Complete chloroplast genome sequence of Elodea canadensis and comparative analyses with other monocot plastid genomes
Complete chloroplast genome sequence of Elodea canadensis and comparative analyses with other monocot plastid genomes
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DOI：
10.1016/j.gene.2012.07.020
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发表时间：
2012-10-15
期刊：
影响因子：
3.5
通讯作者：
Korpelainen, Helena
中科院分区：
文献类型：
--
作者：
Huotari, Tea;Korpelainen, Helena
伊乐藻是原产于北美的水生被子植物。由于其入侵性质，当它被转移到其非本地范围的新地区时，它引起了极大的关注。我们测定了伊乐藻叶绿体基因组的全序列。伊乐藻属是单子叶植物的一个基本类群，迄今为止，只有少数代表单子叶植物早期谱系的单子叶植物cp基因组被测序。基因组是一个环状双链DNA分子，长度为156，700 bp，具有典型的结构，由一对反向重复序列（IR各26，348 bp）分隔的大（LSC 86，194 bp）和小（SSC 17，810 bp）单拷贝区域。伊乐藻cp基因组在IR区含有113个独特基因和16个重复基因。比较分析表明，伊乐藻cp基因组的基因顺序和组织与基生被子植物Amborella dopoda基因组的基因顺序和组织几乎相同。伊乐藻属植物的红外结构在单子叶植物中是独特的，已测定了其全cp基因组序列。在伊乐藻和另一种单子叶植物青萍中，IR和LSC的边界位于rps 19基因的上游和trnH-GUG基因的下游，而在大多数单子叶植物中，IR已经扩展到包括trnH和rps 19基因。系统发育分析采用贝叶斯方法，81叶绿体基因的DNA序列的基础上，从17个单子叶植物类群提供了支持的放置伊乐藻与浮萍一起作为基础单子叶植物和下一个分歧的单子叶植物谱系后，菖蒲目。与其他单子叶植物相比，伊乐藻cp基因组仅经历了很少的重排或基因丢失。伊乐藻的IR结构与被子植物Amborella的IR结构相似，是目前所研究的单子叶植物中比较独特的一种。这一结果与系统发育分析支持伊乐藻作为一个基础的单子叶植物的位置，以下一个分歧的谱系后菖蒲目单子叶植物。到目前为止，只有少数代表单子叶植物早期谱系的cp基因组已被测序，因此，这项研究提供了有价值的信息，在单子叶植物谱系分化的进化过程。(C)2012爱思唯尔有限公司版权所有。
Elodea canadensis is an aquatic angiosperm native to North America. It has attracted great attention due to its invasive nature when transported to new areas in its non-native range. We have determined the complete nucleotide sequence of the chloroplast (cp) genome of Elodea. Taxonomically Elodea is a basal monocot, and only few monocot cp genomes representing early lineages of monocots have been sequenced so far. The genome is a circular double-stranded DNA molecule 156,700 bp in length, and has a typical structure with large (LSC 86,194 bp) and small (SSC 17,810 bp) single-copy regions separated by a pair of inverted repeats (IRs 26,348 bp each). The Elodea cp genome contains 113 unique genes and 16 duplicated genes in the IR regions. A comparative analysis showed that the gene order and organization of the Elodea cp genome is almost identical to that of Amborella trichopoda, a basal angiosperm. The structure of IRs in Elodea is unique among monocot species with the whole cp genome sequenced. In Elodea and another monocot Lemna minor the borders between IRs and LSC are located upstream of rps19 gene and downstream of trnH-GUG gene, while in most monocots, IR has extended to include both trnH and rps19 genes. A phylogenetic analysis conducted using Bayesian method, based on the DNA sequences of 81 chloroplast genes from 17 monocot taxa provided support for the placement of Elodea together with Lemna as a basal monocot and the next diverging lineage of monocots after Acorales. In comparison with other monocots, the Elodea cp genome has gone through only few rearrangements or gene losses. IR of Elodea has a unique structure among the monocot species studied so far as its structure is similar to that of a basal angiosperm Amborella. This result together with phylogenetic analyses supports the placement of Elodea as a basal monocot to the next diverging lineage of monocots after Acorales. So far, only few cp genomes representing early lineages of monocots have been sequenced and, therefore, this study provides valuable information about the course of evolution in divergence of monocot lineages. (C) 2012 Elsevier B.V. All rights reserved.