Comprehensive analysis and discovery of drought-related NAC transcription factors in common bean

Abstract

BackgroundCommon bean (Phaseolus vulgaris L.) is an important warm-season food legume. Drought is the most important environmental stress factor affecting large areas of common bean via plant death or reduced global production. The NAM, ATAF1/2 and CUC2 (NAC) domain protein family are classic transcription factors (TFs) involved in a variety of abiotic stresses, particularly drought stress. However, the NAC TFs in common bean have not been characterized.ResultsIn the present study, 86 putative NAC TF proteins were identified from the common bean genome database and located on 11 common bean chromosomes. The proteins were phylogenetically clustered into 8 distinct subfamilies. The gene structure and motif composition of common bean NACs were similar in each subfamily. These results suggest that NACs in the same subfamily may possess conserved functions. The expression patterns of common bean NAC genes were also characterized. The majority of NACs exhibited specific temporal and spatial expression patterns. We identified 22 drought-related NAC TFs based on transcriptome data for drought-tolerant and drought-sensitive genotypes. Quantitative real-time PCR (qRT-PCR) was performed to confirm the expression patterns of the 20 drought-related NAC genes.ConclusionsBased on the common bean genome sequence, we analyzed the structural characteristics, genome distribution, and expression profiles of NAC gene family members and analyzed drought-responsive NAC genes. Our results provide useful information for the functional characterization of common bean NAC genes and rich resources and opportunities for understanding common bean drought stress tolerance mechanisms.Electronic supplementary materialThe online version of this article (doi:10.1186/s12870-016-0882-5) contains supplementary material, which is available to authorized users.

Cloning, Characterization, and Expression Analysis of Eight Stress‐Related NAC Genes in Tartary Buckwheat

“…2). These findings are consistent with the conclusions in common beans (Phaseolus vulgaris L.) and grapevines (Wang et al, 2013;Wu et al, 2016).…”

Insights into Barley Root Transcriptome under Mild Drought Stress with an Emphasis on Gene Expression Regulatory Mechanisms

“…Many detected TFs belong to large families with members of positive and negative expression regulatory functions, and there are reports of their both up-or down-regulation upon drought. Such observations were made, for example, for genes from AP2/ERF [34,35], bHLH, MADS, MYB [8], NAC [9], or WRKY families [7]. Thus, a more detailed analysis targeted to single genes is needed to detect their specific impact on drought response in the Maresi cultivar.…”

“…Any transcriptional change relies on the action of transcription factors (TFs) and other proteins that are responsible for gene expression regulation. Factors that are differentially expressed under drought stress belong to various TF families, including AP2/ERF, NAC, bZIP, MYB/MYC, bHLH, WRKY, CAMTA, Alfin-like, or homeodomain TFs [5,6] and represent both positive and negative regulators of drought response [7][8][9]. Specific members of these families have been used to construct overexpression lines that have proven their role in the increase of drought tolerance, either by changes in root growth and architecture [10,11], root anatomy [12], or biochemical composition of root cell walls [13].…”

Genome-Wide Investigation of WRKY Transcription Factors Involved in Terminal Drought Stress Response in Common Bean

“…It is important to identify various TF gene families from whole genome sequences, and many have been identified this way, such as the auxin/indole-3-acetic acid gene family from wheat, AP2/ERF and MYB from foxtail millet, NAC from the common bean, and WRKY from peanut (Lata et al, 2014; Muthamilarasan et al, 2014; Qiao et al, 2015; Wu et al, 2016; Song et al, 2016b). However, a comprehensive view of WRKY proteins in the common bean is still lacking.…”