Search Results (21)

Jasmonate ZIM-domain (JAZ) proteins play a pivotal role in mediating plant growth, development, and responses to both biotic and abiotic stresses. However, our knowledge about the JAZ family genes in Areca catechu remains limited. This study conducted a genome-wide screening and analysis of JAZ genes in A. catechu to investigate their biochemical characteristics, gene structure features, phylogenetic relationships, and expression profiles in different organs. A total of 14 JAZ genes (AcJAZs) were detected in the A. catechu genome, all containing an N-terminal TIFY domain and a C-terminal Jas domain. Phylogenetic analysis categorized these AcJAZs into five subfamilies according to their similarities in protein sequences. Quantitative real-time reverse transcription PCR (qRT-PCR) experiments demonstrated the ample expression specificity of these AcJAZ genes across different organs and flower development stages. More importantly, most AcJAZ genes are expressed significantly higher in blooming male flowers than female flowers, suggesting that they may participate in regulating the difference between male and female flowers of A. catechu. This study elucidates the genomic features and functions of JAZ genes in A. catechu, providing new insights into the mechanisms underlying the development and differentiation of unisexual flowers in A. catechu. Full article

The Jasmonate ZIM-domain (JAZ) proteins act as repressors in the Jasmonate (JAs) signaling pathway, and play a critical role in regulating plant growth, development, and responses to biotic and abiotic stresses. In this study, bioinformatics methods were employed to identify the JAZ gene family in the whole genome of alfalfa (Medicago sativa cv. Zhongmu No. 1) and systematically analyze their gene characteristics, subcellular localization, phylogenetic evolution, promoter cis-elements, expression patterns, and responses to abiotic stress. A total of nine MsJAZ gene family members with complete TIFY and Jas domains were identified; they were distributed unevenly across four chromosomes and encoding proteins ranging from 94 aa (MsJAZ2) to 337 aa (MsJAZ7), with molecular weights (MWs) from 19.33 to 38.03 kDa. Phylogenetic analysis showed that the MsJAZ gene family could be classified into four clades (Clades I–II, IV–V), which are closely related to citrus. Most MsJAZ family members contain light-responsive, hormone-responsive, and stress-responsive cis-elements. Subcellular localization results indicated that all MsJAZ genes are expressed and function in the nucleus. The RT-qPCR results showed that MsJAZ genes were primarily expressed in the leaves and petioles. Under salt and drought stress, all MsJAZ genes exhibited varying degrees of response, with MsJAZ4 and MsJAZ7 showing the most pronounced reactions. Meanwhile, under chromium (Cr) and MeJA stress, both MsJAZ4 and MsJAZ9 exhibited strong responses. Subcellular localization results showed that the MsJAZ4/7 protein was localized on the plasma membrane and nucleus. The yeast adversity test showed that the MsJAZ4/7 gene was more sensitive to salt stress. This study provides a foundation for future research on the function of the MsJAZ genes and its regulatory mechanism, as well as for identifying candidate genes for alfalfa stress tolerance breeding. Full article

The JASMONATE-ZIM DOMAIN (JAZ) repressors are crucial proteins in the jasmonic acid signaling pathway that play a significant role in plant growth, development and response to abiotic stress (such as drought, heat, salinity, and low temperature). In this study, we identified 26 potato JAZ genes and classified the corresponding predicted proteins into five subfamilies. All potato JAZ proteins exhibited the expected conserved TIFY (TIF[F/Y] XG) and JAZ domains. Additionally, we identified several stress-responsive cis-regulatory elements, notably ABRE and ARE in the promoters of the JAZ gene family. Whole transcriptome and gene family expression analysis identified StJAZ23 as a key gene responding to drought stress in the root tissues of the Atlantic (Atl) and Qingshu 9 (QS9) potato cultivars. The StJAZ23 gene was cloned, and subcellular localization analysis suggested that the StJAZ23 protein was mainly localized in the nucleus and cell membrane. This study confirmed that StJAZ23 plays a role in drought stress by analyzing several StJAZ23 overexpression (OE-3, OE-5, and OE-6) and RNA interference (RNAi-3, RNAi-6, and RNAi-13) transgenic potato lines. The OE lines displayed significantly increased StJAZ23 expression compared to wild-type (WT) plants, while RNAi lines exhibited significantly reduced expression. The total root length, root tip count, and root surface area were significantly enhanced in OE lines under drought stress, compared to WT plants, whereas RNAi lines showed significant reductions. StJAZ23 overexpression also increased the activities of SOD, POD, CAT, and root vigor under drought stress and JA and ABA hormone levels were also significantly increased in roots under drought stress. These results highlight the positive role of the StJAZ23 gene in enhancing potato resilience to drought stress. Full article

