Frontiers in Plant Science
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2023
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IF 5.6
Guohui Li,Muhammad Aamir Manzoor,Guoyu Wang,Cunwu Chen,Cheng Song
Introduction KNOX plays a pivotal role in governing plant growth, development, and responses to diverse abiotic and biotic stresses. However, information on the relationship between the KNOX gene family and expression levels under different treatments in Dendrobium is still limited. Methods To address this problem, we first used bioinformatics methods and revealed the presence of 19 KNOX genes distributed among 13 chromosomes in the Dendrobium huoshanense genome. Through an analysis of phylogenetic relationships, these genes were classified into three distinct clades: class I, class II, and class M. Our investigation included promoter analysis, revealing various cis -acting elements associated with hormones, growth and development, and abiotic stress responses. Additionally, qRT-PCR experiments were conducted to assess the expression patterns of DhKNOX genes under different treatments, including ABA, MeJA, SA, and drought. Results The results demonstrated differential expression of DhKNOX genes in response to these treatments, thereby highlighting their potential roles in stress adaptation. Discussion Overall, our results contribute important insights for further investigations into the functional characterization of the Dendrobium KNOX gene family, shedding light on their roles in plant development and stress responses.
研究领域:
植物学
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分子生物学
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基因组学
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PubMed
高影响因子
Forests
·
2022
·Vol. 13
·期 2
·283
·
IF 3.282
Yini Zhang,Xianyin Ding,Qifu Luan,Jingmin Jiang,Shu Diao
Diterpene resin acids (DRAs) are major components of pine oleoresin that can effectively resist the invasion of insects and pathogenic microorganisms. The subfamily of cytochrome P450s, CYP720B, catalyzes diterpene products into DRAs. Identifying CYP720B subfamily members and revealing the characteristics of tissue-specific expression would help understand diterpene-rich structures and diverse types. Slash pine and loblolly pine are important pines that provide oleoresin products. In this study, we identifiedCYP720Bcandidate genes based on thePinus taedaV2.0 genome and full-length transcriptome of slash pine by PacBio. A total of 17 genes in slash pine and 19 in loblolly pine were identified and classified into four main clades by phylogenetic analysis. An analysis ofcis-acting elements showed thatCYP720Bgenes were closely related to adversity resistance. The gene expression of these candidates in different tissues was quantified by real-time quantitative PCR (RT–qPCR) analysis. Most of the genes showed relatively higher expression levels in roots and stems than in the other tissues, corresponding with the results of DRA component detection by gas chromatography–mass spectrometry (GC–MS), which indicated that stems and roots might be important tissues in oleoresin biosynthesis. These results provide a valuable resource for a better understanding of the biological role of individual CYP720Bs in slash pine and loblolly pine.Keywords:diterpene resin acids;CYP720B;expression patterns;biotic and abiotic stress
研究领域:
植物学
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分子生物学
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DOI
高影响因子
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
·
2019
·Vol. 21
·期 1
·54
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IF 4.183
Lei Zhang,Chunyan Jiao,Yunpeng Cao,Xi Cheng,Jian Wang,Qing Jin,Yongping Cai
Studies have shown that the type II pyridoxal phosphate-dependent decarboxylase (PLP_deC) genes produce secondary metabolites and flavor volatiles in plants, and TDC (tryptophan decarboxylase), a member of thePLP_deCfamily, plays an important role in the biosynthesis of terpenoid indole alkaloids (TIAs). In this study, we identified eightPLP_deCgenes inDendrobium officinale(D. officinale) and six inPhalaenopsis equestris(P. equestris), and their structures, physicochemical properties, response elements, evolutionary relationships, and expression patterns were preliminarily predicted and analyzed. The results showed thatPLP_deCgenes play important roles inD. officinaleand respond to different exogenous hormone treatments; additionally, the results support the selection of appropriate candidates for further functional characterization ofPLP_deCgenes inD. officinale.Keywords:Dendrobium officinale;PLP_deC;bioinformatics;expression pattern analysis;evolution
研究领域:
植物学
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遗传学
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分子生物学
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PubMed
高影响因子
Plants-Basel
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2025
·Vol. 14
·期 3
·454
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IF 4.1
Huiying Xie,Jiajing Zeng,Wenli Feng,Wei Gao,Zhongxiong Lai,Shengcai Liu
