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Nguyen DK, Nguyen TP, Li YR, Ohme-Takagi M, Liu ZH, Ly TT, Nguyen VA, Trinh NN, Huang HJ. Comparative study of two indoor microbial volatile pollutants, 2-Methyl-1-butanol and 3-Methyl-1-butanol, on growth and antioxidant system of rice (Oryza sativa) seedlings. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 272:116055. [PMID: 38340597 DOI: 10.1016/j.ecoenv.2024.116055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 01/24/2024] [Accepted: 01/28/2024] [Indexed: 02/12/2024]
Abstract
2-Methyl-1-butanol (2MB) and 3-Methyl-1-butanol (3MB) are microbial volatile organic compounds (VOCs) and found in indoor air. Here, we applied rice as a bioindicator to investigate the effects of these indoor microbial volatile pollutants. A remarkable decrease in germination percentage, shoot and root elongation, as well as lateral root numbers were observed in 3MB. Furthermore, ROS production increased by 2MB and 3MB, suggesting that pentanol isomers could induce cytotoxicity in rice seedlings. The enhancement of peroxidase (POD) and catalase (CAT) activity provided evidence that pentanol isomers activated the enzymatic antioxidant scavenging systems, with a more significant effect observed in 3MB. Furthermore, 3MB induced higher activity levels of glutathione (GSH), oxidized glutathione (GSSG), and the GSH/GSSG ratio in rice compared to the levels induced by 2MB. Additionally, qRT-PCR analysis showed more up-regulation in the expression of glutaredoxins (GRXs), peroxiredoxins (PRXs), thioredoxins (TRXs), and glutathione S-transferases (GSTUs) genes in 3MB. Taking the impacts of pentanol isomers together, the present study suggests that 3MB exhibits more cytotoxic than 2MB, as such has critical effects on germination and the early seedling stage of rice. Our results provide molecular insights into how isomeric indoor microbial volatile pollutants affect plant growth through airborne signals.
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Affiliation(s)
- Diem-Kieu Nguyen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Tri-Phuong Nguyen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Yi-Rong Li
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Masaru Ohme-Takagi
- Institute of Tropical Plant Sciences and Microbiology, National Cheng Kung University, Tainan, Taiwan
| | - Zin-Huang Liu
- Graduate Program in Translational Agricultural Sciences, NCKU and Academia Sinica, Taiwan
| | - Thach-Thao Ly
- Graduate Program in Translational Agricultural Sciences, NCKU and Academia Sinica, Taiwan
| | - Van-Anh Nguyen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan; Intellectual Property Office of Vietnam, Thanh Xuan District, Ha Noi, Vietnam
| | - Ngoc-Nam Trinh
- Industrial University of Ho Chi Minh City, Go Vap District, Ho Chi Minh, Vietnam
| | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan; Institute of Tropical Plant Sciences and Microbiology, National Cheng Kung University, Tainan, Taiwan; Graduate Program in Translational Agricultural Sciences, NCKU and Academia Sinica, Taiwan.
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Nguyen TP, Meng DR, Chang CH, Su PY, Ou CA, Hou PF, Sung HM, Chou CH, Ohme-Takagi M, Huang HJ. Antifungal mechanism of volatile compounds emitted by Actinomycetota Paenarthrobacter ureafaciens from a disease-suppressive soil on Saccharomyces cerevisiae. mSphere 2023; 8:e0032423. [PMID: 37750721 PMCID: PMC10597458 DOI: 10.1128/msphere.00324-23] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2023] [Accepted: 08/07/2023] [Indexed: 09/27/2023] Open
Abstract
Increasing evidence suggests that in disease-suppressive soils, microbial volatile compounds (mVCs) released from bacteria may inhibit the growth of plant-pathogenic fungi. However, the antifungal activities and molecular responses of fungi to different mVCs remain largely undescribed. In this study, we first evaluated the responses of pathogenic fungi to treatment with mVCs from Paenarthrobacter ureafaciens. Then, we utilized the well-characterized fungal model organism Saccharomyces cerevisiae to study the potential mechanistic effects of the mVCs. Our data showed that exposure to P. ureafaciens mVCs leads to reduced growth of several pathogenic fungi, and in yeast cells, mVC exposure prompts the accumulation of reactive oxygen species. Further experiments with S. cerevisiae deletion mutants indicated that Slt2/Mpk1 and Hog1 MAPKs play major roles in the yeast response to P. ureafaciens mVCs. Transcriptomic analysis revealed that exposure to mVCs was associated with 1,030 differentially expressed genes (DEGs) in yeast. According to gene ontology and Kyoto Encyclopedia of Genes and Genomes analyses, many of these DEGs are involved in mitochondrial dysfunction, cell integrity, mitophagy, cellular metabolism, and iron uptake. Genes encoding antimicrobial proteins were also significantly altered in the yeast after exposure to mVCs. These findings suggest that oxidative damage and mitochondrial dysfunction are major contributors to the fungal toxicity of mVCs. Furthermore, our data showed that cell wall, antioxidant, and antimicrobial defenses are induced in yeast exposed to mVCs. Thus, our findings expand upon previous research by delineating the transcriptional responses of the fungal model. IMPORTANCE Since the use of bacteria-emitted volatile compounds in phytopathogen control is of considerable interest, it is important to understand the molecular mechanisms by which fungi may adapt to microbial volatile compounds (mVCs). Paenarthrobacter ureafaciens is an isolated bacterium from disease-suppressive soil that belongs to the Actinomycetota phylum. P. ureafaciens mVCs showed a potent antifungal effect on phytopathogens, which may contribute to disease suppression in soil. However, our knowledge about the antifungal mechanism of mVCs is limited. This study has proven that mVCs are toxic to fungi due to oxidative stress and mitochondrial dysfunction. To deal with mVC toxicity, antioxidants and physical defenses are required. Furthermore, iron uptake and CAP proteins are required for antimicrobial defense, which is necessary for fungi to deal with the thread from mVCs. This study provides essential foundational knowledge regarding the molecular responses of fungi to inhibitory mVCs.
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Affiliation(s)
- Tri-Phuong Nguyen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - De-Rui Meng
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Ching-Han Chang
- Graduate Program in Translational Agricultural Sciences, National Cheng Kung University and Academia Sinica, Tainan, Taiwan
| | - Pei-Yu Su
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Chieh-An Ou
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Ping-Fu Hou
- Kaohsiung District Agricultural Research and Extension Station, Pingtung, Taiwan
| | - Huang-Mo Sung
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Chang-Hung Chou
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
| | - Masaru Ohme-Takagi
- Institute of Tropical Plant Sciences and Microbiology, National Cheng Kung University, Tainan, Taiwan
| | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan
- Graduate Program in Translational Agricultural Sciences, National Cheng Kung University and Academia Sinica, Tainan, Taiwan
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Karcz W, Burdach Z, Rudnicka M. The Effects of 1,4-Naphthoquinone (NQ) and Naphthazarin (5,8-Dihydroxy-1,4-naphthoquinone, DHNQ) Individually and in Combination on Growth and Oxidative Stress in Maize ( Zea mays L.) Seedlings. PLANTS (BASEL, SWITZERLAND) 2023; 12:900. [PMID: 36840254 PMCID: PMC9959526 DOI: 10.3390/plants12040900] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Revised: 02/13/2023] [Accepted: 02/15/2023] [Indexed: 06/18/2023]
Abstract
This study investigated the effects of 1,4-naphthoquinone (NQ) and naphthazarin (5,8-dihydroxy-1,4-naphthoquinone, DHNQ) individually and in combination, applied at low concentrations (0.1, 1, and 10 nM), on growth, hydrogen peroxide (H2O2) production, catalase activity, and lipid peroxidation in maize seedlings. It was found that NQ at 0.1 and 1 nM and DHNQ at 0.1 nM significantly stimulated the fresh weight of the aboveground parts of the seedlings (APS), while the fresh weight of the underground parts of the seedlings (UPS) was enhanced only at 0.1 nM NQ. Interestingly, DHNQ at higher concentrations (1 and 10 nM) significantly diminished the fresh weight of the APS and UPS. When NQ and DHNQ were applied together, an increase in the fresh weight of the APS at all of the concentrations studied was observed. It was also found that NQ and DHNQ individually and in combination, at all concentrations studied, decreased the H2O2 production in the aboveground and underground parts of maize seedlings. The presence of the DHNQ at higher concentrations (1 and 10 nM) triggered an increase in the catalase (CAT) activity of the UPS and APS compared to the control. However, NQ added at 1 nM decreased the CAT activity of both the UPS and APS, while 10 nM increased the CAT activity of UPS. NQ and DHNQ applied together at 0.1 and 10 nM almost completely inhibited catalase activity in the UPS and APS. The data that were obtained for lipid peroxidation, measured as the malondialdehyde (MDA) concentration, indicated that NQ and DHNQ at all concentrations studied decreased the MDA content of the UPS, while both naphthoquinones increased it in APS. The data presented here are discussed taking into account the mechanisms via which naphthoquinones interact with biological systems.
