1
|
Saha SR, Islam SMS, Itoh K. Identification of abiotic stress-responsive genes: a genome-wide analysis of the cytokinin response regulator gene family in rice. Genes Genet Syst 2024; 99:n/a. [PMID: 38945898 DOI: 10.1266/ggs.24-00068] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/02/2024] Open
Abstract
Response regulators (RRs) are implicated in various developmental processes as well as environmental responses by acting as either positive or negative regulators, and are crucial components of cytokinin signaling in plants. We characterized 36 RRs in rice (Oryza sativa L.; Os) using in silico analysis of publicly available data. A comprehensive analysis of OsRR family members covered their physicochemical properties, chromosomal distribution, subcellular localization, phylogeny, gene structure, distribution of conserved motifs and domains, and gene duplication events. Gene Ontology analysis indicated that 22 OsRR genes contribute mainly to the cytokinin response and signal transduction. Predicted cis-elements in RR promoter sequences related to phytohormones and abiotic stresses indicated that RRs are involved in hormonal and environmental responses, supporting previous studies. MicroRNA (miRNA) target analysis showed that 148 miRNAs target 29 OsRR genes. In some cases, multiple RRs are targets of the same miRNA group, and may be controlled by common stimulus responses. Based on the analysis of publicly available gene expression data, OsRR4, OsRR6, OsRR9, OsRR10, OsRR22, OsPRR73 and OsPRR95 were found to be involved in responses to abiotic stresses. Using quantitative reverse transcription polymerase chain reaction we confirmed that six of these RRs, namely OsRR4, OsRR6, OsRR9, OsRR10, OsRR22 and OsPRR73, are involved in the response to salinity, osmotic, alkaline and wounding stresses, and can potentially be used as models to understand molecular mechanisms underlying stress responsiveness.
Collapse
Affiliation(s)
- Setu Rani Saha
- Department of Life and Food Sciences, Graduate School of Science and Technology, Niigata University
- Department of Genetics and Plant Breeding, Bangladesh Agricultural University
| | | | - Kimiko Itoh
- Institute of Science and Technology, Niigata University
| |
Collapse
|
2
|
Nongpiur RC, Rawat N, Singla-Pareek SL, Pareek A. OsRR26, a type-B response regulator, modulates salinity tolerance in rice via phytohormone-mediated ROS accumulation in roots and influencing reproductive development. PLANTA 2024; 259:96. [PMID: 38517516 DOI: 10.1007/s00425-024-04366-6] [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: 09/01/2023] [Accepted: 02/15/2024] [Indexed: 03/24/2024]
Abstract
MAIN CONCLUSION OsRR26 is a cytokinin-responsive response regulator that promotes phytohormone-mediated ROS accumulation in rice roots, regulates seedling growth, spikelet fertility, awn development, represses NADPH oxidases, and negatively affects salinity tolerance. Plant two-component systems (TCS) play a pivotal role in phytohormone signaling, stress responses, and circadian rhythm. However, a significant knowledge gap exists regarding TCS in rice. In this study, we utilized a functional genomics approach to elucidate the role of OsRR26, a type-B response regulator in rice. Our results demonstrate that OsRR26 is responsive to cytokinin, ABA, and salinity stress, serving as the ortholog of Arabidopsis ARR11. OsRR26 primarily localizes to the nucleus and plays a crucial role in seedling growth, spikelet fertility, and the suppression of awn development. Exogenous application of cytokinin led to distinct patterns of reactive oxygen species (ROS) accumulation in the roots of both WT and transgenic plants (OsRR26OE and OsRR26KD), indicating the potential involvement of OsRR26 in cytokinin-mediated ROS signaling in roots. The application of exogenous ABA resulted in varied cellular compartmentalization of ROS between the WT and transgenic lines. Stress tolerance assays of these plants revealed that OsRR26 functions as a negative regulator of salinity stress tolerance across different developmental stages in rice. Physiological and biochemical analyses unveiled that the knockdown of OsRR26 enhances salinity tolerance, characterized by improved chlorophyll retention and the accumulation of soluble sugars, K+ content, and amino acids, particularly proline.
Collapse
Affiliation(s)
- Ramsong Chantre Nongpiur
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India
| | - Nishtha Rawat
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India
| | - Sneh Lata Singla-Pareek
- Plant Stress Biology, International Centre for Genetic Engineering and Biotechnology, New Delhi, 110067, India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India.
- National Agri-Food Biotechnology Institute, Mohali, 140306, India.
| |
Collapse
|
3
|
Liu H, Liu N, Peng C, Huang J, Hua W, Fu Z, Liu J. Two-Component System Genes in Brassica napus: Identification, Analysis, and Expression Patterns in Response to Abiotic and Biotic Stresses. Int J Mol Sci 2023; 24:17308. [PMID: 38139141 PMCID: PMC10743665 DOI: 10.3390/ijms242417308] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Revised: 12/06/2023] [Accepted: 12/07/2023] [Indexed: 12/24/2023] Open
Abstract
The two-component system (TCS), consisting of histidine kinases (HKs), histidine phosphotransfer proteins (HPs) and response regulators (RRs) in eukaryotes, plays pivotal roles in regulating plant growth, development, and responses to environment stimuli. However, the TCS genes were poorly characterized in rapeseed, which is an important tetraploid crop in Brassicaceae. In this work, a total of 182 BnaTCS genes were identified, including 43 HKs, 16 HPs, and 123 RRs, which was more than that in other crops due to segmental duplications during the process of polyploidization. It was significantly different in genetic diversity between the three subfamilies, and some members showed substantial genetic differentiation among the three rapeseed ecotypes. Several hormone- and stress-responsive cis-elements were identified in the putative promoter regions of BnaTCS genes. Furthermore, the expression of BnaTCS genes under abiotic stresses, exogenous phytohormone, and biotic stresses was analyzed, and numerous candidate stress-responsive genes were screened out. Meanwhile, using a natural population with 505 B. napus accessions, we explored the genetic effects of BnaTCS genes on salt tolerance by association mapping analysis and detected some significant association SNPs/genes. The result will help to further understand the functions of TCS genes in the developmental and stress tolerance improvement in B. napus.
Collapse
Affiliation(s)
- Hongfang Liu
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Ministry of Agriculture and Rural Affairs, Wuhan 430062, China; (H.L.)
| | - Nian Liu
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Ministry of Agriculture and Rural Affairs, Wuhan 430062, China; (H.L.)
| | - Chen Peng
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Ministry of Agriculture and Rural Affairs, Wuhan 430062, China; (H.L.)
| | - Jiaquan Huang
- School of Breeding and Multiplication, Sanya Institute of Breeding and Multiplication, Hainan University, Sanya 570208, China
| | - Wei Hua
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Ministry of Agriculture and Rural Affairs, Wuhan 430062, China; (H.L.)
- Hubei Hongshan Laboratory, Wuhan 430070, China
| | - Zhengwei Fu
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Ministry of Agriculture and Rural Affairs, Wuhan 430062, China; (H.L.)
| | - Jing Liu
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Ministry of Agriculture and Rural Affairs, Wuhan 430062, China; (H.L.)
- Hubei Hongshan Laboratory, Wuhan 430070, China
| |
Collapse
|
4
|
Bae Y, Song SJ, Lim CW, Kim CM, Lee SC. Tomato salt-responsive pseudo-response regulator 1, SlSRP1, negatively regulates the high-salt and dehydration stress responses. PHYSIOLOGIA PLANTARUM 2023; 175:e14082. [PMID: 38148202 DOI: 10.1111/ppl.14082] [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: 08/06/2023] [Revised: 10/29/2023] [Accepted: 10/31/2023] [Indexed: 12/28/2023]
Abstract
Under severe environmental stress conditions, plants inhibit their growth and development and initiate various defense mechanisms to survive. The pseudo-response regulator (PRRs) genes have been known to be involved in fruit ripening and plant immunity in various plant species, but their role in responses to environmental stresses, especially high salinity and dehydration, remains unclear. Here, we focused on PRRs in tomato plants and identified two PRR2-like genes, SlSRP1 and SlSRP1H, from the leaves of salt-treated tomato plants. After exposure to dehydration and high-salt stresses, expression of SISRP1, but not SlSRP1H, was significantly induced in tomato leaves. Subcellular localization analysis showed that SlSRP1 was predominantly located in the nucleus, while SlSRP1H was equally distributed in the nucleus and cytoplasm. To further investigate the potential role of SlSRP1 in the osmotic stress response, we generated SISRP1-silenced tomato plants. Compared to control plants, SISRP1-silenced tomato plants exhibited enhanced tolerance to high salinity, as evidenced by a high accumulation of proline and reduced chlorosis, ion leakage, and lipid peroxidation. Moreover, SISRP1-silenced tomato plants showed dehydration-tolerant phenotypes with enhanced abscisic acid sensitivity and increased expression of stress-related genes, including SlRD29, SlAREB, and SlDREB2. Overall, our findings suggest that SlSRP1 negatively regulates the osmotic stress response.
Collapse
Affiliation(s)
- Yeongil Bae
- Department of Life Science (BK21 program), Chung-Ang University, Seoul, Korea
| | - Se Jin Song
- Department of Horticulture Industry, Wonkwang University, Iksan, Jeonbuk, Korea
| | - Chae Woo Lim
- Department of Life Science (BK21 program), Chung-Ang University, Seoul, Korea
| | - Chul Min Kim
- Department of Horticulture Industry, Wonkwang University, Iksan, Jeonbuk, Korea
| | - Sung Chul Lee
- Department of Life Science (BK21 program), Chung-Ang University, Seoul, Korea
| |
Collapse
|
5
|
Zhao L, Wang Y, Cui R, Cui Y, Lu X, Chen X, Wang J, Wang D, Yin Z, Wang S, Peng F, Guo L, Chen C, Ye W. Analysis of the histidine kinase gene family and the role of GhHK8 in response to drought tolerance in cotton. PHYSIOLOGIA PLANTARUM 2023; 175:e14022. [PMID: 37882310 DOI: 10.1111/ppl.14022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2023] [Revised: 07/27/2023] [Accepted: 08/29/2023] [Indexed: 10/27/2023]
Abstract
As an important member of the two-component system (TCS), histidine kinases (HKs) play important roles in various plant developmental processes and signal transduction in response to a wide range of biotic and abiotic stresses. So far, the HK gene family has not been investigated in Gossypium. In this study, a total of 177 HK gene family members were identified in cotton. They were further divided into seven groups, and the protein characteristics, genetic relationship, gene structure, chromosome location, collinearity, and cis-elements identification were comprehensively analyzed. Whole genome duplication (WGD) / segmental duplication may be the reason why the number of HK genes doubled in tetraploid Gossypium species. Expression analysis revealed that most cotton HK genes were mainly expressed in the reproductive organs and the fiber at initial stage. Gene expression analysis revealed that HK family genes are involved in cotton abiotic stress, especially drought stress and salt stress. In addition, gene interaction networks showed that HKs were involved in the regulation of cotton abiotic stress, especially drought stress. VIGS experiments have shown that GhHK8 is a negative regulatory factor in response to drought stress. Our systematic analysis provided insights into the characteristics of the HK genes in cotton and laid a foundation for further exploring their potential in drought stress resistance in cotton.
Collapse
Affiliation(s)
- Lanjie Zhao
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Yongbo Wang
- Hunan Institute of Cotton Science, Changde, China
| | - Ruifeng Cui
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Yupeng Cui
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Xuke Lu
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Xiugui Chen
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Junjuan Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Delong Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Zujun Yin
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Shuai Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Fanjia Peng
- Hunan Institute of Cotton Science, Changde, China
| | - Lixue Guo
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Chao Chen
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| | - Wuwei Ye
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Research Base, Anyang Institute of Technology, National Key Laboratory of Cotton Bio-Breeding and Integrated Utilization/National Engineering Research Center of Cotton Biology Breeding and Industrial Technology, Anyang, Henan, China
| |
Collapse
|
6
|
Rasool A, Azeem F, Ur-Rahman M, Rizwan M, Hussnain Siddique M, Bay DH, Binothman N, Al Kashgry NAT, Qari SH. Omics-assisted characterization of two-component system genes from Gossypium Raimondii in response to salinity and molecular interaction with abscisic acid. FRONTIERS IN PLANT SCIENCE 2023; 14:1138048. [PMID: 37063177 PMCID: PMC10102465 DOI: 10.3389/fpls.2023.1138048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/05/2023] [Accepted: 03/09/2023] [Indexed: 06/19/2023]
Abstract
The two-component system (TCS) genes are involved in a wide range of physiological processes in prokaryotes and eukaryotes. In plants, the TCS elements help in a variety of functions, including cell proliferation, response to abiotic and biotic stresses, leaf senescence, nutritional signaling, and division of chloroplasts. Three different kinds of proteins make up the TCS system in plants. These are known as HKs (histidine kinases), HPs (histidine phosphotransfer), and RRs (response regulators). We investigated the genome of Gossypium raimondii and discovered a total of 59 GrTCS candidates, which include 23 members of the HK family, 8 members of the HP family, and 28 members of the RR family. RR candidates are further classified as type-A (6 members), type-B (11 members), type-C (2 members), and pseudo-RRs (9 members). The GrTCS genes were analyzed in comparison with the TCS components of other plant species such as Arabidopsis thaliana, Cicer arietinum, Sorghum bicolor, Glycine max, and Oryza sativa. This analysis revealed both conservation and changes in their structures. We identified 5 pairs of GrTCS syntenic homologs in the G. raimondii genome. All 59 TCS genes in G. raimondii are located on all thirteen chromosomes. The GrTCS promoter regions have several cis-regulatory elements, which function as switches and respond to a wide variety of abiotic stresses. RNA-seq and real-time qPCR analysis showed that the majority of GrTCS genes are differentially regulated in response to salt and cold stress. 3D structures of GrTCS proteins were predicted to reveal the specific function. GrTCSs were docked with abscisic acid to assess their binding interactions. This research establishes the groundwork for future functional studies of TCS elements in G. raimondii, which will further focus on stress resistance and overall development.
