Genome-Wide Identification and Characterization of JAZ Protein Family in Two Petunia Progenitors

Tian, Shaoze; Liu, Siyu; Wang, Yu; Wang, Kun; Yin, Chaoqun; Yue, Yuanzheng; Hu, Huirong

doi:10.3390/plants8070203

Cited by 8 publications

(7 citation statements)

References 79 publications

(119 reference statements)

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“…Under both biotic and abiotic stresses, cis -acting regulatory elements act as molecular switches that are closely related to the regulation of gene expression ( Tian et al, 2019 ). In the YABBY gene family, we found a large variety of cis -acting elements, many of which were associated with responses to GA and ABA hormones.…”

Section: Discussionmentioning

confidence: 99%

Genome-wide identification and analysis of the YABBY gene family in Moso Bamboo (Phyllostachys edulis (Carrière) J. Houz)

Huang

et al. 2021

PeerJ

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Background The YABBY gene family is a family of small zinc finger transcription factors associated with plant morphogenesis, growth, and development. In particular, it is closely related to the development of polarity in the lateral organs of plants. Despite being studied extensively in many plant species, there is little information on genome-wide characterization of this gene family in Moso bamboo. Methods In the present study, we identified 16 PeYABBY genes, which were unequally distributed on 11 chromosomes, through genome-wide analysis of high-quality genome sequences of M oso bamboo by bioinformatics tools and biotechnological tools. Gene expression under hormone stress conditions was verified by quantitative real-time PCR (qRT-PCR) experiments. Results Based on peptide sequences and similarity of exon-intron structures, we classified the PeYABBY genes into four subfamilies. Analysis of putative cis-acting elements in promoters of these genes revealed that PeYABBYs contained a large number of hormone-responsive and stress-responsive elements. Expression analysis showed that they were expressed at a high level in Moso bamboo panicles, rhizomes, and leaves. Expression patterns of putative PeYABBY genes in different organs and hormone-treated were analyzed using RNA-seq data, results showed that some PeYABBY genes were responsive to gibberellin (GA) and abscisic acid (ABA), indicating that they may play an important role in plant hormone responses. Gene Ontology (GO) analyses of YABBY proteins indicated that they may be involved in many developmental processes, particularly high level of enrichment seen in plant leaf development. In summary, our results provide a comprehensive genome-wide study of the YABBY gene family in bamboos, which could be useful for further detailed studies of the function and evolution of the YABBY genes, and to provide a fundamental basis for the study of YABBY in Gramineae for resistance to stress and hormonal stress.

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Section: Discussionmentioning

confidence: 99%

Genome-wide identification and analysis of the YABBY gene family in Moso Bamboo (Phyllostachys edulis (Carrière) J. Houz)

Huang

et al. 2021

PeerJ

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“…The isolation of M. canadensis McJAZ genes were performed as described previously [88]. In short, the transcriptome data (SRP132644) of M. canadensis was downloaded from the National Center for Biotechnology Information (NCBI, https://www.ncbi.nlm.nih.…”

Section: Isolation and Cloning Of M Canadensis Mcjaz Family Genesmentioning

confidence: 99%

Transcriptome-Wide Identification and Characterization of the JAZ Gene Family in Mentha canadensis L.