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Huang P, Hameed R, Abbas M, Balooch S, Alharthi B, Du Y, Abbas A, Younas A, Du D. Integrated omic techniques and their genomic features for invasive weeds. Funct Integr Genomics 2023; 23:44. [PMID: 36680630 DOI: 10.1007/s10142-023-00971-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2022] [Revised: 01/01/2023] [Accepted: 01/11/2023] [Indexed: 01/22/2023]
Abstract
Many emerging invasive weeds display rapid adaptation against different stressful environments compared to their natives. Rapid adaptation and dispersal habits helped invasive populations have strong diversity within the population compared to their natives. Advances in molecular marker techniques may lead to an in-depth understanding of the genetic diversity of invasive weeds. The use of molecular techniques is rapidly growing, and their implications in invasive weed studies are considered powerful tools for genome purposes. Here, we review different approach used multi-omics by invasive weed studies to understand the functional structural and genomic changes in these species under different environmental fluctuations, particularly, to check the accessibility of advance-sequencing techniques used by researchers in genome sequence projects. In this review-based study, we also examine the importance and efficiency of different molecular techniques in identifying and characterizing different genes, associated markers, proteins, metabolites, and key metabolic pathways in invasive and native weeds. Use of these techniques could help weed scientists to further reduce the knowledge gaps in understanding invasive weeds traits. Although these techniques can provide robust insights about the molecular functioning, employing a single omics platform can rarely elucidate the gene-level regulation and the associated real-time expression of weedy traits due to the complex and overlapping nature of biological interactions. We conclude that different multi-omic techniques will provide long-term benefits in launching new genome projects to enhance the understanding of invasive weeds' invasion process.
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Affiliation(s)
- Ping Huang
- Institute of Environment and Ecology, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, People's Republic of China
| | - Rashida Hameed
- Institute of Environment and Ecology, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, People's Republic of China
| | - Manzer Abbas
- School of Agriculture, Forestry and Food Engineering, Yibin University, Yibin, 644000, Sichuan Province, People's Republic of China
| | - Sidra Balooch
- Institute of Botany, Bahauddin Zakariya University, Multan, Punjab, Pakistan
| | - Badr Alharthi
- Department of Biology, University College of Al Khurmah, Taif University, PO. Box 11099, Taif, 21944, Saudi Arabia
| | - Yizhou Du
- Faculty of Engineering, School of Computer Science, University of Sydney, Sydney, New South Wales, Australia
| | - Adeel Abbas
- Institute of Environment and Ecology, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, People's Republic of China.
| | - Afifa Younas
- Department of Botany, Lahore College for Women University, Lahore, Pakistan
| | - Daolin Du
- Institute of Environment and Ecology, School of Environment and Safety Engineering, Jiangsu University, Zhenjiang, 212013, People's Republic of China.
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Veisi S, Sabouri A, Abedi A. Meta-analysis of QTLs and candidate genes associated with seed germination in rice ( Oryza sativa L.). PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2022; 28:1587-1605. [PMID: 36389095 PMCID: PMC9530108 DOI: 10.1007/s12298-022-01232-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Revised: 08/18/2022] [Accepted: 09/16/2022] [Indexed: 06/12/2023]
Abstract
Seed germination is one of the critical stages of plant life, and many quantitative trait loci (QTLs) control this complex trait. Meta-analysis of QTLs is a powerful computational technique for estimating the most stable QTLs regardless of the population's genetic background. Besides, this analysis effectively narrows down the confidence interval (CI) to identify candidate genes (CGs) and marker development. In the current study, a comprehensive genome-wide meta-analysis was performed on QTLs associated with germination in rice. This analysis was conducted based on the data reported over the last two decades. In this case, various analyses were performed, including seed germination rate, plumule length, radicle length, germination percentage, coleoptile length, coleorhiza length, radicle fresh weight, germination potential, and germination index. A total of 67 QTLs were projected onto a reference map for these traits and then integrated into 32 meta-QTLs (MQTLs) to provide a genetic framework for seed germination. The average CI of MQTLs was considerably reduced from 15.125 to 8.73 cM compared to the initial QTLs. This situation identified 728 well-known functionally characterized genes and novel putative CGs for investigated traits. The fold change calculation demonstrated that 155 CGs had significant changes in expression analysis. In this case, 112 and 43 CGs were up-regulated and down-regulated during germination, respectively. This study provides an overview and compares genetic loci controlling traits related to seed germination in rice. The findings can bridge the gap between QTLs and CGs for seed germination. Supplementary Information The online version contains supplementary material available at 10.1007/s12298-022-01232-1.
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Affiliation(s)
- Sheida Veisi
- Department of Agronomy and Plant Breeding, Faculty of Agricultural Sciences, University of Guilan, P.O. Box: 41635-1314, Rasht, Iran
| | - Atefeh Sabouri
- Department of Agronomy and Plant Breeding, Faculty of Agricultural Sciences, University of Guilan, P.O. Box: 41635-1314, Rasht, Iran
| | - Amin Abedi
- Department of Plant Biotechnology, Faculty of Agricultural Sciences, University of Guilan, Rasht, Iran
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Li X, Cai K, Zhang Q, Pei X, Chen S, Jiang L, Han Z, Zhao M, Li Y, Zhang X, Li Y, Zhang S, Chen S, Qu G, Tigabu M, Chiang VL, Sederoff R, Zhao X. The Manchurian Walnut Genome: Insights into Juglone and Lipid Biosynthesis. Gigascience 2022; 11:6619298. [PMID: 35764602 PMCID: PMC9239856 DOI: 10.1093/gigascience/giac057] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2021] [Revised: 03/20/2022] [Accepted: 05/24/2022] [Indexed: 01/05/2023] Open
Abstract
BACKGROUND Manchurian walnut (Juglans mandshurica Maxim.) is a tree with multiple industrial uses and medicinal properties in the Juglandaceae family (walnuts and hickories). J. mandshurica produces juglone, which is a toxic allelopathic agent and has potential utilization value. Furthermore, the seed of J. mandshurica is rich in various unsaturated fatty acids and has high nutritive value. FINDINGS Here, we present a high-quality chromosome-scale reference genome assembly and annotation for J. mandshurica (n = 16) with a contig N50 of 21.4 Mb by combining PacBio high-fidelity reads with high-throughput chromosome conformation capture data. The assembled genome has an estimated sequence size of 548.7 Mb and consists of 657 contigs, 623 scaffolds, and 40,453 protein-coding genes. In total, 60.99% of the assembled genome consists of repetitive sequences. Sixteen super-scaffolds corresponding to the 16 chromosomes were assembled, with a scaffold N50 length of 33.7 Mb and a BUSCO complete gene percentage of 98.3%. J. mandshurica displays a close sequence relationship with Juglans cathayensis, with a divergence time of 13.8 million years ago. Combining the high-quality genome, transcriptome, and metabolomics data, we constructed a gene-to-metabolite network and identified 566 core and conserved differentially expressed genes, which may be involved in juglone biosynthesis. Five CYP450 genes were found that may contribute to juglone accumulation. NAC, bZip, NF-YA, and NF-YC are positively correlated with the juglone content. Some candidate regulators (e.g., FUS3, ABI3, LEC2, and WRI1 transcription factors) involved in the regulation of lipid biosynthesis were also identified. CONCLUSIONS Our genomic data provide new insights into the evolution of the walnut genome and create a new platform for accelerating molecular breeding and improving the comprehensive utilization of these economically important tree species.
