May the Fittest Protein Evolve: Favoring the Plant‐Specific Origin and Expansion of NAC Transcription Factors

Mathew, Iny Elizebeth; Agarwal, Pinky

doi:10.1002/bies.201800018

Cited by 56 publications

(44 citation statements)

References 190 publications

(172 reference statements)

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“…NAC genes are recognized to be largely involved in many developmental and growth processes, such as the differentiation of major organs [81]. Our study highlighted genes that are preferentially expressed in the leaf (16) or in the grain (7) regardless of the genotype, the grain developmental stage, or the field conditions.…”

Section: Discussionmentioning

confidence: 84%

Genome-wide analysis, expansion and expression of the NAC family under drought and heat stresses in bread wheat (T. aestivum L.)

et al. 2019

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The NAC family is one of the largest plant-specific transcription factor families, and some of its members are known to play major roles in plant development and response to biotic and abiotic stresses. Here, we inventoried 488 NAC members in bread wheat ( Triticum aestivum ). Using the recent release of the wheat genome (IWGS RefSeq v1.0), we studied duplication events focusing on genomic regions from 4B-4D-5A chromosomes as an example of the family expansion and neofunctionalization of TaNAC members. Differentially expressed TaNAC genes in organs and in response to abiotic stresses were identified using publicly available RNAseq data. Expression profiling of 23 selected candidate TaNAC genes was studied in leaf and grain from two bread wheat genotypes at two developmental stages in field drought conditions and revealed insights into their specific and/or overlapping expression patterns. This study showed that, of the 23 TaNAC genes, seven have a leaf-specific expression and five have a grain-specific expression. In addition, the grain-specific genes profiles in response to drought depend on the genotype. These genes may be considered as potential candidates for further functional validation and could present an interest for crop improvement programs in response to climate change. Globally, the present study provides new insights into evolution, divergence and functional analysis of NAC gene family in bread wheat.

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Section: Discussionmentioning

confidence: 84%

Genome-wide analysis, expansion and expression of the NAC family under drought and heat stresses in bread wheat (T. aestivum L.)

et al. 2019

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“…The maximum numbers of the DLN repressors of rice belonged to C2H2 zinc finger family, with MYB, NAC, AP2 and PHD as other prominent families (Tables S1–S3). We have previously reported the presence of this motif in ZOS TFs [30] and have also shown NAC TFs to act as repressors [31,32]. AP2/ERF repressors having L/FDLNL/F(x)P as the motif essential for repression, were the first ones to be identified [33].…”

Section: Resultsmentioning

confidence: 99%

Analysis of Rice Proteins with DLN Repressor Motif/S

Singh

Mathew

Verma

et al. 2019

IJMS

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Transcriptional regulation includes both activation and repression of downstream genes. In plants, a well-established class of repressors are proteins with an ERF-associated amphiphilic repression/EAR domain. They contain either DLNxxP or LxLxL as the identifying hexapeptide motif. In rice (Oryza sativa), we have identified a total of 266 DLN repressor proteins, with the former motif and its modifications thereof comprising 227 transcription factors and 39 transcriptional regulators. Apart from DLNxxP motif conservation, DLNxP and DLNxxxP motifs with variable numbers/positions of proline and those without any proline conservation have been identified. Most of the DLN repressome proteins have a single DLN motif, with higher relative percentage in the C-terminal region. We have designed a simple yeast-based experiment wherein a DLN motif can successfully cause strong repression of downstream reporter genes, when fused to a transcriptional activator of rice or yeast. The DLN hexapeptide motif is essential for repression, and at least two “DLN” residues cause maximal repression. Comparatively, rice has more DLN repressor encoding genes than Arabidopsis, and DLNSPP motif from rice is 40% stronger than the known Arabidopsis SRDX motif. The study reports a straightforward assay to analyze repressor activity, along with the identification of a strong DLN repressor from rice.

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“…The NAC family are plant-specific transcription factors. Previous studies [15,26,75] have shown that NACs are involved in plant growth and development, which pattern organs, biotic stress, and abiotic stress. However, current research on NAC transcription factors is mainly focused on model plants.…”

Section: Discussionmentioning

confidence: 99%

“…Numerous NAC domain proteins have been implicated in plant biotic stress and abiotic stress, such as fungi, bacteria, insects, drought, salinity, and cold and mechanical wounding [14,26]. The AtNAC2 gene from A. thaliana is a transcription factor downstream of ethylene and auxin signaling pathways, which plays an important role in salt stress response [27].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Analysis of NAC Gene Family in Betula pendula

Song

Lin

Zhang

et al. 2019

Forests

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NACs (NAM, ATAF1/2, and CUC2) are plant-specific transcription factors that play diverse roles in various plant developmental processes. In this study, we identified the NAC gene family in birch (Betula pendula) and further analyzed the function of BpNACs. Phylogenetic analysis reveals that the 114 BpNACs can be divided into seven subfamilies. We investigated the expression levels of these BpNACs in different tissues of birch including roots, xylem, leaves, and flowers, and the results showed that the BpNACs seem to be expressed higher in xylem and roots than leaves and flowers. In addition to tissue-specific expression analysis, we investigated the expression of BpNACs under low-temperature stress. A total of 21 BpNACs were differentially expressed under low-temperature stress, of which 17 were up-regulated, and four were down-regulated. Using the gene expression data, we reconstructed the gene co-expression network for the 21 low-temperature-responsive BpNACs. In conclusion, our results provide insight into the evolution of NAC genes in the B. pendula genome, and provide a basis for understanding the molecular mechanism for BpNAC-mediated cold responses in birch.

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May the Fittest Protein Evolve: Favoring the Plant‐Specific Origin and Expansion of NAC Transcription Factors

Cited by 56 publications

References 190 publications

Genome-wide analysis, expansion and expression of the NAC family under drought and heat stresses in bread wheat (T. aestivum L.)

Genome-wide analysis, expansion and expression of the NAC family under drought and heat stresses in bread wheat (T. aestivum L.)

Analysis of Rice Proteins with DLN Repressor Motif/S

Genome-Wide Analysis of NAC Gene Family in Betula pendula

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