Collapse
Affiliation(s)
- Asima Rasool
- Department of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad, Pakistan
| | - Farrukh Azeem
- Department of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad, Pakistan
| | - Mahmood Ur-Rahman
- Department of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad, Pakistan
| | - Muhammad Rizwan
- Department of Environmental Sciences, Government College University Faisalabad, Faisalabad, Pakistan
| | - Muhammad Hussnain Siddique
- Department of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad, Pakistan
| | - Daniyah Habiballah Bay
- Department of Biology, Faculty of Applied Science, Umm Al-Qura University, Makkah, Saudi Arabia
| | - Najat Binothman
- Department of Chemistry, College of Sciences & Arts, King Abdulaziz University, Rabigh, Saudi Arabia
| | | | - Sameer H. Qari
- Department of Biology, A1-Jumum University College, Umm A1-Qura University, Makkah, Saudi Arabia
| |
Collapse
|
7
|
Qiang Y, He X, Li Z, Li S, Zhang J, Liu T, Tursunniyaz M, Wang X, Liu Z, Fang L. Genome-wide identification and expression analysis of the response regulator gene family in alfalfa ( Medicago sativa L.) reveals their multifarious roles in stress response. FRONTIERS IN PLANT SCIENCE 2023; 14:1149880. [PMID: 36998691 PMCID: PMC10043395 DOI: 10.3389/fpls.2023.1149880] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/23/2023] [Accepted: 02/23/2023] [Indexed: 06/19/2023]
Abstract
As important components of the two-component regulatory system, response regulatory proteins (RRPs) play a crucial role in histidine phosphorylation-mediated signal transduction in response to environmental fluctuations. Accumulating evidence has revealed that RRPs play important roles in plant growth and stress response. However, the specific functions of RR genes (RRs) in cultivated alfalfa remain ambiguous. Therefore, in this study, we identified and characterized the RR family genes in the alfalfa genome using bioinformatics methods. Our analysis revealed 37 RRs in the alfalfa genome of Zhongmu No.1 that were unevenly distributed on the chromosomes. Cis-elements analysis revealed the involvement of RRs in responses to light, stress, and various plant hormones. Expression analysis of RRs in different tissues revealed their distinct tissue expression patterns. These findings provide preliminary insights into the roles of RRs in plant responses to abiotic stress, which can be used to improve the stress tolerance of autotetraploid-cultivated alfalfa plants via genetic engineering.
Collapse
Affiliation(s)
- Yuqin Qiang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Xiaojuan He
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Zhen Li
- National Engineering Laboratory for Volatile Organic Compounds Pollution Control Material & Technology, University of Chinese Academy of Sciences, Beijing, China
| | - Siqi Li
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Jia Zhang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Tao Liu
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Mamateliy Tursunniyaz
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Xinyu Wang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Zhipeng Liu
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| | - Longfa Fang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Pastoral Agriculture Science and Technology, Lanzhou University, Lanzhou, China
| |
Collapse
|
8
|
Huo R, Zhao Y, Liu T, Xu M, Wang X, Xu P, Dai S, Cui X, Han Y, Liu Z, Li Z. Genome-wide identification and expression analysis of two-component system genes in sweet potato ( Ipomoea batatas L.). FRONTIERS IN PLANT SCIENCE 2023; 13:1091620. [PMID: 36714734 PMCID: PMC9878860 DOI: 10.3389/fpls.2022.1091620] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Accepted: 12/28/2022] [Indexed: 06/18/2023]
Abstract
Two-component system (TCS), which comprises histidine kinases (HKs), histidine phosphotransfer proteins (HPs), and response regulators (RRs), plays essential roles in regulating plant growth, development, and response to various environmental stimuli. TCS genes have been comprehensively identified in various plants, while studies on the genome-wide identification and analysis of TCS in sweet potato were still not reported. Therefore, in this study, a total of 90 TCS members consisting of 20 HK(L)s, 11 HPs, and 59 RRs were identified in the genome of Ipomoea batatas. Furthermore, their gene structures, conserved domains, and phylogenetic relationships were analyzed in detail. Additionally, the gene expression profiles in various organs were analyzed, and response patterns to adverse environmental stresses were investigated. The results showed that these 90 TCS genes were mapped on 15 chromosomes with a notably uneven distribution, and the expansion of TCS genes in sweet potato was attributed to both segmental and tandem duplications. The majority of the TCS genes showed distinct organ-specific expression profiles, especially in three types of roots (stem roots, fibrous roots, tuberous roots). Moreover, most of the TCS genes were either induced or suppressed upon treatment with abiotic stresses (drought, salinity, cold, heat) and exogenous phytohormone abscisic acid (ABA). In addition, the yeast-two hybrid system was used to reveal the HK-HP-RR protein-protein interactions. IbHP1, IbHP2, IbHP4, and IbHP5 could interact with three HKs (IbHK1a, IbHK1b, and IbHK5), and also interact with majority of the type-B RRs (IbRR20-IbRR28), while no interaction affinity was detected for IbHP3. Our systematic analyses could provide insights into the characterization of the TCS genes, and further the development of functional studies in sweet potato.
Collapse
Affiliation(s)
- Ruxue Huo
- Jiangsu Key Laboratory of Phylogeny and Comparative Genomics, School of Life Sciences, Institute of Integrative Plant Biology, Jiangsu Normal University, Xuzhou, China
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Yanshu Zhao
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Tianxu Liu
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Meng Xu
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Xiaohua Wang
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Ping Xu
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Shengjie Dai
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Xiaoyu Cui
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Yonghua Han
- Jiangsu Key Laboratory of Phylogeny and Comparative Genomics, School of Life Sciences, Institute of Integrative Plant Biology, Jiangsu Normal University, Xuzhou, China
| | - Zhenning Liu
- College of Agriculture and Forestry Science, Linyi University, Linyi, China
| | - Zongyun Li
- Jiangsu Key Laboratory of Phylogeny and Comparative Genomics, School of Life Sciences, Institute of Integrative Plant Biology, Jiangsu Normal University, Xuzhou, China
| |
Collapse
|
9
|
Sharma S, Kaur P, Gaikwad K. Role of cytokinins in seed development in pulses and oilseed crops: Current status and future perspective. Front Genet 2022; 13:940660. [PMID: 36313429 PMCID: PMC9597640 DOI: 10.3389/fgene.2022.940660] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2022] [Accepted: 07/11/2022] [Indexed: 11/17/2022] Open
Abstract
Cytokinins constitutes a vital group of plant hormones regulating several developmental processes, including growth and cell division, and have a strong influence on grain yield. Chemically, they are the derivatives of adenine and are the most complex and diverse group of hormones affecting plant physiology. In this review, we have provided a molecular understanding of the role of cytokinins in developing seeds, with special emphasis on pulses and oilseed crops. The importance of cytokinin-responsive genes including cytokinin oxidases and dehydrogenases (CKX), isopentenyl transferase (IPT), and cytokinin-mediated genetic regulation of seed size are described in detail. In addition, cytokinin expression in germinating seeds, its biosynthesis, source-sink dynamics, cytokinin signaling, and spatial expression of cytokinin family genes in oilseeds and pulses have been discussed in context to its impact on increasing economy yields. Recently, it has been shown that manipulation of the cytokinin-responsive genes by mutation, RNA interference, or genome editing has a significant effect on seed number and/or weight in several crops. Nevertheless, the usage of cytokinins in improving crop quality and yield remains significantly underutilized. This is primarily due to the multigene control of cytokinin expression. The information summarized in this review will help the researchers in innovating newer and more efficient ways of manipulating cytokinin expression including CKX genes with the aim to improve crop production, specifically of pulses and oilseed crops.
Collapse
Affiliation(s)
- Sandhya Sharma
- National Institute for Plant Biotechnology, Indian Council of Agricultural Research, New Delhi, India
| | | | - Kishor Gaikwad
- National Institute for Plant Biotechnology, Indian Council of Agricultural Research, New Delhi, India
- *Correspondence: Kishor Gaikwad,
| |
Collapse
|
10
|
Zhao L, Guo L, Lu X, Malik WA, Zhang Y, Wang J, Chen X, Wang S, Wang J, Wang D, Ye W. Structure and character analysis of cotton response regulator genes family reveals that GhRR7 responses to draught stress. Biol Res 2022; 55:27. [PMID: 35974357 PMCID: PMC9380331 DOI: 10.1186/s40659-022-00394-2] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Accepted: 07/29/2022] [Indexed: 11/10/2022] Open
Abstract
Background Cytokinin signal transduction is mediated by a two-component system (TCS). Two-component systems are utilized in plant responses to hormones as well as to biotic and abiotic environmental stimuli. In plants, response regulatory genes (RRs) are one of the main members of the two-component system (TCS). Method From the aspects of gene structure, evolution mode, expression type, regulatory network and gene function, the evolution process and role of RR genes in the evolution of the cotton genome were analyzed. Result A total of 284 RR genes in four cotton species were identified. Including 1049 orthologous/paralogous gene pairs were identified, most of which were whole genome duplication (WGD). The RR genes promoter elements contain phytohormone responses and abiotic or biotic stress-related cis-elements. Expression analysis showed that RR genes family may be negatively regulate and involved in salt stress and drought stress in plants. Protein regulatory network analysis showed that RR family proteins are involved in regulating the DNA-binding transcription factor activity (COG5641) pathway and HP kinase pathways. VIGS analysis showed that the GhRR7 gene may be in the same regulatory pathway as GhAHP5 and GhPHYB, ultimately negatively regulating cotton drought stress by regulating POD, SOD, CAT, H2O2 and other reactive oxygen removal systems. Conclusion This study is the first to gain insight into RR gene members in cotton. Our research lays the foundation for discovering the genes related to drought and salt tolerance and creating new cotton germplasm materials for drought and salt tolerance. Supplementary Information The online version contains supplementary material available at 10.1186/s40659-022-00394-2.
Collapse
Affiliation(s)
- Lanjie Zhao
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Lixue Guo
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Xuke Lu
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Waqar Afzal Malik
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Yuexin Zhang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Jing Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Xiugui Chen
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Shuai Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Junjuan Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Delong Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China
| | - Wuwei Ye
- Institute of Cotton Research of Chinese Academy of Agricultural Sciences/Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Sciences, Zhengzhou University, Anyang, 455000, Henan, China.
| |
Collapse
|
11
|
Jiang L, Fan T, Li X, Xu J. Functional Heterogeneity of the Young and Old Duplicate Genes in Tung Tree ( Vernicia fordii). FRONTIERS IN PLANT SCIENCE 2022; 13:902649. [PMID: 35800614 PMCID: PMC9253867 DOI: 10.3389/fpls.2022.902649] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/23/2022] [Accepted: 05/12/2022] [Indexed: 06/15/2023]
Abstract
Genes are subject to birth and death during the long evolutionary period. Here, young and old duplicate genes were identified in Vernicia fordii. We performed integrative analyses, including expression pattern, gene complexity, evolution, and functional divergence between young and old duplicate genes. Compared with young genes, old genes have higher values of Ka and Ks, lower Ka/Ks values, and lower average intrinsic structural disorder (ISD) values. Gene ontology and RNA-seq suggested that most young and old duplicate genes contained asymmetric functions. Only old duplicate genes are likely to participate in response to Fusarium wilt infection and exhibit divergent expression patterns. Our data suggest that young genes differ from older genes not only by evolutionary properties but also by their function and structure. These results highlighted the characteristics and diversification of the young and old genes in V. fordii and provided a systematic analysis of these genes in the V. fordii genome.
Collapse
Affiliation(s)
- Lan Jiang
- Key Laboratory of Non-coding RNA Transformation Research of Anhui Higher Education Institution, Yijishan Hospital of Wannan Medical College, Wuhu, China
- Central Laboratory, Yijishan Hospital of Wannan Medical College, Wuhu, China
- Clinical Research Center for Critical Respiratory Medicine of Anhui Province, Wuhu, China
| | - Tingting Fan
- The Laboratory of Forestry Genetics, Central South University of Forestry and Technology, Changsha, China
| | - Xiaoxu Li
- Technology Center, China Tobacco Hunan Industrial Co., Ltd., Changsha, China
| | - Jun Xu
- Hunan Institute of Microbiology, Changsha, China
| |
Collapse
|
12
|
Ku YS, Cheung MY, Cheng SS, Nadeem MA, Chung G, Lam HM. Using the Knowledge of Post-transcriptional Regulations to Guide Gene Selections for Molecular Breeding in Soybean. FRONTIERS IN PLANT SCIENCE 2022; 13:867731. [PMID: 35432392 PMCID: PMC9009170 DOI: 10.3389/fpls.2022.867731] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Accepted: 03/07/2022] [Indexed: 06/14/2023]
Abstract
The omics approaches allow the scientific community to successfully identify genomic regions associated with traits of interest for marker-assisted breeding. Agronomic traits such as seed color, yield, growth habit, and stress tolerance have been the targets for soybean molecular breeding. Genes governing these traits often undergo post-transcriptional modifications, which should be taken into consideration when choosing elite genes for molecular breeding. Post-transcriptional regulations of genes include transcript regulations, protein modifications, and even the regulation of the translational machinery. Transcript regulations involve elements such as microRNAs (miRNAs) and long non-coding RNAs (lncRNAs) for the maintenance of transcript stability or regulation of translation efficiency. Protein modifications involve molecular modifications of target proteins and the alterations of their interacting partners. Regulations of the translational machinery include those on translation factors and the ribosomal protein complex. Post-transcriptional regulations usually involve a set of genes instead of a single gene. Such a property may facilitate molecular breeding. In this review, we will discuss the post-transcriptional modifications of genes related to favorable agronomic traits such as stress tolerance, growth, and nutrient uptake, using examples from soybean as well as other crops. The examples from other crops may guide the selection of genes for marker-assisted breeding in soybean.
Collapse
Affiliation(s)
- Yee-Shan Ku
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong SAR, China
| | - Ming-Yan Cheung
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong SAR, China
| | - Sau-Shan Cheng
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong SAR, China
| | - Muhammad Azhar Nadeem
- Faculty of Agricultural Sciences and Technologies, Sivas University of Science and Technology, Sivas, Turkey
| | - Gyuhwa Chung
- Department of Biotechnology, Chonnam National University, Yeosu, South Korea
| | - Hon-Ming Lam
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong SAR, China
| |
Collapse
|
13
|
Tiwari M, Yadav M, Singh B, Pandey V, Nawaz K, Bhatia S. Evolutionary and functional analysis of two-component system in chickpea reveals CaRR13, a TypeB RR, as positive regulator of symbiosis. PLANT BIOTECHNOLOGY JOURNAL 2021; 19:2415-2427. [PMID: 34146435 PMCID: PMC8633487 DOI: 10.1111/pbi.13649] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Revised: 06/02/2021] [Accepted: 06/06/2021] [Indexed: 05/19/2023]
Abstract
The critical role of cytokinin in early nodulation in legumes is well known. In our study, exogenous cytokinin application to roots of the important crop legume, chickpea (Cicer arietinum L.), led to the formation of pseudo-nodules even in the absence of rhizobia. Hence, a genome-wide analysis of the cytokinin signalling, two-component system (TCS) genes, was conducted in chickpea, Medicago and Cajanus cajan. The integrated phylogenetic, evolutionary and expression analysis of the TCS genes was carried out, which revealed that histidine kinases (HKs) were highly conserved, whereas there was diversification leading to neofunctionalization at the level of response regulators (RRs) especially the TypeB RRs. Further, the functional role of the CaHKs in nodulation was established by complementation of the sln1Δ mutant of yeast and cre1 mutants of (Medicago) which led to restoration of the nodule-deficient phenotype. Additionally, the highest expressing TypeB RR of chickpea, CaRR13, was functionally characterized. Its localization in the nucleus and its Y1H assay-based interaction with the promoter of the early nodulation gene CaNSP2 indicated its role as a transcription factor regulating early nodulation. Overexpression, RNAi lines and complementation of cre1 mutants with CaRR13 revealed its critical involvement as an important signalling molecule regulating early events of nodule organogenesis in chickpea.
