Molecular analysis of the NAC gene family in rice

Kikuchi, Kiyoshi; Ueguchi-Tanaka, Miyako; Yoshida, Keishiro; Nagato, Yasuo; Matsusoka, M.; Hirano, Hideki

doi:10.1007/pl00008647

Cited by 224 publications

(173 citation statements)

References 22 publications

(37 reference statements)

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“…The SNAC1-overexpressing rice plants also showed improved salt tolerance, further emphasizing the usefulness of this gene in stress tolerance improvement (Hu et al 2006). Another stress-responsive NAC gene OsNAC6, which is a member of ATAF subfamily (Kikuchi et al 2000;Ooka et al 2003), has been reported for its induction by abiotic stresses and jasmonic acid treatment (Ohnishi et al 2005), and overexpression of this gene in rice resulted in enhanced tolerance to dehydration stresses (Nakashima et al 2007).…”

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confidence: 94%

Characterization of transcription factor gene SNAC2 conferring cold and salt tolerance in rice

et al. 2008

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Plants respond to adverse environment by initiating a series of signaling processes including activation of transcription factors that can regulate expression of arrays of genes for stress response and adaptation. NAC (NAM, ATAF, and CUC) is a plant specific transcription factor family with diverse roles in development and stress regulation. In this report, a stress-responsive NAC gene (SNAC2) isolated from upland rice IRA109 (Oryza sativa L. ssp japonica) was characterized for its role in stress tolerance. SNAC2 was proven to have transactivation and DNA-binding activities in yeast and the SNAC2-GFP fusion protein was localized in the rice nuclei. Northern blot and SNAC2 promoter activity analyses suggest that SNAC2 gene was induced by drought, salinity, cold, wounding, and abscisic acid (ABA) treatment. The SNAC2 gene was over-expressed in japonica rice Zhonghua 11 to test the effect on improving stress tolerance. More than 50% of the transgenic plants remained vigorous when all WT plants died after severe cold stress (4-8°C for 5 days). The transgenic plants had higher cell membrane stability than wild type during the cold stress. The transgenic rice had significantly higher germination and growth rate than WT under high salinity conditions. Over-expression of SNAC2 can also improve the tolerance to PEG treatment. In addition, the SNAC2-overexpressing plants showed significantly increased sensitivity to ABA. DNA chip profiling analysis of transgenic plants revealed many up-regulated genes related to stress response and adaptation such as peroxidase, ornithine aminotransferase, heavy metal-associated protein, sodium/hydrogen exchanger, heat shock protein, GDSL-like lipase, and phenylalanine ammonia lyase. Interestingly, none of the up-regulated genes in the SNAC2-overexpressing plants matched the genes up-regulated in the transgenic plants over-expressing other stress responsive NAC genes reported previously. These data suggest SNAC2 is a novel stress responsive NAC transcription factor that possesses potential utility in improving stress tolerance of rice.

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confidence: 94%

Characterization of transcription factor gene SNAC2 conferring cold and salt tolerance in rice

et al. 2008

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“…The proteins of this family are specific to plant genomes and play important roles in plant growth, development, and senescence (Souer et al, 1996;Kikuchi et al, 2000). Recently, new members of the NAC family have been shown to interact with virus proteins and are involved in proteinprotein interactions (Xie et al, 1999;Ren et al, 2000).…”

Section: Cold-responsive Genes In Sugarcanementioning

confidence: 99%

RNA Expression Profiles and Data Mining of Sugarcane Response to Low Temperature

et al. 2003

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Tropical and subtropical plants are generally sensitive to cold and can show appreciable variation in their response to cold stress when exposed to low positive temperatures. Using nylon filter arrays, we analyzed the expression profile of 1,536 expressed sequence tags (ESTs) of sugarcane (Saccharum sp. cv SP80-3280) exposed to cold for 3 to 48 h. Thirty-four cold-inducible ESTs were identified, of which 20 were novel cold-responsive genes that had not previously been reported as being cold inducible, including cellulose synthase, ABI3-interacting protein 2, a negative transcription regulator, phosphate transporter, and others, as well as several unknown genes. In addition, 25 ESTs were identified as being down-regulated during cold exposure. Using a database of cold-regulated proteins reported for other plants, we searched for homologs in the sugarcane EST project database (SUCEST), which contains 263,000 ESTs. Thirty-three homologous putative coldregulated proteins were identified in the SUCEST database. On the basis of the expression profiles of the cold-inducible genes and the data-mining results, we propose a molecular model for the sugarcane response to low temperature.

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“…NAC proteins commonly possess a conserved NAC domain at the N-terminus, which comprises nearly 160 amino acid residues that are divided into five subdomains (A-E) [6,9,10]. A sequence region of 60 residues within the NAC domain contains a unique TF fold consisting of a twisted-sheet bounded by a few helical elements [11].…”

Section: Introductionmentioning

confidence: 99%

“…NAC domain has been implicated in nuclear localization, DNA binding, and the formation of homodimers or heterodimers with other NAC domain proteins [11-16]. In contrast, the C-terminal regions of NAC proteins are highly divergent [6-9,14], and confer the regulation diversities of transcriptional activation activity [11,13,15-22]. …”

Section: Introductionmentioning

confidence: 99%

Comprehensive Analysis of NAC Domain Transcription Factor Gene Family in Populus trichocarpa

et al. 2010

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BackgroundNAC (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.ResultsIn 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.ConclusionBased 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.

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Molecular analysis of the NAC gene family in rice

Cited by 224 publications

References 22 publications

Characterization of transcription factor gene SNAC2 conferring cold and salt tolerance in rice

Characterization of transcription factor gene SNAC2 conferring cold and salt tolerance in rice

RNA Expression Profiles and Data Mining of Sugarcane Response to Low Temperature

Comprehensive Analysis of NAC Domain Transcription Factor Gene Family in Populus trichocarpa

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