Evolution of parallel spindles like genes in plants and highlight of unique domain architecture#.
Evolution of parallel spindles like genes in plants and highlight of unique domain architecture#.
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DOI：
10.1186/1471-2148-11-78
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发表时间：
2011-03-24
影响因子：
3.4
通讯作者：
Conicella C
中科院分区：
文献类型：
--
作者：
Cigliano RA;Sanseverino W;Cremona G;Consiglio FM;Conicella C
多倍体在植物进化中起着重要的作用。在有花植物中，多倍化的主要途径被认为是通过体细胞染色体数目为2n的配子进行有性生殖。拟南芥Spindle1基因（AtPS1）在减数分裂第二次分裂中控制纺锤体的方向，突变后可诱导2n花粉。有趣的是，AtPS1编码的蛋白质具有FHA结构域和PINc结构域，参与RNA衰变（即无义介导的mRNA衰变）。在马铃薯中，2n花粉依赖于平行纺锤体很久以前就被描述过，但负责的基因从未被分离。AtPS1的研究成果以及基因组序列的获得使得分离马铃薯PSLike（PSL）和研究PSL家族在植物中的进化成为可能。我们的工作导致马铃薯中的PSLs的第一个表征表明，在这个物种中，拟南芥的PSLs的复杂性更大。事实上，基因组PSL基因座和七个cDNA受选择性剪接已被克隆。此外，通过选择性剪接转录本的序列比较，表明马铃薯中至少存在另外两个PSL位点。对20个植物绿科植物的系统发育分析表明，PSLs在整个物种中分布广泛，仅在马铃薯和大豆中出现多拷贝。PSLFHA和PSLPINc结构域的分析证明，就二级结构而言，PINc结构域相对于FHA发生了较大程度的变异。在特定的活性位点方面，这两个域表现出多样化的植物物种，可能与PSL基因之间的功能多样化。此外，一些特定的活性位点在植物中是高度保守的，这一点得到了序列比对和负选择证据的支持，这些证据被评估为非同义突变和同义突变之间的差异。在这项研究中，我们强调存在的PSLs整个Viridaeplantae，从苔藓到高等植物。我们提供的证据表明，PSLs主要发生在分析的基因组中，除了大豆和马铃薯，其特点是最近的全基因组重复事件的单。在马铃薯中，我们建议候选PSL基因在2n花粉中的作用，应该深入研究。我们提供了有用的洞察进化保守的FHA和PINc域整个植物PSL这表明这些域的PSL功能的基本作用。
Polyploidy has long been recognized as playing an important role in plant evolution. In flowering plants, the major route of polyploidization is suggested to be sexual through gametes with somatic chromosome number (2n). Parallel Spindle1 gene in Arabidopsis thaliana (AtPS1) was recently demonstrated to control spindle orientation in the 2nd division of meiosis and, when mutated, to induce 2n pollen. Interestingly, AtPS1 encodes a protein with a FHA domain and PINc domain putatively involved in RNA decay (i.e. Nonsense Mediated mRNA Decay). In potato, 2n pollen depending on parallel spindles was described long time ago but the responsible gene has never been isolated. The knowledge derived from AtPS1 as well as the availability of genome sequences makes it possible to isolate potato PSLike (PSL) and to highlight the evolution of PSL family in plants. Our work leading to the first characterization of PSLs in potato showed a greater PSL complexity in this species respect to Arabidopsis thaliana. Indeed, a genomic PSL locus and seven cDNAs affected by alternative splicing have been cloned. In addition, the occurrence of at least two other PSL loci in potato was suggested by the sequence comparison of alternatively spliced transcripts. Phylogenetic analysis on 20 Viridaeplantae showed the wide distribution of PSLs throughout the species and the occurrence of multiple copies only in potato and soybean. The analysis of PSLFHA and PSLPINc domains evidenced that, in terms of secondary structure, a major degree of variability occurred in PINc domain respect to FHA. In terms of specific active sites, both domains showed diversification among plant species that could be related to a functional diversification among PSL genes. In addition, some specific active sites were strongly conserved among plants as supported by sequence alignment and by evidence of negative selection evaluated as difference between non-synonymous and synonymous mutations. In this study, we highlight the existence of PSLs throughout Viridaeplantae, from mosses to higher plants. We provide evidence that PSLs occur mostly as singleton in the analyzed genomes except in soybean and potato both characterized by a recent whole genome duplication event. In potato, we suggest the candidate PSL gene having a role in 2n pollen that should be deeply investigated. We provide useful insight into evolutionary conservation of FHA and PINc domains throughout plant PSLs which suggest a fundamental role of these domains for PSL function.
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DOI：
10.1093/bioinformatics/8.3.275
发表时间：
1992-06-01
期刊：
COMPUTER APPLICATIONS IN THE BIOSCIENCES
影响因子：
--
作者：
JONES, DT;TAYLOR, WR;THORNTON, JM
通讯作者：
THORNTON, JM
DOI：
10.1073/pnas.0900906106
发表时间：
2009-04-07
影响因子：
11.1
作者：
Fawcett, Jeffrey A.;Maere, Steven;Van de Peer, Yves
通讯作者：
Van de Peer, Yves
影响因子：
10.5
作者：
Mercier, R;Vezon, D;Horlow, C
通讯作者：
Horlow, C
影响因子：
16
作者：
Durocher, D;Taylor, IA;Yaffe, MB
通讯作者：
Yaffe, MB
影响因子：
14.9
作者：
Hartung, F;Puchta, H
通讯作者：
Puchta, H