Genome-wide identification and expression profiling of WUSCHEL-related homeobox (WOX) genes during adventitious shoot regeneration of watermelon (Citrullus lanatus)

Zhang, Na; Xing, Huang; Bao, Yaning; Wang, Bo; Liu, Lijun; Dai, Lunjin; Chen, Jie; An, Xiaopeng; Sun, Yanfa; Peng, Dingxiang

doi:10.1007/s11738-015-1964-y

Cited by 23 publications

(13 citation statements)

References 56 publications

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“…The WOX family plays a crucial role in shoot apical meristem and embryonic development, stem cell activity, and various other developmental processes in plants [ 5 , 22 , 44 ]. Due to the significance of their functions, research on plants has become more urgent and widespread.…”

Section: Discussionmentioning

confidence: 99%

“…Besides Arabidopsis , genome-wide studies have also been conducted on the W OX gene families of woody plants such as walnut [ 10 ], physic nut [ 14 ], grapes [ 15 , 16 ], peach, pear, apricot [ 17 ], coffee [ 18 ], and poplar [ 19 ]. In these plants, WOX genes are involved in vital regulatory networks that link the developmental mechanisms in plants, including shoot apical meristem, lateral organ development, plant stem cell maintenance, and floral determinacy [ 5 , 20 , 21 , 22 ].…”

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Identification and Expression Profiling of the WOX Gene Family in Citrus sinensis and Functional Analysis of a CsWUS Member

Khan

Zeng

Gan

et al. 2021

IJMS

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WUSCHEL-related homeobox (WOX) transcription factors (TFs) are well known for their role in plant development but are rarely studied in citrus. In this study, we identified 11 putative genes from the sweet orange genome and divided the citrus WOX genes into three clades (modern/WUSCHEL(WUS), intermediate, and ancient). Subsequently, we performed syntenic relationship, intron-exon organization, motif composition, and cis-element analysis. Co-expression analysis based on RNA-seq and tissue-specific expression patterns revealed that CsWOX gene expression has multiple intrinsic functions. CsWUS homolog of AtWUS functions as a transcriptional activator and binds to specific DNA. Overexpression of CsWUS in tobacco revealed dramatic phenotypic changes, including malformed leaves and reduced gynoecia with no seed development. Silencing of CsWUS in lemon using the virus-induced gene silencing (VIGS) system implied the involvement of CsWUS in cells of the plant stem. In addition, CsWUS was found to interact with CsCYCD3, an ortholog in Arabidopsis (AtCYCD3,1). Yeast one-hybrid screening and dual luciferase activity revealed that two TFs (CsRAP2.12 and CsHB22) bind to the promoter of CsWUS and regulate its expression. Altogether, these results extend our knowledge of the WOX gene family along with CsWUS function and provide valuable findings for future study on development regulation and comprehensive data of WOX members in citrus.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Expression Profiling of the WOX Gene Family in Citrus sinensis and Functional Analysis of a CsWUS Member

Khan

Zeng

Gan

et al. 2021

IJMS

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“…As an important gene family in plants, WOX genes encode WOX proteins to regulate cell division and differentiation, thereby influencing plant growth and development [8–10]. Previous studies on the WOX gene family have been performed in many plants, including cotton [5], tabacco [6], maize [7], watermelon [36]. A recent study just analyzed the WOX gene family and their stress- and hormone-responsive patterns in B. napus [37], our study focused more on the changes in WOX genes during the polyploidization process.…”

Section: Discussionmentioning

confidence: 99%

Genome-wide identification and analysis of the WUSCHEL-related homeobox (WOX) gene family in allotetraploid Brassica napus reveals changes in WOX genes during polyploidization