Collapse
Affiliation(s)
- Manish Tiwari
- National Institute of Plant Genome ResearchNew DelhiIndia
| | - Manisha Yadav
- National Institute of Plant Genome ResearchNew DelhiIndia
| | | | - Vimal Pandey
- National Institute of Plant Genome ResearchNew DelhiIndia
| | - Kashif Nawaz
- National Institute of Plant Genome ResearchNew DelhiIndia
| | | |
Collapse
|
14
|
Singh D, Singla-Pareek SL, Pareek A. Two-component signaling system in plants: interaction network and specificity in response to stress and hormones. PLANT CELL REPORTS 2021; 40:2037-2046. [PMID: 34109469 DOI: 10.1007/s00299-021-02727-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2021] [Accepted: 05/31/2021] [Indexed: 06/12/2023]
Abstract
Plants are exposed to various environmental challenges that can hamper their growth, development, and productivity. Being sedentary, plants cannot escape from these unfavorable environmental conditions and have evolved various signaling cascades to endure them. The two-component signaling (TCS) system is one such essential signaling circuitry present in plants regulating responses against multiple abiotic and biotic stresses. It is among the most ancient and evolutionary conserved signaling pathways in plants, which include membrane-bound histidine kinases (HKs), cytoplasmic histidine phosphotransfer proteins (Hpts), and nuclear or cytoplasmic response regulators (RRs). At the same time, TCS also involved in many signaling circuitries operative in plants in response to diverse hormones. These plant growth hormones play a significant role in diverse physiological and developmental processes, and their contribution to plant stress responses is coming up in a big way. Therefore, it is intriguing to know how TCS and various plant growth regulators, along with the key transcription factors, directly or indirectly control the responses of plants towards diverse stresses. The present review attempts to explore this relationship, hoping that this knowledge will contribute towards developing crop plants with enhanced climate resilience.
Collapse
Affiliation(s)
- Deepti Singh
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, Delhi, India
| | - Sneh Lata Singla-Pareek
- Plant Stress Biology, International Centre for Genetic Engineering and Biotechnology, New Delhi, 110067, Delhi, India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, Delhi, India.
- National Agri-Food Biotechnology Institute, Sahibzada Ajit Singh Nagar, Punjab, 140306, India.
| |
Collapse
|
15
|
Polko JK, Potter KC, Burr CA, Schaller GE, Kieber JJ. Meta-analysis of transcriptomic studies of cytokinin-treated rice roots defines a core set of cytokinin response genes. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2021; 107:1387-1402. [PMID: 34165836 DOI: 10.1111/tpj.15386] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2021] [Revised: 06/06/2021] [Accepted: 06/19/2021] [Indexed: 05/25/2023]
Abstract
Cytokinins regulate diverse aspects of plant growth and development, primarily through modulation of gene expression. The cytokinin-responsive transcriptome has been thoroughly described in dicots, especially Arabidopsis, but much less so in monocots. Here, we present a meta-analysis of five different transcriptomic analyses of rice (Oryza sativa) roots treated with cytokinin, including three previously unpublished experiments. We developed a treatment method in which hormone is added to the media of rice seedlings grown in sterile hydroponic culture under a continuous airflow, which resulted in minimal perturbation of the seedlings, thus greatly reducing changes in gene expression in the absence of exogenous hormone. We defined a core set of 205 upregulated and 86 downregulated genes that were differentially expressed in at least three of the transcriptomic datasets. This core set includes genes encoding the type-A response regulators (RRs) and cytokinin oxidases/dehydrogenases, which have been shown to be primary cytokinin response genes. GO analysis revealed that the upregulated genes were enriched for terms related to cytokinin/hormone signaling and metabolism, while the downregulated genes were significantly enriched for genes encoding transporters. Variations of type-B RR binding motifs were significantly enriched in the promoters of the upregulated genes, as were binding sites for other potential partner transcription factors. The promoters of the downregulated genes were generally enriched for distinct cis-acting motifs and did not include the type-B RR binding motif. This analysis provides insight into the molecular mechanisms underlying cytokinin action in a monocot and provides a useful foundation for future studies of this hormone in rice and other cereals.
Collapse
Affiliation(s)
- Joanna K Polko
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Kevin C Potter
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Christian A Burr
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - G Eric Schaller
- Department of Biological Sciences, Dartmouth College, Hanover, NH, 03755, USA
| | - Joseph J Kieber
- Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| |
Collapse
|
16
|
Hoang XLT, Prerostova S, Thu NBA, Thao NP, Vankova R, Tran LSP. Histidine Kinases: Diverse Functions in Plant Development and Responses to Environmental Conditions. ANNUAL REVIEW OF PLANT BIOLOGY 2021; 72:297-323. [PMID: 34143645 DOI: 10.1146/annurev-arplant-080720-093057] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
The two-component system (TCS), which is one of the most evolutionarily conserved signaling pathway systems, has been known to regulate multiple biological activities and environmental responses in plants. Significant progress has been made in characterizing the biological functions of the TCS components, including signal receptor histidine kinase (HK) proteins, signal transducer histidine-containing phosphotransfer proteins, and effector response regulator proteins. In this review, our scope is focused on the diverse structure, subcellular localization, and interactions of the HK proteins, as well as their signaling functions during development and environmental responses across different plant species. Based on data collected from scientific studies, knowledge about acting mechanisms and regulatory roles of HK proteins is presented. This comprehensive summary ofthe HK-related network provides a panorama of sophisticated modulating activities of HK members and gaps in understanding these activities, as well as the basis for developing biotechnological strategies to enhance the quality of crop plants.
Collapse
Affiliation(s)
- Xuan Lan Thi Hoang
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Ho Chi Minh City 700000, Vietnam; , ,
- Vietnam National University, Ho Chi Minh City 700000, Vietnam
| | - Sylva Prerostova
- Laboratory of Hormonal Regulations in Plants, Institute of Experimental Botany, Czech Academy of Sciences, 165 02 Prague 6, Czech Republic; ,
| | - Nguyen Binh Anh Thu
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Ho Chi Minh City 700000, Vietnam; , ,
- Vietnam National University, Ho Chi Minh City 700000, Vietnam
| | - Nguyen Phuong Thao
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Ho Chi Minh City 700000, Vietnam; , ,
- Vietnam National University, Ho Chi Minh City 700000, Vietnam
| | - Radomira Vankova
- Laboratory of Hormonal Regulations in Plants, Institute of Experimental Botany, Czech Academy of Sciences, 165 02 Prague 6, Czech Republic; ,
| | - Lam-Son Phan Tran
- Institute of Genomics for Crop Abiotic Stress Tolerance, Department of Plant and Soil Science, Texas Tech University, Lubbock, Texas 79409, USA;
- Stress Adaptation Research Unit, RIKEN Center for Sustainable Resource Science, Tsurumi, Yokohama 230-0045, Japan
| |
Collapse
|
17
|
Lv J, Dai CB, Wang WF, Sun YH. Genome-wide identification of the ARRs gene family in tobacco (Nicotiana tabacum). Genes Genomics 2021; 43:601-612. [PMID: 33772744 DOI: 10.1007/s13258-021-01039-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2020] [Accepted: 01/04/2021] [Indexed: 01/04/2023]
Abstract
BACKGROUND The growth of axillary buds determines the shoot branching and morphology of plants, and its initiation and development are regulated by a series of hormonal signals, such as cytokinin. Arabidopsis response regulators (ARRs) can regulate the growth and development, disease resistance and stress resistance of plants by participating in cytokinin signaling. OBJECTIVE To explore the distribution and expression pattern of ARR members in tobacco. METHODS The identification, isoelectric points, molecular weights, protein subcellular localization prediction, multiple sequence alignment, phylogenetic analysis, protein motifs and structures, chromosome distributions of deduced ARR proteins were conducted. The gene expression profiling of various tissues in response to topping, low temperature and drought were analyzed by RNA-seq and qRT-PCR. RESULTS 59 ARR genes from cultivated tobacco (Nicotiana tabacum) were identified, namely NtARRs, including 21 type A NtARRs and 38 type B NtARRs. The 59 NtARRs were expressed mainly in all organs except the fruits. Some representative NtARRs may participate in axillary bud initiation and development, as well as in stress resistance through cytokinin signal transduction. CONCLUSION Understanding the roles of NtARRs in the molecular mechanisms responsible for axillary bud growth and stress tolerance could aid in targeted breeding in crops.
Collapse
Affiliation(s)
- Jing Lv
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences, Qingdao City, Shandong Province, China
- Key Laboratory for Tobacco Gene Resources, State Tobacco Monopoly Administration, Qingdao, 266101, China
- Graduate School of Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Chang-Bo Dai
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences, Qingdao City, Shandong Province, China
- Key Laboratory for Tobacco Gene Resources, State Tobacco Monopoly Administration, Qingdao, 266101, China
| | - Wei-Feng Wang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences, Qingdao City, Shandong Province, China
- Key Laboratory for Tobacco Gene Resources, State Tobacco Monopoly Administration, Qingdao, 266101, China
| | - Yu-He Sun
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences, Qingdao City, Shandong Province, China.
- Key Laboratory for Tobacco Gene Resources, State Tobacco Monopoly Administration, Qingdao, 266101, China.
| |
Collapse
|
18
|
Chuong NN, Hoang XLT, Nghia DHT, Nguyen NC, Thao DTT, Tran TB, Ngoc TTM, Thu NBA, Nguyen QT, Thao NP. Ectopic expression of GmHP08 enhances resistance of transgenic Arabidopsis toward drought stress. PLANT CELL REPORTS 2021; 40:819-834. [PMID: 33725150 DOI: 10.1007/s00299-021-02677-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2020] [Accepted: 02/22/2021] [Indexed: 06/12/2023]
Abstract
Ectopic expression of Glycine max two-component system member GmHP08 in Arabidopsis enhanced drought tolerance of transgenic plants, possibly via ABA-dependent pathways. Phosphorelay by two-component system (TCS) is a signal transduction mechanism which has been evolutionarily conserved in both prokaryotic and eukaryotic organisms. Previous studies have provided lines of evidence on the involvement of TCS genes in plant perception and responses to environmental stimuli. In this research, drought-associated functions of GmHP08, a TCS member from soybean (Glycine max L.), were investigated via its ectopic expression in Arabidopsis system. Results from the drought survival assay showed that GmHP08-transgenic plants exhibited higher survival rates compared with their wild-type (WT) counterparts, indicating better drought resistance of the former group. Analyses revealed that the transgenic plants outperformed the WT in various regards, i.e. capability of water retention, prevention of hydrogen peroxide accumulation and enhancement of antioxidant enzymatic activities under water-deficit conditions. Additionally, the expression of stress-marker genes, especially antioxidant enzyme-encoding genes, in the transgenic plants were found greater than that of the WT plants. In contrary, the expression of SAG13 gene, one of the senescence-associated genes, and of several abscisic acid (ABA)-related genes was repressed. Data from this study also revealed that the ectopic expression lines at germination and early seedling development stages were hypersensitive to exogenous ABA treatment. Taken together, our results demonstrated that GmHP08 could play an important role in mediating plant response to drought, possibly via an ABA-dependent manner.
Collapse
Affiliation(s)
- Nguyen Nguyen Chuong
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Xuan Lan Thi Hoang
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Duong Hoang Trong Nghia
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Nguyen Cao Nguyen
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Dau Thi Thanh Thao
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Tram Bao Tran
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Tran Thi My Ngoc
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Nguyen Binh Anh Thu
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Quang Thien Nguyen
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam
| | - Nguyen Phuong Thao
- Applied Biotechnology for Crop Development Research Unit, School of Biotechnology, International University, Quarter 6, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam.
- Vietnam National University, Linh Trung Ward, Thu Duc, Ho Chi Minh, 700000, Vietnam.
| |
Collapse
|
19
|
Bhaskar A, Paul LK, Sharma E, Jha S, Jain M, Khurana JP. OsRR6, a type-A response regulator in rice, mediates cytokinin, light and stress responses when over-expressed in Arabidopsis. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021; 161:98-112. [PMID: 33581623 DOI: 10.1016/j.plaphy.2021.01.047] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Accepted: 01/28/2021] [Indexed: 05/27/2023]
Abstract
Plants have evolved a complex network of components that sense and respond to diverse signals. In the present study, we have characterized OsRR6, a type-A response regulator, which is part of the two-component sensor-regulator machinery in rice. The expression of OsRR6 is induced by exogenous cytokinin and various abiotic stress treatments, including drought, cold and salinity stress. Organ-specific expression analysis revealed that its expression is high in anther and low in shoot apical meristem. The Arabidopsis plants constitutively expressing OsRR6 (OsRR6OX) exhibited reduced cytokinin sensitivity, adventitious root formation and enhanced anthocyanin accumulation in seeds. OsRR6OX plants were more tolerant to drought and salinity conditions when compared to wild-type. The hypocotyl growth in OsRR6OX seedlings was significantly inhibited under red, far-red and blue-light conditions and also a decline in transcript levels of OsRR6 was observed in rice under the above monochromatic as well as white light treatments. Transcriptome profiling revealed that the genes associated with defense responses and anthocyanin metabolism are up-regulated in OsRR6OX seedlings. Comparative transcriptome analysis showed that the genes associated with phenylpropanoid and triterpenoid biosynthesis are enriched among differentially expressed genes in OsRR6OX seedlings of Arabidopsis, which is in conformity with reanalysis of the transcriptome data performed in rice transgenics for OsRR6. Further, genes like DREB1A/CBF3, COR15A, KIN1, ERD10 and RD29A are significantly upregulated in OsRR6OX seedlings when subjected to ABA and abiotic stress treatments. Thus, a negative regulator of cytokinin signaling, OsRR6, plays a positive role in imparting abiotic stress tolerance.
