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Hoang GT, Van Dinh L, Nguyen TT, Ta NK, Gathignol F, Mai CD, Jouannic S, Tran KD, Khuat TH, Do VN, Lebrun M, Courtois B, Gantet P. Genome-wide Association Study of a Panel of Vietnamese Rice Landraces Reveals New QTLs for Tolerance to Water Deficit During the Vegetative Phase. RICE (NEW YORK, N.Y.) 2019; 12:4. [PMID: 30701393 PMCID: PMC6357217 DOI: 10.1186/s12284-018-0258-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2018] [Accepted: 12/11/2018] [Indexed: 05/06/2023]
Abstract
BACKGROUND Drought tolerance is a major challenge in breeding rice for unfavorable environments. In this study, we used a panel of 180 Vietnamese rice landraces genotyped with 21,623 single-nucleotide polymorphism markers to perform a genome-wide association study (GWAS) for different drought response and recovery traits during the vegetative stage. These landraces originate from different geographical locations and are adapted to different agrosystems characterized by contrasted water regimes. Vietnamese landraces are often underrepresented in international panels used for GWAS, but they can contain original genetic determinants related to drought resistance. RESULTS The panel of 180 rice varieties was phenotyped under greenhouse conditions for several drought-related traits in an experimental design with 3 replicates. Plants were grown in pots for 4 weeks and drought-stressed by stopping irrigation for an additional 4 weeks. Drought sensitivity scores and leaf relative water content were measured throughout the drought stress. The recovery capacity was measured 2 weeks after plant rewatering. Several QTLs associated with these drought tolerance traits were identified by GWAS using a mixed model with control of structure and kinship. The number of detected QTLs consisted of 14 for leaf relative water content, 9 for slope of relative water content, 12 for drought sensitivity score, 3 for recovery ability and 1 for relative crop growth rate. This set of 39 QTLs actually corresponded to a total of 17 different QTLs because 9 were simultaneously associated with two or more traits, which indicates that these common loci may have pleiotropic effects on drought-related traits. No QTL was found in association with the same traits in both the indica and japonica subpanels. The possible candidate genes underlying the quantitative trait loci are reviewed. CONCLUSIONS Some of the identified QTLs contain promising candidate genes with a function related to drought tolerance by osmotic stress adjustment.
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Affiliation(s)
- Giang Thi Hoang
- National Key Laboratory for Plant Cell Biotechnology, Agricultural Genetics Institute, LMI RICE-2, Hanoi, 00000, Vietnam.
- University of Science and Technology of Hanoi, LMI RICE-2, Hanoi, 00000, Vietnam.
| | - Lam Van Dinh
- National Key Laboratory for Plant Cell Biotechnology, Agricultural Genetics Institute, LMI RICE-2, Hanoi, 00000, Vietnam
| | - Thom Thi Nguyen
- IRD, Université de Montpellier, LMI RICE-2, Hanoi, 00000, Vietnam
| | - Nhung Kim Ta
- National Key Laboratory for Plant Cell Biotechnology, Agricultural Genetics Institute, LMI RICE-2, Hanoi, 00000, Vietnam
- University of Science and Technology of Hanoi, LMI RICE-2, Hanoi, 00000, Vietnam
| | - Floran Gathignol
- IRD, Université de Montpellier, LMI RICE-2, Hanoi, 00000, Vietnam
| | - Chung Duc Mai
- National Key Laboratory for Plant Cell Biotechnology, Agricultural Genetics Institute, LMI RICE-2, Hanoi, 00000, Vietnam
- University of Science and Technology of Hanoi, LMI RICE-2, Hanoi, 00000, Vietnam
| | - Stefan Jouannic
- University of Science and Technology of Hanoi, LMI RICE-2, Hanoi, 00000, Vietnam
- IRD, Université de Montpellier, UMR DIADE, 34095, Montpellier, France
| | - Khanh Dang Tran
- Genetic Engineering Division, Agricultural Genetics Institute, Hanoi, 00000, Vietnam
| | - Trung Huu Khuat
- Genetic Engineering Division, Agricultural Genetics Institute, Hanoi, 00000, Vietnam
| | - Vinh Nang Do
- National Key Laboratory for Plant Cell Biotechnology, Agricultural Genetics Institute, LMI RICE-2, Hanoi, 00000, Vietnam
| | - Michel Lebrun
- University of Science and Technology of Hanoi, LMI RICE-2, Hanoi, 00000, Vietnam
- IRD, Université de Montpellier, LMI RICE-2, Hanoi, 00000, Vietnam
- IRD, Université de Montpellier, UMR LSTM, 34095, Montpellier, France
| | - Brigitte Courtois
- Cirad, UMR-AGAP, F-34398, Montpellier, France
- CIRAD, INRA, Univ Montpellier, Montpellier SupAgro, Montpellier, France
| | - Pascal Gantet
- University of Science and Technology of Hanoi, LMI RICE-2, Hanoi, 00000, Vietnam.
