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Comprehensive Analysis of NAC Domain Transcription Factor Gene Family in Populus trichocarpa
Hu, Ruibo; Qi, Guang; Kong, Yingzhen; Kong, Dejing; Gao, Qian; Zhou, Gongke
2010-07-15
Source PublicationBMC PLANT BIOLOGY
ISSN1471-2229
Volume10Issue:1
AbstractBackground: NAC (NAM, ATAF1/2 and CUC2) domain proteins are plant-specific transcriptional factors known to play diverse roles in various plant developmental processes. NAC transcription factors comprise of a large gene family represented by more than 100 members in Arabidopsis, rice and soybean etc. Recently, a preliminary phylogenetic analysis was reported for NAC gene family from 11 plant species. However, no comprehensive study incorporating phylogeny, chromosomal location, gene structure, conserved motifs, and expression profiling analysis has been presented thus far for the model tree species Populus. Results: In the present study, a comprehensive analysis of NAC gene family in Populus was performed. A total of 163 full-length NAC genes were identified in Populus, and they were phylogeneticly clustered into 18 distinct subfamilies. The gene structure and motif compositions were considerably conserved among the subfamilies. The distributions of 120 Populus NAC genes were non-random across the 19 linkage groups (LGs), and 87 genes (73%) were preferentially retained duplicates that located in both duplicated regions. The majority of NACs showed specific temporal and spatial expression patterns based on EST frequency and microarray data analyses. However, the expression patterns of a majority of duplicate genes were partially redundant, suggesting the occurrence of subfunctionalization during subsequent evolutionary process. Furthermore, quantitative real-time RT-PCR (RT-qPCR) was performed to confirm the tissue-specific expression patterns of 25 NAC genes. Conclusion: Based on the genomic organizations, we can conclude that segmental duplications contribute significantly to the expansion of Populus NAC gene family. The comprehensive expression profiles analysis provides first insights into the functional divergence among members in NAC gene family. In addition, the high divergence rate of expression patterns after segmental duplications indicates that NAC genes in Populus are likewise to have been retained by substantial subfunctionalization. Taken together, our results presented here would be helpful in laying the foundation for functional characterization of NAC gene family and further gaining an understanding of the structure-function relationship between these family members.; Background: NAC (NAM, ATAF1/2 and CUC2) domain proteins are plant-specific transcriptional factors known to play diverse roles in various plant developmental processes. NAC transcription factors comprise of a large gene family represented by more than 100 members in Arabidopsis, rice and soybean etc. Recently, a preliminary phylogenetic analysis was reported for NAC gene family from 11 plant species. However, no comprehensive study incorporating phylogeny, chromosomal location, gene structure, conserved motifs, and expression profiling analysis has been presented thus far for the model tree species Populus.
SubtypeArticle
Subject Area能源植物资源
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
DOI10.1186/1471-2229-10-145
WOS KeywordGENOME-WIDE ANALYSIS ; SECONDARY WALL SYNTHESIS ; LATERAL ROOT DEVELOPMENT ; STRESS-RESPONSIVE GENES ; NO-APICAL-MERISTEM ; ARABIDOPSIS-THALIANA ; MOLECULAR CHARACTERIZATION ; FUNCTIONAL-ANALYSIS ; CAMBIAL MERISTEM ; DUPLICATED GENES
Indexed BySCI
Language英语
WOS Research AreaPlant Sciences
WOS SubjectPlant Sciences
WOS IDWOS:000280841400001
Citation statistics
Cited Times:191[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.qibebt.ac.cn/handle/337004/632
Collection植物代谢工程团队
AffiliationChinese Acad Sci, Qingdao Inst BioEnergy & Bioproc Technol, Qingdao 266101, Peoples R China
Recommended Citation
GB/T 7714
Hu, Ruibo,Qi, Guang,Kong, Yingzhen,et al. Comprehensive Analysis of NAC Domain Transcription Factor Gene Family in Populus trichocarpa[J]. BMC PLANT BIOLOGY,2010,10(1).
APA Hu, Ruibo,Qi, Guang,Kong, Yingzhen,Kong, Dejing,Gao, Qian,&Zhou, Gongke.(2010).Comprehensive Analysis of NAC Domain Transcription Factor Gene Family in Populus trichocarpa.BMC PLANT BIOLOGY,10(1).
MLA Hu, Ruibo,et al."Comprehensive Analysis of NAC Domain Transcription Factor Gene Family in Populus trichocarpa".BMC PLANT BIOLOGY 10.1(2010).
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