Combining data from linkage analysis in four RIPs, marker physical positions and recombination events obtained in both pairs of NILs and selected RILs, sfl could be placed within a genomic window of 92.6 Kb. Seven annotated genes were extracted from this region. The regulator of axillary meristem-predicted gene could be a candidate gene for the simple/double podding gene. This study provides additional set of markers flanking and tightly linked to sfl locus that are useful for marker-assisted selection.
首次利用一系列新的 STMS 和 SNP 标记对 sfl 基因座进行精细定位。将目标区域限定在 92.6 Kb 内，在该区域内发现了七个注释基因，这些基因可能是鹰嘴豆单/双荚的候选基因。使用四个重组自交系群体 (RIP-1、RIP-7、RIP-11 和 CPR-01) 对鹰嘴豆的双荚基因 (sfl) 进行了定位。在 RIP-1 中，该基因最初被定位在两个序列标记微卫星 (STMS) 标记 TA120 和 TR1 之间的连锁群 (LG) 6 上。在目标区域的 LG6 上添加了 8 个新的 STMS 标记，sfl 基因座最终位于标记 CAGM27819 和 CAGM27777 之间的 2 cM 区间内。在 RIP-7 及其反向 RIP-11 中，8 个标记中的 7 个被定位，证实了 sfl 基因座位于 TR44 和 CAGM27705 之间的 4.8 cM 区间内。此外，利用 CPR-01 的高密度单核苷酸多态性 (SNP) 图谱，sfl 被定位在 TR44 和 SNP 支架 1646p97220 之间的 5.1 cM 区间内的同一基因组区域内。利用 5 对近等基因系 (NILs) 和 8 个重组自交系 (RILs) 对鹰嘴豆物理图谱中的这一区域进行了细化。结合四个 RIPs 中的连锁分析数据、在 NILs 和选择的 RILs 中获得的标记物理位置和重组事件，sfl 可被定位在 92.6 Kb 的基因组窗口内。从该区域提取了七个注释基因。预测的腋生分生组织调节剂基因可能是单/双荚基因的候选基因。本研究提供了与 sfl 基因座紧密连锁的一组侧翼标记，可用于标记辅助选择。