- IRD, Université de Montpellier, LMI RICE-2, Hanoi, 00000, Vietnam.
- IRD, Université de Montpellier, UMR DIADE, 34095, Montpellier, France.
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Suratanee A, Chokrathok C, Chutimanukul P, Khrueasan N, Buaboocha T, Chadchawan S, Plaimas K. Two-State Co-Expression Network Analysis to Identify Genes Related to Salt Tolerance in Thai rice. Genes (Basel) 2018; 9:E594. [PMID: 30501128 PMCID: PMC6316690 DOI: 10.3390/genes9120594] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2018] [Revised: 11/08/2018] [Accepted: 11/19/2018] [Indexed: 12/18/2022] Open
Abstract
Khao Dawk Mali 105 (KDML105) rice is one of the most important crops of Thailand. It is a challenging task to identify the genes responding to salinity in KDML105 rice. The analysis of the gene co-expression network has been widely performed to prioritize significant genes, in order to select the key genes in a specific condition. In this work, we analyzed the two-state co-expression networks of KDML105 rice under salt-stress and normal grown conditions. The clustering coefficient was applied to both networks and exhibited significantly different structures between the salt-stress state network and the original (normal-grown) network. With higher clustering coefficients, the genes that responded to the salt stress formed a dense cluster. To prioritize and select the genes responding to the salinity, we investigated genes with small partners under normal conditions that were highly expressed and were co-working with many more partners under salt-stress conditions. The results showed that the genes responding to the abiotic stimulus and relating to the generation of the precursor metabolites and energy were the great candidates, as salt tolerant marker genes. In conclusion, in the case of the complexity of the environmental conditions, gaining more information in order to deal with the co-expression network provides better candidates for further analysis.
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Affiliation(s)
- Apichat Suratanee
- Department of Mathematics, Faculty of Applied Science, King Mongkut's University of Technology North Bangkok 10800, Thailand.
| | - Chidchanok Chokrathok
- Advanced Virtual and Intelligent Computing (AVIC) Center, Department of Mathematics and Computer Science, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand.
| | - Panita Chutimanukul
- Department of Botany, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand.
| | | | - Teerapong Buaboocha
- Department of Biochemistry, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand.
| | - Supachitra Chadchawan
- Department of Botany, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand.
| | - Kitiporn Plaimas
- Advanced Virtual and Intelligent Computing (AVIC) Center, Department of Mathematics and Computer Science, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand.
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Gao Y, Wu M, Zhang M, Jiang W, Ren X, Liang E, Zhang D, Zhang C, Xiao N, Li Y, Dai Y, Chen J. A maize phytochrome-interacting factors protein ZmPIF1 enhances drought tolerance by inducing stomatal closure and improves grain yield in Oryza sativa. PLANT BIOTECHNOLOGY JOURNAL 2018; 16:1375-1387. [PMID: 29327440 PMCID: PMC5999191 DOI: 10.1111/pbi.12878] [Citation(s) in RCA: 63] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2017] [Revised: 12/18/2017] [Accepted: 12/23/2017] [Indexed: 05/02/2023]
Abstract
Phytochrome-interacting factors (PIFs) play major roles in regulating plant growth and development, but their roles in drought stress remain elusive. Here, we cloned and characterized a maize (Zea mays) PIF transcription factor, ZmPIF1. The expression level of ZmPIF1 was significantly induced by independent drought and abscisic acid (ABA) treatments. The ZmPIF1 transgenic rice and Arabidopsis displayed water saving and drought resistance, which were associated with reduced a stomatal aperture and transpiration rate. Moreover, the ZmPIF1 transgenic rice were hypersensitive to exogenous ABA, while the endogenous ABA level was not significantly changed, suggesting that ZmPIF1 was a positive regulator of the ABA signalling pathway. Digital gene expression (DGE) results further indicated that ZmPIF1 participated in ABA signalling pathway and regulated the stomatal aperture in rice. In addition, grain yield and agronomic traits analysis over 4 years showed that ZmPIF1 was able to increase the grain yield through an increase in tiller and panicle numbers in transgenic rice. Overall, ZmPIF1 plays an important role in the ABA-mediated regulation of stomatal closure to control water loss. ZmPIF1 can enhance water saving and drought resistance and improve the crop yield in rice, illustrating the capacity of ZmPIF1 for crop improvement.