Collapse
Affiliation(s)
- Avantika Bhaskar
- Interdisciplinary Centre for Plant Genomics & Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi, 110021, India
| | - Laju K Paul
- Interdisciplinary Centre for Plant Genomics & Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi, 110021, India
| | - Eshan Sharma
- Interdisciplinary Centre for Plant Genomics & Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi, 110021, India
| | - Sampoornananda Jha
- Central Department of Biotechnology, Institute of Science and Technology, Tribhuvan University, Kathmandu, Nepal
| | - Mukesh Jain
- Interdisciplinary Centre for Plant Genomics & Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi, 110021, India; School of Computational & Integrative Sciences, Jawaharlal Nehru University, New Delhi, 110067, India
| | - Jitendra P Khurana
- Interdisciplinary Centre for Plant Genomics & Department of Plant Molecular Biology, University of Delhi South Campus, New Delhi, 110021, India.
| |
Collapse
|
20
|
Rawat N, Singla-Pareek SL, Pareek A. Membrane dynamics during individual and combined abiotic stresses in plants and tools to study the same. PHYSIOLOGIA PLANTARUM 2021; 171:653-676. [PMID: 32949408 DOI: 10.1111/ppl.13217] [Citation(s) in RCA: 50] [Impact Index Per Article: 16.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Revised: 08/25/2020] [Accepted: 09/13/2020] [Indexed: 05/15/2023]
Abstract
The plasma membrane (PM) is possibly the most diverse biological membrane of plant cells; it separates and guards the cell against its external environment. It has an extremely complex structure comprising a mosaic of lipids and proteins. The PM lipids are responsible for maintaining fluidity, permeability and integrity of the membrane and also influence the functioning of membrane proteins. However, the PM is the primary target of environmental stress, which affects its composition, conformation and properties, thereby disturbing the cellular homeostasis. Maintenance of integrity and fluidity of the PM is a prerequisite for ensuring the survival of plants during adverse environmental conditions. The ability of plants to remodel membrane lipid and protein composition plays a crucial role in adaptation towards varying abiotic environmental cues, including high or low temperature, drought, salinity and heavy metals stress. The dynamic changes in lipid composition affect the functioning of membrane transporters and ultimately regulate the physical properties of the membrane. Plant membrane-transport systems play a significant role in stress adaptation by cooperating with the membrane lipidome to maintain the membrane integrity under stressful conditions. The present review provides a holistic view of stress responses and adaptations in plants, especially the changes in the lipidome and proteome of PM under individual or combined abiotic stresses, which cause alterations in the activity of membrane transporters and modifies the fluidity of the PM. The tools to study the varying lipidome and proteome of the PM are also discussed.
Collapse
Affiliation(s)
- Nishtha Rawat
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India
| | - Sneh L Singla-Pareek
- Plant Stress Biology, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Road, New Delhi, 110067, India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India
| |
Collapse
|
21
|
Vaughan-Hirsch J, Tallerday EJ, Burr CA, Hodgens C, Boeshore SL, Beaver K, Melling A, Sari K, Kerr ID, Šimura J, Ljung K, Xu D, Liang W, Bhosale R, Schaller GE, Bishopp A, Kieber JJ. Function of the pseudo phosphotransfer proteins has diverged between rice and Arabidopsis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2021; 106:159-173. [PMID: 33421204 DOI: 10.1111/tpj.15156] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2019] [Revised: 01/04/2021] [Accepted: 01/05/2021] [Indexed: 06/12/2023]
Abstract
The phytohormone cytokinin plays a significant role in nearly all aspects of plant growth and development. Cytokinin signaling has primarily been studied in the dicot model Arabidopsis, with relatively little work done in monocots, which include rice (Oryza sativa) and other cereals of agronomic importance. The cytokinin signaling pathway is a phosphorelay comprised of the histidine kinase receptors, the authentic histidine phosphotransfer proteins (AHPs) and type-B response regulators (RRs). Two negative regulators of cytokinin signaling have been identified: the type-A RRs, which are cytokinin primary response genes, and the pseudo histidine phosphotransfer proteins (PHPs), which lack the His residue required for phosphorelay. Here, we describe the role of the rice PHP genes. Phylogenic analysis indicates that the PHPs are generally first found in the genomes of gymnosperms and that they arose independently in monocots and dicots. Consistent with this, the three rice PHPs fail to complement an Arabidopsis php mutant (aphp1/ahp6). Disruption of the three rice PHPs results in a molecular phenotype consistent with these elements acting as negative regulators of cytokinin signaling, including the induction of a number of type-A RR and cytokinin oxidase genes. The triple php mutant affects multiple aspects of rice growth and development, including shoot morphology, panicle architecture, and seed fill. In contrast to Arabidopsis, disruption of the rice PHPs does not affect root vascular patterning, suggesting that while many aspects of key signaling networks are conserved between monocots and dicots, the roles of at least some cytokinin signaling elements are distinct.
Collapse
Affiliation(s)
| | - Emily J Tallerday
- Department of Biology, University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Christian A Burr
- Department of Biology, University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Charlie Hodgens
- Department of Biology, University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Samantha L Boeshore
- Department of Biology, University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Kevin Beaver
- Department of Biology, University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Allison Melling
- Department of Biology, University of North Carolina, Chapel Hill, NC, 27599, USA
| | - Kartika Sari
- School of Biosciences, University of Nottingham, Loughborough, LE12 5RD, UK
- FKIP, Universitas Muhammadiyah Metro, Lampung, 34111, Indonesia
| | - Ian D Kerr
- University of Nottingham, Loughborough, NG7 2UH, UK
| | - Jan Šimura
- Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences (SLU), Umeå, 901 83, Sweden
| | - Karin Ljung
- Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences (SLU), Umeå, 901 83, Sweden
| | - Dawei Xu
- School of Life Science and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Wanqi Liang
- School of Life Science and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Rahul Bhosale
- School of Biosciences, University of Nottingham, Loughborough, LE12 5RD, UK
- Future Food Beacon of Excellence and School of Biosciences, University of Nottingham, LE12 5RD, UK
| | - G Eric Schaller
- Department of Biological Sciences, Dartmouth College, Hanover, NH, 03755, USA
| | - Anthony Bishopp
- School of Biosciences, University of Nottingham, Loughborough, LE12 5RD, UK
| | - Joseph J Kieber
- Department of Biology, University of North Carolina, Chapel Hill, NC, 27599, USA
| |
Collapse
|
22
|
Singh D, Gupta P, Singla-Pareek SL, Siddique KH, Pareek A. The Journey from Two-Step to Multi-Step Phosphorelay Signaling Systems. Curr Genomics 2021; 22:59-74. [PMID: 34045924 PMCID: PMC8142344 DOI: 10.2174/1389202921666210105154808] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2020] [Revised: 11/21/2020] [Accepted: 12/18/2020] [Indexed: 11/22/2022] Open
Abstract
BACKGROUND The two-component signaling (TCS) system is an important signal transduction machinery in prokaryotes and eukaryotes, excluding animals, that uses a protein phosphorylation mechanism for signal transmission. CONCLUSION Prokaryotes have a primitive type of TCS machinery, which mainly comprises a membrane-bound sensory histidine kinase (HK) and its cognate cytoplasmic response regulator (RR). Hence, it is sometimes referred to as two-step phosphorelay (TSP). Eukaryotes have more sophisticated signaling machinery, with an extra component - a histidine-containing phosphotransfer (HPT) protein that shuttles between HK and RR to communicate signal baggage. As a result, the TSP has evolved from a two-step phosphorelay (His-Asp) in simple prokaryotes to a multi-step phosphorelay (MSP) cascade (His-Asp-His-Asp) in complex eukaryotic organisms, such as plants, to mediate the signaling network. This molecular evolution is also reflected in the form of considerable structural modifications in the domain architecture of the individual components of the TCS system. In this review, we present TCS system's evolutionary journey from the primitive TSP to advanced MSP type across the genera. This information will be highly useful in designing the future strategies of crop improvement based on the individual members of the TCS machinery.
Collapse
Affiliation(s)
| | | | | | | | - Ashwani Pareek
- Address correspondence to this author at the Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi 110067, India; Tel/Fax: 91-11-26704504 / 26742558; E-mail:
| |
Collapse
|
23
|
Genome-Wide Characterization and Expression of Two-Component System Genes in Cytokinin-Regulated Gall Formation in Zizania latifolia. PLANTS 2020; 9:plants9111409. [PMID: 33105697 PMCID: PMC7690396 DOI: 10.3390/plants9111409] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/22/2020] [Revised: 10/17/2020] [Accepted: 10/20/2020] [Indexed: 11/16/2022]
Abstract
The thickening of Zizania latifolia shoots, referred to as gall formation, depends on infection with the fungal endophyte Ustilago esculenta. The swollen and juicy shoots are a popular vegetable in Asia. A key role for cytokinin action in this process was postulated. Here, trans-zeatin stimulated swelling in fungi-infected Z. latifolia. A two-component system (TCS) linked cytokinin binding to receptors with transcriptional regulation in the nucleus and played important roles in diverse biological processes. We characterized 69 TCS genes encoding for 25 histidine kinase/histidine-kinase-like (HK(L)) (21 HKs and 4 HKLs), 8 histidine phosphotransfer proteins (HP) (5 authentic and 3 pseudo), and 36 response regulators (RR; 14 type A, 14 type B, 2 type C, and 6 pseudo) in the genome of Z. latifolia. These TCS genes have a close phylogenetic relationship with their rice counterparts. Nineteen duplicated TCS gene pairs were found and the ratio of nonsynonymous to synonymous mutations indicated that a strong purifying selection acted on these duplicated genes, leading to few mutations during evolution. Finally, ZlCHK1, ZlRRA5, ZIRRA9, ZlRRA10, ZlPRR1, and ZlPHYA expression was associated with gall formation. Among them, ARR5, ARR9, and ZlPHYA are quickly induced by trans-zeatin, suggesting a role for cytokinin signaling in shoot swelling of Z. latifolia.
Collapse
|
24
|
Liu P, Wang S, Wang X, Yang X, Li Q, Wang C, Chen C, Shi Q, Ren Z, Wang L. Genome-wide characterization of two-component system (TCS) genes in melon (Cucumis melo L.). PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 151:197-213. [PMID: 32229405 DOI: 10.1016/j.plaphy.2020.03.017] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2019] [Revised: 03/12/2020] [Accepted: 03/14/2020] [Indexed: 06/10/2023]
Abstract
To better understand cytokinin signaling in melon (Cucumis melo L.), one of the most important fruit crops in the Cucurbitaceae family, we identified and characterized melon two-component system (TCS) genes in this study. The results showed that there were 51 genes encoding putative TCS proteins in melon, and these TCS genes were classified into 3 subgroups, with 17 HK(L)s (histidine kinase/histidine-kinase like; 9 HKs and 8 HKLs), 9 HPs (histidine phosphotransfer proteins; 6 authentic and 3 pseudo), and 25 RRs (response regulators; 8 Type-A, 11 Type-B and 6 pseudo). The identity values of these cytokinin signaling proteins were revealed by analyzing their conserved motifs, domains and amino acid sequences. By analyzing TCS genes in different plant species, we found that melon HK(L)s, HPs and RRs had closer phylogenetic relationships with cucumber genes than with the genes of other plants, and the expansion of melon cytokinin signaling genes might be attributed to segmental duplication events. Analysis of the putative promoter regions (2-kb upstream regions of the start codon) revealed the enrichment of stress- and hormone-response cis-elements. The involvement of these putative TCS genes in melon cytokinin signaling was further supported by qRT-PCR data.
Collapse
Affiliation(s)
- Panjing Liu
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China
| | - Shuoshuo Wang
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China
| | - Xiangfei Wang
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China
| | - Xiaoyu Yang
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, China
| | - Qiang Li
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China
| | - Chao Wang
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China
| | - Chunhua Chen
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China
| | - Qinghua Shi
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China
| | - Zhonghai Ren
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China.
| | - Lina Wang
- State Key Laboratory of Crop Biology, Tai'an, China; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Huanghuai Region), Tai'an, China; College of Horticulture Science and Engineering, Shandong Agricultural University, Tai'an, China.
| |
Collapse
|
25
|
Histidine kinase MHZ1/OsHK1 interacts with ethylene receptors to regulate root growth in rice. Nat Commun 2020; 11:518. [PMID: 31980616 PMCID: PMC6981129 DOI: 10.1038/s41467-020-14313-0] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2018] [Accepted: 12/27/2019] [Indexed: 02/02/2023] Open
Abstract
Ethylene plays essential roles during adaptive responses to water-saturating environments in rice, but knowledge of its signaling mechanism remains limited. Here, through an analysis of a rice ethylene-response mutant mhz1, we show that MHZ1 positively modulates root ethylene responses. MHZ1 encodes the rice histidine kinase OsHK1. MHZ1/OsHK1 is autophosphorylated at a conserved histidine residue and can transfer the phosphoryl signal to the response regulator OsRR21 via the phosphotransfer proteins OsAHP1/2. This phosphorelay pathway is required for root ethylene responses. Ethylene receptor OsERS2, via its GAF domain, physically interacts with MHZ1/OsHK1 and inhibits its kinase activity. Genetic analyses suggest that MHZ1/OsHK1 acts at the level of ethylene perception and works together with the OsEIN2-mediated pathway to regulate root growth. Our results suggest that MHZ1/OsHK1 mediates the ethylene response partially independently of OsEIN2, and is directly inhibited by ethylene receptors, thus revealing mechanistic details of ethylene signaling for root growth regulation.
Collapse
|
26
|
Yamburenko MV, Worthen JM, Zeenat A, Azhar BJ, Swain S, Couitt AR, Shakeel SN, Kieber JJ, Schaller GE. Functional Analysis of the Rice Type-B Response Regulator RR22. FRONTIERS IN PLANT SCIENCE 2020; 11:577676. [PMID: 33240296 PMCID: PMC7683409 DOI: 10.3389/fpls.2020.577676] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Accepted: 10/14/2020] [Indexed: 05/15/2023]
Abstract
The phytohormone cytokinin plays a critical role in regulating growth and development throughout the life cycle of the plant. The primary transcriptional response to cytokinin is mediated by the action of the type-B response regulators (RRs), with much of our understanding for their functional roles being derived from studies in the dicot Arabidopsis. To examine the roles played by type-B RRs in a monocot, we employed gain-of-function and loss-of-function mutations to characterize RR22 function in rice. Ectopic overexpression of RR22 in rice results in an enhanced cytokinin response based on molecular and physiological assays. Phenotypes associated with enhanced activity of RR22 include effects on leaf and root growth, inflorescence architecture, and trichome formation. Analysis of four Tos17 insertion alleles of RR22 revealed effects on inflorescence architecture, trichomes, and development of the stigma brush involved in pollen capture. Both loss- and gain-of-function RR22 alleles affected the number of leaf silica-cell files, which provide mechanical stability and improve resistance to pathogens. Taken together, these results indicate that a delicate balance of cytokinin transcriptional activity is necessary for optimal growth and development in rice.
