A transcriptional complex of NGATHA and bHLH transcription factors directs stigma development in Arabidopsis

Ballester, Patricia; Martínez-Godoy, Maria Ángeles; Ezquerro, Miguel; Navarrete-Gómez, Marisa; Trigueros, Marina; Rodríguez‐Concepción, Manuel; Ferrándiz, Cristina

doi:10.1093/plcell/koab236

Cited by 23 publications

(23 citation statements)

References 36 publications

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“…Moreover, not only stress-responsive TFs but also many developmental TFs were expressed specifically and extremely differentially in salt-treated CY1000. For instance, BGIOSGA027780 (bHLH), which is similar to HEC3, which is responsible for transmitting tract and stigma development in A rabidopsis , was upregulated 65-fold [ 34 ]. These results indicated that heterosis was caused by the change in the degree of regulation of some genes after crossing between the two parents, resulting in a more sensitive response to stress.…”

Section: Discussionmentioning

confidence: 99%

Comparative transcriptomic analysis of the super hybrid rice Chaoyouqianhao under salt stress

et al. 2022

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Background Soil salinization is a threat to food security. China is rich in saline land resources for potential and current utilization. The cultivation and promotion of salt-tolerant rice varieties can greatly improve the utilization of this saline land. The super hybrid rice Chaoyouqianhao (CY1000) is one of the most salt-tolerant rice varieties and is widely used, but the molecular mechanism underlying its salt tolerance is not clear. Results In this study, the characteristics of CY1000 and its parents were evaluated in the field and laboratory. The results showed that aboveground parts of CY1000 were barely influenced by salt stress, while the roots were less affected than those of its parents. A comparative transcriptomic strategy was used to analyze the differences in the response to salt stress among the male and female parents of CY1000 at the seedling stage and the model indica rice 93–11. We found that the salt tolerance of CY1000 was mainly inherited from its male parent R900, and its female parent GX24S showed hardly any salt tolerance. To adapt to salt stress, CY1000 and R900 upregulated the expression of genes associated with soluble component synthesis and cell wall synthesis and other related genes and downregulated the expression of most genes related to growth material acquisition and consumption. In CY1000 and R900, the expression of genes encoding some novel key proteins in the ubiquitination pathway was significantly upregulated. After treatment with MG-132, the salt tolerance of CY1000 and R900 was significantly decreased and was almost the same as that of the wild type after salt stress treatment, indicating that ubiquitination played an important role in the salt tolerance mechanism of CY1000. At the same time, we found that some transcription factors were also involved in the salt stress response, with some transcription factors responding only in hybrid CY1000, suggesting that salt tolerance heterosis might be regulated by transcription factors in rice. Conclusion Our results revealed that the ubiquitination pathway is important for salt tolerance in rice, and several novel candidate genes were identified to reveal a novel salt tolerance regulation network. Additionally, our work will help clarify the mechanism of heterosis in rice. Further exploration of the molecular mechanism underlying the salt tolerance of CY1000 can provide a theoretical basis for breeding new salt-tolerant rice varieties.

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Section: Discussionmentioning

confidence: 99%

Comparative transcriptomic analysis of the super hybrid rice Chaoyouqianhao under salt stress

et al. 2022

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“…After the filtering process, 207 sequences of monocots and dicots were obtained to characterize the gene family (Table S1). The genes were named according to the homology to the Arabidopsis NGA family and the previous literature [6][7][8][9][10][11][12]14,16,18,23].…”

Section: Identification and Characterization Of Nga Genesmentioning

confidence: 99%

“…In Arabidopsis, four NGA genes (AtNGA1, AtNGA2, AtNGA3, AtNGA4) and three NGA-LIKE genes (AtNGA-LIKE1, AtNGA-LIKE2, AtNGA-LIKE3) have been reported [6][7][8][9][10][11][12]. NGA TFs are mainly involved in developing pistils; they are also involved in regulating the shape and size of lateral organs such as leaves and petals and the regulation of seed size [6,8,9,[13][14][15][16][17][18]. Alvarez et al [19] used synthetic miRNAs against A. thaliana NGA genes, showing that single NGA mutants exhibited mild phenotypic changes in lateral organs, while quadruple mutants exhibited defective pistils as well as small, broad leaves with the broad perianth [19].…”

Section: Introductionmentioning

confidence: 99%

Genome Wide Identification and Annotation of NGATHA Transcription Factor Family in Crop Plants