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Affiliation(s)
- Yong Gao
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Meiqin Wu
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Mengjiao Zhang
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Wei Jiang
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Xiaoyun Ren
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Enxing Liang
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Dongping Zhang
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Changquan Zhang
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Ning Xiao
- Lixiahe Region Agricultural Scientific Research Institute of JiangsuYangzhouJiangsuChina
| | - Yan Li
- State Key Laboratory of Crop BiologyCollege of AgronomyShandong Agricultural UniversityTaianChina
| | - Yi Dai
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
| | - Jianmin Chen
- Jiangsu Key Laboratories of Crop Genetics and Physiology and Plant Functional Genomics of the Ministry of EducationYangzhou UniversityYangzhouJiangsuChina
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Gene Profiling in Late Blight Resistance in Potato Genotype SD20. Int J Mol Sci 2018; 19:ijms19061728. [PMID: 29891775 PMCID: PMC6032139 DOI: 10.3390/ijms19061728] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2018] [Revised: 05/18/2018] [Accepted: 06/04/2018] [Indexed: 01/05/2023] Open
Abstract
Late blight caused by the oomycete fungus Phytophthora infestans (Pi) is the most serious obstacle to potato (Solanum tuberosum) production in the world. A super race isolate, CN152, which was identified from Sichuan Province, China, could overcome nearly all known late blight resistance genes and caused serious damage in China. The potato genotype SD20 was verified to be highly resistant to CN152; however, the molecular regulation network underlying late blight resistance pathway remains unclear in SD20. Here, we performed a time-course experiment to systematically profile the late blight resistance response genes using RNA-sequencing in SD20. We identified 3354 differentially expressed genes (DEGs), which mainly encoded transcription factors and protein kinases, and also included four NBS-LRR genes. The late blight responsive genes showed time-point-specific induction/repression. Multi-signaling pathways of salicylic acid, jasmonic acid, and ethylene signaling pathways involved in resistance and defense against Pi in SD20. Gene Ontology and KEGG analyses indicated that the DEGs were significantly enriched in metabolic process, protein serine/threonine kinase activity, and biosynthesis of secondary metabolites. Forty-three DEGs were involved in immune response, of which 19 were enriched in hypersensitive response reaction, which could play an important role in broad-spectrum resistance to Pi infection. Experimental verification confirmed the induced expression of the responsive genes in the late blight resistance signaling pathway, such as WRKY, ERF, MAPK, and NBS-LRR family genes. Our results provided valuable information for understanding late blight resistance mechanism of potato.
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Transcriptome Analysis of Two Species of Jute in Response to Polyethylene Glycol (PEG)- induced Drought Stress. Sci Rep 2017; 7:16565. [PMID: 29185475 PMCID: PMC5707433 DOI: 10.1038/s41598-017-16812-5] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2017] [Accepted: 11/16/2017] [Indexed: 11/08/2022] Open
Abstract
Drought stress results in significant crop yield losses. Comparative transcriptome analysis between tolerant and sensitive species can provide insights into drought tolerance mechanisms in jute. We present a comprehensive study on drought tolerance in two jute species-a drought tolerant species (Corchorus olitorius L., GF) and a drought sensitive species (Corchorus capsularis L., YY). In total, 45,831 non-redundant unigenes with average sequence length of 1421 bp were identified. Higher numbers of differentially expressed genes (DEGs) were discovered in YY (794) than in GF (39), implying that YY was relatively more vulnerable or hyper-responsive to drought stress at the molecular level; the two main pathways, phenylpropanoid biosynthesis and peroxisome pathway, significantly involved in scavenging of reactive oxygen species (ROS) and 14 unigenes in the two pathways presented a significant differential expression in response to increase of superoxide. Our classification analysis showed that 1769 transcription factors can be grouped into 81 families and 948 protein kinases (PKs) into 122 families. In YY, we identified 34 TF DEGs from and 23 PK DEGs, including 19 receptor-like kinases (RLKs). Most of these RLKs were downregulated during drought stress, implying their role as negative regulators of the drought tolerance mechanism in jute.