Collapse
Affiliation(s)
- Maria V. Yamburenko
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
| | - Jennifer M. Worthen
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
| | - Asyia Zeenat
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
- Department of Biochemistry, Quaid-i-Azam University, Islamabad, Pakistan
| | - Beenish J. Azhar
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
- Department of Biochemistry, Quaid-i-Azam University, Islamabad, Pakistan
| | - Swadhin Swain
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
| | - Adam R. Couitt
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
| | - Samina N. Shakeel
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
- Department of Biochemistry, Quaid-i-Azam University, Islamabad, Pakistan
| | - Joseph J. Kieber
- Department of Biology, University of North Carolina, Chapel Hill, NC, United States
| | - G. Eric Schaller
- Department of Biological Sciences, Dartmouth College, Hanover, NH, United States
- *Correspondence: G. Eric Schaller,
| |
Collapse
|
27
|
Gujjar RS, Supaibulwatana K. The Mode of Cytokinin Functions Assisting Plant Adaptations to Osmotic Stresses. PLANTS (BASEL, SWITZERLAND) 2019; 8:E542. [PMID: 31779090 PMCID: PMC6963579 DOI: 10.3390/plants8120542] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/01/2019] [Revised: 10/29/2019] [Accepted: 11/01/2019] [Indexed: 01/15/2023]
Abstract
Plants respond to abiotic stresses by activating a specific genetic program that supports survival by developing robust adaptive mechanisms. This leads to accelerated senescence and reduced growth, resulting in negative agro-economic impacts on crop productivity. Cytokinins (CKs) customarily regulate various biological processes in plants, including growth and development. In recent years, cytokinins have been implicated in adaptations to osmotic stresses with improved plant growth and yield. Endogenous CK content under osmotic stresses can be enhanced either by transforming plants with a bacterial isopentenyl transferase (IPT) gene under the control of a stress inducible promoter or by exogenous application of synthetic CKs. CKs counteract osmotic stress-induced premature senescence by redistributing soluble sugars and inhibiting the expression of senescence-associated genes. Elevated CK contents under osmotic stress antagonize abscisic acid (ABA) signaling and ABA mediated responses, delay leaf senescence, reduce reactive oxygen species (ROS) damage and lipid peroxidation, improve plant growth, and ameliorate osmotic stress adaptability in plants.
Collapse
Affiliation(s)
- Ranjit Singh Gujjar
- Department of Biotechnology, Faculty of Science, Mahidol University, Bangkok 10400, Thailand;
- Division of Crop Improvement, Indian Institute of Sugarcane Research, Lucknow 226002, India
| | | |
Collapse
|
28
|
Dhar YV, Lakhwani D, Pandey A, Singh S, Trivedi PK, Asif MH. Genome-wide identification and interactome analysis of members of two-component system in Banana. BMC Genomics 2019; 20:674. [PMID: 31455217 PMCID: PMC6712864 DOI: 10.1186/s12864-019-6050-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2019] [Accepted: 08/20/2019] [Indexed: 12/18/2022] Open
Abstract
BACKGROUND Ethylene signal transduction in plants is conducted by the two-component system (TCS) which consists of histidine kinase (HK), histidine phosphotransferase (HPT) and response regulators (RRs). This system plays an important role in signal transduction during various cellular processes, including fruit ripening and response to multiple environmental cues. Though members of TCS have been identified in a few plants, no detailed analysis has been carried out in banana. RESULTS Through genome-wide analysis, we identified a total of 80 (25 HK, 10 HPT and 45 RR) and 72 (25 HK, 5 HPT and 42 RR) TCS genes in Musa acuminata and Musa balbisiana respectively. The analysis of identified genes revealed that most of the genes are highly conserved however; there are subtle divergences among various members. Comparative expression analysis revealed an involvement of a set of TCS members during banana fruit ripening. Co-expression network analysis identified a working TCS module with direct interactions of HK-HPT and RR members. The molecular dynamics analysis of TCS module showed a significant change in structural trajectories of TCS proteins in the presence of ethylene. Analysis suggests possible interactions between the HK-HPTs and RRs as well as other members leading to banana fruit ripening. CONCLUSIONS In this study, we identified and compared the members of TCS gene family in two banana species and showed their diversity, within groups on the basis of whole-genome duplication events. Our analysis showed that during banana fruit ripening TCS module plays a crucial role. We also demonstrated a possible interaction mechanism of TCS proteins in the presence and absence of ethylene by molecular dynamics simulations. These findings will help in understanding the functional mechanism of TCS proteins in plants in different conditions.
Collapse
Affiliation(s)
- Yogeshwar V Dhar
- CSIR-National Botanical Research Institute (CSIR-NBRI), Rana Pratap Marg, Lucknow, 226001, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Deepika Lakhwani
- CSIR-National Botanical Research Institute (CSIR-NBRI), Rana Pratap Marg, Lucknow, 226001, India.,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Ashutosh Pandey
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, P.O. Box No. 10531, New Delhi, 110 067, India
| | - Shikha Singh
- CSIR-National Botanical Research Institute (CSIR-NBRI), Rana Pratap Marg, Lucknow, 226001, India
| | - Prabodh K Trivedi
- CSIR-National Botanical Research Institute (CSIR-NBRI), Rana Pratap Marg, Lucknow, 226001, India. .,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
| | - Mehar H Asif
- CSIR-National Botanical Research Institute (CSIR-NBRI), Rana Pratap Marg, Lucknow, 226001, India. .,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
| |
Collapse
|
29
|
Kabbara S, Hérivaux A, Dugé de Bernonville T, Courdavault V, Clastre M, Gastebois A, Osman M, Hamze M, Cock JM, Schaap P, Papon N. Diversity and Evolution of Sensor Histidine Kinases in Eukaryotes. Genome Biol Evol 2019; 11:86-108. [PMID: 30252070 PMCID: PMC6324907 DOI: 10.1093/gbe/evy213] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/24/2018] [Indexed: 12/20/2022] Open
Abstract
Histidine kinases (HKs) are primary sensor proteins that act in cell signaling pathways generically referred to as "two-component systems" (TCSs). TCSs are among the most widely distributed transduction systems used by both prokaryotic and eukaryotic organisms to detect and respond to a broad range of environmental cues. The structure and distribution of HK proteins are now well documented in prokaryotes, but information is still fragmentary for eukaryotes. Here, we have taken advantage of recent genomic resources to explore the structural diversity and the phylogenetic distribution of HKs in the prominent eukaryotic supergroups. Searches of the genomes of 67 eukaryotic species spread evenly throughout the phylogenetic tree of life identified 748 predicted HK proteins. Independent phylogenetic analyses of predicted HK proteins were carried out for each of the major eukaryotic supergroups. This allowed most of the compiled sequences to be categorized into previously described HK groups. Beyond the phylogenetic analysis of eukaryotic HKs, this study revealed some interesting findings: 1) characterization of some previously undescribed eukaryotic HK groups with predicted functions putatively related to physiological traits; 2) discovery of HK groups that were previously believed to be restricted to a single kingdom in additional supergroups, and 3) indications that some evolutionary paths have led to the appearance, transfer, duplication, and loss of HK genes in some phylogenetic lineages. This study provides an unprecedented overview of the structure and distribution of HKs in the Eukaryota and represents a first step toward deciphering the evolution of TCS signaling in living organisms.
Collapse
Affiliation(s)
- Samar Kabbara
- Groupe d’Etude des Interactions Hôte-Pathogène, GEIHP, EA3142, Université d’Angers, SFR 4208 ICAT, France
| | - Anaïs Hérivaux
- Groupe d’Etude des Interactions Hôte-Pathogène, GEIHP, EA3142, Université d’Angers, SFR 4208 ICAT, France
| | | | - Vincent Courdavault
- Biomolécules et Biotechnologies Végétales, BBV, EA2106, Université François Rabelais de Tours, France
| | - Marc Clastre
- Biomolécules et Biotechnologies Végétales, BBV, EA2106, Université François Rabelais de Tours, France
| | - Amandine Gastebois
- Groupe d’Etude des Interactions Hôte-Pathogène, GEIHP, EA3142, Université d’Angers, SFR 4208 ICAT, France
| | - Marwan Osman
- Laboratoire Microbiologie Santé et Environnement, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - Monzer Hamze
- Laboratoire Microbiologie Santé et Environnement, Faculté de Santé Publique, Université Libanaise, Tripoli, Lebanon
| | - J Mark Cock
- Algal Genetics Group, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, Sorbonne Université, UPMC Université Paris 06, CNRS, Roscoff, France
| | - Pauline Schaap
- School of Life Sciences, University of Dundee, United Kingdom
| | - Nicolas Papon
- Groupe d’Etude des Interactions Hôte-Pathogène, GEIHP, EA3142, Université d’Angers, SFR 4208 ICAT, France
| |
Collapse
|
30
|
Abstract
The phytohormone cytokinin plays diverse roles in plant development, influencing many agriculturally important processes, including growth, nutrient responses and the response to biotic and abiotic stresses. Cytokinin levels in plants are regulated by biosynthesis and inactivation pathways. Cytokinins are perceived by membrane-localized histidine-kinase receptors and are transduced through a His-Asp phosphorelay to activate a family of transcription factors in the nucleus. Here, and in the accompanying poster, we summarize the current understanding of cytokinin metabolism, transport and signaling, and discuss how this phytohormone regulates changes in gene expression to mediate its pleiotropic effects.
Collapse
Affiliation(s)
- Joseph J Kieber
- University of North Carolina, Biology Department, Chapel Hill, NC 27599-3280, USA
| | - G Eric Schaller
- Dartmouth College, Department of Biological Sciences, Hanover, NH 03755, USA
| |
Collapse
|
31
|
Sharan A, Soni P, Nongpiur RC, Singla-Pareek SL, Pareek A. Mapping the 'Two-component system' network in rice. Sci Rep 2017; 7:9287. [PMID: 28839155 PMCID: PMC5571105 DOI: 10.1038/s41598-017-08076-w] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2017] [Accepted: 07/06/2017] [Indexed: 01/20/2023] Open
Abstract
Two-component system (TCS) in plants is a histidine to aspartate phosphorelay based signaling system. Rice genome has multifarious TCS signaling machinery comprising of 11 histidine kinases (OsHKs), 5 histidine phosphotransferases (OsHPTs) and 36 response regulators (OsRRs). However, how these TCS members interact with each other and comprehend diverse signaling cascades remains unmapped. Using a highly stringent yeast two-hybrid (Y2H) platform and extensive in planta bimolecular fluorescence complementation (BiFC) assays, distinct arrays of interaction between various TCS proteins have been identified in the present study. Based on these results, an interactome map of TCS proteins has been assembled. This map clearly shows a cross talk in signaling, mediated by different sensory OsHKs. It also highlights OsHPTs as the interaction hubs, which interact with OsRRs, mostly in a redundant fashion. Remarkably, interactions between type-A and type-B OsRRs have also been revealed for the first time. These observations suggest that feedback regulation by type-A OsRRs may also be mediated by interference in signaling at the level of type-B OsRRs, in addition to OsHPTs, as known previously. The interactome map presented here provides a starting point for in-depth molecular investigations for signal(s) transmitted by various TCS modules into diverse biological processes.
Collapse
Affiliation(s)
- Ashutosh Sharan
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Praveen Soni
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Ramsong Chantre Nongpiur
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Sneh L Singla-Pareek
- Plant Stress Biology, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, India.
| |
Collapse
|
32
|
Yamburenko MV, Kieber JJ, Schaller GE. Dynamic patterns of expression for genes regulating cytokinin metabolism and signaling during rice inflorescence development. PLoS One 2017; 12:e0176060. [PMID: 28419168 PMCID: PMC5395194 DOI: 10.1371/journal.pone.0176060] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2017] [Accepted: 04/04/2017] [Indexed: 11/18/2022] Open
Abstract
Inflorescence development in cereals, including such important crops as rice, maize, and wheat, directly affects grain number and size and is a key determinant of yield. Cytokinin regulates meristem size and activity and, as a result, has profound effects on inflorescence development and architecture. To clarify the role of cytokinin action in inflorescence development, we used the NanoString nCounter system to analyze gene expression in the early stages of rice panicle development, focusing on 67 genes involved in cytokinin biosynthesis, degradation, and signaling. Results point toward key members of these gene families involved in panicle development and indicate that the expression of many genes involved in cytokinin action differs between the panicle and vegetative tissues. Dynamic patterns of gene expression suggest that subnetworks mediate cytokinin action during different stages of panicle development. The variation of expression during panicle development is greater among genes encoding proteins involved in cytokinin metabolism and negative regulators of the pathway than for the genes in the primary response pathway. These results provide insight into the expression patterns of genes involved in cytokinin action during inflorescence development in a crop of agricultural importance, with relevance to similar processes in other monocots. The identification of subnetworks of genes expressed at different stages of early panicle development suggests that manipulation of their expression could have substantial effects on inflorescence architecture.
