Identification and functional characterization of the <i>Aux/IAA</i> gene <i>VcIAA27</i> in blueberry

Hou, Yanming; Li, Hongxue; Zhai, Limin; Xie, Xin; Li, Xuyan; Bian, Shaomin

doi:10.1080/15592324.2019.1700327

Cited by 23 publications

(20 citation statements)

References 49 publications

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“…In blueberry, it has been reported that auxin might function in several processes such as the development of adventitious root, fruit growth, shoot proliferation, and leaf formation [ 4 , 10 , 36 ]. However, a comprehensive analysis of blueberry ARF ( VcARF ) family has not yet been reported.…”

Section: Introductionmentioning

confidence: 99%

Identification of ARF family in blueberry and its potential involvement of fruit development and pH stress response

Zhang

Shi

et al. 2022

BMC Genomics

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Background Auxin responsive factor (ARF) family is one of core components in auxin signalling pathway, which governs diverse developmental processes and stress responses. Blueberry is an economically important berry-bearing crop and prefers to acidic soil. However, the understandings of ARF family has not yet been reported in blueberry. Results In the present study, 60 ARF genes (VcARF) were identified in blueberry, and they showed diverse gene structures and motif compositions among the groups and similar within each group in the phylogenetic tree. Noticeably, 9 digenic, 5 trigenic and 6 tetragenic VcARF pairs exhibited more than 95% identity to each other. Computational analysis indicated that 23 VcARFs harbored the miRNA responsive element (MRE) of miR160 or miR167 like other plant ARF genes. Interestingly, the MRE of miR156d/h-3p was observed in the 5’UTR of 3 VcARFs, suggesting a potentially novel post-transcriptional control. Furthermore, the transcript accumulations of VcARFs were investigated during fruit development, and three categories of transcript profiles were observed, implying different functional roles. Meanwhile, the expressions of VcARFs to different pH conditions (pH4.5 and pH6.5) were surveyed in pH-sensitive and tolerant blueberry species, and a number of VcARFs showed different transcript accumulations. More importantly, distinct transcriptional response to pH stress (pH6.5) were observed for several VcARFs (such as VcARF6s and VcARF19-3/19–4) between pH-sensitive and tolerant species, suggesting their potential roles in adaption to pH stress. Conclusions Sixty VcARF genes were identified and characterized, and their transcript profiles were surveyed during fruit development and in response to pH stress. These findings will contribute to future research for eliciting the functional roles of VcARFs and regulatory mechanisms, especially fruit development and adaption to pH stress.

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Section: Introductionmentioning

confidence: 99%

Identification of ARF family in blueberry and its potential involvement of fruit development and pH stress response

Zhang

Shi

et al. 2022

BMC Genomics

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“…Thus, blueberry growth and development, especially the events related to fruit ripening and anthocyanin biosynthesis, have started to attract attention in recent years. To date, a few regulators have been shown to be involved in the regulation of blueberry growth and development, including transcription factor genes VcMYB s, VcSOC1-k , VcDDF1 , VcFT , some miRNAs, and hormones (IAA and ABA) ( Zifkin et al, 2012 ; Song et al, 2013 ; Walworth et al, 2016 ; Hou et al, 2017 , 2020 ; Song and Gao, 2017 ; Plunkett et al, 2018 ). Recently, high-throughput sequencing data provided considerable information for identifying and characterizing the regulators that control blueberry growth and development ( Rowland et al, 2012 ; Hou et al, 2017 ; Qi et al, 2019 ).…”