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Wang J, Li C, Yao X, Liu S, Zhang P, Chen K. The Antarctic moss leucine-rich repeat receptor-like kinase (PnLRR-RLK2) functions in salinity and drought stress adaptation. Polar Biol 2017. [DOI: 10.1007/s00300-017-2195-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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Kang J, Li J, Gao S, Tian C, Zha X. Overexpression of the leucine-rich receptor-like kinase gene LRK2 increases drought tolerance and tiller number in rice. PLANT BIOTECHNOLOGY JOURNAL 2017; 15:1175-1185. [PMID: 28182328 PMCID: PMC5552483 DOI: 10.1111/pbi.12707] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2016] [Revised: 01/29/2017] [Accepted: 01/30/2017] [Indexed: 05/18/2023]
Abstract
Drought represents a key limiting factor of global crop distribution. Receptor-like kinases play major roles in plant development and defence responses against stresses such as drought. In this study, LRK2, which encodes a leucine-rich receptor-like kinase, was cloned and characterized and found to be localized on the plasma membrane in rice. Promoter-GUS analysis revealed strong expression in tiller buds, roots, nodes and anthers. Transgenic plants overexpressing LRK2 exhibited enhanced tolerance to drought stress due to an increased number of lateral roots compared with the wild type at the vegetative stage. Moreover, ectopic expression of LRK2 seedlings resulted in increased tiller development. Yeast two-hybrid screening and bimolecular fluorescence complementation (BiFC) indicated a possible interaction between LRK2 and elongation factor 1 alpha (OsEF1A) in vitro. These results suggest that LRK2 functions as a positive regulator of the drought stress response and tiller development via increased branch development in rice. These findings will aid our understanding of branch regulation in other grasses and support improvements in rice genetics.
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Affiliation(s)
- Junfang Kang
- College of Chemistry and Life SciencesZhejiang Normal UniversityJinhuaChina
| | - Jianmin Li
- College of Chemistry and Life SciencesZhejiang Normal UniversityJinhuaChina
| | - Shuang Gao
- College of Chemistry and Life SciencesZhejiang Normal UniversityJinhuaChina
| | - Chao Tian
- College of Chemistry and Life SciencesZhejiang Normal UniversityJinhuaChina
| | - Xiaojun Zha
- College of Chemistry and Life SciencesZhejiang Normal UniversityJinhuaChina
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58
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Wang J, Liu S, Li C, Wang T, Zhang P, Chen K. PnLRR-RLK27, a novel leucine-rich repeats receptor-like protein kinase from the Antarctic moss Pohlia nutans, positively regulates salinity and oxidation-stress tolerance. PLoS One 2017; 12:e0172869. [PMID: 28241081 PMCID: PMC5328275 DOI: 10.1371/journal.pone.0172869] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2016] [Accepted: 02/11/2017] [Indexed: 11/17/2022] Open
Abstract
Leucine-rich repeats receptor-like kinases (LRR-RLKs) play important roles in plant growth and development as well as stress responses. Here, 56 LRR-RLK genes were identified in the Antarctic moss Pohlia nutans transcriptome, which were further classified into 11 subgroups based on their extracellular domain. Of them, PnLRR-RLK27 belongs to the LRR II subgroup and its expression was significantly induced by abiotic stresses. Subcellular localization analysis showed that PnLRR-RLK27 was a plasma membrane protein. The overexpression of PnLRR-RLK27 in Physcomitrella significantly enhanced the salinity and ABA tolerance in their gametophyte growth. Similarly, PnLRR-RLK27 heterologous expression in Arabidopsis increased the salinity and ABA tolerance in their seed germination and early root growth as well as the tolerance to oxidative stress. PnLRR-RLK27 overproduction in these transgenic plants increased the expression of salt stress/ABA-related genes. Furthermore, PnLRR-RLK27 increased the activities of reactive oxygen species (ROS) scavengers and reduced the levels of malondialdehyde (MDA) and ROS. Taken together, these results suggested that PnLRR-RLK27 as a signaling regulator confer abiotic stress response associated with the regulation of the stress- and ABA-mediated signaling network.
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Affiliation(s)
- Jing Wang
- School of Life Science and National Glycoengineering Research Center, Shandong University, Jinan, China
| | - Shenghao Liu
- Marine Ecology Research Center, The First Institute of Oceanography, State Oceanic Administration, Qingdao, China
| | - Chengcheng Li
- School of Life Science and National Glycoengineering Research Center, Shandong University, Jinan, China
| | - Tailin Wang
- School of Life Science and National Glycoengineering Research Center, Shandong University, Jinan, China
| | - Pengying Zhang
- School of Life Science and National Glycoengineering Research Center, Shandong University, Jinan, China
- Shandong Provincial Key Laboratory of Carbohydrate Chemistry and Glycobiology, Jinan, China
| | - Kaoshan Chen
- School of Life Science and National Glycoengineering Research Center, Shandong University, Jinan, China
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Ye Y, Ding Y, Jiang Q, Wang F, Sun J, Zhu C. The role of receptor-like protein kinases (RLKs) in abiotic stress response in plants. PLANT CELL REPORTS 2017; 36:235-242. [PMID: 27933379 DOI: 10.1007/s00299-016-2084-x] [Citation(s) in RCA: 136] [Impact Index Per Article: 19.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2016] [Accepted: 11/22/2016] [Indexed: 05/18/2023]
Abstract
We review and introduce recent studies on RLK s involved in the abiotic stress response and provide insights into potential regulatory mechanisms for alleviating abiotic stress. Abiotic stresses are important factors affecting plant growth and development, resulting in crop production reduction and even plant death. To survive, plants utilize different mechanisms to respond and adapt to continuously changing environmental factors. Understanding of the molecular mechanisms of plant response to various stresses will aid in improving tolerance of plants to abiotic stress through genetic engineering, which would greatly promote the development of modern agriculture. RLKs, the largest gene family in plants, play critical roles in the regulation of plant developmental processes, signaling networks and disease resistance. Many RLKs have been shown to be involved in abiotic stress responses, including the abscisic acid response, calcium signaling and antioxidant defense. This review summarizes recent studies on RLKs involved in plant responses to abiotic stress, including drought, salt, cold, toxic metals/metalloids and other stresses, and emphasizes the upstream and downstream factors in RLK signal transduction pathways under abiotic stress.