Collapse
Affiliation(s)
- Maria V. Yamburenko
- Department of Biological Sciences, Dartmouth College, Hanover, New Hampshire, United States of America
| | - Joseph J. Kieber
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina, United States of America
| | - G. Eric Schaller
- Department of Biological Sciences, Dartmouth College, Hanover, New Hampshire, United States of America
- * E-mail:
| |
Collapse
|
33
|
Gupta P, Nutan KK, Singla-Pareek SL, Pareek A. Abiotic Stresses Cause Differential Regulation of Alternative Splice Forms of GATA Transcription Factor in Rice. FRONTIERS IN PLANT SCIENCE 2017; 8:1944. [PMID: 29181013 PMCID: PMC5693882 DOI: 10.3389/fpls.2017.01944] [Citation(s) in RCA: 66] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2017] [Accepted: 10/30/2017] [Indexed: 05/05/2023]
Abstract
The GATA gene family is one of the most conserved families of transcription factors, playing a significant role in different aspects of cellular processes, in organisms ranging from fungi to angiosperms. GATA transcription factors are DNA-binding proteins, having a class IV zinc-finger motif CX2CX17-20CX2C followed by a highly basic region and are known to bind a consensus sequence WGATAR. In plants, GATAs are known to be involved in light-dependent gene regulation and nitrate assimilation. However, a comprehensive analysis of these GATA gene members has not yet been highlighted in rice when subjected to environmental stresses. In this study, we present an overview of the GATA gene family in rice (OsGATA) in terms of, their chromosomal distribution, domain architecture, and phylogeny. Our study has revealed the presence of 28 genes, encoding 35 putative GATA transcription factors belonging to seven subfamilies in the rice genome. Transcript abundance analysis in contrasting genotypes of rice-IR64 (salt sensitive) and Pokkali (salt tolerant), for individual GATA members indicated their differential expression in response to various abiotic stresses such as salinity, drought, and exogenous ABA. One of the members of subfamily VII-OsGATA23a, emerged as a multi-stress responsive transcription factor giving elevated expression levels in response to salinity and drought. ABA also induces expression of OsGATA23a by 35 and 55-folds in IR64 and Pokkali respectively. However, OsGATA23b, an alternative splice variant of OsGATA23 did not respond to above-mentioned stresses. Developmental regulation of the OsGATA genes based on a publicly available microarray database showed distinct expression patterns for most of the GATA members throughout different stages of rice development. Altogether, our results suggest inherent roles of diverse OsGATA factors in abiotic stress signaling and also throw some light on the tight regulation of the spliced variants of OsGATA genes in response to different environmental conditions.
Collapse
Affiliation(s)
- Priyanka Gupta
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Kamlesh K. Nutan
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, India
| | - Sneh L. Singla-Pareek
- Plant Stress Biology, International Centre for Genetic Engineering and Biotechnology, New Delhi, India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, India
- *Correspondence: Ashwani Pareek
| |
Collapse
|
34
|
Kudo T, Terashima S, Takaki Y, Tomita K, Saito M, Kanno M, Yokoyama K, Yano K. PlantExpress: A Database Integrating OryzaExpress and ArthaExpress for Single-species and Cross-species Gene Expression Network Analyses with Microarray-Based Transcriptome Data. PLANT & CELL PHYSIOLOGY 2017; 58:e1. [PMID: 28158643 DOI: 10.1093/pcp/pcw208] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2016] [Accepted: 11/19/2016] [Indexed: 06/06/2023]
Abstract
Publicly available microarray-based transcriptome data on plants are remarkably valuable in terms of abundance and variation of samples, particularly for Oryza sativa (rice) and Arabidopsis thaliana (Arabidopsis). Here, we introduce the web database PlantExpress (http://plantomics.mind.meiji.ac.jp/PlantExpress/) as a platform for gene expression network (GEN) analysis with the public microarray data of rice and Arabidopsis. PlantExpress has two functional modes. The single-species mode is specialized for GEN analysis within one of the species, while the cross-species mode is optimized for comparative GEN analysis between the species. The single-species mode for rice is the new version of OryzaExpress, which we have maintained since 2006. The single-species mode for Arabidopsis, named ArthaExpress, was newly developed. PlantExpress stores data obtained from three microarrays, the Affymetrix Rice Genome Array, the Agilent Rice Gene Expression 4x44K Microarray, and the Affymetrix Arabidopsis ATH1 Genome Array, with respective totals of 2,678, 1,206, and 10,940 samples. This database employs a ‘MyList’ function with which users may save lists of arbitrary genes and samples (experimental conditions) to use in analyses. In cross-species mode, the MyList function allows performing comparative GEN analysis between rice and Arabidopsis. In addition, the gene lists saved in MyList can be directly exported to the PODC database, which provides information and a platform for comparative GEN analysis based on RNA-seq data and knowledge-based functional annotation of plant genes. PlantExpress will facilitate understanding the biological functions of plant genes.
Collapse
Affiliation(s)
- Toru Kudo
- Bioinformatics Laboratory, School of Agriculture, Meiji University, Higashi-mita, Tama-ku, Kawasaki, Kanagawa, Japan
| | - Shin Terashima
- Bioinformatics Laboratory, School of Agriculture, Meiji University, Higashi-mita, Tama-ku, Kawasaki, Kanagawa, Japan
| | - Yuno Takaki
- Bioinformatics Laboratory, School of Agriculture, Meiji University, Higashi-mita, Tama-ku, Kawasaki, Kanagawa, Japan
| | - Ken Tomita
- Bioinformatics Laboratory, School of Agriculture, Meiji University, Higashi-mita, Tama-ku, Kawasaki, Kanagawa, Japan
| | - Misa Saito
- Bioinformatics Laboratory, School of Agriculture, Meiji University, Higashi-mita, Tama-ku, Kawasaki, Kanagawa, Japan
| | - Maasa Kanno
- Bioinformatics Laboratory, School of Agriculture, Meiji University, Higashi-mita, Tama-ku, Kawasaki, Kanagawa, Japan
| | - Koji Yokoyama
- Bioinformatics Laboratory, School of Agriculture, Meiji University, Higashi-mita, Tama-ku, Kawasaki, Kanagawa, Japan
| | - Kentaro Yano
- Bioinformatics Laboratory, School of Agriculture, Meiji University, Higashi-mita, Tama-ku, Kawasaki, Kanagawa, Japan
| |
Collapse
|
35
|
Functional Divergence of Poplar Histidine-Aspartate Kinase HK1 Paralogs in Response to Osmotic Stress. Int J Mol Sci 2016; 17:ijms17122061. [PMID: 27941652 PMCID: PMC5187861 DOI: 10.3390/ijms17122061] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2016] [Revised: 12/01/2016] [Accepted: 12/03/2016] [Indexed: 11/29/2022] Open
Abstract
Previous works have shown the existence of protein partnerships belonging to a MultiStep Phosphorelay (MSP) in Populus putatively involved in osmosensing. This study is focused on the identification of a histidine-aspartate kinase, HK1b, paralog of HK1a. The characterization of HK1b showed its ability to homo- and hetero-dimerize and to interact with a few Histidine-containing Phosphotransfer (HPt) proteins, suggesting a preferential partnership in poplar MSP linked to drought perception. Furthermore, determinants for interaction specificity between HK1a/1b and HPts were studied by mutagenesis analysis, identifying amino acids involved in this specificity. The HK1b expression analysis in different poplar organs revealed its co-expression with three HPts, reinforcing the hypothesis of partnership participation in the MSP in planta. Moreover, HK1b was shown to act as an osmosensor with kinase activity in a functional complementation assay of an osmosensor deficient yeast strain. These results revealed that HK1b showed a different behaviour for canonical phosphorylation of histidine and aspartate residues. These phosphorylation modularities of canonical amino acids could explain the improved osmosensor performances observed in yeast. As conserved duplicates reflect the selective pressures imposed by the environmental requirements on the species, our results emphasize the importance of HK1 gene duplication in poplar adaptation to drought stress.
Collapse
|
36
|
Agarwal P, Parida SK, Raghuvanshi S, Kapoor S, Khurana P, Khurana JP, Tyagi AK. Rice Improvement Through Genome-Based Functional Analysis and Molecular Breeding in India. RICE (NEW YORK, N.Y.) 2016; 9:1. [PMID: 26743769 PMCID: PMC4705060 DOI: 10.1186/s12284-015-0073-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2015] [Accepted: 12/22/2015] [Indexed: 05/05/2023]
Abstract
Rice is one of the main pillars of food security in India. Its improvement for higher yield in sustainable agriculture system is also vital to provide energy and nutritional needs of growing world population, expected to reach more than 9 billion by 2050. The high quality genome sequence of rice has provided a rich resource to mine information about diversity of genes and alleles which can contribute to improvement of useful agronomic traits. Defining the function of each gene and regulatory element of rice remains a challenge for the rice community in the coming years. Subsequent to participation in IRGSP, India has continued to contribute in the areas of diversity analysis, transcriptomics, functional genomics, marker development, QTL mapping and molecular breeding, through national and multi-national research programs. These efforts have helped generate resources for rice improvement, some of which have already been deployed to mitigate loss due to environmental stress and pathogens. With renewed efforts, Indian researchers are making new strides, along with the international scientific community, in both basic research and realization of its translational impact.
Collapse
Affiliation(s)
- Pinky Agarwal
- National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Swarup K Parida
- National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi, 110067, India
| | - Saurabh Raghuvanshi
- Interdisciplinary Centre for Plant Genomics and Department of Plant Molecular Biology, University of Delhi, South Campus, New Delhi, 110021, India
| | - Sanjay Kapoor
- Interdisciplinary Centre for Plant Genomics and Department of Plant Molecular Biology, University of Delhi, South Campus, New Delhi, 110021, India
| | - Paramjit Khurana
- Interdisciplinary Centre for Plant Genomics and Department of Plant Molecular Biology, University of Delhi, South Campus, New Delhi, 110021, India
| | - Jitendra P Khurana
- Interdisciplinary Centre for Plant Genomics and Department of Plant Molecular Biology, University of Delhi, South Campus, New Delhi, 110021, India
| | - Akhilesh K Tyagi
- National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, New Delhi, 110067, India.
- Interdisciplinary Centre for Plant Genomics and Department of Plant Molecular Biology, University of Delhi, South Campus, New Delhi, 110021, India.
| |
Collapse
|
37
|
He Y, Liu X, Ye L, Pan C, Chen L, Zou T, Lu G. Genome-Wide Identification and Expression Analysis of Two-Component System Genes in Tomato. Int J Mol Sci 2016; 17:ijms17081204. [PMID: 27472316 PMCID: PMC5000602 DOI: 10.3390/ijms17081204] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2016] [Revised: 07/03/2016] [Accepted: 07/15/2016] [Indexed: 02/05/2023] Open
Abstract
The two-component system (TCS), which comprises histidine kinases (HKs), phosphotransfers (HPs), and response regulator proteins (RRs), plays pivotal roles in regulating plant growth, development, and responses to biotic and abiotic stresses. TCS genes have been comprehensively identified and investigated in various crops but poorly characterized in tomato. In this work, a total of 65 TCS genes consisting of 20 HK(L)s, six HPs, and 39 RRs were identified from tomato genome. The classification, gene structures, conserved domains, chromosome distribution, phylogenetic relationship, gene duplication events, and subcellular localization of the TCS gene family were predicted and analyzed in detail. The amino acid sequences of tomato TCS family members, except those of type-B RRs, are highly conserved. The gene duplication events of the TCS family mainly occurred in the RR family. Furthermore, the expansion of RRs was attributed to both segment and tandem duplication. The subcellular localizations of the selected green fluorescent protein (GFP) fusion proteins exhibited a diverse subcellular targeting, thereby confirming their predicted divergent functionality. The majority of TCS family members showed distinct organ- or development-specific expression patterns. In addition, most of TCS genes were induced by abiotic stresses and exogenous phytohormones. The full elucidation of TCS elements will be helpful for comprehensive analysis of the molecular biology and physiological role of the TCS superfamily.
Collapse
Affiliation(s)
- Yanjun He
- Department of Horticulture, Zhejiang University, Hangzhou 310058, China.
| | - Xue Liu
- Department of Horticulture, Zhejiang University, Hangzhou 310058, China.
| | - Lei Ye
- Department of Horticulture, Zhejiang University, Hangzhou 310058, China.
| | - Changtian Pan
- Department of Horticulture, Zhejiang University, Hangzhou 310058, China.
| | - Lifei Chen
- Department of Horticulture, Zhejiang University, Hangzhou 310058, China.
| | - Tao Zou
- Department of Horticulture, Zhejiang University, Hangzhou 310058, China.
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Hangzhou 310058, China.
| | - Gang Lu
- Department of Horticulture, Zhejiang University, Hangzhou 310058, China.
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Hangzhou 310058, China.
| |
Collapse
|
38
|
He Y, Liu X, Zou T, Pan C, Qin L, Chen L, Lu G. Genome-Wide Identification of Two-Component System Genes in Cucurbitaceae Crops and Expression Profiling Analyses in Cucumber. FRONTIERS IN PLANT SCIENCE 2016; 7:899. [PMID: 27446129 PMCID: PMC4916222 DOI: 10.3389/fpls.2016.00899] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2016] [Accepted: 06/07/2016] [Indexed: 05/30/2023]
Abstract
Cucumber and watermelon, which belong to Cucurbitaceae family, are economically important cultivated crops worldwide. However, these crops are vulnerable to various adverse environments. Two-component system (TCS), consisting of histidine kinases (HKs), phosphotransfers (HPs), and response regulator proteins (RRs), plays important roles in various plant developmental processes and signaling transduction in responses to a wide range of biotic and abiotic stresses. No systematic investigation has been conducted on TCS genes in Cucurbitaceae species. Based on the completion of the cucumber and watermelon genome draft, we identified 46 and 49 TCS genes in cucumber and watermelon, respectively. The cucumber TCS members included 18 HK(L)s, 7 HPs, and 21 RRs, whereas the watermelon TCS system consisted of 19 HK(L)s, 6 HPs, and 24 RRs. The sequences and domains of TCS members from these two species were highly conserved. Gene duplication events occurred rarely, which might have resulted from the absence of recent whole-genome duplication event in these two Cucurbitaceae crops. Numerous stress- and hormone-responsive cis-elements were detected in the putative promoter regions of the cucumber TCS genes. Meanwhile, quantitative real-time PCR indicated that most of the TCS genes in cucumber were specifically or preferentially expressed in certain tissues or organs, especially in the early developing fruit. Some TCS genes exhibited diverse patterns of gene expression in response to abiotic stresses as well as exogenous trans-zeatin (ZT) and abscisic acid (ABA) treatment, suggesting that TCS genes might play significant roles in responses to various abiotic stresses and hormones in Cucurbitaceae crops.