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Affiliation(s)
| | | | | | | | - Song Chen
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Luping Jiang
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Zhiming Han
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Minghui Zhao
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Yan Li
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Xinxin Zhang
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Yuxi Li
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Shikai Zhang
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Su Chen
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Guanzheng Qu
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
| | - Mulualem Tigabu
- Southern Swedish Forest Research Center, Faculty of Forest Science, Swedish University of Agricultural Sciences, Lomma SE-234 22, Sweden
| | - Vincent L Chiang
- State Key Laboratory of Tree Genetics and Breeding, School of Forestry, Northeast Forestry University, Harbin 150040, China
- Forest Biotechnology Group, Department of Forestry and Environmental Resources, North Carolina State University, Raleigh, NC 27695, USA
| | - Ronald Sederoff
- Forest Biotechnology Group, Department of Forestry and Environmental Resources, North Carolina State University, Raleigh, NC 27695, USA
| | - Xiyang Zhao
- Correspondence address. Xiyang Zhao, E-mail:
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Lebedev VG, Krutovsky KV, Shestibratov KA. …Fell Upas Sits, the Hydra-Tree of Death †, or the Phytotoxicity of Trees. Molecules 2019; 24:E1636. [PMID: 31027270 PMCID: PMC6514861 DOI: 10.3390/molecules24081636] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2019] [Revised: 04/22/2019] [Accepted: 04/23/2019] [Indexed: 12/21/2022] Open
Abstract
The use of natural products that can serve as natural herbicides and insecticides is a promising direction because of their greater safety for humans and environment. Secondary metabolites of plants that are toxic to plants and insects-allelochemicals-can be used as such products. Woody plants can produce allelochemicals, but they are studied much less than herbaceous species. Meanwhile, there is a problem of interaction of woody species with neighboring plants in the process of introduction or invasion, co-cultivation with agricultural crops (agroforestry) or in plantation forestry (multiclonal or multispecies plantations). This review describes woody plants with the greatest allelopathic potential, allelochemicals derived from them, and the prospects for their use as biopesticides. In addition, the achievement of and the prospects for the use of biotechnology methods in relation to the allelopathy of woody plants are presented and discussed.
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Affiliation(s)
- Vadim G Lebedev
- Forest Biotechnology Group, Branch of Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, 6 Prospect Nauki, Pushchino, 142290 Moscow, Russia.
| | - Konstantin V Krutovsky
- Department of Forest Genetics and Forest Tree Breeding, Georg-August University of Göttingen, Büsgenweg 2, 37077 Göttingen, Germany.
- Laboratory of Population Genetics, Vavilov Institute of General Genetics, Russian Academy of Sciences, Gubkina Str. 3, 119991 Moscow, Russia.
- Laboratory of Forest Genomics, Genome Research and Education Center, Institute of Fundamental Biology and Biotechnology, Siberian Federal University, 50a/2 Akademgorodok, 660036 Krasnoyarsk, Russia.
- Department of Ecosystem Science and Management, Texas A&M University, 495 Horticulture Rd, College Station, TX 77843-2138, USA.
| | - Konstantin A Shestibratov
- Forest Biotechnology Group, Branch of Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, 6 Prospect Nauki, Pushchino, 142290 Moscow, Russia.
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Lenda M, Skórka P, Knops J, Żmihorski M, Gaj R, Moroń D, Woyciechowski M, Tryjanowski P. Multispecies invasion reduces the negative impact of single alien plant species on native flora. DIVERS DISTRIB 2019. [DOI: 10.1111/ddi.12902] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Affiliation(s)
- Magdalena Lenda
- Australian Research Council Centre of Excellence for Environmental Decisions, School of Biological Sciences The University of Queensland St. Lucia Queensland Australia
- Institute of Zoology Poznań University of Life Sciences Poznan Poland
- Institute of Nature Conservation Polish Academy of Sciences Kraków Poland
| | - Piotr Skórka
- Institute of Nature Conservation Polish Academy of Sciences Kraków Poland
| | - Johannes Knops
- School of Biological Sciences University of Nebraska Lincoln Nebraska
| | - Michał Żmihorski
- Institute of Nature Conservation Polish Academy of Sciences Kraków Poland
- Mammal Research InstitutePolish Academy of Sciences Białowieża Poland
| | - Renata Gaj
- Department of Agricultural Chemistry and Environmental Biogeochemistry Poznan University of Life Sciences Poznan Poland
| | - Dawid Moroń
- Institute of Systematics and Evolution of Animals Polish Academy of Sciences Kraków Poland
| | | | - Piotr Tryjanowski
- Institute of Zoology Poznań University of Life Sciences Poznan Poland
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Sytykiewicz H, Kozak A, Leszczyński B, Sempruch C, Łukasik I, Sprawka I, Kmieć K, Kurowska M, Kopczyńska A, Czerniewicz P. Transcriptional profiling of catalase genes in juglone-treated seeds of maize (Zea mays L.) and wheat (Triticum aestivum L.). ACTA BIOLOGICA HUNGARICA 2018; 69:449-463. [PMID: 30587016 DOI: 10.1556/018.69.2018.4.7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
The major aim of the present study was to investigate the influence of juglone (JU; 5-hydroxy-1,4-naphthoquinone) treatments on the expression level of Cat1, Cat2 and Cat3 genes, encoding the respective catalase isozymes in maize (Zea mays L.) and wheat (Triticum aestivum L.) seeds. In parallel, germination efficiency, catalase (CAT) activity and hydrogen peroxide (H2O2) content in juglone-exposed cereal seeds were assessed. Juglone applications significantly stimulated abundance of three target catalase transcripts as well as induced CAT activity and generation of H2O2 in both maize and wheat kernels. Furthermore, germination process of juglone-affected maize seeds was more severe suppressed than in case of wheat kernels. The role of juglone in triggering the oxidative stress as well as antioxidative responses in seeds of the studied model cereal species are discussed.
