The evolutionary history of plant T2/S-type ribonucleases.
The evolutionary history of plant T2/S-type ribonucleases.
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作者：
Ramanauskas K;Igić B
在植物基因组中发现了越来越多的T2/S-RNase。该蛋白质家族的成员具有多种已知的功能，但绝大多数仍然没有特征。我们目前的数据和T2/S-RNases之间的系统发育关系的分析，并特别注意组中包含的最广泛的系统的自交不亲和显花植物的女性成分。返回强调最初确定的组成部分，这一机制产生重要的解释其演变的背景。首先，我们发现，在自我排斥（III类）的分支被发现专门在核心真双子叶植物，而其余的分支包含其他维管植物的成员。其次，某些特征，如内含子模式，等电点和保守的氨基酸区域，有助于区分S-RNase，这是表达自交不亲和性所必需的，从其他T2/S-RNase家族成员。第三，我们设计并提出了一套方法来澄清新的S-RNase候选人从现有的基因组组件。我们使用基因组特征来识别具有未知自交不亲和机制的植物基因组中假定的功能性和残留的S-位点。可能的残体的广泛出现表明，功能性自交不亲和性的丧失可能会在很长时间后留下痕迹，这种类似分子化石的数据可能是关于RNA酶和其他自交不亲和性机制的历史和分布的重要信息来源。最后，我们发布了一个公共资源，旨在帮助搜索S-位点RNA酶，并帮助提供有关其分类分布的越来越详细的信息。
A growing number of T2/S-RNases are being discovered in plant genomes. Members of this protein family have a variety of known functions, but the vast majority are still uncharacterized. We present data and analyses of phylogenetic relationships among T2/S-RNases, and pay special attention to the group that contains the female component of the most widespread system of self-incompatibility in flowering plants. The returned emphasis on the initially identified component of this mechanism yields important conjectures about its evolutionary context. First, we find that the clade involved in self-rejection (class III) is found exclusively in core eudicots, while the remaining clades contain members from other vascular plants. Second, certain features, such as intron patterns, isoelectric point, and conserved amino acid regions, help differentiate S-RNases, which are necessary for expression of self-incompatibility, from other T2/S-RNase family members. Third, we devise and present a set of approaches to clarify new S-RNase candidates from existing genome assemblies. We use genomic features to identify putative functional and relictual S-loci in genomes of plants with unknown mechanisms of self-incompatibility. The widespread occurrence of possible relicts suggests that the loss of functional self-incompatibility may leave traces long after the fact, and that this manner of molecular fossil-like data could be an important source of information about the history and distribution of both RNase-based and other mechanisms of self-incompatibility. Finally, we release a public resource intended to aid the search for S-locus RNases, and help provide increasingly detailed information about their taxonomic distribution.
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影响因子：
3.7
作者：
Aguiar B;Vieira J;Cunha AE;Fonseca NA;Iezzoni A;van Nocker S;Vieira CP
通讯作者：
Vieira CP
影响因子：
5.3
作者：
Aguiar B;Vieira J;Cunha AE;Vieira CP
通讯作者：
Vieira CP
Biopython：用于计算分子生物学和生物信息学的免费 Python 工具。
DOI：
10.1093/bioinformatics/btp163
发表时间：
2009-06-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Cock PJ;Antao T;Chang JT;Chapman BA;Cox CJ;Dalke A;Friedberg I;Hamelryck T;Kauff F;Wilczynski B;de Hoon MJ
通讯作者：
de Hoon MJ
影响因子：
2.9
作者：
BJELLQVIST, B;BASSE, B;CELIS, JE
通讯作者：
CELIS, JE
影响因子：
2.9
作者：
BJELLQVIST, B;HUGHES, GJ;HOCHSTRASSER, D
通讯作者：
HOCHSTRASSER, D