Genome-wide identification, gene cloning, subcellular location and expression analysis of SPL gene family in P. granatum L

Li, Bianbian; Zhao, Yujie; Wang, Sha; Zhang, Xinhui; Wang, Yongwei; Yuan, Zhaohe

doi:10.1186/s12870-021-03171-7

Cited by 18 publications

(10 citation statements)

References 62 publications

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“…A total of 20 motifs were identified in HuSPL proteins, all of which contained Motifs 1-3 (Figure 4B). Compared with other groups, Group V had more complex motifs, which were similar to that of other plant species such as mango (Zhu et al, 2022), pomegranate (Li et al, 2021), and petunia (Zhou et al, 2018). Xie et al, 2021b).…”

Section: Huspl12 Binds To the Huwrky40 Promotermentioning

confidence: 91%

Identification of HuSPL family and key role of HuSPL12 in regulation of betalain biosynthesis in pitaya

Zeng

Chen

Shah

et al. 2023

Physiologia Plantarum

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The SQUAMOSA promoter binding protein-like (SPL) gene family is a unique family of plant-specific transcription factors (TFs), which plays vital roles in a variety of plant biological processes. Its role in betalain biosynthesis in Hylocereus undantus; however, is still unclear. Here, we report a total of 16 HuSPL genes from the pitaya genome, which were unevenly distributed among nine chromosomes. The HuSPL genes were clustered into seven groups, and most HuSPLs within the same group shared similar exon-intron structures and conserved motifs. Eight segment replication events in the HuSPL gene family were the main driving force behind the gene family expansion.Nine of the HuSPL genes had potential target sites for Hmo-miR156/157b. Hmo-miR156/157b-targeted HuSPLs exhibited differential expression patterns compared with constitutive expression patterns of most Hmo-miR156/157b-nontargeted HuSPLs. The expression of Hmo-miR156/157b gradually increased during fruit maturation, while the expression of Hmo-miR156/157b-targeted HuSPL5/11/14 gradually decreased. In addition, the lowest expression level of Hmo-miR156/157b-targeted HuSPL12 was detected 23rd day after flowering, when the middle pulps started to turn red. HuSPL5, HuSPL11, HuSPL12, and HuSPL14 were nucleus-localized proteins. HuSPL12 could inhibit the expression of HuWRKY40 by binding to its promoter. Results from yeast two-hybrid and bimolecular fluorescence complementation assays showed that HuSPL12 could interact with HuMYB1, HuMYB132, or HuWRKY42 TFs responsible for betalain biosynthesis. The results of the present study provide an essential basis for future regulation of betalain accumulation in pitaya. | INTRODUCTIONPitaya/pitahaya, also known as dragon fruit, belongs to the genus Hylocereus in the family of Cactaceae. Pitaya is a commercial fruit crop widely cultivated in tropical and subtropical regions (Attar et al., 2022).Pitaya fruits contain abundant polyphenols, vitamins, oligosaccharides, ascorbic acids, and soluble dietary fiber, which have medicinal values in reducing the risk of constipation, obesity, and cancer (Jiang et al., 2021;Verona-Ruiz et al., 2020;Wichienchot et al., 2010). Besides, pitaya is a fast-return fruit crop with 8-16 separate fruiting cycles and yields as high as 75,000 kg per hectare per year. Therefore, pitaya has been a favorite of many consumers and farmers because of its good taste, unique appearance, abundant nutrients, and high yield.There are mainly three types of pitaya, Hylocereus undatus (red peel with white pulp), Hylocereus monacanthus/Hylocereus polyrhizus (red peel with red pulp), and Hylocereus megalanthus (yellow peel with

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Section: Huspl12 Binds To the Huwrky40 Promotermentioning

confidence: 91%

Identification of HuSPL family and key role of HuSPL12 in regulation of betalain biosynthesis in pitaya

Zeng

Chen

Shah

et al. 2023

Physiologia Plantarum

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“…The C. sativa genome was queried to identify the promoter sequences (defined as the 2 Kb region upstream of the start codon) for each of the identified CsDGAT promoter sequences, and the numbers and types of cis -acting elements in these promoters were analyzed with the Online PlantCARE software program ( , last accessed: 15 June 2022) [ 57 ]. Results were then visualized with PowerPoint, GraphPad Prism, and TBtools [ 53 ].…”

Section: Methodsmentioning

confidence: 99%

Genome-Wide Identification, Classification, and Expression Analyses of the CsDGAT Gene Family in Cannabis sativa L. and Their Response to Cold Treatment