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Affiliation(s)
- Yaoyao Ye
- College of Life Sciences, China Jiliang University, 310018, Hangzhou, People's Republic of China
| | - Yanfei Ding
- College of Life Sciences, China Jiliang University, 310018, Hangzhou, People's Republic of China
| | - Qiong Jiang
- College of Life Sciences, China Jiliang University, 310018, Hangzhou, People's Republic of China
| | - Feijuan Wang
- College of Life Sciences, China Jiliang University, 310018, Hangzhou, People's Republic of China
| | - Junwei Sun
- College of Life Sciences, China Jiliang University, 310018, Hangzhou, People's Republic of China
| | - Cheng Zhu
- College of Life Sciences, China Jiliang University, 310018, Hangzhou, People's Republic of China.
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Shi F, Dong Y, Zhang Y, Yang X, Qiu D. Overexpression of the PeaT1 Elicitor Gene from Alternaria tenuissima Improves Drought Tolerance in Rice Plants via Interaction with a Myo-Inositol Oxygenase. FRONTIERS IN PLANT SCIENCE 2017; 8:970. [PMID: 28649255 PMCID: PMC5465376 DOI: 10.3389/fpls.2017.00970] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2017] [Accepted: 05/23/2017] [Indexed: 05/22/2023]
Abstract
Abiotic stresses, especially drought, seriously threaten cereal crops yields and quality. In this study, we observed that the rice plants of overexpression the Alternariatenuissima PeaT1 gene showed enhanced drought stress tolerance and increased the survival rate following a drought treatment. In PeaT1-overexpressing (PeaT1OE) plants, abscisic acid and chlorophyll content significantly increased, while the malondialdehyde (MDA) content decreased compared with the wild-type plants. Additionally, we confirmed that the transcript levels of drought-responsive genes, including OsAM1, OsLP2, and OsDST, were prominently lower in the PeaT1OE plants. In contrast, expression levels of genes encoding positive drought stress regulators including OsSKIPa, OsCPK9, OsNAC9, OSEREBP1, and OsTPKb were upregulated in PeaT1OE plants. Furthermore, combing the yeast two-hybrid assay, we found that PeaT1 could interact with amyo-inositol oxygenase (OsMIOX), which was verified by pull-down assay. Interestingly, OsMIOX was highly expressed in PeaT1OE plants during the drought treatment. Additionally, the OsMIOX-GFP fusion protein co-localized with the endoplasmic reticulum (ER) marker in tobacco protoplasts, suggesting OsMIOX performs its function in ER. Therefore, our results are useful for elucidating the molecular mechanism underlying the improvement of drought tolerance by PeaT1.