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Affiliation(s)
- Hubert Sytykiewicz
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
| | - Agnieszka Kozak
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
| | - Bogumił Leszczyński
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
| | - Cezary Sempruch
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
| | - Iwona Łukasik
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
| | - Iwona Sprawka
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
| | - Katarzyna Kmieć
- Department of Entomology, University of Life Sciences, Leszczyńskiego 7, 20-069 Lublin, Poland
| | - Monika Kurowska
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
| | - Aldona Kopczyńska
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
| | - Paweł Czerniewicz
- Department of Biochemistry and Molecular Biology, University of Natural Sciences and Humanities, Prusa 14, 08-110 Siedlce, Poland
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Dong C, Wang R, Zheng X, Zheng X, Jin L, Wang H, Chen S, Shi Y, Wang M, Liu D, Yang Y, Hu Z. Integration of transcriptome and proteome analyses reveal molecular mechanisms for formation of replant disease in Nelumbo nucifera. RSC Adv 2018; 8:32574-32587. [PMID: 35547670 PMCID: PMC9086348 DOI: 10.1039/c8ra06503a] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2018] [Accepted: 09/02/2018] [Indexed: 12/14/2022] Open
Abstract
The normal growth of Nelumbo nucifera, a widely planted aquatic crop in Asia, was severely ruined by replant disease. The mechanism of replant disease was still unknown in aquatic crops. Complementary transcriptomic and proteomic analyses were performed by comparing seedings of first-year planting (FP) and consecutive planting (CP). 9810 differentially expressed genes (DEGs) were identified between FP and CP. Additionally, 975 differentially expressed proteins (DEPs) were obtained. The correlation of proteome and transcriptome illustrated phenylpropanoid biosynthesis, flavonoid biosynthesis, metabolic pathways, and MAPK signaling pathways were significantly activated. Peroxidase, determined as one of the key proteins in replant disease of N. nucifera, was phylogenetically analyzed. A new depiction of the molecular mechanism causing replant disease in N. nucifera was illustrated. A consecutive monoculture stimulated the generation of reactive oxygen species (ROS) and ethylene, altered the metabolic balance of lignin and flavonoid, and attenuated the activity of antioxidant enzymes through DNA methylation. Therefore, the accumulation of autotoxic allelochemicals and the deficiency of antioxidant enzymes unavoidably suppressed the normal growth and development of replanted N. nucifera. Complementary transcriptomic and proteomic analyses unveiled the mechanism of replant disease in Nelumbo nucifera, a widely planted aquatic crop in Asia.![]()
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Affiliation(s)
- Chen Dong
- College of Biological Engineering, Henan University of Technology Zhengzhou 450001 China +86 371 67756513 +86 371 67756513
| | - Ran Wang
- Zhengzhou TobaccoResearch Institute of CNTC No. 2 Fengyang Street Zhengzhou Henan 450001 China +86 371 67672079 +86 371 67672072
| | - Xingfei Zheng
- State Key Laboratory of Hybrid Rice, Lotus Engineering Research Center of Hubei Province, College of Life Science, Wuhan University Wuhan 430072 China +86 27 68753611 +86 27 68753606
| | - Xingwen Zheng
- State Key Laboratory of Hybrid Rice, Lotus Engineering Research Center of Hubei Province, College of Life Science, Wuhan University Wuhan 430072 China +86 27 68753611 +86 27 68753606
| | - Lifeng Jin
- Zhengzhou TobaccoResearch Institute of CNTC No. 2 Fengyang Street Zhengzhou Henan 450001 China +86 371 67672079 +86 371 67672072
| | - Hongjiao Wang
- Zhengzhou TobaccoResearch Institute of CNTC No. 2 Fengyang Street Zhengzhou Henan 450001 China +86 371 67672079 +86 371 67672072
| | - Shuang Chen
- College of Biological Engineering, Henan University of Technology Zhengzhou 450001 China +86 371 67756513 +86 371 67756513
| | - Yannan Shi
- College of Biological Engineering, Henan University of Technology Zhengzhou 450001 China +86 371 67756513 +86 371 67756513
| | - Mengqi Wang
- College of Biological Engineering, Henan University of Technology Zhengzhou 450001 China +86 371 67756513 +86 371 67756513
| | - Die Liu
- College of Biological Engineering, Henan University of Technology Zhengzhou 450001 China +86 371 67756513 +86 371 67756513
| | - Yanhui Yang
- College of Biological Engineering, Henan University of Technology Zhengzhou 450001 China +86 371 67756513 +86 371 67756513
| | - Zhongli Hu
- State Key Laboratory of Hybrid Rice, Lotus Engineering Research Center of Hubei Province, College of Life Science, Wuhan University Wuhan 430072 China +86 27 68753611 +86 27 68753606
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McCoy RM, Utturkar SM, Crook JW, Thimmapuram J, Widhalm JR. The origin and biosynthesis of the naphthalenoid moiety of juglone in black walnut. HORTICULTURE RESEARCH 2018; 5:67. [PMID: 30393541 PMCID: PMC6210188 DOI: 10.1038/s41438-018-0067-5] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2018] [Revised: 06/14/2018] [Accepted: 06/17/2018] [Indexed: 05/20/2023]
Abstract
Several members of the Juglandaceae family produce juglone, a specialized 1,4-naphthoquinone (1,4-NQ) natural product that is responsible for the notorious allelopathic effects of black walnut (Juglans nigra). Despite its documented ecological roles and potential for being developed as a novel natural product-based herbicide, none of the genes involved in synthesizing juglone have been identified. Based on classical labeling studies, we hypothesized that biosynthesis of juglone's naphthalenoid moiety is shared with biochemical steps of the phylloquinone pathway. Here, using comparative transcriptomics in combination with targeted metabolic profiling of 1,4-NQs in various black walnut organs, we provide evidence that phylloquinone pathway genes involved in 1,4-dihydroxynaphthoic acid (DHNA) formation are expressed in roots for synthesis of a compound other than phylloquinone. Feeding experiments using axenic black walnut root cultures revealed that stable isotopically labeled l-glutamate incorporates into juglone resulting in the same mass shift as that expected for labeling of the quinone ring in phylloquinone. Taken together, these results indicate that in planta, an intermediate from the phylloquinone pathway provides the naphthalenoid moiety of juglone. Moreover, this work shows that juglone can be de novo synthesized in roots without the contribution of immediate precursors translocated from aerial tissues. The present study illuminates all genes involved in synthesizing the juglone naphthoquinone ring and provides RNA-sequencing datasets that can be used with functional screening studies to elucidate the remaining juglone pathway genes. Translation of the generated knowledge is expected to inform future metabolic engineering strategies for harnessing juglone as a novel natural product-based herbicide.
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Affiliation(s)
- Rachel M. McCoy
- Department of Horticulture and Landscape Architecture, Purdue University, 625 Agriculture Mall Drive, West Lafayette, IN 47907 USA
- Purdue Center for Plant Biology, Purdue University, West Lafayette, IN 47907 USA
| | - Sagar M. Utturkar
- Bioinformatics Core, Purdue University, 155 South Grant Street, West Lafayette, IN 47907 USA
| | - Joseph W. Crook
- Department of Horticulture and Landscape Architecture, Purdue University, 625 Agriculture Mall Drive, West Lafayette, IN 47907 USA
- Purdue Center for Plant Biology, Purdue University, West Lafayette, IN 47907 USA
| | - Jyothi Thimmapuram
- Bioinformatics Core, Purdue University, 155 South Grant Street, West Lafayette, IN 47907 USA
| | - Joshua R. Widhalm
- Department of Horticulture and Landscape Architecture, Purdue University, 625 Agriculture Mall Drive, West Lafayette, IN 47907 USA
- Purdue Center for Plant Biology, Purdue University, West Lafayette, IN 47907 USA
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Huang LY, Lin CW, Lee RH, Chiang CY, Wang YC, Chang CH, Huang HJ. Integrating Early Transcriptomic Responses to Rhizotoxins in Rice ( Oryza sativa. L.) Reveals Key Regulators and a Potential Early Biomarker of Cadmium Toxicity. FRONTIERS IN PLANT SCIENCE 2017; 8:1432. [PMID: 28868059 PMCID: PMC5563368 DOI: 10.3389/fpls.2017.01432] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/21/2017] [Accepted: 08/03/2017] [Indexed: 06/07/2023]
Abstract
As sessile organisms, plants were constantly challenged with biotic and abiotic stresses. Transcriptional activation of stress-responsive genes is a crucial part of the plant adaptation to environmental changes. Here, early response of rice root to eight rhizotoxic stressors: arsenate, copper, cadmium, mercury, chromate, vanadate, ferulic acid and juglone, was analyzed using published microarray data. There were 539 general stress response (GSR) genes up-regulated under all eight treatments, including genes related to carbohydrate metabolism, phytohormone balance, and cell wall structure. Genes related to transcriptional coactivation showed higher Ka/Ks ratio compared to the other GSR genes. Network analysis discovered complicated interaction within GSR genes and the most connected signaling hubs were WRKY53, WRKY71, and MAPK5. Promoter analysis discovers enriched SCGCGCS cis-element in GSR genes. Moreover, GSR genes tend to be intronless and genes with shorter total intron length were induced in a higher level. Among genes uniquely up-regulated by a single stress, a phosphoenolpyruvate carboxylase kinase (PPCK) was identified as a candidate biomarker for detecting cadmium contamination. Our findings provide insights into the transcriptome dynamics of molecular response of rice to different rhizotoxic stress and also demonstrate potential use of comparative transcriptome analysis in identifying a novel potential early biomarker.