Yan

Chang²,

Gu³

et al. 2023

IJMS

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Hempseed is a nutrient-rich natural resource, and high levels of hempseed oil accumulate within hemp seeds, consisting primarily of different triglycerides. Members of the diacylglycerol acyltransferase (DGAT) enzyme family play critical roles in catalyzing triacylglycerol biosynthesis in plants, often governing the rate-limiting step in this process. As such, this study was designed to characterize the Cannabis sativa DGAT (CsDGAT) gene family in detail. Genomic analyses of the C. sativa revealed 10 candidate DGAT genes that were classified into four families (DGAT1, DGAT2, DGAT3, WS/DGAT) based on the features of different isoforms. Members of the CsDGAT family were found to be associated with large numbers of cis-acting promoter elements, including plant response elements, plant hormone response elements, light response elements, and stress response elements, suggesting roles for these genes in key processes such as development, environmental adaptation, and abiotic stress responses. Profiling of these genes in various tissues and varieties revealed varying spatial patterns of CsDGAT expression dynamics and differences in expression among C. sativa varieties, suggesting that the members of this gene family likely play distinct functional regulatory functions CsDGAT genes were upregulated in response to cold stress, and significant differences in the mode of regulation were observed when comparing roots and leaves, indicating that CsDGAT genes may play positive roles as regulators of cold responses in hemp while also playing distinct roles in shaping the responses of different parts of hemp seedlings to cold exposure. These data provide a robust basis for further functional studies of this gene family, supporting future efforts to screen the significance of CsDGAT candidate genes to validate their functions to improve hempseed oil composition.

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“…Currently, SPLs are considered to be key genes that regulate biological processes in plants, especially since they show variations in their functions. For instance, these genes can regulate the flowering process of plants ( Lei et al., 2018 ; Guo et al., 2019 ), coordinate plant root, stem and leaf development ( Yu et al., 2015 ; Wang et al., 2018 ; Wang et al., 2019 ; Li et al., 2021 ), influence response to biotic and abiotic stress ( Ning et al., 2017 ; Feyissa et al., 2019 ) as well as participate in secondary metabolic processes ( Yang et al., 2021 ).…”

Section: Introductionmentioning

confidence: 99%

Molecular cloning and functional analysis of Chinese bayberry MrSPL4 that enhances growth and flowering in transgenic tobacco

Zhang

et al. 2023

Front. Plant Sci.

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Chinese bayberry (Myrica rubra) is an important tree in South China, with its fruit being of nutritional and high economic value. In this study, early ripening (ZJ), medium ripening (BQ) and late ripening (DK) varieties were used as test materials. Young leaves of ZJ, BQ and DK in the floral bud morphological differentiation periods were selected for transcriptome sequencing to excavate earliness related genes. A total of 4,538 differentially expressed genes were detected. Based on clustering analysis and comparisons with genes reportedly related to flowering in Arabidopsis thaliana, 25 homologous genes were identified. Of these, one gene named MrSPL4 was determined, with its expression down-regulated in DK but up-regulated in ZJ and BQ. MrSPL4 contained SBP domain and the target site of miR156, and its total and CDS length were 1,664 bp and 555 bp respectively. The overexpression vector of MrSPL4 (35S::35S::MrSPL4-pCambia2301-KY) was further constructed and successfully transfected into tobacco to obtain MrSPL4-positive plants. Based on the results of qRT-PCR, the relative expression of MrSPL4 was up regulated by 3,862.0-5,938.4 times. Additionally, the height of MrSPL4-positive plants was also significantly higher than that of wild-type (WT), with the bud stage occurring 12 days earlier. Altogether, this study identified an important gene -MrSPL4 in Chinese bayberry, which enhanced growth and flowering, which provided important theoretical basis for early-mature breeding of Chinese bayberry.

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Genome-wide identification, gene cloning, subcellular location and expression analysis of SPL gene family in P. granatum L

Cited by 18 publications

References 62 publications

Identification of HuSPL family and key role of HuSPL12 in regulation of betalain biosynthesis in pitaya

Identification of HuSPL family and key role of HuSPL12 in regulation of betalain biosynthesis in pitaya

Genome-Wide Identification, Classification, and Expression Analyses of the CsDGAT Gene Family in Cannabis sativa L. and Their Response to Cold Treatment

Molecular cloning and functional analysis of Chinese bayberry MrSPL4 that enhances growth and flowering in transgenic tobacco

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