Genome-wide systematic survey and analysis of NAC transcription factor family and their response to abiotic stress in sweetpotato

Guo, Fengjin; Liu, Siyuan; Zhang, Chengbin; Dong, Tingting; Meng, Xianghe; Zhu, Mingku

doi:10.1016/j.scienta.2022.111048

Cited by 14 publications

(13 citation statements)

References 58 publications

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“…For transactivation activity and protein interaction analysis, the open reading frame sequences of IbWRKY-5/-21 L/-45/-58 L/-82 genes were inserted into the activation domain vector pGADT7 or DNA binding vector pGBKT7, respectively, using the Gateway (Invitrogen) or homologous recombination method. The pGBKT7 control plasmid, each recombined pGBKT7-IbWRKY vector, or both recombined pGBKT7-IbWRKY and pGADT7-IbWRKY vectors were transformed into Y2HGold yeasts as descripted before [ 8 , 64 ]. For self-activation detection, serial dilutions of transformed yeasts were dropped on SD/-Trp and SD/-Trp-His-Ade medium with or without AbA (200 ng/mL).…”

Section: Methodsmentioning

confidence: 99%

“…In order to strictly screen for the stress-induced IbWRKYs , a cut-off value of two-fold was adopted [ 8 , 65 ]. OriginPro 8 (SAS Institute) was utilized to generate figures.…”

Section: Methodsmentioning

confidence: 99%

“…The resistance mechanisms are extremely sophisticated because plants should balance growth and the stress response under stressful conditions [3]. Substantial genetic and molecular researches have identified transcription factors (TFs) as master regulators of plant abiotic stress tolerance, such as bZIP, MYB, WRKY, NAC, and AP2/ERF [6][7][8][9]. In plant genomes, about 7% of coding sequences are assigned to TFs, and many of which are immediate-early abiotic stress response genes [10].…”

Section: Introductionmentioning

confidence: 99%

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A systematical genome-wide analysis and screening of WRKY transcription factor family engaged in abiotic stress response in sweetpotato

et al. 2022

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Background WRKY transcription factors play pivotal roles in regulating plant multiple abiotic stress tolerance, however, a genome-wide systematical analysis of WRKY genes in sweetpotato is still missing. Results Herein, 84 putative IbWRKYs with WRKY element sequence variants were identified in sweetpotato reference genomes. Fragment duplications, rather than tandem duplications, were shown to play prominent roles in IbWRKY gene expansion. The collinearity analysis between IbWRKYs and the related orthologs from other plants further depicted evolutionary insights into IbWRKYs. Phylogenetic relationships displayed that IbWRKYs were divided into three main groups (I, II and III), with the support of the characteristics of exon-intron structures and conserved protein motifs. The IbWRKY genes, mainly from the group Ib, displayed remarkable and diverse expression profiles under multiple abiotic stress (NaCl, PEG6000, cold and heat) and hormone (ABA, ACC, JA and SA) treatments, which were determined by RNA-seq and qRT-PCR assays, suggesting their potential roles in mediating particular stress responses. Moreover, IbWRKY58L could interact with IbWRKY82 as revealed by yeast two-hybrid based on the protein interaction network screening. And abiotic stress-remarkably induced IbWRKY21L and IbWRKY51 were shown to be localized in the nucleus and had no transactivation activities. Conclusion These results provide valuable insights into sweetpotato IbWRKYs and will lay a foundation for further exploring functions and possible regulatory mechanisms of IbWRKYs in abiotic stress tolerance.

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Section: Methodsmentioning

confidence: 99%

“…In order to strictly screen for the stress-induced IbWRKYs , a cut-off value of two-fold was adopted [ 8 , 65 ]. OriginPro 8 (SAS Institute) was utilized to generate figures.…”

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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A systematical genome-wide analysis and screening of WRKY transcription factor family engaged in abiotic stress response in sweetpotato

et al. 2022

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“…Other bHLH TFs, such as bHLH92 , bHLH130, and bHLH137 can be regulated by low-temperature stress in sweet potato ( Table S6 ) and may play roles in sweet potato low-temperature stress tolerance. A total of 175 IbNACs have been identified in sweet potato and responded to various stresses, including cold stress [ 69 ]. SINAM1 , a NAC-type tomato TF, could enhance the low-temperature stress tolerance in transgenic tobacco [ 70 ].…”

Section: Discussionmentioning

confidence: 99%

Comparative Transcriptome and Interaction Protein Analysis Reveals the Mechanism of IbMPK3-Overexpressing Transgenic Sweet Potato Response to Low-Temperature Stress