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Affiliation(s)
- Li-Yao Huang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Chung-Wen Lin
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Ruey-Hua Lee
- Institute of Tropical Plant Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Chih-Yun Chiang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Yung-Chuan Wang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Ching-Han Chang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
| | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung UniversityTainan, Taiwan
- Institute of Tropical Plant Sciences, National Cheng Kung UniversityTainan, Taiwan
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Li M, Yang Y, Feng F, Zhang B, Chen S, Yang C, Gu L, Wang F, Zhang J, Chen A, Lin W, Chen X, Zhang Z. Differential proteomic analysis of replanted Rehmannia glutinosa roots by iTRAQ reveals molecular mechanisms for formation of replant disease. BMC PLANT BIOLOGY 2017; 17:116. [PMID: 28693420 PMCID: PMC5504617 DOI: 10.1186/s12870-017-1060-0] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2016] [Accepted: 06/22/2017] [Indexed: 05/07/2023]
Abstract
BACKGROUND The normal growth of Rehmannia glutinosa, a widely used medicinal plant in China, is severely disturbed by replant disease. The formation of replant disease commonly involves interactions among plants, allelochemicals and microbes; however, these relationships remain largely unclear. As a result, no effective measures are currently available to treat replant disease. RESULTS In this study, an integrated R. glutinosa transcriptome was constructed, from which an R. glutinosa protein library was obtained. iTRAQ technology was then used to investigate changes in the proteins in replanted R. glutinosa roots, and the proteins that were expressed in response to replant disease were identified. An integrated R. glutinosa transcriptome from different developmental stages of replanted and normal-growth R. glutinosa produced 65,659 transcripts, which were accurately translated into 47,818 proteins. Using this resource, a set of 189 proteins was found to be significantly differentially expressed between normal-growth and replanted R. glutinosa. Of the proteins that were significantly upregulated in replanted R. glutinosa, most were related to metabolism, immune responses, ROS generation, programmed cell death, ER stress, and lignin synthesis. CONCLUSIONS By integrating these key events and the results of previous studies on replant disease formation, a new picture of the damaging mechanisms that cause replant disease stress emerged. Replant disease altered the metabolic balance of R. glutinosa, activated immune defence systems, increased levels of ROS and antioxidant enzymes, and initiated the processes of cell death and senescence in replanted R. glutinosa. Additionally, lignin deposition in R. glutinosa roots that was caused by replanting significantly inhibited tuberous root formation. These key processes provide important insights into the underlying mechanisms leading to the formation of replant disease and also for the subsequent development of new control measures to improve production and quality of replanted plants.
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Affiliation(s)
- Mingjie Li
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Yanhui Yang
- College of Bioengineering, Henan University of Technology, Zhengzhou, China
| | - Fajie Feng
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Bao Zhang
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Shuqiang Chen
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Chuyun Yang
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Li Gu
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | | | - Junyi Zhang
- College of Chemical Engineering, Huaqiao University, Xiamen, China
| | - Aiguo Chen
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Wenxiong Lin
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University, Fuzhou, China
| | | | - Zhongyi Zhang
- College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University, Fuzhou, China
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Kurtyka R, Pokora W, Tukaj Z, Karcz W. Effects of juglone and lawsone on oxidative stress in maize coleoptile cells treated with IAA. AOB PLANTS 2016; 8:plw073. [PMID: 27760740 PMCID: PMC5199135 DOI: 10.1093/aobpla/plw073] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/23/2016] [Accepted: 09/29/2016] [Indexed: 06/06/2023]
Abstract
Naphthoquinones are secondary metabolites widely distributed in nature and produced by bacteria, fungi and higher plants. Their biological activity may result from induction of oxidative stress, caused by redox cycling or direct interaction with cellular macromolecules, in which quinones act as electrophiles. The redox homeostasis is known as one of factors involved in auxin-mediated plant growth regulation. To date, however, little is known about the crosstalk between reactive oxygen species (ROS) produced by quinones and the plant growth hormone auxin (IAA). In this study, redox cycling properties of two naphthoquinones, juglone (5-hydroxy-1,4-naphthoquinone) and lawsone (2-hydroxy-1,4-naphthoquinone), were compared in experiments performed on maize coleoptile segments incubated with or without the addition of IAA. It was found that lawsone was much more effective than juglone in increasing both H2O2 production and the activity of antioxidative enzymes (SOD, POX and CAT) in coleoptile cells, regardless of the presence of IAA. An increase in the activity of Cu/Zn-SOD isoenzymes induced by both naphthoquinones suggests that juglone- and lawsone-generated H2O2 was primarily produced in the cytosolic and cell wall spaces. The cell potential to neutralize hydrogen peroxide, determined by POX and CAT activity, pointed to activity of catalase as the main enzymatic mechanism responsible for degradation of H2O2 Therefore, we assumed that generation of H2O2, induced more efficiently by LW than JG, was the major factor accounting for differences in the toxicity of naphthoquinones in maize coleoptiles. The role of auxin in the process appeared negligible. Moreover, the results suggested that oxidative stress imposed by JG and LW was one of mechanisms of allelopathic action of the studied quinones in plants.
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Affiliation(s)
- Renata Kurtyka
- Department of Plant Physiology, Faculty of Biology and Environmental Protection, University of Silesia, Jagiellońska 28, PL-40 032 Katowice, Poland
| | - Wojciech Pokora
- Department of Plant Physiology and Biotechnology, Faculty of Biology, University of Gdańsk, Wita Stwosza 59, PL-80 308 Gdańsk, Poland
| | - Zbigniew Tukaj
- Department of Plant Physiology and Biotechnology, Faculty of Biology, University of Gdańsk, Wita Stwosza 59, PL-80 308 Gdańsk, Poland
| | - Waldemar Karcz
- Department of Plant Physiology, Faculty of Biology and Environmental Protection, University of Silesia, Jagiellońska 28, PL-40 032 Katowice, Poland
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Wahedi HM, Park YU, Moon EY, Kim SY. Juglone ameliorates skin wound healing by promoting skin cell migration through Rac1/Cdc42/PAK pathway. Wound Repair Regen 2016; 24:786-794. [PMID: 27283994 DOI: 10.1111/wrr.12452] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2016] [Accepted: 06/02/2016] [Indexed: 01/03/2023]
Abstract
Skin cell regeneration and wound healing are key processes in the recovery from skin injuries. Rapid cell migration and regeneration of skin cells lead to faster and better healing of wounded skin. In the present study, we aimed to investigate the wound healing potential of juglone, a naturally occurring Pin1 inhibitor found in walnuts. Cultured skin cells (NHDF and HaCaT) and hairless mice were treated with juglone after wound creation to examine its effects on cell migration and wound healing rate. The expressions of cell migration related proteins (Rac1, Cdc42, and α-PAK), collagen deposition, and angiogenesis were analyzed. Juglone treatment resulted in faster rate of growth and migration and recovered cell morphology, particularly at a concentration of 5 µM, in skin cells compared to the untreated group. In vivo experiments showed that mice treated with juglone showed faster wound healing rate with better skin morphology and collagen deposition than the vehicle group. Furthermore, juglone increased the activation and/or expression of Cdc42, Rac1, and α-pak in HaCaT cells, and resulted in enhanced angiogenesis in endothelial cells (HUVECs). Juglone also activated MAPKs signaling by activation of ERK, JNK, and p38 proteins. Taken together, these data suggest that juglone may be a potential candidate for wound healing and skin regeneration which ameliorates wound healing mainly by promoting skin cell migration through Rac1/Cdc42/PAK pathway.