Wang

Liu

et al. 2019

BMC Genomics

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Background WUSCHEL -related homeobox ( WOX ) genes encoding plant-specific homeobox (HB) transcription factors play important roles in the growth and development of plants. To date, WOX genes has been identified and analyzed in many polyploids (such as cotton and tobacco), but the evolutionary analysis of them during polyploidization is rare. With the completion of genome sequencing, allotetraploid Brassica napus and its diploid progenitors ( B. rapa and B. oleracea ) are a good system for studying this question. Results In this study, 52, 25 and 29 WOX genes were identified in allotetraploid B. napus (2n = 4x = 38, A n C n ), the A n genome donor B. rapa (2n = 2x = 20, A r ) and the C n genome donor B. oleracea (2n = 2x = 18, C o ), respectively. All identified WOX genes in B. napus and its diploid progenitors were divided into three clades, and these genes were selected to perform gene structure and chromosome location analysis. The results showed that at least 70 and 67% of WOX genes maintained the same gene structure and relative position on chromosomes, respectively, indicating that WOX genes in B. napus were highly conserved at the DNA level during polyploidization. In addition, the analysis of duplicated genes and transposable elements (TEs) near WOX genes showed that whole-genome triplication (WGT) events, segmental duplication and abundant TEs played important roles in the expansion of the WOX gene family in B. napus . Moreover, the analysis of the expression profiles of WOX gene pairs with evolutionary relationships suggested that the WOX gene family may have changed at the transcriptional regulation level during polyploidization. Conclusions The results of this study increased our understanding of the WOX genes in B. napus and its diploid progenitors, providing a rich resource for further study of WOX genes in these species. In addition, the changes in WOX genes during the process of polyploidization were discussed from the aspects of gene number, gene structure, gene relative location and gene expression, which provides a reference for future polyploidization analysis. Electronic supplementary material The online ve...

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“…The leaves from 1-week-old seedlings were sprayed with IAA (50 mM, Sigma-Aldrich, Saint Louis, MO, USA) and sampled at 0, 15, 60 min according to previous studies (Wu et al 2012;Huang et al 2016). Samples form different development stages of shoot regeneration were prepared according to our previous study (Zhang et al 2015). Decoated seeds were sterilized for 5 min with NaClO solution (10%), washed with sterile distilled water and placed in culture tubes (25 9 150 mm) with Murashige and Skoog medium (20 mL) for germination.…”

Section: Plant Materials and Samplingmentioning

confidence: 99%

Genome-wide identification of SAUR genes in watermelon (Citrullus lanatus)

Zhang

Xing

Bao

et al. 2017

Physiol Mol Biol Plants

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The early auxin responsive SAUR family is an important gene family in auxin signal transduction. We here present the first report of a genome-wide identification of SAUR genes in watermelon genome. We successfully identified 65 and provide a genomic framework for future study on these genes. Phylogenetic result revealed a Cucurbitaceae-specific SAUR subfamily and contribute to understanding of the evolutionary pattern of SAUR genes in plants. Quantitative RT-PCR analysis demonstrates the existed expression of 11 randomly selected SAUR genes in watermelon tissues. was highly expressed in fruit, for which further study might bring a new prospective for watermelon fruit development. Moreover, correlation analysis revealed the similar expression profiles of SAUR genes between watermelon and Arabidopsis during shoot organogenesis. This work gives us a new support for the conserved auxin machinery in plants.

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Genome-wide identification and expression profiling of WUSCHEL-related homeobox (WOX) genes during adventitious shoot regeneration of watermelon (Citrullus lanatus)

Cited by 23 publications

References 56 publications

Genome-Wide Identification and Expression Profiling of the WOX Gene Family in Citrus sinensis and Functional Analysis of a CsWUS Member

Genome-Wide Identification and Expression Profiling of the WOX Gene Family in Citrus sinensis and Functional Analysis of a CsWUS Member

Genome-wide identification and analysis of the WUSCHEL-related homeobox (WOX) gene family in allotetraploid Brassica napus reveals changes in WOX genes during polyploidization

Genome-wide identification of SAUR genes in watermelon (Citrullus lanatus)

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