Collapse
Affiliation(s)
- Yanjun He
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Department of Horticulture, Zhejiang UniversityHangzhou, China
| | - Xue Liu
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Department of Horticulture, Zhejiang UniversityHangzhou, China
| | - Tao Zou
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Department of Horticulture, Zhejiang UniversityHangzhou, China
| | - Changtian Pan
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Department of Horticulture, Zhejiang UniversityHangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative BiologyHangzhou, China
| | - Li Qin
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Department of Horticulture, Zhejiang UniversityHangzhou, China
| | - Lifei Chen
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Department of Horticulture, Zhejiang UniversityHangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative BiologyHangzhou, China
| | - Gang Lu
- Key Laboratory of Horticultural Plant Growth, Development and Biotechnology, Agricultural Ministry of China, Department of Horticulture, Zhejiang UniversityHangzhou, China
- Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative BiologyHangzhou, China
| |
Collapse
|
39
|
Singh A, Jethva M, Singla-Pareek SL, Pareek A, Kushwaha HR. Analyses of Old "Prokaryotic" Proteins Indicate Functional Diversification in Arabidopsis and Oryza sativa. FRONTIERS IN PLANT SCIENCE 2016; 7:304. [PMID: 27014324 PMCID: PMC4792156 DOI: 10.3389/fpls.2016.00304] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Accepted: 02/26/2016] [Indexed: 06/05/2023]
Abstract
During evolution, various processes such as duplication, divergence, recombination, and many other events leads to the evolution of new genes with novel functions. These evolutionary events, thus significantly impact the evolution of cellular, physiological, morphological, and other phenotypic trait of organisms. While evolving, eukaryotes have acquired large number of genes from the earlier prokaryotes. This work is focused upon identification of old "prokaryotic" proteins in Arabidopsis and Oryza sativa genome, further highlighting their possible role(s) in the two genomes. Our results suggest that with respect to their genome size, the fraction of old "prokaryotic" proteins is higher in Arabidopsis than in Oryza sativa. The large fractions of such proteins encoding genes were found to be localized in various endo-symbiotic organelles. The domain architecture of the old "prokaryotic" proteins revealed similar distribution in both Arabidopsis and Oryza sativa genomes showing their conserved evolution. In Oryza sativa, the old "prokaryotic" proteins were more involved in developmental processes, might be due to constant man-made selection pressure for better agronomic traits/productivity. While in Arabidopsis, these proteins were involved in metabolic functions. Overall, the analysis indicates the distinct pattern of evolution of old "prokaryotic" proteins in Arabidopsis and Oryza sativa.
Collapse
Affiliation(s)
- Anupama Singh
- School of Computational and Integrative Sciences, Jawaharlal Nehru UniversityNew Delhi, India
| | - Minesh Jethva
- International Center for Genetic Engineering and BiotechnologyNew Delhi, India
| | - Sneh L. Singla-Pareek
- Plant Stress Biology, International Center for Genetic Engineering and BiotechnologyNew Delhi, India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru UniversityNew Delhi, India
| | - Hemant R. Kushwaha
- International Center for Genetic Engineering and BiotechnologyNew Delhi, India
| |
Collapse
|
40
|
Chanclud E, Kisiala A, Emery NRJ, Chalvon V, Ducasse A, Romiti-Michel C, Gravot A, Kroj T, Morel JB. Cytokinin Production by the Rice Blast Fungus Is a Pivotal Requirement for Full Virulence. PLoS Pathog 2016; 12:e1005457. [PMID: 26900703 PMCID: PMC4765853 DOI: 10.1371/journal.ppat.1005457] [Citation(s) in RCA: 91] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2015] [Accepted: 01/25/2016] [Indexed: 12/22/2022] Open
Abstract
Plants produce cytokinin (CK) hormones for controlling key developmental processes like source/sink distribution, cell division or programmed cell-death. Some plant pathogens have been shown to produce CKs but the function of this mimicry production by non-tumor inducing pathogens, has yet to be established. Here we identify a gene required for CK biosynthesis, CKS1, in the rice blast fungus Magnaporthe oryzae. The fungal-secreted CKs are likely perceived by the plant during infection since the transcriptional regulation of rice CK-responsive genes is altered in plants infected by the mutants in which CKS1 gene was deleted. Although cks1 mutants showed normal in vitro growth and development, they were severely affected for in planta growth and virulence. Moreover, we showed that the cks1 mutant triggered enhanced induction of plant defenses as manifested by an elevated oxidative burst and expression of defense-related markers. In addition, the contents of sugars and key amino acids for fungal growth were altered in and around the infection site by the cks1 mutant in a different manner than by the control strain. These results suggest that fungal-derived CKs are key effectors required for dampening host defenses and affecting sugar and amino acid distribution in and around the infection site.
Collapse
Affiliation(s)
- Emilie Chanclud
- Université Montpellier, UMR BGPI INRA/CIRAD/SupAgro, Montpellier, France
| | - Anna Kisiala
- Biology Department, Trent University, Peterborough, Ontario, Canada
- Department of Plant Genetics, Physiology and Biotechnology, University of Technology and Life Sciences, Bydgoszcz, Poland
| | - Neil R. J Emery
- Biology Department, Trent University, Peterborough, Ontario, Canada
| | | | | | | | | | - Thomas Kroj
- INRA, UMR BGPI INRA/CIRAD/SupAgro, Montpellier, France
| | | |
Collapse
|
41
|
Joshi R, Karan R, Singla-Pareek SL, Pareek A. Ectopic expression of Pokkali phosphoglycerate kinase-2 (OsPGK2-P) improves yield in tobacco plants under salinity stress. PLANT CELL REPORTS 2016; 35:27-41. [PMID: 26408146 DOI: 10.1007/s00299-015-1864-z] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/11/2014] [Revised: 08/29/2015] [Accepted: 09/03/2015] [Indexed: 05/21/2023]
Abstract
KEY MESSAGE Our results indicate that OsPGK2a-P gene is differentially regulated in contrasting rice cultivars under stress and its overexpression confers salt stress tolerance in transgenic tobacco. Phosphoglycerate kinase (PGK; EC = 2.7.2.3) plays a major role for ATP production during glycolysis and 1, 3-bisphosphoglycerate production to participate in the Calvin cycle for carbon fixation in plants. Whole genome analysis of rice reveals the presence of four PGK genes (OsPgks) on different chromosomes. Comparative expression analysis of OsPgks in rice revealed highest level of transcripts for OsPgk2 at most of its developmental stages. Detailed characterization of OsPgk2 transcript and protein showed that it is strongly induced by salinity stress in two contrasting genotypes of rice, i.e., cv IR64 (salt sensitive) and landrace Pokkali (salt tolerant). Ectopic expression of OsPgk2a-P (isolated from Pokkali) in transgenic tobacco improved its salinity stress tolerance by higher chlorophyll retention and enhanced proline accumulation, besides maintaining better ion homeostasis. Ectopically expressing OsPgk2a-P transgenic tobacco plants showed tall phenotype with more number of pods than wild-type plants. Therefore, OsPgk2a-P appears to be a potential candidate for increasing salinity stress tolerance and enhanced yield in crop plants.
Collapse
Affiliation(s)
- Rohit Joshi
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India.
| | - Ratna Karan
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India.
| | - Sneh L Singla-Pareek
- Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, New Delhi, 110067, India.
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India.
| |
Collapse
|
42
|
Kushwaha HR, Joshi R, Pareek A, Singla-Pareek SL. MATH-Domain Family Shows Response toward Abiotic Stress in Arabidopsis and Rice. FRONTIERS IN PLANT SCIENCE 2016; 7:923. [PMID: 27446153 PMCID: PMC4923191 DOI: 10.3389/fpls.2016.00923] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/08/2016] [Accepted: 06/10/2016] [Indexed: 05/08/2023]
Abstract
Response to stress represents a highly complex mechanism in plants involving a plethora of genes and gene families. It has been established that plants use some common set of genes and gene families for both biotic and abiotic stress responses leading to cross-talk phenomena. One such family, Meprin And TRAF Homology (MATH) domain containing protein (MDCP), has been known to be involved in biotic stress response. In this study, we present genome-wide identification of various members of MDCP family from both Arabidopsis and rice. A large number of members identified in Arabidopsis and rice indicate toward an expansion and diversification of MDCP family in both the species. Chromosomal localization of MDCP genes in Arabidopsis and rice reveals their presence in a few specific clusters on various chromosomes such as, chromosome III in Arabidopsis and chromosome X in rice. For the functional analysis of MDCP genes, we used information from publicly available data for plant growth and development as well as biotic stresses and found differential expression of various members of the family. Further, we narrowed down 11 potential candidate genes in rice which showed high expression in various tissues and development stages as well as biotic stress conditions. The expression analysis of these 11 genes in rice using qRT-PCR under drought and salinity stress identified OsM4 and OsMB11 to be highly expressed in both the stress conditions. Taken together, our data indicates that OsM4 and OsMB11 can be used as potential candidates for generating stress resilient crops.
Collapse
Affiliation(s)
- Hemant R. Kushwaha
- Microbial Engineering, International Centre for Genetic Engineering and BiotechnologyNew Delhi, India
| | - Rohit Joshi
- Plant Stress Biology, International Centre for Genetic Engineering and BiotechnologyNew Delhi, India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru UniversityNew Delhi, India
| | - Sneh L. Singla-Pareek
- Microbial Engineering, International Centre for Genetic Engineering and BiotechnologyNew Delhi, India
- *Correspondence: Sneh L. Singla-Pareek ;
| |
Collapse
|
43
|
Singh AK, Kumar R, Tripathi AK, Gupta BK, Pareek A, Singla-Pareek SL. Genome-wide investigation and expression analysis of Sodium/Calcium exchanger gene family in rice and Arabidopsis. RICE (NEW YORK, N.Y.) 2015; 8:54. [PMID: 26134707 PMCID: PMC4488139 DOI: 10.1186/s12284-015-0054-5] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2015] [Accepted: 06/09/2015] [Indexed: 05/20/2023]
Abstract
BACKGROUND The Na(+)/Ca(2+) Exchanger (NCX) protein family is a member of the Cation/Ca(2+) exchanger superfamily and its members play important roles in cellular Ca(2+) homeostasis. While the functions of NCX family of proteins is well understood in humans, not much is known about the total complement of Na(+)/Ca(2+) exchangers in plants and their role in various physiological and developmental processes. In the present study, we have identified all the NCX proteins encoded in the genomes of rice and Arabidopsis and studied their phylogeny, domain architecture and expression profiles across different tissues, at various developmental stages and under stress conditions. RESULTS Through whole genome investigation, we identified twenty-two NCX proteins encoded by fifteen genes in rice and sixteen NCX proteins encoded by thirteen genes in Arabidopsis. Based on phylogenetic reconstruction, these could be classified into five clades, members of most of which were found to possess distinct domain architecture. Expression profiling of the identified NCX genes using publicly available MPSS and microarray data showed differential expression patterns under abiotic stresses, and at various development stages. In rice, OsNCX1, OsNCX8, OsNCX9 and OsNCX15 were found to be highly expressed in all the plant parts and various developmental stages. qRT-PCR based expression analysis revealed that OsNCX3, OsNCX10 and OsNCX15 were highly induced by salt and dehydration stress. Besides, expression profiling showed differential regulation of rice NCX genes in response to calcium and EGTA. Interestingly, expression of none of the NCX genes was found to be co-regulated by NaCl and calcium. CONCLUSIONS Together, our results present insights into the potential role of NCX family of proteins in abiotic stresses and development. Findings of the present investigation should serve as a starting point for future studies aiming functional characterization of plant NCX family proteins.
Collapse
Affiliation(s)
- Anil Kumar Singh
- />Plant Molecular Biology Group, International Centre for Genetic Engineering & Biotechnology (ICGEB), Aruna Asaf Ali Marg, New Delhi, 110067 India
- />Present address: Division of Biotechnology, CSIR-Institute of Himalayan Bioresource Technology, Palampur -, 176061, H.P. India
| | - Ritesh Kumar
- />Plant Molecular Biology Group, International Centre for Genetic Engineering & Biotechnology (ICGEB), Aruna Asaf Ali Marg, New Delhi, 110067 India
- />Present address: Division of Applied Life Science, Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju, 660-701 Korea
| | - Amit K. Tripathi
- />Plant Molecular Biology Group, International Centre for Genetic Engineering & Biotechnology (ICGEB), Aruna Asaf Ali Marg, New Delhi, 110067 India
| | - Brijesh K. Gupta
- />Plant Molecular Biology Group, International Centre for Genetic Engineering & Biotechnology (ICGEB), Aruna Asaf Ali Marg, New Delhi, 110067 India
| | - Ashwani Pareek
- />Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067 India
| | - Sneh L. Singla-Pareek
- />Plant Molecular Biology Group, International Centre for Genetic Engineering & Biotechnology (ICGEB), Aruna Asaf Ali Marg, New Delhi, 110067 India
| |
Collapse
|
44
|
Singh A, Kushwaha HR, Soni P, Gupta H, Singla-Pareek SL, Pareek A. Tissue specific and abiotic stress regulated transcription of histidine kinases in plants is also influenced by diurnal rhythm. FRONTIERS IN PLANT SCIENCE 2015; 6:711. [PMID: 26442025 PMCID: PMC4566072 DOI: 10.3389/fpls.2015.00711] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2015] [Accepted: 08/25/2015] [Indexed: 05/24/2023]
Abstract
Two-component system (TCS) is one of the key signal sensing machinery which enables species to sense environmental stimuli. It essentially comprises of three major components, sensory histidine kinase proteins (HKs), histidine phosphotransfer proteins (Hpts), and response regulator proteins (RRs). The members of the TCS family have already been identified in Arabidopsis and rice but the knowledge about their functional indulgence during various abiotic stress conditions remains meager. Current study is an attempt to carry out comprehensive analysis of the expression of TCS members in response to various abiotic stress conditions and in various plant tissues in Arabidopsis and rice using MPSS and publicly available microarray data. The analysis suggests that despite having almost similar number of genes, rice expresses higher number of TCS members during various abiotic stress conditions than Arabidopsis. We found that the TCS machinery is regulated by not only various abiotic stresses, but also by the tissue specificity. Analysis of expression of some representative members of TCS gene family showed their regulation by the diurnal cycle in rice seedlings, thus bringing-in another level of their transcriptional control. Thus, we report a highly complex and tight regulatory network of TCS members, as influenced by the tissue, abiotic stress signal, and diurnal rhythm. The insights on the comparative expression analysis presented in this study may provide crucial leads toward dissection of diverse role(s) of the various TCS family members in Arabidopsis and rice.
