Genome-wide analysis of the rice and Arabidopsis non-specific lipid transfer protein (nsLtp) gene families and identification of wheat nsLtp genes by EST data mining.
Genome-wide analysis of the rice and Arabidopsis non-specific lipid transfer protein (nsLtp) gene families and identification of wheat nsLtp genes by EST data mining.
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DOI：
10.1186/1471-2164-9-86
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发表时间：
2008-02-21
期刊：
影响因子：
4.4
通讯作者：
Gautier MF
中科院分区：
文献类型：
--
作者：
Boutrot F;Chantret N;Gautier MF
植物非特异性脂转移蛋白(NsLTPs)由多基因家族编码，具有多种生理功能，目前尚不清楚。我们的目标是确定水稻和拟南芥中完整的nsLtp基因家族的特征，并进行小麦EST数据库挖掘以发现nsLtp基因。在本研究中，我们对水稻和拟南芥的nsLtp基因家族进行了全基因组分析，共鉴定出52个水稻nsLtp基因和49个拟南芥nsLtp基因。在这里，我们提出了一个完整的概述基因和推导的蛋白质功能。串联重复序列代表了52个水稻nsLtp基因中的26个基因和49个拟南芥nsLtp基因中的18个基因，支持这些物种中nsLtp基因家族的复杂性。系统发育分析表明，水稻和拟南芥nsLTPs聚在9个不同的分支。此外，我们还对Unigene数据库中收录的水稻nsLtp基因和小麦(Triticum Aestivum)EST序列进行了比较分析。我们鉴定了156个可能的小麦nsLtp基因，其中91个在‘中国春’品种中发现。122个小麦非冗余nsLTPs被组织成8个类型33个亚科。根据对其中7个分支存在于拟南芥、水稻和小麦中的观察，我们得出结论，nsLTP家族中的主要功能分化发生在单子叶/双子叶分化之前。相反，在拟南芥中不存在III型nsLTPs，只有在拟南芥中发现了IX型nsLTPs。小麦中nsLtp基因数量较多的原因可能仅仅是由于小麦的六倍体状态，但也可能反映了水稻11号和12号染色体以及拟南芥5号染色体上观察到的基因簇的广泛重复。我们的研究为水稻、拟南芥和小麦nsLtp基因家族的组织提供了基本信息。NsLTP类型的多样性为研究拟南芥、水稻和小麦nsLtp基因家族提供了新的见解，并将有力地支持进一步的转录谱或nsLtp基因的功能分析。在确定特定的生理功能之前，根据序列相似性和/或系统发育聚类来对植物nsLTP进行分类似乎是有意义的。
Plant non-specific lipid transfer proteins (nsLTPs) are encoded by multigene families and possess physiological functions that remain unclear. Our objective was to characterize the complete nsLtp gene family in rice and arabidopsis and to perform wheat EST database mining for nsLtp gene discovery. In this study, we carried out a genome-wide analysis of nsLtp gene families in Oryza sativa and Arabidopsis thaliana and identified 52 rice nsLtp genes and 49 arabidopsis nsLtp genes. Here we present a complete overview of the genes and deduced protein features. Tandem duplication repeats, which represent 26 out of the 52 rice nsLtp genes and 18 out of the 49 arabidopsis nsLtp genes identified, support the complexity of the nsLtp gene families in these species. Phylogenetic analysis revealed that rice and arabidopsis nsLTPs are clustered in nine different clades. In addition, we performed comparative analysis of rice nsLtp genes and wheat (Triticum aestivum) EST sequences indexed in the UniGene database. We identified 156 putative wheat nsLtp genes, among which 91 were found in the 'Chinese Spring' cultivar. The 122 wheat non-redundant nsLTPs were organized in eight types and 33 subfamilies. Based on the observation that seven of these clades were present in arabidopsis, rice and wheat, we conclude that the major functional diversification within the nsLTP family predated the monocot/dicot divergence. In contrast, there is no type VII nsLTPs in arabidopsis and type IX nsLTPs were only identified in arabidopsis. The reason for the larger number of nsLtp genes in wheat may simply be due to the hexaploid state of wheat but may also reflect extensive duplication of gene clusters as observed on rice chromosomes 11 and 12 and arabidopsis chromosome 5. Our current study provides fundamental information on the organization of the rice, arabidopsis and wheat nsLtp gene families. The multiplicity of nsLTP types provide new insights on arabidopsis, rice and wheat nsLtp gene families and will strongly support further transcript profiling or functional analyses of nsLtp genes. Until such time as specific physiological functions are defined, it seems relevant to categorize plant nsLTPs on the basis of sequence similarity and/or phylogenetic clustering.
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影响因子：
7
作者：
Blanc, G;Hokamp, K;Wolfe, KH
通讯作者：
Wolfe, KH
影响因子：
3.7
作者：
Feng, JX;Ji, SJ;Zhu, YX
通讯作者：
Zhu, YX
DOI：
10.1016/j.bbaexp.2005.06.010
发表时间：
2005-08-15
期刊：
BIOCHIMICA ET BIOPHYSICA ACTA-GENE STRUCTURE AND EXPRESSION
影响因子：
--
作者：
Boutrot, F;Guirao, A;Gautier, MF
通讯作者：
Gautier, MF
DOI：
10.1111/j.1432-1033.1994.tb20066.x
发表时间：
1994-12-01
期刊：
EUROPEAN JOURNAL OF BIOCHEMISTRY
影响因子：
--
作者：
GINCEL, E;SIMORRE, JP;VOVELLE, F
通讯作者：
VOVELLE, F
影响因子：
4.4
作者：
Englbrecht CC;Schoof H;Böhm S
通讯作者：
Böhm S