An extensive analysis of the African rice genetic diversity through a global genotyping
An extensive analysis of the African rice genetic diversity through a global genotyping
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DOI：
10.1007/s00122-014-2374-z
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发表时间：
2014-10-01
影响因子：
5.4
通讯作者：
Ghesquiere, Alain
中科院分区：
文献类型：
--
作者：
Orjuela, Julie;Sabot, Francois;Ghesquiere, Alain
我们在这里展示了第一个精选的野生和栽培的非洲水稻品种。为此，我们设计了特定的snp，并能够构建这些非常低多样性的物种。栽培的非洲水稻是非洲特有的。该品种及其直系祖先barthii是改良亚洲水稻非生物和生物抗逆性的重要工具。然而，关于这些物种的遗传多样性的研究非常有限。在这篇论文中，我们首次在如此广泛的范围内，使用235个专为非洲水稻多样性设计的snp，对279个O. glaberrima和101个O. barthii进行了基因分型，这些基因分型是根据它们对当前育种的影响和地理分布而选择的。利用这些数据，我们能够从我们的样本中构建出与地理相关的三个barthii种群和两个glaberrima种群的个体；然而，这最后两个种群不能与任何当前表型性状联系起来。此外，我们还能够在O. glaberrima和O. barthii中发现错误分类，并从非洲品种中鉴定出O. sativa的新形式。
We present here the first curated collection of wild and cultivated African rice species. For that, we designed specific SNPs and were able to structure these very low diverse species.Oryza glaberrima, the cultivated African rice, is endemic from Africa. This species and its direct ancestor, O. barthii, are valuable tool for improvement of Asian rice O. sativa in terms of abiotic and biotic stress resistance. However, only a few limited studies about the genetic diversity of these species were performed. In the present paper, and for the first time at such extend, we genotyped 279 O. glaberrima, selected both for their impact in current breeding and for their geographical distribution, and 101 O. barthii, chosen based on their geographic origin, using a set of 235 SNPs specifically designed for African rice diversity. Using those data, we were able to structure the individuals from our sample in three populations for O. barthii, related to geography, and two populations in O. glaberrima; these two last populations cannot be linked however to any currently phenotyped trait. Moreover, we were also able to identify misclassification in O. glaberrima as well as in O. barthii and identified new form of O. sativa from the set of African varieties.