Collapse
Affiliation(s)
- Anupama Singh
- School of Computational and Integrative Sciences, Jawaharlal Nehru UniversityNew Delhi, India
| | - Hemant R. Kushwaha
- Synthetic Biology and Biofuels Group, International Centre for Genetic Engineering and BiotechnologyNew Delhi, India
| | - Praveen Soni
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru UniversityNew Delhi, India
| | - Himanshu Gupta
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru UniversityNew Delhi, India
| | - Sneh L. Singla-Pareek
- Plant Molecular Biology Group, International Centre for Genetic Engineering and BiotechnologyNew Delhi, India
| | - Ashwani Pareek
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru UniversityNew Delhi, India
| |
Collapse
|
45
|
Bertheau L, Djeghdir I, Foureau E, Chefdor F, Glevarec G, Oudin A, Depierreux C, Morabito D, Brignolas F, Courdavault V, Héricourt F, Auguin D, Carpin S. Insights into B-type RR members as signaling partners acting downstream of HPt partners of HK1 in the osmotic stress response in Populus. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2015; 94:244-252. [PMID: 26126081 DOI: 10.1016/j.plaphy.2015.06.006] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2015] [Revised: 05/12/2015] [Accepted: 06/08/2015] [Indexed: 06/04/2023]
Abstract
The B-type response regulators (B-type RRs), final elements of a signaling pathway called "histidine/aspartate phosphorelay system" in plants, are devoted to the regulation of response genes through a transcription factor activity. Signal transduction consists in the transfer of a phosphoryl group from a transmembrane histidine kinase (HK) which recognizes a given stimulus to nuclear RRs via cytosolic shuttle phosphotransfer proteins (HPts). In Arabidopsis, the receptors HK are to date the major characterized candidates to be responsible for initiation of osmotic stress responses. However, little information is available concerning the signaling partners acting downstream of HKs. In Populus, three HPts and five B-type RRs were previously identified as interacting partners of HK1, the Arabidopsis AHK1 homolog. Here, we report the isolation of RR18, a member of the B-type RR family, which shares high sequence similarities with ARR18 characterized to act in the osmosensing signaling pathway in Arabidopsis, from poplar cuttings subjected to osmotic stress conditions. By using yeast and in planta interaction assays, RR18 was further identified as acting downstream of HK1 and its three preferential HPt partners. Besides, our results are in favor of a possible involvement of both RR18 and RR13, the main expressed poplar B-type RR, in the osmotic signaling pathway. Nonetheless, different behaviors of these two B-type RRs in this pathway need to be noted, with one RR, RR13, acting in an early phase, mainly in roots of poplar cuttings, and the other one, RR18, acting in a late phase, mainly in leaves to supply an adequate response.
Collapse
Affiliation(s)
- Lucie Bertheau
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France; Université de Toulon, EA 3819, Laboratoire Processus de Transferts et d'Echanges dans l'Environnement (PROTEE), 83957 La Garde Cedex, France
| | - Inès Djeghdir
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France
| | - Emilien Foureau
- Université François Rabelais de Tours, EA 2106, Biomolécules et Biotechnologies Végétales (BBV), 37200 Tours, France
| | - Françoise Chefdor
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France
| | - Gaëlle Glevarec
- Université François Rabelais de Tours, EA 2106, Biomolécules et Biotechnologies Végétales (BBV), 37200 Tours, France
| | - Audrey Oudin
- Université François Rabelais de Tours, EA 2106, Biomolécules et Biotechnologies Végétales (BBV), 37200 Tours, France
| | - Christiane Depierreux
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France
| | - Domenico Morabito
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France
| | - Franck Brignolas
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France
| | - Vincent Courdavault
- Université François Rabelais de Tours, EA 2106, Biomolécules et Biotechnologies Végétales (BBV), 37200 Tours, France
| | - François Héricourt
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France
| | - Daniel Auguin
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France
| | - Sabine Carpin
- Université d'Orléans, UPRES EA 1207, Laboratoire de Biologie des Ligneux et des Grandes Cultures (LBLGC), 45067 Orléans Cedex 2, France; INRA, USC1328, Arbres et Réponses aux Contraintes Hydriques et Environnementales (ARCHE), 45067 Orléans Cedex 2, France.
| |
Collapse
|
46
|
Kumari S, Joshi R, Singh K, Roy S, Tripathi AK, Singh P, Singla-Pareek SL, Pareek A. Expression of a cyclophilin OsCyp2-P isolated from a salt-tolerant landrace of rice in tobacco alleviates stress via ion homeostasis and limiting ROS accumulation. Funct Integr Genomics 2015; 15:395-412. [PMID: 25523384 DOI: 10.1007/s10142-014-0429-5] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2014] [Revised: 11/23/2014] [Accepted: 11/30/2014] [Indexed: 10/24/2022]
Abstract
Cyclophilins are a set of ubiquitous proteins present in all subcellular compartments, involved in a wide variety of cellular processes. Comparative bioinformatics analysis of the rice and Arabidopsis genomes led us to identify novel putative cyclophilin gene family members in both the genomes not reported previously. We grouped cyclophilin members with similar molecular weight and subtypes together in the phylogenetic tree which indicated their co-evolution in rice and Arabidopsis. We also characterized a rice cyclophilin gene, OsCyp2-P (Os02g0121300), isolated from a salinity-tolerant landrace, Pokkali. Publicly available massively parallel signature sequencing (MPSS) and microarray data, besides our quantitative real time PCR (qRT-PCR) data suggest that transcript abundance of OsCyp2-P is regulated under different stress conditions in a developmental and organ specific manner. Ectopic expression of OsCyp2-P imparted multiple abiotic stress tolerance to transgenic tobacco plants as evidenced by higher root length, shoot length, chlorophyll content, and K(+)/Na(+) ratio under stress conditions. Transgenic plants also showed reduced lipid peroxidase content, electrolyte leakage, and superoxide content under stress conditions suggesting better ion homeostasis than WT plants. Localization studies confirmed that OsCyp2-P is localized in both cytosol and nucleus, indicating its possible interaction with several other proteins. The overall results suggest the explicit role of OsCyp2-P in bestowing multiple abiotic stress tolerance at the whole plant level. OsCyp2-P operates via reactive oxygen species (ROS) scavenging and ion homeostasis and thus is a promising candidate gene for enhancing multiple abiotic stress tolerance in crop plants.
Collapse
Affiliation(s)
- Sumita Kumari
- Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067, India
| | | | | | | | | | | | | | | |
Collapse
|
47
|
Sekhar S, Panda BB, Mohapatra T, Das K, Shaw BP, Kariali E, Mohapatra PK. Spikelet-specific variation in ethylene production and constitutive expression of ethylene receptors and signal transducers during grain filling of compact- and lax-panicle rice (Oryza sativa) cultivars. JOURNAL OF PLANT PHYSIOLOGY 2015; 179:21-34. [PMID: 25817414 DOI: 10.1016/j.jplph.2015.03.003] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2014] [Revised: 03/07/2015] [Accepted: 03/08/2015] [Indexed: 06/04/2023]
Abstract
Grain yields in modern super rice cultivars do not always meet the expectations because many spikelets are located on secondary branches in closely packed homogeneous distribution in these plants, and they do not fill properly. The factors limiting grain filling of such spikelets, especially in the lower panicle branches, are elusive. Two long-duration rice cultivars differing in panicle density, Mahalaxmi (compact) and Upahar (lax), were cultivated in an open field plot. Grain filling, ethylene production and constitutive expression of ethylene receptors and ethylene signal transducers in apical and basal spikelets of the panicle were compared during the early post-anthesis stage, which is the most critical period for grain development. In another experiment, a similar assessment was made for the medium-duration cultivars compact-panicle OR-1918 and lax-panicle Lalat. Grain weight of the apical spikelets was always higher than that of the basal spikelets. This gradient of grain weight was wide in the compact-panicle cultivars and narrow in the lax-panicle cultivars. Compared to apical spikelets, the basal spikelets produced more ethylene at anthesis and retained the capacity for post-anthesis expression of ethylene receptors and ethylene signal transducers longer. High ethylene production enhanced the expression of the RSR1 gene, but reduced expression of the GBSS1 gene. Ethylene inhibited the partitioning of assimilates of developing grains resulting in low starch biosynthesis and high accumulation of soluble carbohydrates. It is concluded that an increase in grain/spikelet density in rice panicles reduces apical dominance to the detriment of grain filling by production of ethylene and/or enhanced perception of the ethylene signal. Ethylene could be a second messenger for apical dominance in grain filling. The manipulation of the ethylene signal would possibly improve rice grain yield.
Collapse
Affiliation(s)
- Sudhanshu Sekhar
- Environmental Biotechnology Laboratory, Institute of Life Sciences, Bhubaneswar 751023, Odisha, India
| | - Binay B Panda
- Environmental Biotechnology Laboratory, Institute of Life Sciences, Bhubaneswar 751023, Odisha, India
| | - Trupti Mohapatra
- Environmental Biotechnology Laboratory, Institute of Life Sciences, Bhubaneswar 751023, Odisha, India
| | - Kaushik Das
- Environmental Biotechnology Laboratory, Institute of Life Sciences, Bhubaneswar 751023, Odisha, India
| | - Birendra P Shaw
- Environmental Biotechnology Laboratory, Institute of Life Sciences, Bhubaneswar 751023, Odisha, India
| | - Ekamber Kariali
- School of Life Science, Sambalpur University, Jyoti Vihar, Sambalpur 768019, Odisha, India
| | - Pravat K Mohapatra
- School of Life Science, Sambalpur University, Jyoti Vihar, Sambalpur 768019, Odisha, India.
| |
Collapse
|
48
|
Tripathi AK, Singh K, Pareek A, Singla-Pareek SL. Histone chaperones in Arabidopsis and rice: genome-wide identification, phylogeny, architecture and transcriptional regulation. BMC PLANT BIOLOGY 2015; 15:42. [PMID: 25849155 PMCID: PMC4357127 DOI: 10.1186/s12870-015-0414-8] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2014] [Accepted: 01/05/2015] [Indexed: 05/20/2023]
Abstract
BACKGROUND Histone chaperones modulate chromatin architecture and hence play a pivotal role in epigenetic regulation of gene expression. In contrast to their animal and yeast counterparts, not much is known about plant histone chaperones. To gain insights into their functions in plants, we sought to identify histone chaperones from two model plant species and investigated their phylogeny, domain architecture and transcriptional profiles to establish correlation between their expression patterns and potential role in stress physiology and plant development. RESULTS Through comprehensive whole genome analyses of Arabidopsis and rice, we identified twenty-two and twenty-five genes encoding histone chaperones in these plants, respectively. These could be classified into seven different families, namely NAP, CAF1, SPT6, ASF1, HIRA, NASP, and FACT. Phylogenetic analyses of histone chaperones from diverse organisms including representative species from each of the major plant groups, yeast and human indicated functional divergence in NAP and CAF1C in plants. For the largest histone chaperone family, NAP, phylogenetic reconstruction suggested the presence of two distinct groups in plants, possibly with differing histone preferences. Further, to comment upon their physiological roles in plants, we analyzed their expression at different developmental stages, across various plant tissues, and under biotic and abiotic stress conditions using pre-existing microarray and qRT-PCR. We found tight transcriptional regulation of some histone chaperone genes during development in both Arabidopsis and rice, suggesting that they may play a role in genetic reprogramming associated with the developmental process. Besides, we found significant differential expression of a few histone chaperones under various biotic and abiotic stresses pointing towards their potential function in stress response. CONCLUSIONS Taken together, our findings shed light onto the possible evolutionary trajectory of plant histone chaperones and present novel prospects about their physiological roles. Considering that the developmental process and stress response require altered expression of a large array of genes, our results suggest that some plant histone chaperones may serve a regulatory role by controlling the expression of genes associated with these vital processes, possibly via modulating chromatin dynamics at the corresponding genetic loci.
Collapse
Affiliation(s)
- Amit K Tripathi
- />Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067 India
| | - Khushwant Singh
- />Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067 India
| | - Ashwani Pareek
- />Stress Physiology and Molecular Biology Laboratory, School of Life Sciences, Jawaharlal Nehru University, New Delhi, 110067 India
| | - Sneh L Singla-Pareek
- />Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067 India
| |
Collapse
|
49
|
Wen F, Qin T, Wang Y, Dong W, Zhang A, Tan M, Jiang M. OsHK3 is a crucial regulator of abscisic acid signaling involved in antioxidant defense in rice. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2015; 57:213-28. [PMID: 24912543 DOI: 10.1111/jipb.12222] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2014] [Accepted: 06/07/2014] [Indexed: 05/21/2023]
Abstract
In this study, the role of the rice (Oryza sativa L.) histidine kinase OsHK3 in abscisic acid (ABA)-induced antioxidant defense was investigated. Treatments with ABA, H2 O2 , and polyethylene glycol (PEG) induced the expression of OsHK3 in rice leaves, and H2 O2 is required for ABA-induced increase in the expression of OsHK3 under water stress. Subcellular localization analysis showed that OsHK3 is located in the cytoplasm and the plasma membrane. The transient expression analysis and the transient RNA interference test in rice protoplasts showed that OsHK3 is required for ABA-induced upregulation in the expression of antioxidant enzymes genes and the activities of antioxidant enzymes. Further analysis showed that OsHK3 functions upstream of the calcium/calmodulin-dependent protein kinase OsDMI3 and the mitogen-activated protein kinase OsMPK1 to regulate the activities of antioxidant enzymes in ABA signaling. Moreover, OsHK3 was also shown to regulate the expression of nicotinamide adenine dinucleotide phosphate oxidase genes, OsrbohB and OsrbohE, and the production of H2 O2 in ABA signaling. Our data indicate that OsHK3 play an important role in the regulation of ABA-induced antioxidant defense and in the feedback regulation of H2 O2 production in ABA signaling.
Collapse
Affiliation(s)
- Feng Wen
- College of Life Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | | | | | | | | | | | | |
Collapse
|
50
|
Schaller GE, Bishopp A, Kieber JJ. The yin-yang of hormones: cytokinin and auxin interactions in plant development. THE PLANT CELL 2015; 27:44-63. [PMID: 25604447 PMCID: PMC4330578 DOI: 10.1105/tpc.114.133595] [Citation(s) in RCA: 301] [Impact Index Per Article: 33.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2014] [Revised: 12/15/2014] [Accepted: 12/26/2014] [Indexed: 05/18/2023]
Abstract
The phytohormones auxin and cytokinin interact to regulate many plant growth and developmental processes. Elements involved in the biosynthesis, inactivation, transport, perception, and signaling of these hormones have been elucidated, revealing the variety of mechanisms by which signal output from these pathways can be regulated. Recent studies shed light on how these hormones interact with each other to promote and maintain plant growth and development. In this review, we focus on the interaction of auxin and cytokinin in several developmental contexts, including its role in regulating apical meristems, the patterning of the root, the development of the gynoecium and female gametophyte, and organogenesis and phyllotaxy in the shoot.
Collapse
Affiliation(s)
- G Eric Schaller
- Department of Biological Sciences, Dartmouth College, Hanover, New Hampshire 03755
| | - Anthony Bishopp
- Centre for Plant Integrative Biology, University of Nottingham, Loughborough LE12 5RD, United Kingdom
| | - Joseph J Kieber
- Department of Biology, University of North Carolina, Chapel Hill, North Carolina 27599-3280
| |
Collapse
|