Qin

et al. 2021

IJMS

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Jasmonate ZIM-domain (JAZ) proteins are the crucial transcriptional repressors in the jasmonic acid (JA) signaling process, and they play pervasive roles in plant development, defense, and plant specialized metabolism. Although numerous JAZ gene families have been discovered across several plants, our knowledge about the JAZ gene family remains limited in the economically and medicinally important Chinese herb Mentha canadensis L. Here, seven non-redundant JAZ genes named McJAZ1–McJAZ7 were identified from our reported M. canadensis transcriptome data. Structural, amino acid composition, and phylogenetic analysis showed that seven McJAZ proteins contained the typical zinc-finger inflorescence meristem (ZIM) domain and JA-associated (Jas) domain as conserved as those in other plants, and they were clustered into four groups (A-D) and distributed into five subgroups (A1, A2, B1, B2, and D). Quantitative real-time PCR (qRT-PCR) analysis showed that seven McJAZ genes displayed differential expression patterns in M. canadensis tissues, and preferentially expressed in flowers. Furthermore, the McJAZ genes expression was differentially induced after Methyl jasmonate (MeJA) treatment, and their transcripts were variable and up- or down-regulated under abscisic acid (ABA), drought, and salt treatments. Subcellular localization analysis revealed that McJAZ proteins are localized in the nucleus or cytoplasm. Yeast two-hybrid (Y2H) assays demonstrated that McJAZ1-5 interacted with McCOI1a, a homolog of Arabidopsis JA receptor AtCOI1, in a coronatine-dependent manner, and most of McJAZ proteins could also form homo- or heterodimers. This present study provides valuable basis for functional analysis and exploitation of the potential candidate McJAZ genes for developing efficient strategies for genetic improvement of M. canadensis.

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“…The decrease in the JAZ genes is due to the missing of one of the domains, or the addition of extra domains (VEFS and GATA) (Table S2 ). The true JAZ sequence should contain both TIFY and Jas domains 34 , 35 .…”

Section: Resultsmentioning

confidence: 99%

“…JAZ is one of the important defense gene families and it has been identified and functionally characterized in various plant species, including A. thalina 9 , Malus domesticus 32 , Camellia sinensis 33 , Brassica oleracea 34 , Petunia 35 and Triticum aestivum 36 . Yet, identification and functional characterization of JAZ has not been reported in sorghum to date.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide characterization of the sorghum JAZ gene family and their responses to phytohormone treatments and aphid infestation

Shrestha

Huang

2022

Sci Rep

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Jasmonate ZIM-domain (JAZ) proteins are the key repressors of the jasmonic acid (JA) signal transduction pathway and play a crucial role in stress-related defense, phytohormone crosstalk and modulation of the growth-defense tradeoff. In this study, the sorghum genome was analyzed through genome-wide comparison and domain scan analysis, which led to the identification of 18 sorghum JAZ (SbJAZ) genes. All SbJAZ proteins possess the conserved TIFY and Jas domains and they formed a phylogenetic tree with five clusters related to the orthologs of other plant species. Similarly, evolutionary analysis indicated the duplication events as a major force of expansion of the SbJAZ genes and there was strong neutral and purifying selection going on. In silico analysis of the promoter region of the SbJAZ genes indicates that SbJAZ5, SbJAZ6, SbJAZ13, SbJAZ16 and SbJAZ17 are rich in stress-related cis-elements. In addition, expression profiling of the SbJAZ genes in response to phytohormones treatment (JA, ET, ABA, GA) and sugarcane aphid (SCA) was performed in two recombinant inbred lines (RILs) of sorghum, resistant (RIL 521) and susceptible (RIL 609) to SCA. Taken together, data generated from phytohormone expression and in silico analysis suggests the putative role of SbJAZ9 in JA-ABA crosstalk and SbJAZ16 in JA-ABA and JA-GA crosstalk to regulate certain physiological processes. Notably, upregulation of SbJAZ1, SbJAZ5, SbJAZ13 and SbJAZ16 in resistant RIL during JA treatment and SCA infestation suggests putative functions in stress-related defense and to balance the plant defense to promote growth. Overall, this report provides valuable insight into the organization and functional characterization of the sorghum JAZ gene family.

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Genome-Wide Identification and Characterization of JAZ Protein Family in Two Petunia Progenitors

Cited by 8 publications

References 79 publications

Genome-wide identification and analysis of the YABBY gene family in Moso Bamboo (Phyllostachys edulis (Carrière) J. Houz)

Genome-wide identification and analysis of the YABBY gene family in Moso Bamboo (Phyllostachys edulis (Carrière) J. Houz)

Transcriptome-Wide Identification and Characterization of the JAZ Gene Family in Mentha canadensis L.

Genome-wide characterization of the sorghum JAZ gene family and their responses to phytohormone treatments and aphid infestation

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