The endogenous stress metabolite β-aminobutyric acid (BABA) primes plants for enhanced resistance against abiotic and biotic stress by activating a complex phytohormone signaling network that includes abscisic acid (ABA), jasmonic acid (JA), salicylic acid (SA), and ethylene (ET). In this study, through stringent filtering, we identify 14 master regulatory transcription factors (TFs) from the DOF, AHL, and ERF families that potentially regulate the biosynthesis and signaling of these phytohormones. Transcriptional analysis of BABA-treated Arabidopsis thaliana and Hordeum vulgare suggests that DOF family TFs play a crucial role in stress response regulation in both species. BABA treatment in A. thaliana upregulates the TFs MNB1A and PBF and enhances the expression of the genes ICS1, EDS5, and WIN3 in the SA biosynthesis pathway, potentially boosting NPR1 and PR1 in the SA signaling pathway. Conversely, in H. vulgare, the BABA-induced upregulation of TF DOF5.8 may negatively regulate SA biosynthesis by downregulating ICS1, EDS5, and PR1. Additionally, in A. thaliana, BABA triggers the expression of TF PBF, which may result in the decreased expression of MYC2, a key gene in JA signaling. In contrast, H. vulgare exhibits increased expression of ERF2 TF, which could positively regulate the JA biosynthesis genes LOX and Tify9, along with the COI1 and JAZ genes involved in the JA signaling pathway. These findings offer new perspectives on the transcriptional regulation of phytohormones during plant priming. Full article

Barley (Hordeum vulgare L.) is the fourth-largest cereal crop widely grown for livestock feed, brewing malts and human food. The TIFY family is a plant-specific protein family with diverse functions in plant growth, development and stress responses. However, a genome-wide comprehensive analysis of the TIFY gene family has not yet been characterized in Hordeum vulgare. In the present study, 21 and 22 TIFY family members were identified in the genomes of Hv_Morex and Hv_Barke, respectively. The HvTIFY proteins could be divided into the TIFY, ZIM/ZML and JAZ groups, and the JAZ group could be further clustered into six subgroups. HvTIFY genes were conserved in the two genotypes, and all of the duplicated gene pairs in the barley TIFY family were dominated by intense purifying selection. Tandem duplication was the main driving force for the expansion of the HvTIFY gene family. In silico gene expression profiling revealed most members of the Hv_Morex JAZ group were predominantly expressed in reproductive organs and root tissues and were also more involved in the responses to cold treatment and spot blotch infection than other groups. Quite a few JAZ genes (Hv_MoJAZ1, Hv_MoJAZ4, Hv_MoJAZ6, Hv_MoJAZ9, Hv_MoJAZ11, Hv_MoJAZ12 and Hv_MoJAZ14) were found to be tightly associated with the growth of barley and the responses to cold and spot blotch infection stresses. The genome-wide comprehensive analysis of the structure and function of the HvTIFY genes will contribute further to our understanding of the functions of these genes in response to abiotic and biotic stresses in Hordeum vulgare. Full article

The TIFY family is a plant-specific gene family that is involved in regulating a variety of plant processes, including developmental and defense responses. The Cymbidium species have certain ornamental and ecological value. However, the characteristics and functions of TIFY genes in Cymbidium remain poorly understood. This study conducted a genome analysis of the TIFY gene family in Cymbidium goeringii, C. ensifolium, and C. sinense and investigated their physicochemical properties, phylogenetic relationships, gene structures, and expression patterns under heat stress in C. goeringii. C. goeringii (26), C. ensifolium (19), and C. sinense (21). A total of 66 TIFY genes were identified, and they were classified into four subfamilies (JAZ, ZML, PPD, and TIFY) based on their systematic evolutionary relationships. Sequence analysis showed that TIFYs contained a conserved TIFY domain and that genes within the same subfamily had structural similarity. Analysis of cis-regulatory elements revealed that these genes contain numerous light-responsive elements and stress-responsive elements. We subjected C. goeringii (16 h light/8 h dark) to 24 h of 38 °C high-temperature stress in a climate chamber. Additionally, results from RT-qPCR experiments showed that under heat stress, the expression levels of eight genes in C. goeringii show significant differences. Among them, the JAZ subfamily exhibited the strongest response to heat stress, initially showing upregulation followed by a downregulation trend. In conclusion, this study investigated the role of TIFY genes in three Cymbidium species, providing insights into C. goeringii under heat stress. Full article