Salava

Thula

Sánchez

et al. 2022

IJMS

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The NGATHA (NGA) transcription factor (TF) belongs to the ABI3/VP1 (RAV) transcriptional subfamily, a subgroup of the B3 superfamily, which is relatively well-studied in Arabidopsis. However, limited data are available on the contributions of NGA TF in other plant species. In this study, 207 NGA gene family members were identified from a genome-wide search against Arabidopsis thaliana in the genome data of 18 dicots and seven monocots. The phylogenetic and sequence alignment analyses divided NGA genes into different clusters and revealed that the numbers of genes varied depending on the species. The phylogeny was followed by the characterization of the Solanaceae (tomato, potato, capsicum, tobacco) and Poaceae (Brachypodium distachyon, Oryza sativa L. japonica, and Sorghum bicolor) family members in comparison with A. thaliana. The gene and protein structures revealed a similar pattern for NGA and NGA-like sequences, suggesting that both are conserved during evolution. Promoter cis-element analysis showed that phytohormones such as abscisic acid, auxin, and gibberellins play a crucial role in regulating the NGA gene family. Gene ontology analysis revealed that the NGA gene family participates in diverse biological processes such as flower development, leaf morphogenesis, and the regulation of transcription. The gene duplication analysis indicates that most of the genes are evolved due to segmental duplications and have undergone purifying selection pressure. Finally, the gene expression analysis implicated that the NGA genes are abundantly expressed in lateral organs and flowers. This analysis has presented a detailed and comprehensive study of the NGA gene family, providing basic knowledge of the gene, protein structure, function, and evolution. These results will lay the foundation for further understanding of the role of the NGA gene family in various plant developmental processes.

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“…The basic region, is a DNA-binding region that allows HLH proteins to bind to E-box (CANNTG) ( Massari and Murre, 2000 ). Basic helix-loop-helix transcription factors play crucial roles in plant growth and development including morphogenesis ( Gangappa and Kumar, 2017 ; Ballester et al, 2021 ), iron homeostasis ( Li et al, 2019 ), flower and fruit development ( Sun K. et al, 2019 ), stomatal initiation ( Raissig et al, 2016 ), root vascular cell proliferation ( Ohashi-Ito and Fukuda, 2016 ), grain yield ( Luo et al, 2013 ), secondary metabolites biosynthesis, such as anthocyanin ( Zhao R. et al, 2020 ; Li et al, 2021 ), also in the stress tolerance, for instance, drought ( Verma et al, 2020 ; Zhao Q. et al, 2020 ), salt ( Liu et al, 2021 ; Yu C. et al, 2021 ), cold ( Luo et al, 2020 ; Shen et al, 2021 ), heavy metal toxicity ( Sun W. et al, 2019 ), and osmotic stress ( Yang et al, 2016 ). Despite some bHLHs functions have been elaborated, most plant bHLHs functions are still unclear, especially in tuber crops.…”

Section: Introductionmentioning

confidence: 99%

Systematic Analysis of bHLH Transcription Factors in Cassava Uncovers Their Roles in Postharvest Physiological Deterioration and Cyanogenic Glycosides Biosynthesis

Xiao

Chen

et al. 2022

Front. Plant Sci.

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The basic helix-loop-helix (bHLH) proteins are a large superfamily of transcription factors, and play a central role in a wide range of metabolic, physiological, and developmental processes in higher organisms. However, systematic investigation of bHLH gene family in cassava (Manihot esculenta Crantz) has not been reported. In the present study, we performed a genome-wide survey and identified 148 MebHLHs genes were unevenly harbored in 18 chromosomes. Through phylogenetic analyses along with Arabidopsis counterparts, these MebHLHs genes were divided into 19 groups, and each gene contains a similar structure and conserved motifs. Moreover, many cis-acting regulatory elements related to various defense and stress responses showed in MebHLH genes. Interestingly, transcriptome data analyses unveiled 117 MebHLH genes during postharvest physiological deterioration (PPD) process of cassava tuberous roots, while 65 MebHLH genes showed significantly change. Meanwhile, the relative quantitative analysis of 15 MebHLH genes demonstrated that they were sensitive to PPD, suggesting they may involve in PPD process regulation. Cyanogenic glucosides (CGs) biosynthesis during PPD process was increased, silencing of MebHLH72 and MebHLH114 showed that linamarin content was significantly decreased in the leaves. To summarize, the genome-wide identification and expression profiling of MebHLH candidates pave a new avenue for uderstanding their function in PPD and CGs biosynthesis, which will accelerate the improvement of PPD tolerance and decrease CGs content in cassava tuberous roots.

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A transcriptional complex of NGATHA and bHLH transcription factors directs stigma development in Arabidopsis

Cited by 23 publications

References 36 publications

Comparative transcriptomic analysis of the super hybrid rice Chaoyouqianhao under salt stress

Comparative transcriptomic analysis of the super hybrid rice Chaoyouqianhao under salt stress

Genome Wide Identification and Annotation of NGATHA Transcription Factor Family in Crop Plants

Systematic Analysis of bHLH Transcription Factors in Cassava Uncovers Their Roles in Postharvest Physiological Deterioration and Cyanogenic Glycosides Biosynthesis

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