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Affiliation(s)
- Hussain M Wahedi
- Department of Pharmacognosy, College of Pharmacy, Gachon University, Incheon, Republic of Korea
| | - Yong U Park
- Department of Pharmacognosy, College of Pharmacy, Gachon University, Incheon, Republic of Korea
| | - Eun-Yi Moon
- Department of Bioscience and Biotechnology, Sejong University, Seoul, Republic of Korea
| | - Sun Y Kim
- Department of Pharmacognosy, College of Pharmacy, Gachon University, Incheon, Republic of Korea. .,Gachon Institute of Pharmaceutical Science, Gachon University, Incheon, Republic of Korea. .,Gachon Medical Research Institute, Gil Medical Center, Incheon, Republic of Korea.
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16
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Widhalm JR, Rhodes D. Biosynthesis and molecular actions of specialized 1,4-naphthoquinone natural products produced by horticultural plants. HORTICULTURE RESEARCH 2016; 3:16046. [PMID: 27688890 PMCID: PMC5030760 DOI: 10.1038/hortres.2016.46] [Citation(s) in RCA: 66] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2016] [Accepted: 08/23/2016] [Indexed: 05/20/2023]
Abstract
The 1,4-naphthoquinones (1,4-NQs) are a diverse group of natural products found in every kingdom of life. Plants, including many horticultural species, collectively synthesize hundreds of specialized 1,4-NQs with ecological roles in plant-plant (allelopathy), plant-insect and plant-microbe interactions. Numerous horticultural plants producing 1,4-NQs have also served as sources of traditional medicines for hundreds of years. As a result, horticultural species have been at the forefront of many basic studies conducted to understand the metabolism and function of specialized plant 1,4-NQs. Several 1,4-NQ natural products derived from horticultural plants have also emerged as promising scaffolds for developing new drugs. In this review, the current understanding of the core metabolic pathways leading to plant 1,4-NQs is provided with additional emphasis on downstream natural products originating from horticultural species. An overview on the biochemical mechanisms of action, both from an ecological and pharmacological perspective, of 1,4-NQs derived from horticultural plants is also provided. In addition, future directions for improving basic knowledge about plant 1,4-NQ metabolism are discussed.
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Affiliation(s)
- Joshua R Widhalm
- Department of Horticulture and Landscape Architecture, Purdue University, 625 Agriculture Mall Drive, West Lafayette, IN 47907-2010, USA
- ()
| | - David Rhodes
- Department of Horticulture and Landscape Architecture, Purdue University, 625 Agriculture Mall Drive, West Lafayette, IN 47907-2010, USA
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Wu B, Long Q, Gao Y, Wang Z, Shao T, Liu Y, Li Y, Ding W. Comprehensive characterization of a time-course transcriptional response induced by autotoxins in Panax ginseng using RNA-Seq. BMC Genomics 2015; 16:1010. [PMID: 26608743 PMCID: PMC4659204 DOI: 10.1186/s12864-015-2151-7] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2015] [Accepted: 10/27/2015] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND As a valuable medicinal plant, the yield of Panax ginseng is seriously affected by autotoxicity, which is a common phenomenon due to continuous cropping. However, the mechanism of autotoxicity in P. ginseng is still unknown. RESULTS In total, high throughput sequencing of 18 RNA-Seq libraries produced 996,000,000 100-nt reads that were assembled into 72,732 contigs. Compared with control, 3697 and 2828 genes were significantly up- and down-regulated across different tissues and time points, respectively. Gene Ontology enrichment analysis showed that 'enzyme inhibitor activity', 'carboxylesterase activity', 'pectinesterase activity', 'centrosome cycle and duplication' and 'mitotic spindle elongation' were enriched for the up-regulated genes. Transcription factors including AP2s/ERFs, MYBs, and WRKYs were up-regulated in roots after benzoic acid treatment. Moreover, reactive oxygen species, peroxidases and superoxide dismutase contigs were up-regulated in roots after benzoic acid treatment. Physiological and biochemical indexes showed that the proline and malondialdehyde content were restored to lower levels at a later stage after benzoic acid treatment. Benzoic acid inhibited the root hair development in a dose-dependent manner, and several differential expressed genes potentially involved in hair development were identified. Several key contigs in the flavonoid and ginsenoside biosynthesis pathways were repressed. Finally, 58,518 alternative splicing (AS) events from 12,950 genes were found after benzoic acid treatment. Interestingly, contigs in the ginsenoside biosynthetic pathway underwent AS, providing useful information about post-transcriptional regulation in P. ginseng. CONCLUSIONS This study revealed the stress-response molecular mechanisms in P. ginseng induced by benzoic acid.
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Affiliation(s)
- Bin Wu
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Qiliang Long
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Yuan Gao
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Zi Wang
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Tianwei Shao
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Yanan Liu
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Yong Li
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
| | - Wanlong Ding
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
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Effect of Pin1 inhibitor juglone on proliferation, migration and angiogenic ability of breast cancer cell line MCF7Adr. ACTA ACUST UNITED AC 2015. [PMID: 26223922 DOI: 10.1007/s11596-015-1465-7] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
This study aimed to evaluate the effects of Pin1 inhibitor Juglone on proliferation, migration and the angiogenic ability of breast cancer cell line MCF7Adr. MCF7Adr cells were cultured and separately treated with Pin1 inhibitor Juglone (treatment group) and DMEM without drug (control group). The cell cycle was examined by flow cytometry. Cell migration was measured by wound-healing assay. Cyclin E protein content was detected by Western blotting. The angiogenesis factor vascular endothelial growth factor (VEGF) in cell media was determined by enzyme linked immunosorbent assay. The results showed that the percentage of cells in G2/M phase in treatment group was significantly higher than that in control group (25.5% vs. 10.1%, P<0.05), and that in G0/G1 phase and S stage in treatment group was significantly lower than that in control group (40.5% vs. 48.2%, and 33.7% vs. 41.7%, P<0.05). Cyclin E protein content in treatment group was significantly lower than that in control group (39.2 ± 7.4 vs. 100 ± 23.1, P<0.05). (A0-A24)/A0 value in treatment group was significantly lower than that in control group (23.9 ± 3.8 vs. 100 ± 14.4, P<0.05). VEGF-A, -B, and -C contents in cell media of treatment group were significantly lower than those in control group (P<0.05). It was suggested that Pin1 inhibitor Juglone can effectively inhibit the proliferation, migration and the angiogenic ability of MCF7Adr cells, and can be used as an alternative drug therapy for breast cancer.