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Affiliation(s)
- Fachao Shi
- Key Laboratory for Biological Control of the Ministry of Agriculture, Institute of Plant Protection, Chinese Academy of Agricultural SciencesBeijing, China
- State Key Laboratory of Agrobiotechnology, China Agricultural UniversityBeijing, China
| | - Yijie Dong
- Key Laboratory for Biological Control of the Ministry of Agriculture, Institute of Plant Protection, Chinese Academy of Agricultural SciencesBeijing, China
| | - Yi Zhang
- Key Laboratory for Biological Control of the Ministry of Agriculture, Institute of Plant Protection, Chinese Academy of Agricultural SciencesBeijing, China
| | - Xiufeng Yang
- Key Laboratory for Biological Control of the Ministry of Agriculture, Institute of Plant Protection, Chinese Academy of Agricultural SciencesBeijing, China
| | - Dewen Qiu
- Key Laboratory for Biological Control of the Ministry of Agriculture, Institute of Plant Protection, Chinese Academy of Agricultural SciencesBeijing, China
- *Correspondence: Dewen Qiu,
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Bellati J, Champeyroux C, Hem S, Rofidal V, Krouk G, Maurel C, Santoni V. Novel Aquaporin Regulatory Mechanisms Revealed by Interactomics. Mol Cell Proteomics 2016; 15:3473-3487. [PMID: 27609422 PMCID: PMC5098044 DOI: 10.1074/mcp.m116.060087] [Citation(s) in RCA: 61] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2016] [Revised: 08/31/2016] [Indexed: 12/22/2022] Open
Abstract
PIP1;2 and PIP2;1 are aquaporins that are highly expressed in roots and bring a major contribution to root water transport and its regulation by hormonal and abiotic factors. Interactions between cellular proteins or with other macromolecules contribute to forming molecular machines. Proteins that molecularly interact with PIP1;2 and PIP2;1 were searched to get new insights into regulatory mechanisms of root water transport. For that, a immuno-purification strategy coupled to protein identification and quantification by mass spectrometry (IP-MS) of PIPs was combined with data from the literature, to build thorough PIP1;2 and PIP2;1 interactomes, sharing about 400 interacting proteins. Such interactome revealed PIPs to behave as a platform for recruitment of a wide range of transport activities and provided novel insights into regulation of PIP cellular trafficking by osmotic and oxidative treatments. This work also pointed a role of lipid signaling in PIP function and enhanced our knowledge of protein kinases involved in PIP regulation. In particular we show that 2 members of the receptor-like kinase (RLK) family (RKL1 (At1g48480) and Feronia (At3g51550)) differentially modulate PIP activity through distinct molecular mechanisms. The overall work opens novel perspectives in understanding PIP regulatory mechanisms and their role in adjustment of plant water status.
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Affiliation(s)
- Jorge Bellati
- From the ‡Biochimie et Physiologie Moléculaire des Plantes, Institut de Biologie Intégrative des Plantes, UMR 5004 CNRS/UMR 0386 INRA/Montpellier SupAgro/Université Montpellier, F-34060 Montpellier, Cedex 2, France
| | - Chloé Champeyroux
- From the ‡Biochimie et Physiologie Moléculaire des Plantes, Institut de Biologie Intégrative des Plantes, UMR 5004 CNRS/UMR 0386 INRA/Montpellier SupAgro/Université Montpellier, F-34060 Montpellier, Cedex 2, France
| | - Sonia Hem
- From the ‡Biochimie et Physiologie Moléculaire des Plantes, Institut de Biologie Intégrative des Plantes, UMR 5004 CNRS/UMR 0386 INRA/Montpellier SupAgro/Université Montpellier, F-34060 Montpellier, Cedex 2, France
| | - Valérie Rofidal
- From the ‡Biochimie et Physiologie Moléculaire des Plantes, Institut de Biologie Intégrative des Plantes, UMR 5004 CNRS/UMR 0386 INRA/Montpellier SupAgro/Université Montpellier, F-34060 Montpellier, Cedex 2, France
| | - Gabriel Krouk
- From the ‡Biochimie et Physiologie Moléculaire des Plantes, Institut de Biologie Intégrative des Plantes, UMR 5004 CNRS/UMR 0386 INRA/Montpellier SupAgro/Université Montpellier, F-34060 Montpellier, Cedex 2, France
| | - Christophe Maurel
- From the ‡Biochimie et Physiologie Moléculaire des Plantes, Institut de Biologie Intégrative des Plantes, UMR 5004 CNRS/UMR 0386 INRA/Montpellier SupAgro/Université Montpellier, F-34060 Montpellier, Cedex 2, France
| | - Véronique Santoni
- From the ‡Biochimie et Physiologie Moléculaire des Plantes, Institut de Biologie Intégrative des Plantes, UMR 5004 CNRS/UMR 0386 INRA/Montpellier SupAgro/Université Montpellier, F-34060 Montpellier, Cedex 2, France
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Chen Y, Chen C, Tan Z, Liu J, Zhuang L, Yang Z, Huang B. Functional Identification and Characterization of Genes Cloned from Halophyte Seashore Paspalum Conferring Salinity and Cadmium Tolerance. FRONTIERS IN PLANT SCIENCE 2016; 7:102. [PMID: 26904068 PMCID: PMC4746305 DOI: 10.3389/fpls.2016.00102] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2015] [Accepted: 01/19/2016] [Indexed: 05/25/2023]