Betalains differ from anthocyanins, and they cannot coexist in the same plant under natural conditions. The L-DOPA 4,5-dioxygenase encoded by theDODAgene is a key step in the pathway of betalain biosynthesis in Caryophyllales plants. Amaranth is an important resource for the study and extraction of betalains. In order to clarify the function ofAtrDODAfamily genes in betalain biosynthesis, we screened out threeAtrDODAfamily gene members associated with betalains based on a genome database and RNA-seq databases ofAmaranthus tricolor. Their characterization and expression pattern were further analyzed. The result of subcellular localization showed that all three AtrDODA members were located in the nucleus. Betacyanin and betaxanthin were promoted by paclobutrazol treatment in the leaves and stems of ‘Suxian No.1’ (red), while they were inhibited by gibberellin and darkness, which were consistent with the gene expression pattern ofAtrDODAs. After heterologous transformation of theAtrDODA1-1promoter into tobacco with GUS staining analysis, the promoter activity ofAtrDODA1-1of ‘Suxian No.1’ (red) amaranth was significantly higher than that of ‘Suxian No.2’ (green) amaranth. Furthermore, we analyzed the promoter activity ofAtrDODA1-1by GUS staining and qRT-PCR after sprayed exogenous MeJA and GA3on theAtrDODA1-1promoter transformed tobacco plants. The results showed thatAtrDODA1-1responded to plant hormones. This study could lay a foundation for revealing the biological functions of the amaranthDODAgene family, and provide new clues for the molecular mechanism of betalain synthesis.
研究领域:
植物学
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分子生物学
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PubMed
高影响因子
BRAZILIAN JOURNAL OF MICROBIOLOGY
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2025
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IF 1.9
Lv Jianhua,Gu Xiangnan,Hui Minmin,Luo Yingjie,Luo Wenbo,Zhao Huiting,Yin Shuqin,Feng Yan,Xue Zhiquan
Phenol hydroxylase (PH) plays a central role in phenol biodegradation pathways. In this study, the enzymatic activity of PH in Candida tropicalis GY8 was evaluated following phenol-induced cultivation, and oxidation products were analyzed via high-performance liquid chromatography (HPLC). Two phenol hydroxylase genes, CtPHE1 and CtPHE2 , were identified, and their expression patterns were examined using RT-qPCR. Functional analysis of the corresponding proteins was conducted by cloning and expressing the genes in Escherichia coli BL21(DE3). Enzymatic activity reached its maximum after 15 h of cultivation ( p < 0.01), and phenol conversion to catechol was verified by HPLC. RT-qPCR results indicated peak transcript levels at 10 h, with CtPHE2 showing consistently higher expression than CtPHE1 at 5, 10, and 15 h ( p < 0.01). Both recombinant proteins were capable of phenol degradation, with CtPHE2 exhibiting greater catalytic activity. These findings provide essential molecular information for advancing the understanding of phenol biodegradation mechanisms.
研究领域:
微生物学
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分子生物学
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环境科学
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PubMed
高影响因子
Biology-Basel
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2025
·Vol. 14
·期 4
·411
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IF 3.5
Qun Zhang,Xiuyue Xu,Ling Yang
Simple SummaryIn this study, theWOXgene family of Korean pine was analyzed, and 21 family members were identified using bioinformatics methods. The results showed that the total number of amino acids in all proteins is between 164 and 488 aa, with molecular weights between 18,456.30 and 53,893.18 Da and isoelectric point values between 5.56 and 9.80. According to the predicted results, the average hydrophilicity coefficient of thePkWOXproteins is between −0.993 and −0.565. The phylogenetic tree divides thePkWOXgenes into three sub-branches. A total of 21PkWOXgenes are unevenly distributed on 7 of 12 chromosomes. ThePkWOXpromoters contain cis-acting elements such as stress response, light response, hormone response, and meristem regulation. GO entry forPkWOXis a biological process and molecular function.PkWOX16was expressed in all tissues.PkWOX2,3had higher expression in the embryonic callus, non-embryonic callus, somatic embryo, and zygotic embryo.PkWOX2,3,and16were located in the nucleus and in the cell membrane. ThePkWOX2and3proteins exhibited transcriptional self-activation activity, whilePkWOX16did not. In this study, the members of the WOX transcription factor family were identified and systematically analyzed in Korean pine, laying a foundation for the research on their functions.(1) Background:WOX(WUSCHEL-related homologous box) is a plant-specific transcription factor involved in plant development and stress response. It has been reported to be involved in processes such as growth and development, stem cell division and differentiation, and organ development; (2) Methods: In this study, bioinformatics was used to identify and analyze theWOXgene family of Korean pine. The gene characteristics were identified and analyzed through yeast transcriptional activation assays as well as subcellular localization experiments; (3) Results: A total of 21 members of theWOXgene family of Korean pine were identified in this study. The phylogenetic tree divides thePkWOXgenes into three sub-branches. 21PkWOXgenes are unevenly distributed on 7 of the 12 chromosomes.PkWOX16was expressed in all tissues.PkWOX2,3had higher expression in the embryonic callus, non-embryonic callus, somatic embryo, and zygotic embryo.PkWOX2,3and16were located in the nucleus and in the cell membrane. ThePkWOX2and3proteins exhibited transcriptional self-activation activity, whilePkWOX16did not; (4) Conclusions: In this study, the members of the WOX transcription factor family in Korean pine were identified and systematically analyzed, laying a foundation for their subsequent functional research.
