Complete chloroplast DNA sequences of Zanduri wheat (Triticum spp.)
Complete chloroplast DNA sequences of Zanduri wheat (Triticum spp.)
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DOI：
10.1007/s10722-015-0230-x
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发表时间：
2015-12-01
影响因子：
2
通讯作者：
Beridze, T.
中科院分区：
文献类型：
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作者：
Gogniashvili, M.;Naskidashvili, P.;Beridze, T.
格鲁吉亚在小麦的形成中起着重要作用。过去，格鲁吉亚的Zanduri群体为二倍体Triticum monococum var. hornemanii (2n = 14) （Gvatsa Zanduri）、四倍体Triticum timopheevii (2n = 28) （Chelta Zanduri）和六倍体Triticum zhukovskyi Men。Er。（2n = 42）。野生的T. araratium在格鲁吉亚没有被发现，尽管栽培的T. timopheevi只在这里被发现，这是赞杜里的一个谜。近年来发展起来的新一代测序技术，能够测定包括小麦在内的许多高等植物叶绿体和线粒体DNA的完整核苷酸序列。利用叶绿体DNA的完整序列可以较准确地推断赞都里小麦的遗传结构。本文报道了三种Zanduri小麦（T. timopheevi， T. zhukovskyi和T. monococum var. hornemanii）和野生T. araratium的完整序列。叶绿体DNA测序在Illumina MiSeq平台上进行。利用SOAPdenovo计算机程序组装叶绿体DNA分子。与T. araraticum相比，在T. timopheevvii和T. zhukovskyi中发现了12个snp， ccsA-ndhD基因间序列有25个bp的反转，rbcL-rpl23基因间序列有38个bp的反转。此外，trnG-trnI基因间序列的24bp重复序列在T. araratium中以双拷贝的形式存在，而在T. timopheevi和T. zhukovskyi中以三拷贝的形式存在。与T. araratium不同，T. timopheevi和T. zhukovskyi在基因ndhH上有一个6 bp的重复，这导致相应蛋白的二肽重复。Gvatsa Zanduri （T. monococum var. hornemanii）叶绿体DNA与其他玉米叶绿体DNA略有不同。与单球绦虫相比，单球绦虫（Gvatsa Zanduri）可鉴定出4个snp，其中2个在基因matK上，1个在基因ndhD上。将测序后的叶绿体DNA分子与其他小麦和Aegilops物种进行了比较，并构建了系统发育树。与伊蚊叶绿体DNA的亲缘关系最密切的是白僵菌、timopheevi和zhukovskyi。speltoides。最显著的差异是在Timopheevi物种的ndhH基因中缺失了114 bp。
Georgia plays an important role in wheat formation. In the past, the Zanduri population of Georgia was a set of diploid-Triticum monococcum var. hornemanii (2n = 14) (Gvatsa Zanduri), tetraploid Triticum timopheevii (2n = 28) (Chelta Zanduri) and hexaploid Triticum zhukovskyi Men. et Er. (2n = 42). It is a Zanduri puzzle that wild T. araraticum was not found in Georgia, though cultivated T. timopheevii was only detected here. Next-generation sequencing technologies, which have been developed in recent years, enable the determination of complete nucleotide sequences of both chloroplast and mitochondrial DNA of many higher plants, including wheat. The genetic structure of Zanduri wheat is more accurately inferred by the complete sequences of chloroplast DNA. In the present investigation, the complete sequences of three Zanduri wheats (T. timopheevii, T. zhukovskyi, and T. monococcum var. hornemanii) and wild T. araraticum are presented. Sequencing of chloroplast DNA was performed on an Illumina MiSeq platform. Chloroplast DNA molecules were assembled using the SOAPdenovo computer program. In comparison to T. araraticum, there are 12 SNPs, a 25 bp inversion in the ccsA-ndhD intergenic sequence, and a 38-bp inversion in the intergenic sequence rbcL-rpl23 pseudogene identified in T. timopheevii and T. zhukovskyi. In addition, a 24 bp repeat of trnG-trnI intergenic sequence is present as a double copy in T. araraticum, whereas in T. timopheevii and T. zhukovskyi, it is present as a triple copy. Unlike T. araraticum, T. timopheevii and T. zhukovskyi have a 6 bp repeat in the gene ndhH, which results in a dipeptide duplication in the corresponding protein. Gvatsa Zanduri (T. monococcum var. hornemanii) chloroplast DNA slightly differs from other einkorn chloroplast DNA. In comparison to T. monococcum, four SNPs can be identified in T. monococcum (Gvatsa Zanduri), two in gene matK and one in gene ndhD. The sequenced chloroplast DNA molecules were compared to other Triticum and Aegilops species, and a phylogenetic tree was constructed. T. araraticum, T. timopheevii and T. zhukovskyi chloroplast DNA showed the closest phylogenetic relationship with the chloroplast DNA of Ae. speltoides. The most significant difference was in the 114-bp deletion within the gene ndhH in the Timopheevi species.