Section: Introductionmentioning

confidence: 99%

Comprehensive Analysis of the SBP Family in Blueberry and Their Regulatory Mechanism Controlling Chlorophyll Accumulation

et al. 2021

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SQUAMOSA Promoter Binding Protein (SBP) family genes act as central players to regulate plant growth and development with functional redundancy and specificity. Addressing the diversity of the SBP family in crops is of great significance to precisely utilize them to improve agronomic traits. Blueberry is an important economic berry crop. However, the SBP family has not been described in blueberry. In the present study, twenty VcSBP genes were identified through data mining against blueberry transcriptome databases. These VcSBPs could be clustered into eight groups, and the gene structures and motif compositions are divergent among the groups and similar within each group. The VcSBPs were differentially expressed in various tissues. Intriguingly, 10 VcSBPs were highly expressed at green fruit stages and dramatically decreased at the onset of fruit ripening, implying that they are important regulators during early fruit development. Computational analysis showed that 10 VcSBPs were targeted by miR156, and four of them were further verified by degradome sequencing. Moreover, their functional diversity was studied in Arabidopsis. Noticeably, three VcSBPs significantly increased chlorophyll accumulation, and qRT-PCR analysis indicated that VcSBP13a in Arabidopsis enhanced the expression of chlorophyll biosynthetic genes such as AtDVR, AtPORA, AtPORB, AtPORC, and AtCAO. Finally, the targets of VcSBPs were computationally identified in blueberry, and the Y1H assay showed that VcSBP13a could physically bind to the promoter region of the chlorophyll-associated gene VcLHCB1. Our findings provided an overall framework for individually understanding the characteristics and functions of the SBP family in blueberry.

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“…Transcriptome analysis showed several DEGs in the IAA signaling pathway, but the function of IAA signaling in the regulation of fruit ripening is still unclear. VcIAA27 plays a negative role in the IAA signaling pathway 44 , while PpIAA19 expression increases during fruit ripening to change fruit shape 45 . The other key component, ARF, also showed opposite functions during fruit ripening: overexpression of SlARF10 accelerated fruit ripening and induced sugar accumulation 46 ; however, overexpression of SlARF4 delayed fruit ripening 42 .…”

Section: Discussionmentioning

confidence: 99%

The NAC transcription factor ClNAC68 positively regulates sugar content and seed development in watermelon by repressing ClINV and ClGH3.6

Wang

Zhang

et al. 2021

Horticulture Research

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NAC (NAM, ATAF1/2, and CUC2) transcription factors play important roles in fruit ripening and quality. The watermelon genome encodes 80 NAC genes, and 21 of these NAC genes are highly expressed in both the flesh and vascular tissues. Among these genes, ClNAC68 expression was significantly higher in flesh than in rind. However, the intrinsic regulatory mechanism of ClNAC68 in fruit ripening and quality is still unknown. In this study, we found that ClNAC68 is a transcriptional repressor and that the repression domain is located in the C-terminus. Knockout of ClNAC68 by the CRISPR-Cas9 system decreased the soluble solid content and sucrose accumulation in mutant flesh. Development was delayed, germination was inhibited, and the IAA content was significantly decreased in mutant seeds. Transcriptome analysis showed that the invertase gene ClINV was the only gene involved in sucrose metabolism that was upregulated in mutant flesh, and expression of the indole-3-acetic acid-amido synthetase gene ClGH3.6 in the IAA signaling pathway was also induced in mutant seeds. EMSA and dual-luciferase assays showed that ClNAC68 directly bound to the promoters of ClINV and ClGH3.6 to repress their expression. These results indicated that ClNAC68 positively regulated sugar and IAA accumulation by repressing ClINV and ClGH3.6. Our findings provide new insights into the regulatory mechanisms by which NAC transcription factors affect fruit quality and seed development.

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Identification and functional characterization of the Aux/IAA gene VcIAA27 in blueberry

Cited by 23 publications

References 49 publications

Identification of ARF family in blueberry and its potential involvement of fruit development and pH stress response

Identification of ARF family in blueberry and its potential involvement of fruit development and pH stress response

Comprehensive Analysis of the SBP Family in Blueberry and Their Regulatory Mechanism Controlling Chlorophyll Accumulation

The NAC transcription factor ClNAC68 positively regulates sugar content and seed development in watermelon by repressing ClINV and ClGH3.6

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