Comprehensive Analysis of NAC Family Genes in Oryza sativa and Arabidopsis thaliana

Ooka, Hisako; Satoh, Kouji; Doi, Koji; Nagata, Toshifumi; Otomo, Yasuhiro; Murakami, Kazuo; Matsubara, Kazuo; Osato, Naoki; Kawai, Jun; Carninci, Piero; Hayashizaki, Yoshihide; Suzuki, Koji; Kojima, Keiichi; Takahara, Yoshimasa; Yamamoto, Kōji; Kikuchi, Shoshi

doi:10.1093/dnares/10.6.239

Cited by 955 publications

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“…The NAC domain genes are plant-specific TFs presented as one of the largest multigene families in Arabidopsis , rice, soybean, maize, grape and sorghum etc [3,6,8,57]. Hidden Markov Model (HMM) profile of the Pfam NAC domain (PF02365) was exploited as query to identify the NAC genes in Populus genome (release 2.0, http://www.phytozome.net/poplar).…”

Section: Resultsmentioning

confidence: 99%

“…NAC ( NAM, ATAF1/2 and CUC2 ) domain proteins comprise of one of the largest plant-specific TFs represented by ~105 genes in Arabidopsis [6], ~140 genes in rice [7] and ~101 genes in soybean genome [8]. 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].…”

Section: Introductionmentioning

confidence: 99%

“…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%

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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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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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

et al. 2010

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“…(2003) identified five subdomains within the NAC domain, and 13 motifs in the transcriptional activation region (TAR). The wheat TaNAC‐S protein sequence contains all five subdomains, as well as a NAC1/NAM group‐specific motif (Fig.…”

Section: Resultsmentioning

confidence: 99%

Overexpression of a NAC transcription factor delays leaf senescence and increases grain nitrogen concentration in wheat

et al. 2015

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Increasing the duration of leaf photosynthesis during grain filling using slow‐senescing functional stay‐green phenotypes is a possible route for increasing grain yields in wheat (Triticum aestivum L.). However, delayed senescence may negatively affect nutrient remobilisation and hence reduce grain protein concentrations and grain quality. A novel NAC1‐type transcription factor (hereafter TaNAC‐S) was identified in wheat, with gene expression located primarily in leaf/sheath tissues, which decreased during post‐anthesis leaf senescence. Expression of TaNAC‐S in the second leaf correlated with delayed senescence in two doubled‐haploid lines of an Avalon × Cadenza population (lines 112 and 181), which were distinct for leaf senescence. Transgenic wheat plants overexpressing TaNAC‐S resulted in delayed leaf senescence (stay‐green phenotype). Grain yield, aboveground biomass, harvest index and total grain N content were unaffected, but NAC over‐expressing lines had higher grain N concentrations at similar grain yields compared to non‐transgenic controls. These results indicate that TaNAC‐S is a negative regulator of leaf senescence, and that delayed leaf senescence may lead not only to increased grain yields but also to increased grain protein concentrations.

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Transcription Factors ofArabidopsisand Rice: A Genomic Perspective

Riechmann

2018

Annual Plant Reviews Online

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Comprehensive Analysis of NAC Family Genes in Oryza sativa and Arabidopsis thaliana

Cited by 955 publications

References 25 publications

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

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

Overexpression of a NAC transcription factor delays leaf senescence and increases grain nitrogen concentration in wheat

Transcription Factors ofArabidopsisand Rice: A Genomic Perspective

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