1
|
Qu L, Zhong M, Duan F, Li X, Yang J, Zhou Q, Tang D, He R, Liu X, Zhao X. The PHYB-FOF2-VOZ2 module functions to fine-tune flowering in response to changes in light quality by modulating FLC expression in Arabidopsis. PLANT COMMUNICATIONS 2024; 5:100922. [PMID: 38616490 DOI: 10.1016/j.xplc.2024.100922] [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: 07/29/2023] [Revised: 02/06/2024] [Accepted: 04/11/2024] [Indexed: 04/16/2024]
Abstract
Proper timing of flowering under different environmental conditions is critical for plant propagation. Light quality is a pivotal environmental cue that plays a critical role in flowering regulation. Plants tend to flower late under light with a high red (R)/far-red (FR) light ratio but early under light with a low R/FR light ratio. However, how plants fine-tune flowering in response to changes in light quality is not well understood. Here, we demonstrate that F-box of Flowering 2 (FOF2), an autonomous pathway-related regulator, physically interacts with VASCULAR PLANT ONE-ZINC FINGER 1 and 2 (VOZ1 and VOZ2), which are direct downstream factors of the R/FR light receptor phytochrome B (PHYB). We show that PHYB physically interacts with FOF2, mediates stabilization of the FOF2 protein under FR light and end-of-day FR light, and enhances FOF2 binding to VOZ2, which leads to degradation of VOZ2 by SCFFOF2 E3 ligase. By contrast, PHYB mediates degradation of FOF2 protein under R light and end-of-day R light. Genetic interaction studies demonstrated that FOF2 functions downstream of PHYB to promote FLC expression and inhibit flowering under both high R/FR light and simulated shade conditions, processes that are partially dependent on VOZ proteins. Taken together, our findings suggest a novel mechanism whereby plants fine-tune flowering time through a PHYB-FOF2-VOZ2 module that modulates FLC expression in response to changes in light quality.
Collapse
Affiliation(s)
- Lina Qu
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China; Shenzhen Institute, Hunan University, Shenzhen 518057, China
| | - Ming Zhong
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China; Shenzhen Institute, Hunan University, Shenzhen 518057, China
| | - Feifei Duan
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China; Shenzhen Institute, Hunan University, Shenzhen 518057, China
| | - Xinmei Li
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China; Shenzhen Institute, Hunan University, Shenzhen 518057, China
| | - Jiaxin Yang
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China; Shenzhen Institute, Hunan University, Shenzhen 518057, China
| | - Quanyu Zhou
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China; Shenzhen Institute, Hunan University, Shenzhen 518057, China
| | - Dongying Tang
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China
| | - Reqing He
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China
| | - Xuanming Liu
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China.
| | - Xiaoying Zhao
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, Hunan Engineering and Technology Research Center of Hybrid Rapeseed, Hunan University, Changsha 410082, China; Shenzhen Institute, Hunan University, Shenzhen 518057, China.
| |
Collapse
|
2
|
Liu Y, Luo C, Lan M, Guo Y, Li R, Liang R, Chen S, Zhong J, Li B, Xie F, Chen C, He X. MiCOL6, MiCOL7A and MiCOL7B isolated from mango regulate flowering and stress response in transgenic Arabidopsis. PHYSIOLOGIA PLANTARUM 2024; 176:e14242. [PMID: 38439528 DOI: 10.1111/ppl.14242] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2023] [Revised: 02/02/2024] [Accepted: 02/20/2024] [Indexed: 03/06/2024]
Abstract
The CONSTANS/CONSTANS-Like (CO/COL) family has been shown to play important roles in flowering, stress tolerance, fruit development and ripening in higher plants. In this study, three COL genes, MiCOL6, MiCOL7A and MiCOL7B, which each contain only one CCT domain, were isolated from mango (Mangifera indica), and their functions were investigated. MiCOL7A and MiCOL7B were expressed mainly at 20 days after flowering (DAF), and all three genes were highly expressed during the flowering induction period. The expression levels of the three genes were affected by light conditions, but only MiCOL6 exhibited a clear circadian rhythm. Overexpression of MiCOL6 promoted earlier flowering, while overexpression of MiCOL7A or MiCOL7B delayed flowering compared to that in the control lines of Arabidopsis thaliana under long-day (LD) and short-day (SD) conditions. Overexpressing MiCOL6, MiCOL7A or MiCOL7B in transgenic plants increased superoxide dismutase (SOD) and proline levels, decreased malondialdehyde (MAD) levels, and improved survival under drought and salt stress. In addition, yeast two-hybrid (Y2H) and bimolecular fluorescence complementation (BiFC) analyses showed that the MiCOL6, MiCOL7A and MiCOL7B proteins interact with several stress- and flower-related proteins. This work demonstrates the functions of MiCOL6, MiCOL7A and MiCOL7B and provides a foundation for further research on the role of mango COL genes in flowering regulation and the abiotic stress response.