The TIFY gene family (formerly known as the zinc finger proteins expressed in inflorescence meristem (ZIM) family) not only functions in plant defense responses but also are widely involved in regulating plant growth and development. However, the identification and functional analysis of TIFY proteins remain unexplored in Orchidaceae. Here, we identified 19 putative TIFY genes in the Phalaenopsis aphrodite genome. The phylogenetic tree classified them into four subfamilies: 14 members from JAZ, 3 members from ZML, and 1 each from PPD and TIFY. Sequence analysis revealed that all Phalaenopsis TIFY proteins contained a TIFY domain. Exon–intron analysis showed that the intron number and length of Phalaenopsis TIFY genes varied, whereas the same subfamily and subgroup genes had similar exon or intron numbers and distributions. The most abundant cis-elements in the promoter regions of the 19 TIFY genes were associated with light responsiveness, followed by MeJA and ABA, indicating their potential regulation by light and phytohormones. The 13 candidate TIFY genes screened from the transcriptome data exhibited two types of expression trends, suggesting their different roles in cell proliferation and cell expansion of floral organ growth during Phalaenopsis flower opening. Overall, this study serves as a background for investigating the underlying roles of TIFY genes in floral organ growth in Phalaenopsis. Full article

The TIFY family is a group of novel plant-specific transcription factors involved in plant development, signal transduction, and responses to stress and hormones. TIFY genes have been found and functionally characterized in a number of plant species. However, there is no information about this family in warm-season grass plants. The current study identified 24 TIFY genes in Eremochloa ophiuroides, a well-known perennial warm-season grass species with a high tolerance to aluminum toxicity and good adaptability to the barren acidic soils. All of the 24 EoTIFYs were unevenly located on six out of nine chromosomes and could be classified into two subfamilies (ZIM/ZML and JAZ), consisting of 3 and 21 genes, respectively, with the JAZ subfamily being further divided into five subgroups (JAZ I to JAZ V). The amino acids of 24 EoTIFYs showed apparent differences between the two subfamilies based on the analysis of gene structures and conserved motifs. MCScanX analysis revealed the tandem duplication and segmental duplication of several EoTIFY genes occurred during E. ophiuroides genome evolution. Syntenic analyses of TIFY genes between E. ophiuroides and other five plant species (including A. thaliana, O. sativa, B. distachyon, S. biocolor, and S. italica) provided valuable clues for understanding the potential evolution of the EoTIFY family. qRT-PCR analysis revealed that EoTIFY genes exhibited different spatial expression patterns in different tissues. In addition, the expressions of EoTIFY genes were highly induced by MeJA and all of the EoTIFY family members except for EoJAZ2 displayed upregulated expression by MeJA. Ten EoTIFY genes (EoZML1, EoZML1, EoJAZ1, EoJAZ3, EoJAZ5, EoJAZ6, EoJAZ8, EoJAZ9, EoJAZ10, and EoJAZ21) were observed to be highly expressed under both exogenous MeJA treatment and aluminum stress, respectively. These results suggest that EoTIFY genes play a role in the JA-regulated pathway of plant growth and aluminum resistance as well. The results of this study laid a foundation for further understanding the function of TIFY genes in E. ophiuroides, and provided useful information for future aluminum tolerance related breeding and gene function research in warm-season grass plants. Full article

Cucumbers are frequently affected by gray mold pathogen Botrytis cinerea, a pathogen that causes inhibited growth and reduced yield. Jasmonic acid (JA) plays a primary role in plant responses to biotic stresses, and the jasmonate-ZIM-Domain (JAZ) proteins are key regulators of the JA signaling pathway. In this study, we used the pan-genome of twelve cucumber varieties to identify cucumber TIFY genes. Our findings revealed that two CsTIFY genes were present in all twelve cucumber varieties and showed no differences in protein sequence, gene structure, and motif composition. This suggests their evolutionary conservation across different cucumber varieties and implies that they may play a crucial role in cucumber growth. On the other hand, the other fourteen CsTIFY genes exhibited variations in protein sequence and gene structure or conserved motifs, which could be the result of divergent evolution, as these genes adapt to different cultivation and environmental conditions. Analysis of the expression profiles of the CsTIFY genes showed differential regulation by B. cinerea. Transient transfection plants overexpressing CsJAZ2, CsJAZ6, or CsZML2 were found to be more susceptible to B. cinerea infection compared to control plants. Furthermore, these plants infected by the pathogen showed lower levels of the enzymatic activities of POD, SOD and CAT. Importantly, after B. cinerea infection, the content of JA was upregulated in the plants, and cucumber cotyledons pretreated with exogenous MeJA displayed increased resistance to B. cinerea infection compared to those pretreated with water. Therefore, this study explored key TIFY genes in the regulation of cucumber growth and adaptability to different cultivation environments based on bioinformatics analysis and demonstrated that CsJAZs negatively regulate cucumber disease resistance to gray mold via multiple signaling pathways. Full article