Jin

Tang

Guo

et al. 2022

Genes

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The sweet potato is very sensitive to low temperature. Our previous study revealed that IbMPK3-overexpressing transgenic sweet potato (M3) plants showed stronger low-temperature stress tolerance than wild-type plants (WT). However, the mechanism of M3 plants in response to low-temperature stress is unclear. To further analyze how IbMPK3 mediates low-temperature stress in sweet potato, WT and M3 plants were exposed to low-temperature stress for 2 h and 12 h for RNA-seq analysis, whereas normal conditions were used as a control (CK). In total, 3436 and 8718 differentially expressed genes (DEGs) were identified in WT at 2 h (vs. CK) and 12 h (vs. CK) under low-temperature stress, respectively, whereas 1450 and 9291 DEGs were detected in M3 plants, respectively. Many common and unique DEGs were analyzed in WT and M3 plants. DEGs related to low temperature were involved in Ca2+ signaling, MAPK cascades, the reactive oxygen species (ROS) signaling pathway, hormone transduction pathway, encoding transcription factor families (bHLH, NAC, and WRKY), and downstream stress-related genes. Additionally, more upregulated genes were associated with the MAPK pathway in M3 plants during short-term low-temperature stress (CK vs. 2 h), and more upregulated genes were involved in secondary metabolic synthesis in M3 plants than in the WT during the long-time low-temperature stress treatment (CK vs. 12 h), such as fatty acid biosynthesis and elongation, glutathione metabolism, flavonoid biosynthesis, carotenoid biosynthesis, and zeatin biosynthesis. Moreover, the interaction proteins of IbMPK3 related to photosynthesis, or encoding CaM, NAC, and ribosomal proteins, were identified using yeast two-hybrid (Y2H). This study may provide a valuable resource for elucidating the sweet potato low-temperature stress resistance mechanism, as well as data to support molecular-assisted breeding with the IbMPK3 gene.

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“…Primer 5.0 was used to design IbIPUT1 primers for qRT-PCR analysis. qRT-PCR was carried out using the CFX96™ Real-Time System (Bio-Rad, Hercules, CA USA), as described in our previous report [ 14 ]. The GAPDH gene (genebank accession number: jx177362.1) was used as the internal reference gene, and the relative expression of the gene was calculated using the 2 −ΔΔCt method [ 15 ].…”

Section: Methodsmentioning

confidence: 99%

Overexpression of an Inositol Phosphorylceramide Glucuronosyltransferase Gene IbIPUT1 Inhibits Na+ Uptake in Sweet Potato Roots

Liu

Zhu

Sun

2022

Genes

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IPUT1 is a glycosyltransferase capable of synthesizing the glycosyl inositol phosphorylceramide (GIPC) sphingolipid. The GIPC sphingolipid is a Na+ receptor on cell membranes which can sense extracellular Na+ concentrations, promote the increase in intracellular Ca2+ concentrations, and plays critical roles in maintaining intracellular Na+ balance. Therefore, the IPUT1 gene plays an important role in the genetic improvement of crop salt tolerance. Herein, the IbIPUT1 gene, which encodes an ortholog of Arabidopsis AtIPUT1, from sweet potato was cloned. Agrobacterium rhizogenes-mediated in vivo transgenic technology, non-invasive micro-measuring technology (NMT) and Na+ fluorescence imaging technology were then combined to quickly study the potential function of IbIPUT1 in salt tolerance. The data showed that IbIPUT1 was involved in the regulation of root cell Na+ balance, and the overexpression of IbIPUT1 could not promote sweet potato root cell Na+ efflux under salt stress, but it could significantly inhibit the Na+ absorption of root cells, thereby reducing the accumulation of Na+ in root cells under salt stress. Additionally, Ca2+ efflux in transgenic root cells was slightly higher than that in control roots under salt stress. Collectively, an efficient transgenic method for gene function studies was established, and our results suggested that IbIPUT1 acts as a candidate gene for the genetic enhancement of sweet potato salt tolerance.

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Genome-wide systematic survey and analysis of NAC transcription factor family and their response to abiotic stress in sweetpotato

Cited by 14 publications

References 58 publications

A systematical genome-wide analysis and screening of WRKY transcription factor family engaged in abiotic stress response in sweetpotato

A systematical genome-wide analysis and screening of WRKY transcription factor family engaged in abiotic stress response in sweetpotato

Comparative Transcriptome and Interaction Protein Analysis Reveals the Mechanism of IbMPK3-Overexpressing Transgenic Sweet Potato Response to Low-Temperature Stress

Overexpression of an Inositol Phosphorylceramide Glucuronosyltransferase Gene IbIPUT1 Inhibits Na+ Uptake in Sweet Potato Roots

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