Collapse
Affiliation(s)
- Yuan Liu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Cong Luo
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Moying Lan
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Yihang Guo
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
- College of Agronomy and Horticulture, Huaihua Polytechnic College, Huaihua, Hunan
| | - Ruoyan Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Rongzhen Liang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Shuquan Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Junjie Zhong
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Baijun Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Fangfang Xie
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Canbin Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| | - Xinhua He
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi Key Laboratory for Agro-Environment and Agro-Product Safety, National Demonstration Center for Experimental Plant Science Education, College of Agriculture, Guangxi University, Nanning, Guangxi
| |
Collapse
|
3
|
Mahapatra K. Unveiling the structure and interactions of SOG1, a NAC domain transcription factor: An in-silico perspective. J Genet Eng Biotechnol 2024; 22:100333. [PMID: 38494249 PMCID: PMC10980851 DOI: 10.1016/j.jgeb.2023.100333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/19/2024]
Abstract
SOG1 is a crucial plant-specific NAC domain family transcription factor and functions as the central regulator of DNA damage response, acting downstream of ATM and ATR kinases. In this study, various in-silico approaches have been employed for the characterization of SOG1 transcription factor in a comparative manner with its orthologues from various plant species. Amino acid sequences of more than a hundred SOG1 or SOG1-like proteins were retrieved and their relationship was determined through phylogenetic and motif analyses. Various physiochemical properties and secondary structural components of SOG1 orthologues were determined in selective plant species including Arabidopsis thaliana, Oryza sativa, Amborella trichopoda, and Physcomitrella patens. Furthermore, fold recognition or threading and homology-based three-dimensional models of SOG1 were constructed followed by subsequent evaluation of quality and accuracy of the generated protein models. Finally, extensive DNA-Protein and Protein-Protein interaction studies were performed using the HADDOCK server to give an insight into the mechanism of how SOG1 binds with the promoter region of its target genes or interacts with other proteins to regulate the DNA damage responses in plants. Our docking analysis data have shown the molecular mechanism of SOG1's binding with 5'-CTT(N)7AAG-3' and 5'-(N)4GTCAA(N)4-3' consensus sequences present in the promoter region of its target genes. Moreover, SOG1 physically interacts and forms a thermodynamically stable complex with NAC103 and BRCA1 proteins, which possibly serve as coactivators or mediators in the transcription regulatory network of SOG1. Overall, our in-silico study will provide meaningful information regarding the structural and functional characterization of the SOG1 transcription factor.
Collapse
Affiliation(s)
- Kalyan Mahapatra
- Department of Botany, UGC Center for Advanced Studies, The University of Burdwan, Golapbag Campus, Burdwan - 713 104, West Bengal, India.
| |
Collapse
|
4
|
Xu M, Zhang Z, Jiao Y, Tu Y, Zhang X. Genome-Wide Identification of Vascular Plant One-Zinc-Finger Gene Family in Six Cucurbitaceae Species and the Role of CmoVOZ2 in Salt and Drought Stress Tolerance. Genes (Basel) 2024; 15:307. [PMID: 38540365 PMCID: PMC10969924 DOI: 10.3390/genes15030307] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2024] [Revised: 02/23/2024] [Accepted: 02/24/2024] [Indexed: 06/14/2024] Open
Abstract
As a plant-specific transcription factor, the vascular plant one-zinc-finger (VOZ) plays a crucial role in regulating various biological processes. In this study, a total of 17 VOZ genes in the Cucurbitaceae family were investigated using various bioinformatics methods. The 17 VOZ genes in Cucurbitaceae are distributed across 16 chromosomes. Based on the affinity of VOZ proteins to AtVOZ proteins, these 17 proteins were categorized into two groups: group I encompassed eight VOZ members, while group II comprised nine VOZ members. The expression profiles of CmoVOZs under various hormonal and abiotic stresses indicated that these genes were induced differentially by JA, ABA, GA, salt, and drought stress. Subsequently, CmoVOZ1 and CmoVOZ2 were found to be transcriptionally active, with the CmoVOZ2 protein being located mainly in the nucleus. Further experiments revealed that yeast cells expressing CmoVOZ2 gene showed increased tolerance to salt stress and drought stress. These results suggest that the VOZ gene family is not only important for plant growth and development but also that this mechanism may be universal across yeast and plants.
