WUSCHEL-related homeobox (WOX) transcription factors: key regulators in combating abiotic stresses in plants

Khan, Faiza Shafique; Goher, Farhan; Hu, Chun Gen; Zhang, Jin Zhi

doi:10.1007/s44281-023-00023-2

Cited by 5 publications

(2 citation statements)

References 113 publications

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“…Auxin is one of the most important plant hormones that regulate plant growth and development (Cakir et al 2013 ). It is involved in the regulation of many physiological processes in plants and has important roles in cell differentiation, seed growth, lateral rhizogenesis in roots, apical dominance, and fruit development (Li et al 2016 , 2022 ; Khan et al 2024 ). Auxin response factors (ARFs) and auxin/indole-3-acetic acids (Aux/IAAs) are the two main transcription factors that are involved in auxin regulation/response (Hagen and Guilfoyle 2002 ; Li et al 2023 ).…”

Section: Introductionmentioning

confidence: 99%

Large-scale analysis of the ARF and Aux/IAA gene families in 406 horticultural and other plants

Feng,

Li,

Chen

et al. 2024

Mol Horticulture

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The auxin response factor (ARF) and auxin/indole-3-acetic acid (Aux/IAA) family of genes are central components of the auxin signaling pathway and play essential roles in plant growth and development. Their large-scale analysis and evolutionary trajectory of origin are currently not known. Here, we identified the corresponding ARF and Aux/IAA family members and performed a large-scale analysis by scanning 406 plant genomes. The results showed that the ARF and Aux/IAA gene families originated from charophytes. The ARF family sequences were more conserved than the Aux/IAA family sequences. Dispersed duplications were the common expansion mode of ARF and Aux/IAA families in bryophytes, ferns, and gymnosperms; however, whole-genome duplication was the common expansion mode of the ARF and Aux/IAA families in basal angiosperms, magnoliids, monocots, and dicots. Expression and regulatory network analyses revealed that the Arabidopsis thaliana ARF and Aux/IAA families responded to multiple hormone, biotic, and abiotic stresses. The APETALA2 and serum response factor-transcription factor gene families were commonly enriched in the upstream and downstream genes of the ARF and Aux/IAA gene families. Our study provides a comprehensive overview of the evolutionary trajectories, structural functions, expansion mechanisms, expression patterns, and regulatory networks of these two gene families.

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Section: Introductionmentioning

confidence: 99%

Large-scale analysis of the ARF and Aux/IAA gene families in 406 horticultural and other plants

Feng,

Li,

Chen

et al. 2024

Mol Horticulture

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“…Furthermore, due to the changing expression level, WOX genes help plants respond to abiotic stress, indicating a more complex regulatory network of WOX genes under environmental stress. For example, a complex consisting of WOX and FRUCTOSE INSENSITIVE1 proteins regulated the expression level of downstream genes where Arabidopsis responds to fructose signaling during growth and development [ 27 ]. A reduction in WOX gene expression in the roots of tobacco seedlings grown under induction of alanine–glutamine acid–asparagine acid–leucine increases the differentiation of stem cells and leads to root elongation [ 28 ].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Co-Expression Networks of WOX Gene Family in Nelumbo nucifera

Li,

Qiu,

Dai

et al. 2024

Plants

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WUSCHEL-related homeobox (WOX) genes are a class of plant-specific transcription factors, regulating the development of multiple tissues. However, the genomic characterizations and expression patterns of WOX genes have not been analyzed in lotus. In this study, 15 NnWOX genes were identified based on the well-annotated reference genome of lotus. According to the phylogenetic analysis, the NnWOX genes were clustered into three clades, i.e., ancient clade, intermediate clade, and WUS clade. Except for the conserved homeobox motif, we further found specific motifs of NnWOX genes in different clades and divergence gene structures, suggesting their distinct functions. In addition, two NnWOX genes in the ancient clade have conserved expression patterns and other NnWOX genes exhibit different expression patterns in lotus tissues, suggesting a low level of functional redundancy in lotus WOX genes. Furthermore, we constructed the gene co-expression networks for each NnWOX gene. Based on weighted gene co-expression network analysis (WGCNA), ten NnWOX genes and their co-expressed genes were assigned to the modules that were significantly related to the cotyledon and seed coat. We further performed RT-qPCR experiments, validating the expression levels of ten NnWOX genes in the co-expression networks. Our study reveals comprehensive genomic features of NnWOX genes in lotus, providing a solid basis for further function studies.

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Genome-wide identification of WUSHEL-related homeobox genes reveals their differential regulation during cold stress and in vitro organogenesis in Picrorhiza kurrooa Royle ex Benth.

Nath,

Joshi,

Gupta

et al. 2024

In Vitro Cell.Dev.Biol.-Plant

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WUSCHEL-related homeobox (WOX) transcription factors: key regulators in combating abiotic stresses in plants

Cited by 5 publications

References 113 publications

Large-scale analysis of the ARF and Aux/IAA gene families in 406 horticultural and other plants

Large-scale analysis of the ARF and Aux/IAA gene families in 406 horticultural and other plants

Genome-Wide Identification and Co-Expression Networks of WOX Gene Family in Nelumbo nucifera

Genome-wide identification of WUSHEL-related homeobox genes reveals their differential regulation during cold stress and in vitro organogenesis in Picrorhiza kurrooa Royle ex Benth.

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