Abstract
Salinity-affected and heavy metal-contaminated soils limit the growth of glycophytic plants. Identifying genes responsible for superior tolerance to salinity and heavy metals in halophytes has great potential for use in developing salinity- and Cd-tolerant glycophytes. The objective of this study was to identify salinity- and Cd-tolerance related genes in seashore paspalum (Paspalum vaginatum), a halophytic perennial grass species, using yeast cDNA expression library screening method. Based on the Gateway-compatible vector system, a high-quality entry library was constructed, which contained 9.9 × 10(6) clones with an average inserted fragment length of 1.48 kb representing a 100% full-length rate. The yeast expression libraries were screened in a salinity-sensitive and a Cd-sensitive yeast mutant. The screening yielded 32 salinity-tolerant clones harboring 18 salinity-tolerance genes and 20 Cd-tolerant clones, including five Cd-tolerance genes. qPCR analysis confirmed that most of the 18 salinity-tolerance and five Cd-tolerance genes were up-regulated at the transcript level in response to salinity or Cd stress in seashore paspalum. Functional analysis indicated that salinity-tolerance genes from seashore paspalum could be involved mainly in photosynthetic metabolism, antioxidant systems, protein modification, iron transport, vesicle traffic, and phospholipid biosynthesis. Cd-tolerance genes could be associated with regulating pathways that are involved in phytochelatin synthesis, HSFA4-related stress protection, CYP450 complex, and sugar metabolism. The 18 salinity-tolerance genes and five Cd-tolerance genes could be potentially used as candidate genes for genetic modification of glycophytic grass species to improve salinity and Cd tolerance and for further analysis of molecular mechanisms regulating salinity and Cd tolerance.
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Affiliation(s)
- Yu Chen
- Department of Turfgrass Science, College of Agro-Grassland Science, Nanjing Agricultural UniversityNanjing, China
| | - Chuanming Chen
- Department of Turfgrass Science, College of Agro-Grassland Science, Nanjing Agricultural UniversityNanjing, China
| | - Zhiqun Tan
- Department of Turfgrass Science, College of Agro-Grassland Science, Nanjing Agricultural UniversityNanjing, China
| | - Jun Liu
- Department of Turfgrass Science, College of Agro-Grassland Science, Nanjing Agricultural UniversityNanjing, China
| | - Lili Zhuang
- Department of Turfgrass Science, College of Agro-Grassland Science, Nanjing Agricultural UniversityNanjing, China
| | - Zhimin Yang
- Department of Turfgrass Science, College of Agro-Grassland Science, Nanjing Agricultural UniversityNanjing, China
| | - Bingru Huang
- Department of Plant Biology and Pathology, Rutgers, The State University of New JerseyNew Brunswick, NJ, USA
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Dievart A, Perin C, Hirsch J, Bettembourg M, Lanau N, Artus F, Bureau C, Noel N, Droc G, Peyramard M, Pereira S, Courtois B, Morel JB, Guiderdoni E. The phenome analysis of mutant alleles in Leucine-Rich Repeat Receptor-Like Kinase genes in rice reveals new potential targets for stress tolerant cereals. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2016; 242:240-249. [PMID: 26566841 DOI: 10.1016/j.plantsci.2015.06.019] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/15/2015] [Revised: 06/17/2015] [Accepted: 06/22/2015] [Indexed: 05/08/2023]
Abstract
Plants are constantly exposed to a variety of biotic and abiotic stresses that reduce their fitness and performance. At the molecular level, the perception of extracellular stimuli and the subsequent activation of defense responses require a complex interplay of signaling cascades, in which protein phosphorylation plays a central role. Several studies have shown that some members of the Leucine-Rich Repeat Receptor-Like Kinase (LRR-RLK) family are involved in stress and developmental pathways. We report here a systematic analysis of the role of the members of this gene family by mutant phenotyping in the monocotyledon model plant rice, Oryza sativa. We have then targeted 176 of the ∼320 LRR-RLK genes (55.7%) and genotyped 288 mutant lines. Position of the insertion was confirmed in 128 lines corresponding to 100 LRR-RLK genes (31.6% of the entire family). All mutant lines harboring homozygous insertions have been screened for phenotypes under normal conditions and under various abiotic stresses. Mutant plants have been observed at several stages of growth, from seedlings in Petri dishes to flowering and grain filling under greenhouse conditions. Our results show that 37 of the LRR-RLK rice genes are potential targets for improvement especially in the generation of abiotic stress tolerant cereals.