Collapse
Affiliation(s)
| | | | | | | | - Xin Zhang
- National Engineering Laboratory of Crop Stress Resistance Breeding, School of Life Sciences, Anhui Agricultural University, Hefei 230036, China
| |
Collapse
|
5
|
Lian B, Wu A, Wu H, Lv X, Sun M, Li Y, Lu Z, Li S, An L, Guo X, Wei F, Fu X, Lu J, Wang H, Ma L, Wei H, Yu S. GhVOZ1-AVP1 module positively regulates salt tolerance in upland cotton (Gossypium hirsutum L.). Int J Biol Macromol 2024; 258:129116. [PMID: 38171192 DOI: 10.1016/j.ijbiomac.2023.129116] [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] [Received: 09/27/2023] [Revised: 12/25/2023] [Accepted: 12/26/2023] [Indexed: 01/05/2024]
Abstract
Vascular Plant One‑zinc Finger (VOZ) transcription factor can respond to a variety of abiotic stresses, however its function in cotton and the molecular mechanisms of response to salt tolerance remained unclear. In this study, we found that GhVOZ1 is highly expressed in stamen and stem of cotton under normal conditions. The expression of GhVOZ1 increased significantly after 3 h of salt treatment in three-leaf staged upland cotton. Overexpressed transgenic lines of GhVOZ1 in Arabidopsis and upland cotton were treated with salt stress and we found that GhVOZ1 could respond positively to salt stress. GhVOZ1 can regulate Arabidopsis Vacuolar Proton Pump Pyrophosphatase (H+-PPase) gene (AVP1) expression through specific binding to GCGTCTAAAGTACGC site on GhAVP1 promoter, which was examined through Dual-luciferase assay and Electrophoretic mobility shift assay (EMSA). AVP1 expression was significantly increased in Arabidopsis with GhVOZ1 overexpression, while GhAVP1 expression was decreased in virus induced gene silenced (VIGS) cotton plants of GhVOZ1. Knockdown of GhAVP1 expression in cotton plants by VIGS showed decreased superoxide dismutase (SOD) and peroxidase (POD) activities, whereas an increased malondialdehyde (MDA) content and ultimately decreased salt tolerance. The GhVOZ1-AVP1 module could maintain sodium ion homeostasis through cell ion transport and positively regulate the salt tolerance in cotton, providing new ideas and insights for the study of salt tolerance.
Collapse
Affiliation(s)
- Boying Lian
- College of Agronomy, Northwest A&F University, Yangling 712100, Shannxi, China
| | - Aimin Wu
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Hongmei Wu
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Xiaoyan Lv
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Mengxi Sun
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Yiran Li
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Zhengying Lu
- Handan Academy of Agricultural Sciences, Handan 056000, Hebei, China
| | - Shiyun Li
- Handan Academy of Agricultural Sciences, Handan 056000, Hebei, China
| | - Li An
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Xiaohao Guo
- College of Agronomy, Northwest A&F University, Yangling 712100, Shannxi, China
| | - Fei Wei
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Xiaokang Fu
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Jianhua Lu
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Hantao Wang
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Liang Ma
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China
| | - Hengling Wei
- National Key Laboratory of Cotton Bio-breeding and Integrated Utilization, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China.
| | - Shuxun Yu
- College of Agronomy, Northwest A&F University, Yangling 712100, Shannxi, China.