As plant-specific transcription factors, the TIFY family genes are involved in the responses to a series of biotic and abiotic stresses and the regulation of the development of multiple organs. To explore the potential roles of the TIFY gene family in shoot branching, which can shape plant architecture and finally determine seed yield, we conducted comprehensive genome-wide analyses of the TIFY gene family in Brassica napus. Here, HMMER search and BLASTp were used to identify the TIFY members. A total of 70 TIFY members were identified and divided into four subfamilies based on the conserved domains and motifs. These TIFY genes were distributed across 19 chromosomes. The predicted subcellular localizations revealed that most TIFY proteins were located in the nucleus. The tissue expression profile analyses indicated that TIFY genes were highly expressed in the stem, flower bud, and silique at the transcriptional level. High-proportioned activation of the dormant axillary buds on stems determined the branch numbers of rapeseed plants. Here, transcriptome analyses were conducted on axillary buds in four sequential developing stages, that is, dormant, temporarily dormant, being activated, and elongating (already activated). Surprisingly, the transcription of the majority of TIFY genes (65 of the 70) significantly decreased on the activation of buds. GO enrichment analysis and hormone treatments indicated that the transcription of TIFY family genes can be strongly induced by jasmonic acid, implying that the TIFY family genes may be involved in the regulation of jasmonic acid-mediated branch development. These results shed light on the roles of TIFY family genes in plant architecture. Full article

TIFY is a plant-specific gene family with four subfamilies: ZML, TIFY, PPD, and JAZ. Recently, this family was found to have regulatory functions in hormone stimulation, environmental response, and development. However, little is known about the roles of the TIFY family in Tartary buckwheat (Fagopyrum tataricum), a significant crop for both food and medicine. In this study, 18 TIFY family genes (FtTIFYs) in Tartary buckwheat were identified. The characteristics, motif compositions, and evolutionary relationships of the TIFY proteins, as well as the gene structures, cis-acting elements, and synteny of the TIFY genes, are discussed in detail. Moreover, we found that most FtTIFYs responded to various abiotic stresses (cold, heat, salt, or drought) and hormone treatments (ABA, MeJA, or SA). Through yeast two-hybrid assays, we revealed that two FtTIFYs, FtTIFY1 and FtJAZ7, interacted with FtABI5, a homolog protein of AtABI5 involved in ABA-mediated germination and stress responses, implying crosstalk between ABA and JA signaling in Tartary buckwheat. Furthermore, the overexpression of FtJAZ10 and FtJAZ12 enhanced the heat stress tolerance of tobacco. Consequently, our study suggests that the FtTIFY family plays important roles in responses to abiotic stress and provides two candidate genes (FtJAZ10 and FtJAZ12) for the cultivation of stress-resistant crops. Full article

TIFYs are plant-specific transcription factors that contain the TIFY structural domain and play an important role in plant leaf growth and development. However, the role played by TIFY in E. ferox (Euryale ferox Salisb.) leaf development has not been investigated. In this study, 23 TIFY genes were identified in E. ferox. Phylogenetic analyses of the TIFY genes showed clustering into three groups (JAZ, ZIM, and PPD). The TIFY domain was shown to be conserved. JAZ was mainly expanded via wholegenome triplication (WGT) in E. ferox. Based on analyses of the TIFY genes in nine species, we found that JAZ has a closer relationship with PPD, in addition to appearing the most recently and expanding most rapidly, leading to the rapid expansion of TIFYs in Nymphaeaceae. In addition, their different evolution types were discovered. Different gene expressions showed the distinct and corresponsive expression patterns of the EfTIFYs in different stages of tissue and leaf development. Finally, The qPCR analysis revealed that the expression of EfTIFY7.2 and EfTIFY10.1 showed an upward trend and high expression throughout leaf development. Further co-expression analysis indicated that EfTIFY7.2 might be more important for the development of E. ferox leaves. This information will be valuable when exploring the molecular mechanisms of EfTIFYs in plants. Full article