研究领域:
植物学
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遗传学
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分子生物学
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DOI
PubMed
高影响因子
Insects
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2024
·Vol. 15
·期 2
·111
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IF 2.7
Hua Yang,Long Liu,Fan Wang,Wei Yang,Qiong Huang,Nanxi Wang,Hongling Hu
Simple SummaryThe bamboo weevil beetle,Cyrtotrachelus buqueti(Coleoptera: Curculionidae) is the primary bamboo pest and seriously influences the development of the bamboo industry. Sensory neuron membrane proteins (SNMPs) play important roles in insect pheromone communication. However, SNMPs ofC. buquetiare still uncharacterized. With the aim of developing control techniques to control this pest, one novelSNMPfromC. buqueti,CbuqSNMP1b, was functionally characterized in this study. The results indicated thatCbuqSNMP1bwas predominantly expressed in the antennae of both sexes and showed significantly higher transcription levels in the adult stage, suggesting thatCbuqSNMP1bis involved in the process of olfaction. Fluorescence binding assays revealed that CbuqSNMP1b could bind to three out of fourteen volatile compounds emitted fromC. buquetiand showed the strongest binding affinity to dibutyl phthalate, demonstrating the role of SNMP1 in detecting odorants. Molecular docking was performed to further understand the binding mode between CbuqSNMP1b and these three ligands, and the results showed that hydrophobic interactions were the prevailing forces within the binding cavities of CbuqSNMP1b. The results of this study will be helpful to understand the function of SNMP1 inC. buquetiand lay a foundation for developing new methods to control this pest.AbstractSensory neuron membrane proteins (SNMPs) play important roles in insect chemoreception and SNMP1s have been reported to be essential in detecting sex pheromones inDrosophilaand some lepidopteran species. However, SNMPs forCyrtotrachelus buqueti(Coleoptera: Curculionidae), a major insect pest of bamboo plantations, remain uncharacterized. In this study, a novelSNMPgene,CbuqSNMP1b, fromC. buquetiwas functionally characterized. The expression ofCbuqSNMP1bwas significantly higher in antennae than in other tissues of both sexes and the expression level was significantly male-biased. Additionally,CbuqSNMP1bshowed significantly higher transcription levels in the adult stage and very low transcription levels in other stages, suggesting thatCbuqSNMP1bis involved in the process of olfaction. Fluorescence binding assays indicated that CbuqSNMP1b displayed the strongest binding affinity to dibutyl phthalate (Ki= 9.03 μM) followed by benzothiazole (Ki= 11.59 μM) and phenol (Ki= 20.95 μM) among fourteenC. buquetivolatiles. Furthermore, molecular docking revealed key residues in CbuqSNMP1b that interact with dibutyl phthalate, benzothiazole, and phenol. In conclusion, these findings will lay a foundation to further understand the olfactory mechanisms ofC. buquetiand promote the development of novel methods for controlling this pest.Keywords:Cyrtotrachelus buqueti;sensory neuron membrane protein;expression pattern;binding assay;molecular docking
研究领域:
昆虫学
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分子生物学
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害虫管理
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PubMed
高影响因子
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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2018
·Vol. 115
·期 20
·5175-5180
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IF 9.504
Peng-Lu Pan,Yu-Xuan Ye,Yi-Han Lou,Jia-Bao Lu,Chen Cheng,Yan Shen,Bernard Moussian,Chuan-Xi Zhang
Cuticle, mainly composed of chitin and cuticular proteins (CPs), is a multifunctional structure of arthropods. CPs usually account for >1% of the total insect proteins. Why does an insect encode so many different CP genes in the genome? In this study, we use comprehensive large-scale technologies to study the full complement of CPs (i.e., the CP-ome) of the brown planthopper (BPH), Nilaparvata lugens, a major rice plant pest. Eight CP families (CPR, CPF, TWDL, CPLCP, CPG, CPAP1, CPAP3, and CPAPn) including 140 proteins in BPH, in which CPAPn is a CP family that we discovered. The CPG family that was considered to be restricted to the Lepidoptera has also been identified in BPH. As reported here, CPLCP family members are characterized by three conserved sequence motifs. In addition, we identified a testis protein family with a peritrophin A domain that we named TPAP. We authenticated the real existence of 106 proteins among the 140 CPs. RNA interference (RNAi) experiments were conducted against 135 CP genes in early- and late-instar nymphs and newly emerged female adults, demonstrating that 32 CPs were essential for BPH normal development or egg production. Combined RNAi experiments suggested redundant and complementary functions of the large number of CPs. Transcriptomic data revealed that the CP genes were expressed in a tissue-specific manner, and there were four clusters of developmental expression patterns. This study gives a comprehensive understanding of the roles of CPs in an insect cuticle.