| |
Collapse
|
6
|
Wen Y, Chairattanawat C, Vo KTX, Liu J, Zhang J, Pan T, Kim DY, Martinoia E, Zhong CY, Wang MH, Jeon JS, Song WY. VOZ1 and VOZ2 transcription factors regulate arsenic tolerance and distribution in rice and Arabidopsis. FRONTIERS IN PLANT SCIENCE 2023; 14:1209860. [PMID: 37799560 PMCID: PMC10548236 DOI: 10.3389/fpls.2023.1209860] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/21/2023] [Accepted: 08/23/2023] [Indexed: 10/07/2023]
Abstract
Rice is the major source of arsenic (As) intake in humans, as this staple crop readily accumulates As in the grain. Identifying the genes and molecular mechanisms underlying As accumulation and tolerance is a crucial step toward developing rice with reduced As levels. We identified 25 rice genes that improve As tolerance in yeast cells by expressing a complementary DNA (cDNA) library generated from As-treated rice roots. Among them, a zinc finger-type transcription factor VASCULAR PLANT ONE- ZINC FINGER 1 (OsVOZ1) (OsVOZ1) conferred the most pronounced As tolerance. OsVOZ1 inhibits As accumulation in yeast via activation of As efflux transporter Acr3p by post-transcriptional modification in yeast. The Arabidopsis voz1 voz2 double-knockout mutant exhibited As hypersensitivity, altered As concentrations in various tissues, and reduced As transport activity via the phloem. Arabidopsis and rice VOZs were highly expressed in phloem cells in various tissues, which are critical for As distribution in plant tissues. The double-knockdown and single-knockout plants of OsVOZ1 and OsVOZ2 reduced As accumulation in their seeds. These findings suggest that rice and Arabidopsis VOZs regulate the translocation of As into tissues by regulating the phloem loading of this element.
Collapse
Affiliation(s)
- Ying Wen
- Department of Horticulture, Foshan University, Foshan, Guangdong, China
| | - Chayanee Chairattanawat
- Department of Integrative Bioscience and Biotechnology, Pohang University of Science and Technology, Pohang, Republic of Korea
| | - Kieu Thi Xuan Vo
- Graduate School of Green-Bio Science and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea
| | - Jiayou Liu
- Department of Horticulture, Foshan University, Foshan, Guangdong, China
| | - Jie Zhang
- Department of Horticulture, Foshan University, Foshan, Guangdong, China
| | - Ting Pan
- Department of Horticulture, Foshan University, Foshan, Guangdong, China
| | - Do-Young Kim
- Advanced Bio-convergence Center, Pohang Technopark, Pohang, Republic of Korea
| | - Enrico Martinoia
- Institute of Plant Biology, University Zurich, Zurich, Switzerland
| | - Chun-Yan Zhong
- Zhaoqing Institute of Agricultural Sciences, Zhaoqing, China
| | - Mao-Hui Wang
- Zhaoqing Institute of Agricultural Sciences, Zhaoqing, China
| | - Jong-Seong Jeon
- Graduate School of Green-Bio Science and Crop Biotech Institute, Kyung Hee University, Yongin, Republic of Korea
| | - Won-Yong Song
- Department of Horticulture, Foshan University, Foshan, Guangdong, China
- Department of Integrative Bioscience and Biotechnology, Pohang University of Science and Technology, Pohang, Republic of Korea
| |
Collapse
|
7
|
Hasan N, Tokuhara N, Noda T, Kotoda N. Molecular characterization of Satsuma mandarin ( Citrus unshiu Marc.) VASCULAR PLANT ONE-ZINC FINGER2 (CuVOZ2) interacting with CuFT1 and CuFT3. PLANT BIOTECHNOLOGY (TOKYO, JAPAN) 2023; 40:51-62. [PMID: 38213920 PMCID: PMC10777139 DOI: 10.5511/plantbiotechnology.23.0122a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2022] [Accepted: 01/22/2023] [Indexed: 01/13/2024]
Abstract
Shortening the juvenility is a burning issue in breeding fruit trees such as Satsuma mandarin (Citrus unshiu Marc.). Decreasing the breeding period requires a comprehensive understanding of the flowering process in woody plants. Throughout the Arabidopsis flowering system, FLOWERING LOCUS T (FT) interacts with other transcription factors (TFs) and functions as a transmissible floral inducer. In a previous study, a VASCULAR PLANT ONE-ZINC FINGER1 (VOZ1)-like TF from the Satsuma mandarin, CuVOZ1, showed protein-protein interaction with two citrus FTs in a yeast two-hybrid (Y2H) system and precocious flowering in Arabidopsis. In this study, another VOZ, CuVOZ2, was isolated from the Satsuma mandarin 'Aoshima' and protein-protein interaction was confirmed between CuVOZ2 and CuFTs. No apical meristem (NAM) and zinc coordination motifs were identified within the N-terminal of CuVOZ2. Docking simulation predicted that interactions between CuVOZ2 and CuFTs might occur in domain B of CuVOZ2, which contains a zinc finger motif. According to docking predictions, the distances between the amino acid residues involved ranged from 1.09 to 4.37 Å, indicating weak Van der Waals forces in the interaction. Cys216, Cys221, Cys235, and His239 in CuVOZ2 were suggested to bond with a Zn2+ in the Zn coordination motif. Ectopic expression of 35SΩ:CuVOZ2 in Arabidopsis affected the flowering time, length of inflorescence and internode, and number of siliques, suggesting that CuVOZ2 might regulate both vegetative and reproductive development, act as a trigger for early flowering, and be involved in the elongation of inflorescence possibly in a slightly different way than CuVOZ1.