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Transcriptome-wide identification of the genes responding to replanting disease in Rehmannia glutinosa L. roots. Mol Biol Rep 2014; 42:881-92. [DOI: 10.1007/s11033-014-3825-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2013] [Accepted: 11/10/2014] [Indexed: 01/22/2023]
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20
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Babula P, Vaverkova V, Poborilova Z, Ballova L, Masarik M, Provaznik I. Phytotoxic action of naphthoquinone juglone demonstrated on lettuce seedling roots. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2014; 84:78-86. [PMID: 25240266 DOI: 10.1016/j.plaphy.2014.08.027] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2014] [Accepted: 08/20/2014] [Indexed: 06/03/2023]
Abstract
Juglone, 5-hydroxy-1,4-naphthoquinone, is the plant secondary metabolite with allelopathic properties, which was isolated especially from the plant species belonging to family Juglandaceae A. Rich. ex Kunth (walnut family). The mechanism of phytotoxic action of juglone was investigated on lettuce seedlings Lactuca sativa L. var. capitata L. cv. Merkurion by determining its effect at different levels. We have found that juglone inhibits mitosis (mitotic index 8.5 ± 0.6% for control versus 2.2 ± 0.9% for 250 μM juglone), changes mitotic phase index with accumulation of the cells in prophase (56.5 ± 2.6% for control versus 85.3 ± 5.0% for 250 μM juglone), and decreases meristematic activity in lettuce root tips (51.07 ± 3.62% for control versus 5.27 ± 2.29% for 250 μM juglone). In addition, juglone induced creation of reactive oxygen species and changed levels of reactive nitrogen species. Amount of malondialdehyde, a product of lipid peroxidation, increased from 24.0 ± 4.0 ng g(-1) FW for control to 55.5 ± 5.4 ng g(-1) FW for 250 μM juglone. We observed also changes in cellular structure, especially changes in the morphology of endoplasmic reticulum. Reactive oxygen species induced damage of plasma membrane. All these changes resulted in the disruption of the mitochondrial membrane potential, increase in free intracellular calcium ions, and DNA fragmentation and programmed cell death that was revealed by two methods, TUNEL test and DNA electrophoresis. The portion of TUNEL-positive cells increase from 0.96 ± 0.5% for control to 7.66 ± 1.5% for 250 μM juglone. Results of the study indicate complex mechanism of phytotoxic effect of juglone in lettuce root tips and may indicate mechanism of allelopathic activity of this compound.
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Affiliation(s)
- Petr Babula
- Department of Natural Drugs, Faculty of Pharmacy, University of Veterinary and Pharmaceutical Sciences Brno, Palackeho 1/3, CZ-61242 Brno, Czech Republic; International Clinical Research Center - Biomedical Engineering Center, St. Anne's University Hospital Brno, Pekarska 53, Brno, CZ-656 91, Czech Republic.
| | - Veronika Vaverkova
- Department of Natural Drugs, Faculty of Pharmacy, University of Veterinary and Pharmaceutical Sciences Brno, Palackeho 1/3, CZ-61242 Brno, Czech Republic
| | - Zuzana Poborilova
- Department of Natural Drugs, Faculty of Pharmacy, University of Veterinary and Pharmaceutical Sciences Brno, Palackeho 1/3, CZ-61242 Brno, Czech Republic
| | - Ludmila Ballova
- Department of Natural Drugs, Faculty of Pharmacy, University of Veterinary and Pharmaceutical Sciences Brno, Palackeho 1/3, CZ-61242 Brno, Czech Republic
| | - Michal Masarik
- Department of Pathological Physiology, Faculty of Medicine, Masaryk University, Kamenice 5, CZ-625 00 Brno, Czech Republic
| | - Ivo Provaznik
- International Clinical Research Center - Biomedical Engineering Center, St. Anne's University Hospital Brno, Pekarska 53, Brno, CZ-656 91, Czech Republic; Department of Biomedical Engineering, Brno University of Technology, Kolejni 4, Brno, CZ-612 00, Czech Republic
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Kennedy DO. Polyphenols and the human brain: plant “secondary metabolite” ecologic roles and endogenous signaling functions drive benefits. Adv Nutr 2014; 5:515-33. [PMID: 25469384 PMCID: PMC4188223 DOI: 10.3945/an.114.006320] [Citation(s) in RCA: 67] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023] Open
Abstract
Flavonoids and other polyphenols are ubiquitous plant chemicals that fulfill a range of ecologic roles for their home plant, including protection from a range of biotic and abiotic stressors and a pivotal role in the management of pathogenic and symbiotic soil bacteria and fungi. They form a natural part of the human diet, and evidence suggests that their consumption is associated with the beneficial modulation of a number of health-related variables, including those related to cardiovascular and brain function. Over recent years, the consensus as to the mechanisms responsible for these effects in humans has shifted away from polyphenols having direct antioxidant effects and toward their modulation of cellular signal transduction pathways. To date, little consideration has been given to the question of why, rather than how, these plant-derived chemicals might exert these effects. Therefore, this review summarizes the evidence suggesting that polyphenols beneficially affect human brain function and describes the current mechanistic hypotheses explaining these effects. It then goes on to describe the ecologic roles and potential endogenous signaling functions that these ubiquitous phytochemicals play within their home plant and discusses whether these functions drive their beneficial effects in humans via a process of “cross-kingdom” signaling predicated on the many conserved similarities in plant, microbial, and human cellular signal transduction pathways.
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Chen YA, Chi WC, Trinh NN, Huang LY, Chen YC, Cheng KT, Huang TL, Lin CY, Huang HJ. Transcriptome profiling and physiological studies reveal a major role for aromatic amino acids in mercury stress tolerance in rice seedlings. PLoS One 2014; 9:e95163. [PMID: 24840062 PMCID: PMC4026224 DOI: 10.1371/journal.pone.0095163] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2013] [Accepted: 03/25/2014] [Indexed: 11/22/2022] Open
Abstract
Mercury (Hg) is a serious environmental pollution threat to the planet. The accumulation of Hg in plants disrupts many cellular-level functions and inhibits growth and development, but the mechanism is not fully understood. To gain more insight into the cellular response to Hg, we performed a large-scale analysis of the rice transcriptome during Hg stress. Genes induced with short-term exposure represented functional categories of cell-wall formation, chemical detoxification, secondary metabolism, signal transduction and abiotic stress response. Moreover, Hg stress upregulated several genes involved in aromatic amino acids (Phe and Trp) and increased the level of free Phe and Trp content. Exogenous application of Phe and Trp to rice roots enhanced tolerance to Hg and effectively reduced Hg-induced production of reactive oxygen species. Hg induced calcium accumulation and activated mitogen-activated protein kinase. Further characterization of the Hg-responsive genes we identified may be helpful for better understanding the mechanisms of Hg in plants.
