Department of Soil and Crop Sciences, Texas A&M University, College Station, Texas 77843-2474, USA.
BMC Genomics. 2010 Sep 17;11:501. doi: 10.1186/1471-2164-11-501.
Chickpea (Cicer arietinum L.) is the third most important pulse crop worldwide. Despite its importance, relatively little is known about its genome. The availability of a genome-wide physical map allows rapid fine mapping of QTL, development of high-density genome maps, and sequencing of the entire genome. However, no such a physical map has been developed in chickpea.
We present a genome-wide, BAC/BIBAC-based physical map of chickpea developed by fingerprint analysis. Four chickpea BAC and BIBAC libraries, two of which were constructed in this study, were used. A total of 67,584 clones were fingerprinted, and 64,211 (~11.7 x) of the fingerprints validated and used in the physical map assembly. The physical map consists of 1,945 BAC/BIBAC contigs, with each containing an average of 28.3 clones and having an average physical length of 559 kb. The contigs collectively span approximately 1,088 Mb. By using the physical map, we identified the BAC/BIBAC contigs containing or closely linked to QTL4.1 for resistance to Didymella rabiei (RDR) and QTL8 for days to first flower (DTF), thus further verifying the physical map and confirming its utility in fine mapping and cloning of QTL.
The physical map represents the first genome-wide, BAC/BIBAC-based physical map of chickpea. This map, along with other genomic resources previously developed in the species and the genome sequences of related species (soybean, Medicago and Lotus), will provide a foundation necessary for many areas of advanced genomics research in chickpea and other legume species. The inclusion of transformation-ready BIBACs in the map greatly facilitates its utility in functional analysis of the legume genomes.
鹰嘴豆（Cicer arietinum L.）是全球第三大重要的豆类作物。尽管其重要性很高，但对其基因组的了解相对较少。基因组范围的物理图谱的可用性允许快速精细定位 QTL，开发高密度基因组图谱，并对整个基因组进行测序。然而，在鹰嘴豆中尚未开发出这样的物理图谱。
我们通过指纹分析展示了一个基于 BAC/BIBAC 的鹰嘴豆全基因组物理图谱。使用了两个已构建的鹰嘴豆 BAC 和 BIBAC 文库。总共对 67,584 个克隆进行了指纹分析，其中 64,211 个（约 11.7 倍）指纹得到了验证并用于物理图谱组装。物理图谱由 1,945 个 BAC/BIBAC 重叠群组成，每个重叠群平均包含 28.3 个克隆，平均物理长度为 559kb。这些重叠群总共覆盖约 1,088Mb。通过使用物理图谱，我们鉴定了包含或紧密连锁于抗 Didymella rabiei（RDR）的 QTL4.1 和首次开花日（DTF）的 QTL8 的 BAC/BIBAC 重叠群，从而进一步验证了物理图谱，并证实了其在精细定位和 QTL 克隆中的用途。
该物理图谱代表了鹰嘴豆的第一个基于 BAC/BIBAC 的全基因组物理图谱。该图谱以及该物种之前开发的其他基因组资源和相关物种（大豆、 Medicago 和 Lotus）的基因组序列，将为鹰嘴豆和其他豆科植物的许多高级基因组学研究领域提供必要的基础。图谱中包含可转化的 BIBAC，极大地促进了其在豆科基因组功能分析中的应用。