The HD-ZIP III transcription factor REVOLUTA (REV) is involved in early leaf development, as well as in leaf senescence. REV directly binds to the promoters of senescence-associated genes, including the central regulator WRKY53. As this direct regulation appears to be restricted to senescence, we aimed to characterize protein-interaction partners of REV which could mediate this senescence-specificity. The interaction between REV and the TIFY family member TIFY8 was confirmed by yeast two-hybrid assays, as well as by bimolecular fluorescence complementation in planta. This interaction inhibited REV’s function as an activator of WRKY53 expression. Mutation or overexpression of TIFY8 accelerated or delayed senescence, respectively, but did not significantly alter early leaf development. Jasmonic acid (JA) had only a limited effect on TIFY8 expression or function; however, REV appears to be under the control of JA signaling. Accordingly, REV also interacted with many other members of the TIFY family, namely the PEAPODs and several JAZ proteins in the yeast system, which could potentially mediate the JA-response. Therefore, REV appears to be under the control of the TIFY family in two different ways: a JA-independent way through TIFY8, which controls REV function in senescence, and a JA-dependent way through PEAPODs and JAZ proteins. Full article

Soybean mosaic virus (SMV) is a worldwide and hardly controlled virus disease in soybean. Kefeng-1 is an elite variety resistant to SMV in China. In order to discover resistance genes and regulation networks in Kefeng-1, we analyzed transcriptome data of resistant (Kefeng-1) and susceptible (NN1138-2) soybean varieties in response to infection of the SMV strain SC18 at 0, 6, and 48 hours post-inoculation (hpi) and 5 days post-inoculation (dpi). Many differentially expressed genes (DEGs) were identified with Kefeng-1 and NN 1138-2. Based on the enrichment analysis for gene ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway, we found that 48 hpi was the best time point for the defense response of the two soybean varieties in response to the SMV infection. The expression of seven candidate genes was further verified by qRT-PCR and was relatively consistent with the results of RNA-Seq. The expression of genes for Glyma.11G239000 and Glyma.18G018400, members of the ethylene-insensitive 3/ethylene-insensitive3-like (EIN3/EIL) protein family involved in ETH, were downregulated in NN1138-2 but not in Kefeng-1 and the expression of Glyma.14G041500 was upregulated in Kefeng-1 at 5 dpi. The expression of jasmonic acid repressor genes (TIFY/JAZ) was downregulated in NN1138-2 but not in Kefeng-1. NPR1 involved in the salicylic acid signaling pathway was downregulated in NN1138-2 at 48 hpi but upregulated in Kefeng-1. It shows that ethylene, jasmonic acid, and salicylic acid signaling pathways may be involved in the disease resistance process to the SMV strain SC18. Our findings would help to understand the molecular mechanism of soybean resistance to SMV. Full article

The TIFY gene family plays important roles in various plant biological processes and responses to stress and hormones. The chromosome-level genome of the Brassiceae species has been released, but knowledge concerning the TIFY family is lacking in the Brassiceae species. The current study performed a bioinformatics analysis on the TIFY family comparing three diploid (B. rapa, B. nigra, and B. oleracea) and two derived allotetraploid species (B. juncea, and B. napus). A total of 237 putative TIFY proteins were identified from five Brassiceae species, and classified into ten subfamilies (six JAZ types, one PPD type, two TIFY types, and one ZML type) based on their phylogenetic relationships with TIFY proteins in A. thaliana and Brassiceae species. Duplication and synteny analysis revealed that segmental and tandem duplications led to the expansion of the TIFY family genes during the process of polyploidization, and most of these TIFY family genes (TIFYs) were subjected to purifying selection after duplication based on Ka/Ks values. The spatial and temporal expression patterns indicated that different groups of BnaTIFYs have distinct spatiotemporal expression patterns under normal conditions and heavy metal stresses. Most of the JAZIII subfamily members were highest in all tissues, but JAZ subfamily members were strongly induced by heavy metal stresses. BnaTIFY34, BnaTIFY59, BnaTIFY21 and BnaTIFY68 were significantly upregulated mostly under As³⁺ and Cd²⁺ treatment, indicating that they could be actively induced by heavy metal stress. Our results may contribute to further exploration of TIFYs, and provided valuable information for further studies of TIFYs in plant tolerance to heavy metal stress. Full article