研究领域:
昆虫学
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基因组学
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蛋白质组学
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分子生物学
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DOI
PubMed
高影响因子
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
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2021
·Vol. 22
·期 14
·7312
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IF 5.924
Qin Lu,Nawaz Haider Bashir,Hai-Xia Wu,Weiwei Wang,Jinwen Zhang,Yongzhong Cui,Hang Chen
Rhus potaniniiMaxim is an economically and medicinally important tree species in China. It produces galls (induced by aphids) with a high abundance of tannins. Here, we discuss the histology, cellular structures and their distribution, and the macromolecular components of secretive glandular trichomes on the leaves ofR. potaninii. A variation in the density of glandular trichomes and tomenta was found between the adaxial and abaxial sides of a leaf in different regions and stages of the leaf. The glandular trichomes onR. potaniniitrees comprise a stalk with no cellular structure and a head with 8–15 cells. Based on staining, we found that the secretion of glandular trichomes has many polysaccharides, phenolic compounds, and acidic lipids but very few neutral lipids. The dense glandular trichomes provide mechanical protection for young tissues; additionally, their secretion protects the young tissues from pathogens by a special chemical component. According to transcriptome analysis, we found enhanced biosynthetic and metabolism pathways of glycan, lipids, toxic amino acids, and phenylpropanoids. This shows a similar tendency to the staining. The numbers of differentially expressed genes were large or small; the averaged range of upregulated genes was greater than that of the downregulated genes in most subpathways. Some selectively expressed genes were found in glandular trichomes, responsible for the chitinase activity and pathogenesis-related proteins, which all have antibacterial activity and serve for plant defense. To our knowledge, this is the first study showing the components of the secretion from glandular trichomes on the leaf surface ofR. potaninii.Keywords:distribution pattern;gene expression pattern;glandular trichome;histological structure;secretion;plant defense
研究领域:
植物学
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遗传学
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植物生理学
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分子生物学
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DOI
PubMed
高影响因子
Horticulturae
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2024
·Vol. 10
·期 3
·252
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IF 3.1
Jinliao Chen,Fei Wang,Yangting Zhang,Ruiyue Zheng,Xiaopei Wu,Ye Ai,Sagheer Ahmad,Zhongjian Liu,Donghui Peng
ThePEBPgene family is involved in many biological processes in plants, including plant growth and development, flowering regulation, light response, and abiotic stress response. But there is little information about the role of thePEBPgene family inCymbidiumspecies. In this study, we identified 11, 9, and 7PEBPgenes inC. ensifolium,C. sinense, andC. goeringii, respectively, and mapped them to the chromosomes. We also studied the physicochemical characteristics of the proteins encoded by thesePEBPs and analyzed their intra-species collinearity, gene structure, conserved motifs, and cis-acting elements. Furthermore, a total of forty PEBP genes fromC. sinense,C. ensifolium,C. goeringii,Phalaenopsis, andArabidopsiswere divided into three clades based on the phylogenetic tree. The expression patterns of 11PEBPgenes in different tissues and organs ofC. ensifoliumwere analyzed based on transcriptome data, indicating that theCePEBPs might play an important role in the growth and development, especially in the flower bud organs (1–5 mm).CePEBP5plays an indispensable role in both the vegetative and reproductive growth cycles ofC. ensifolium.CePEBP1is essential for root development, whileCePEBP1,CePEBP3,CePEBP5, andCePEBP10regulate the growth and development of different floral organ tissues at various stages. The findings of this study can do a great deal to understand the roles of thePEBPgene family inCymbidium.