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Affiliation(s)
- Yun-An Chen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
- Department of Biological Sciences, National Sun Yat-Sen University, Kaohsiung, Taiwan, ROC
| | - Wen-Chang Chi
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
| | - Ngoc Nam Trinh
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
| | - Li-Yao Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
| | - Ying-Chih Chen
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
| | - Kai-Teng Cheng
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
| | - Tsai-Lien Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
| | - Chung-Yi Lin
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
| | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan, ROC
- * E-mail:
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Chi WC, Chen YA, Hsiung YC, Fu SF, Chou CH, Trinh NN, Chen YC, Huang HJ. Autotoxicity mechanism of Oryza sativa: transcriptome response in rice roots exposed to ferulic acid. BMC Genomics 2013; 14:351. [PMID: 23705659 PMCID: PMC4008027 DOI: 10.1186/1471-2164-14-351] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2012] [Accepted: 05/02/2013] [Indexed: 02/02/2023] Open
Abstract
Background Autotoxicity plays an important role in regulating crop yield and quality. To help characterize the autotoxicity mechanism of rice, we performed a large-scale, transcriptomic analysis of the rice root response to ferulic acid, an autotoxin from rice straw. Results Root growth rate was decreased and reactive oxygen species, calcium content and lipoxygenase activity were increased with increasing ferulic acid concentration in roots. Transcriptome analysis revealed more transcripts responsive to short ferulic-acid exposure (1- and 3-h treatments, 1,204 genes) than long exposure (24 h, 176 genes). Induced genes were involved in cell wall formation, chemical detoxification, secondary metabolism, signal transduction, and abiotic stress response. Genes associated with signaling and biosynthesis for ethylene and jasmonic acid were upregulated with ferulic acid. Ferulic acid upregulated ATP-binding cassette and amino acid/auxin permease transporters as well as genes encoding signaling components such as leucine-rich repeat VIII and receptor-like cytoplasmic kinases VII protein kinases, APETALA2/ethylene response factor, WRKY, MYB and Zinc-finger protein expressed in inflorescence meristem transcription factors. Conclusions The results of a transcriptome analysis suggest the molecular mechanisms of plants in response to FA, including toxicity, detoxicification and signaling machinery. FA may have a significant effect on inhibiting rice root elongation through modulating ET and JA hormone homeostasis. FA-induced gene expression of AAAP transporters may contribute to detoxicification of the autotoxin. Moreover, the WRKY and Myb TFs and LRR-VIII and SD-2b kinases might regulate downstream genes under FA stress but not general allelochemical stress. This comprehensive description of gene expression information could greatly facilitate our understanding of the mechanisms of autotoxicity in plants.
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Affiliation(s)
| | | | | | | | | | | | | | - Hao-Jen Huang
- Department of Life Sciences, National Cheng Kung University, No, 1 University Rd, 701, Tainan, Taiwan, ROC.
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Omics methods for probing the mode of action of natural and synthetic phytotoxins. J Chem Ecol 2013; 39:333-47. [PMID: 23355015 PMCID: PMC3589630 DOI: 10.1007/s10886-013-0240-0] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2012] [Revised: 12/20/2012] [Accepted: 12/31/2012] [Indexed: 11/05/2022]
Abstract
For a little over a decade, omics methods (transcriptomics, proteomics, metabolomics, and physionomics) have been used to discover and probe the mode of action of both synthetic and natural phytotoxins. For mode of action discovery, the strategy for each of these approaches is to generate an omics profile for phytotoxins with known molecular targets and to compare this library of responses to the responses of compounds with unknown modes of action. Using more than one omics approach enhances the probability of success. Generally, compounds with the same mode of action generate similar responses with a particular omics method. Stress and detoxification responses to phytotoxins can be much clearer than effects directly related to the target site. Clues to new modes of action must be validated with in vitro enzyme effects or genetic approaches. Thus far, the only new phytotoxin target site discovered with omics approaches (metabolomics and physionomics) is that of cinmethylin and structurally related 5-benzyloxymethyl-1,2-isoxazolines. These omics approaches pointed to tyrosine amino-transferase as the target, which was verified by enzyme assays and genetic methods. In addition to being a useful tool of mode of action discovery, omics methods provide detailed information on genetic and biochemical impacts of phytotoxins. Such information can be useful in understanding the full impact of natural phytotoxins in both agricultural and natural ecosystems.
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Huang TL, Nguyen QTT, Fu SF, Lin CY, Chen YC, Huang HJ. Transcriptomic changes and signalling pathways induced by arsenic stress in rice roots. PLANT MOLECULAR BIOLOGY 2012; 80:587-608. [PMID: 22987115 DOI: 10.1007/s11103-012-9969-z] [Citation(s) in RCA: 87] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2012] [Accepted: 09/08/2012] [Indexed: 05/04/2023]
Abstract
Arsenic (As) is considered the most common toxic metalloid, but its molecular mode of action is not well understood. We investigated whether arsenate [As(V)] can induce intracellular reactive oxygen species production and calcium oscillation in rice roots. To better understand the molecular basis of plant cell responses to As, we performed a large-scale analysis of the rice transcriptome during As(V) stress. As(V) induced genes involved in abiotic stress, detoxification pathways and secondary metabolic process. Genes involved in secondary cell wall biogenesis, cell cycle and oligopeptide transport were mainly downregulated. Genes encoding signalling components such as receptor-like cytoplasmic kinases protein kinase, APETALA2/ethylene response factor, heat shock factor, MYB and zinc-finger protein expressed in inflorescence meristem transcription factors were increased in expression. The expression of GARP-G2-like and C3H transcription factors was specifically modulated by As(V) stress. The predominant families of As(V)-regulated transporters belonged to the ATP-binding cassette superfamily and telurite-resistance/dicarboxylate transporters. Several factors involved in signaling, such as mitogen-activated protein kinase (MAPK), MAPK kinase kinase and calcium-dependent protein kinase (CDPK), were also upregulated. Moreover, As(V) markedly increased the activity of MAPKs and CDPK-like kinases, and CDPK and NADPH oxidases were involved in As-induced MAPK activation. Further characterization of these As(V)-responsive genes and signalling pathways may help better understand the mechanisms of metalloid uptake, tolerance and detoxification in plants.
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Affiliation(s)
- Tsai-Lien Huang
- Department of Life Sciences, National Cheng Kung University, No. 1 University Road, 701 Tainan City, Taiwan
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Zhang X, Li J, Liu A, Zou J, Zhou X, Xiang J, Rerksiri W, Peng Y, Xiong X, Chen X. Expression profile in rice panicle: insights into heat response mechanism at reproductive stage. PLoS One 2012; 7:e49652. [PMID: 23155476 PMCID: PMC3498232 DOI: 10.1371/journal.pone.0049652] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2012] [Accepted: 10/11/2012] [Indexed: 12/20/2022] Open
Abstract
Rice at reproductive stage is more sensitive to environmental changes, and little is known about the mechanism of heat response in rice panicle. Here, using rice microarray, we provided a time course gene expression profile of rice panicle at anther developmental stage 8 after 40°C treatment for 0 min, 20 min, 60 min, 2 h, 4 h, and 8 h. The identified differentially expressed genes were mainly involved in transcriptional regulation, transport, cellular homeostasis, and stress response. The predominant transcription factor gene families responsive to heat stress were Hsf, NAC, AP2/ERF, WRKY, MYB, and C2H2. KMC analysis discovered the time-dependent gene expression pattern under heat stress. The motif co-occurrence analysis on the promoters of genes from an early up-regulated cluster showed the important roles of GCC box, HSE, ABRE, and CE3 in response to heat stress. The regulation model central to ROS combined with transcriptome and ROS quantification data in rice panicle indicated the great importance to maintain ROS balance and the existence of wide cross-talk in heat response. The present study increased our understanding of the heat response in rice panicle and provided good candidate genes for crop improvement.
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Affiliation(s)
- Xianwen Zhang
- Key Laboratory for Crop Germplasm Innovation and Utilization of Hunan Province, Hunan Agricultural University, Changsha, China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Jiaping Li
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Ailing Liu
- Key Laboratory for Crop Germplasm Innovation and Utilization of Hunan Province, Hunan Agricultural University, Changsha, China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Jie Zou
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Xiaoyun Zhou
- Key Laboratory for Crop Germplasm Innovation and Utilization of Hunan Province, Hunan Agricultural University, Changsha, China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Jianhua Xiang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Wirat Rerksiri
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
| | - Yan Peng
- Key Laboratory for Crop Germplasm Innovation and Utilization of Hunan Province, Hunan Agricultural University, Changsha, China
| | - Xingyao Xiong
- Key Laboratory for Crop Germplasm Innovation and Utilization of Hunan Province, Hunan Agricultural University, Changsha, China
- * E-mail: (XX); (XC)
| | - Xinbo Chen
- Key Laboratory for Crop Germplasm Innovation and Utilization of Hunan Province, Hunan Agricultural University, Changsha, China
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, China
- * E-mail: (XX); (XC)
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