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Affiliation(s)
- Anne Dievart
- CIRAD, UMR AGAP, 34398 Montpellier cedex 5, France.
| | | | - Judith Hirsch
- INRA, UMR BGPI, INRA-CIRAD-SupAgro, TA 54/K, Campus International de Baillarguet, 34398 Montpellier cedex 5, France
| | | | - Nadège Lanau
- CIRAD, UMR AGAP, 34398 Montpellier cedex 5, France
| | | | | | - Nicolas Noel
- CIRAD, UMR AGAP, 34398 Montpellier cedex 5, France
| | - Gaétan Droc
- CIRAD, UMR AGAP, 34398 Montpellier cedex 5, France
| | | | - Serge Pereira
- INRA, UMR BGPI, INRA-CIRAD-SupAgro, TA 54/K, Campus International de Baillarguet, 34398 Montpellier cedex 5, France
| | | | - Jean-Benoit Morel
- INRA, UMR BGPI, INRA-CIRAD-SupAgro, TA 54/K, Campus International de Baillarguet, 34398 Montpellier cedex 5, France
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Wu P, Han S, Zhao W, Chen T, Zhou J, Li L. Genome-wide identification of abiotic stress-regulated and novel microRNAs in mulberry leaf. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2015; 95:75-82. [PMID: 26188501 DOI: 10.1016/j.plaphy.2015.07.007] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2015] [Revised: 06/29/2015] [Accepted: 07/03/2015] [Indexed: 05/22/2023]
Abstract
As the most important food plant for sericultural industry, mulberry trees have to suffer from a wide range of abiotic and biotic stresses, such as drought and high salinity. MicroRNAs (miRNAs) have been proved to play important roles in abiotic stresses regulation in many plants. However, there are seldom reports on the miRNAs expression profiles upon abiotic challenges in mulberry. In this study, three small RNA libraries from mulberry leaf tissue with or without drought or salt treatment were constructed and deep sequenced. Total of 48 conserved miRNAs (including miRNA*) and 162 novel miRNAs were identified (processing precision value>0.1). A total of 270 and 1963 target genes were predicted for conserved miRNAs and novel miRNAs, respectively. 13 differentially expressed miRNAs were detected under drought or salt stresses by deep sequencing and qRT-PCR. 5' RLM-RACE validated Morus 013341 to be the target gene of miR-395a. Our results provided initial clue to further study molecular mechanism on abiotic stresses regulation in mulberry.
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Affiliation(s)
- Ping Wu
- Sericultural Research Institute, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, China; Quality Inspection Center for Sericulture Products, Ministry of Agriculture, Zhenjiang, Jiangsu, China
| | - Shaohua Han
- Sericultural Research Institute, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, China
| | - Weiguo Zhao
- Sericultural Research Institute, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, China
| | - Tao Chen
- Sericultural Research Institute, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, China; Quality Inspection Center for Sericulture Products, Ministry of Agriculture, Zhenjiang, Jiangsu, China
| | - Jiachun Zhou
- Yiancheng Academy of Agricultural Sciences, Yiancheng, Jiangsu 224000, China
| | - Long Li
- Sericultural Research Institute, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, China; Quality Inspection Center for Sericulture Products, Ministry of Agriculture, Zhenjiang, Jiangsu, China.
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Sharma M, Pandey GK. Expansion and Function of Repeat Domain Proteins During Stress and Development in Plants. FRONTIERS IN PLANT SCIENCE 2015; 6:1218. [PMID: 26793205 PMCID: PMC4707873 DOI: 10.3389/fpls.2015.01218] [Citation(s) in RCA: 82] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2015] [Accepted: 12/17/2015] [Indexed: 05/18/2023]
Abstract
The recurrent repeats having conserved stretches of amino acids exists across all domains of life. Subsequent repetition of single sequence motif and the number and length of the minimal repeating motifs are essential characteristics innate to these proteins. The proteins with tandem peptide repeats are essential for providing surface to mediate protein-protein interactions for fundamental biological functions. Plants are enriched in tandem repeat containing proteins typically distributed into various families. This has been assumed that the occurrence of multigene repeats families in plants enable them to cope up with adverse environmental conditions and allow them to rapidly acclimatize to these conditions. The evolution, structure, and function of repeat proteins have been studied in all kingdoms of life. The presence of repeat proteins is particularly profuse in multicellular organisms in comparison to prokaryotes. The precipitous expansion of repeat proteins in plants is presumed to be through internal tandem duplications. Several repeat protein gene families have been identified in plants. Such as Armadillo (ARM), Ankyrin (ANK), HEAT, Kelch-like repeats, Tetratricopeptide (TPR), Leucine rich repeats (LRR), WD40, and Pentatricopeptide repeats (PPR). The structure and functions of these repeat proteins have been extensively studied in plants suggesting a critical role of these repeating peptides in plant cell physiology, stress and development. In this review, we illustrate the structural, functional, and evolutionary prospects of prolific repeat proteins in plants.
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