The chloroplast genome of Hyoscyamus niger and a phylogenetic study of the tribe Hyoscyameae (Solanaceae).
The chloroplast genome of Hyoscyamus niger and a phylogenetic study of the tribe Hyoscyameae (Solanaceae).
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DOI：
10.1371/journal.pone.0098353
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发表时间：
2014
期刊：
影响因子：
3.7
通讯作者：
Abbona CC
中科院分区：
文献类型：
--
作者：
Sanchez-Puerta MV;Abbona CC
天仙子族（茄科）仅限于欧亚大陆，包括Archyoscyamus，Anisodus，Atropa，Atropanthe，Hyoscyamus，Physochlaina，Przewalskia和Scopolia属。尽管天仙子亚科的单系性得到了有力的支持，但族内分类群的关系仍然不清楚。叶绿体标记已被广泛应用于植物低分类水平的亲缘关系研究。基于叶绿体基因组的比较基因组学，已经发展了可变的叶绿体基因间区域的鉴定，但是这些区域具有狭窄的系统发育效用。在这项研究中，我们提出的天仙子黑叶绿体基因组序列，并进行比较，其他茄科质体基因组的基因顺序，基因和内含子的内容，编辑位点，复制起点，重复，和假设的开放阅读框架。我们开发和测序三个可变质体标记从8个物种，以阐明部落天仙子内的关系。水平转移内含子的存在下，在线粒体cox 1基因的一些物种的部落在这里被认为是一个可能的synapomorphy团结5属天仙子。或者，cox 1内含子可能是一个同质性的字符内获得两次部落。基因间质体间隔区trnC-psbM的同源倒位被认为是偏倚的来源，并从系统发育分析中使用的数据集中删除。近12 kb的质体序列数据不足以完全解决天仙子亚科属之间的关系，但一些分支被确定。提出了两种不同的假设的部落内的属的进化。
The tribe Hyoscyameae (Solanaceae) is restricted to Eurasia and includes the genera Archihyoscyamus, Anisodus, Atropa, Atropanthe, Hyoscyamus, Physochlaina, Przewalskia and Scopolia. Even though the monophyly of Hyoscyameae is strongly supported, the relationships of the taxa within the tribe remain unclear. Chloroplast markers have been widely used to elucidate plant relationships at low taxonomic levels. Identification of variable chloroplast intergenic regions has been developed based on comparative genomics of chloroplast genomes, but these regions have a narrow phylogenetic utility. In this study, we present the chloroplast genome sequence of Hyoscyamus niger and make comparisons to other solanaceous plastid genomes in terms of gene order, gene and intron content, editing sites, origins of replication, repeats, and hypothetical open reading frames. We developed and sequenced three variable plastid markers from eight species to elucidate relationships within the tribe Hyoscyameae. The presence of a horizontally transferred intron in the mitochondrial cox1 gene of some species of the tribe is considered here a likely synapomorphy uniting five genera of the Hyoscyameae. Alternatively, the cox1 intron could be a homoplasious character acquired twice within the tribe. A homoplasious inversion in the intergenic plastid spacer trnC-psbM was recognized as a source of bias and removed from the data set used in the phylogenetic analyses. Almost 12 kb of plastid sequence data were not sufficient to completely resolve relationships among genera of Hyoscyameae but some clades were identified. Two alternative hypotheses of the evolution of the genera within the tribe are proposed.
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影响因子：
2.5
作者：
Lohse, Marc;Drechsel, Oliver;Bock, Ralph
通讯作者：
Bock, Ralph
影响因子：
1.9
作者：
Bremer, B;Manen, JF
通讯作者：
Manen, JF
影响因子：
7.2
作者：
Khakhlova, O;Bock, R
通讯作者：
Bock, R
影响因子：
14.9
作者：
Benson, G
通讯作者：
Benson, G
DOI：
10.1073/pnas.94.12.6285
发表时间：
1997-06-10
影响因子：
11.1
作者：
Freyer, R;KieferMeyer, MC;Kossel, H
通讯作者：
Kossel, H