MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress.
MADS-box gene family in rice: genome-wide identification, organization and expression profiling during reproductive development and stress.
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大米中的MADS-box基因家族：在生殖发育和压力期间，全基因组识别，组织和表达分析。
DOI：
10.1186/1471-2164-8-242
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发表时间：
2007-07-18
期刊：
影响因子：
4.4
通讯作者：
Kapoor, Sanjay
中科院分区：
文献类型：
--
作者：
Arora, Rita;Agarwal, Pinky;Ray, Swatismita;Singh, Ashok Kumar;Singh, Vijay Pal;Tyagi, Akhilesh K.;Kapoor, Sanjay
MADS盒转录因子除了参与花器官的特化外，还参与植物生长发育的多个方面。近年来，关于模式植物拟南芥MADS-box家族的基因组定位、蛋白质基序结构、系统发育关系、基因结构和表达等方面的研究已有报道。虽然在水稻中也有一些研究，但在水稻基因组测序完成后，仍然等待着完整的MADS盒家族沿着全面的表达谱分析。此外，由于MADS-box家族在花发育中的作用，需要对水稻和拟南芥中MADS-box基因的结构、表达和功能方面进行分析，以了解该基因家族在生殖发育中的作用。利用基因芯片技术对水稻MADS盒转录因子家族基因进行了全基因组分子鉴定和表达谱分析。利用全面的注释工作，已经在水稻中鉴定了75个MADS盒基因，并根据遗传学将其分为MIKC c、MIKC*、Mα、Mβ和Mγ组。这些基因的染色体定位表明，16 MADS盒基因，主要是MIKCC型，位于水稻基因组的重复片段，而大多数的M型基因，在所有20个，似乎是由于串联重复。还鉴定了属于Mβ组的9个成员，这在单子叶植物中被认为是不存在的。分析了所有MADS-box基因在穗和种子发育的11个时间阶段、3种非生物胁迫条件下以及沿着3个营养发育阶段的表达谱。31个基因的转录本在生殖阶段优先积累，其中12个基因在种子中特异表达，6个基因在穗发育中特异表达。胁迫条件下七个基因的差异表达也是明显的。通过整理水稻和拟南芥中功能验证基因的表达数据，试图深入了解水稻MADS盒基因的可能功能。只有有限数量的MADS基因已在水稻中进行了功能验证。在这项调查中进行了全面的注释和转录组分析，增加了我们的理解MADS盒家族基因在水稻生殖发育和胁迫过程中的参与，也为功能验证研究的候选基因的选择提供了基础。
MADS-box transcription factors, besides being involved in floral organ specification, have also been implicated in several aspects of plant growth and development. In recent years, there have been reports on genomic localization, protein motif structure, phylogenetic relationships, gene structure and expression of the entire MADS-box family in the model plant system, Arabidopsis. Though there have been some studies in rice as well, an analysis of the complete MADS-box family along with a comprehensive expression profiling was still awaited after the completion of rice genome sequencing. Furthermore, owing to the role of MADS-box family in flower development, an analysis involving structure, expression and functional aspects of MADS-box genes in rice and Arabidopsis was required to understand the role of this gene family in reproductive development. A genome-wide molecular characterization and microarray-based expression profiling of the genes encoding MADS-box transcription factor family in rice is presented. Using a thorough annotation exercise, 75 MADS-box genes have been identified in rice and categorized into MIKCc, MIKC*, Mα, Mβ and Mγ groups based on phylogeny. Chromosomal localization of these genes reveals that 16 MADS-box genes, mostly MIKCc-type, are located within the duplicated segments of the rice genome, whereas most of the M-type genes, 20 in all, seem to have resulted from tandem duplications. Nine members belonging to the Mβ group, which was considered absent in monocots, have also been identified. The expression profiles of all the MADS-box genes have been analyzed under 11 temporal stages of panicle and seed development, three abiotic stress conditions, along with three stages of vegetative development. Transcripts for 31 genes accumulate preferentially in the reproductive phase, of which, 12 genes are specifically expressed in seeds, and six genes show expression specific to panicle development. Differential expression of seven genes under stress conditions is also evident. An attempt has been made to gain insight into plausible functions of rice MADS-box genes by collating the expression data of functionally validated genes in rice and Arabidopsis. Only a limited number of MADS genes have been functionally validated in rice. A comprehensive annotation and transcriptome profiling undertaken in this investigation adds to our understanding of the involvement of MADS-box family genes during reproductive development and stress in rice and also provides the basis for selection of candidate genes for functional validation studies.
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影响因子：
5.1
作者：
de Folter, S;Busscher, J;Angenent, GC
通讯作者：
Angenent, GC
DOI：
10.1007/s004380050364
发表时间：
1997-02-20
期刊：
MOLECULAR AND GENERAL GENETICS
影响因子：
--
作者：
Greco, R;Stagi, L;Pe, ME
通讯作者：
Pe, ME
影响因子：
2.9
作者：
CHOMCZYNSKI, P;SACCHI, N
通讯作者：
SACCHI, N
影响因子：
11.4
作者：
Egea-Cortines, M;Saedler, H;Sommer, H
通讯作者：
Sommer, H
影响因子：
2.1
作者：
Gurpreet Singh, Gurpreet Singh;Sanjay Kumar, Sanjay Kumar;Singh, P.
通讯作者：
Singh, P.