研究领域:
植物学
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分子生物学
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遗传学
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DOI
高影响因子
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
·
2022
·Vol. 23
·期 19
·11144
·
IF 6.208
Qiuju Chen,Min Lian,Jian Guo,Binbin Zhang,Sankui Yang,Kexin Huang,Futian Peng,Yuansong Xiao
Nitrogen is an important nutrient element that limits plant growth and yield formation, but excessive nitrogen has negative effects on plants and the environment. It is important to reveal the molecular mechanism of high NUE (nitrogen use efficiency) for breeding peach rootstock and variety with high NUE. In this study, two peach rootstocks, Shannong–1 (S) and Maotao (M), with different NUE were used as materials and treated with 0.1 mM KNO3for transcriptome sequencing together with the control group. From the results of comparison between groups, we found that the two rootstocks had different responses to KNO3, and 2151 (KCL_S vs. KCL_M), 327 (KNO3_S vs. KCL_S), 2200 (KNO3_S vs. KNO3_M) and 146 (KNO3_M vs. KCL_M) differentially expressed genes (DEGs) were identified, respectively, which included multiple transcription factor families. These DEGs were enriched in many biological processes and signal transduction pathways, including nitrogen metabolism and plant hormone signal transduction. The function ofPpNRT2.1, which showed up-regulated expression under KNO3treatment, was verified by heterologous expression in Arabidopsis. The plant height, SPAD (soil and plant analyzer development) of leaf and primary root length of the transgenic plants were increased compared with those of WT, indicating the roles ofPpNRT2.1in nitrogen metabolism. The study uncovered for the first time the different molecular regulatory pathways involved in nitrogen metabolism between two peach rootstocks and provided gene reserve for studying the molecular mechanism of nitrogen metabolism and theoretical basis for screening peach rootstock or variety with high NUE.Keywords:peach;nitrogen use efficiency;comparative transcriptomics;PpNRT2.1gene;expression pattern;nitrate ion
研究领域:
植物科学
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分子生物学
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基因组学
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产品关联
DOI
PubMed
高影响因子
Insects
·
2019
·Vol. 10
·期 11
·409
·
IF 2.139
Ying Zhang,Chen Shen,Daosong Xia,Jian Wang,Qingfeng Tang
Odorant-binding proteins (OBPs) are important in insect chemical communication. The objective of this research was to identify the functions of two OBPs inSitophilus zeamais. qRT-PCR and western blot (WB) were performed to investigate the expression profiles at the transcript and protein levels, respectively. Fluorescence competitive binding assays were used to measure the ability of the OBPs to bind to host volatiles, and a Y-tube olfactometer was used to verify the results (attraction/no response) via behavioral experiments. The RNAi was used to verify the function by knocking down the ability of proteins to bind odorants. qRT-PCR showed the highest expression SzeaOBP1 and SzeaOBP28 at the low-instar larva (LL) and eclosion adult (EA) stages, respectively. WB showed that both SzeaOBP1 and SzeaOBP28 were highly expressed in the EA stage. Fluorescence competitive binding assays indicated that SzeaOBP1 exhibited extremely high binding affinity with cetanol. SzeaOBP28 exhibited a pronounced binding affinity for 4-hydroxy-3-methoxybenzaldehyde. The behavioral experiment showed that the adultS. zeamaisresponded strongly to 4-hydroxy-3-methoxybenzaldehyde and valeraldehyde fromSorghum bicolor. The RNAi knockdown individuals displayed behavioral differences between normal insects and dsRNA (SzeaOBP1)-treated insects. We infer that they both have functions in perception and recognition of host volatiles, whereas SzeaOBP28 may also have other functions.Keywords:Sitophilus zeamais;odorant-binding protein;expression pattern;host volatiles;ligand-binding spectrum;RNA interference;behavioral responses
研究领域:
昆虫学
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分子生物学
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化学生态学
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DOI
PubMed
高影响因子
危险品化学品经营许可证（带存储）