Collapse
Affiliation(s)
- Nazmul Hasan
- The United Graduate School of Agricultural Sciences, Kagoshima University, Kagoshima 890-0065, Japan
| | - Naoki Tokuhara
- Graduate School of Advanced Health Sciences, Saga University, Saga 840-8502, Japan
| | - Takayuki Noda
- Graduate School of Agriculture, Saga University, Saga 840-8502, Japan
| | - Nobuhiro Kotoda
- The United Graduate School of Agricultural Sciences, Kagoshima University, Kagoshima 890-0065, Japan
- Graduate School of Advanced Health Sciences, Saga University, Saga 840-8502, Japan
- Graduate School of Agriculture, Saga University, Saga 840-8502, Japan
| |
Collapse
|
8
|
Solares E, Morales-Cruz A, Balderas RF, Focht E, Ashworth VETM, Wyant S, Minio A, Cantu D, Arpaia ML, Gaut BS. Insights into the domestication of avocado and potential genetic contributors to heterodichogamy. G3 (BETHESDA, MD.) 2023; 13:jkac323. [PMID: 36477810 PMCID: PMC9911064 DOI: 10.1093/g3journal/jkac323] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/11/2022] [Revised: 11/11/2022] [Accepted: 11/15/2022] [Indexed: 12/13/2022]
Abstract
The domestication history of the avocado (Persea americana) remains unclear. We created a reference genome from the Gwen varietal, which is closely related to the economically dominant Hass varietal. Our genome assembly had an N50 of 3.37 megabases, a BUSCO score of 91%, and was scaffolded with a genetic map, producing 12 pseudo-chromosomes with 49,450 genes. We used the Gwen genome as a reference to investigate population genomics, based on a sample of 34 resequenced accessions that represented the 3 botanical groups of P. americana. Our analyses were consistent with 3 separate domestication events; we estimated that the Mexican group diverged from the Lowland (formerly known as "West Indian") and Guatemalan groups >1 million years ago. We also identified putative targets of selective sweeps in domestication events; within the Guatemalan group, putative candidate genes were enriched for fruit development and ripening. We also investigated divergence between heterodichogamous flowering types, providing preliminary evidence for potential candidate genes involved in pollination and floral development.
Collapse
Affiliation(s)
- Edwin Solares
- Deptartment of Ecology and Evolutionary Biology, University of California, Irvine, Irvine, CA 92697-2525, USA
| | - Abraham Morales-Cruz
- Deptartment of Ecology and Evolutionary Biology, University of California, Irvine, Irvine, CA 92697-2525, USA
| | - Rosa Figueroa Balderas
- Department of Viticulture and Enology, University of California, Davis, Davis, CA 95616, USA
| | - Eric Focht
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA 92521, USA
| | - Vanessa E T M Ashworth
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA 92521, USA
| | - Skylar Wyant
- Deptartment of Ecology and Evolutionary Biology, University of California, Irvine, Irvine, CA 92697-2525, USA
| | - Andrea Minio
- Department of Viticulture and Enology, University of California, Davis, Davis, CA 95616, USA
| | - Dario Cantu
- Department of Viticulture and Enology, University of California, Davis, Davis, CA 95616, USA
| | - Mary Lu Arpaia
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA 92521, USA
| | - Brandon S Gaut
- Deptartment of Ecology and Evolutionary Biology, University of California, Irvine, Irvine, CA 92697-2525, USA
| |
Collapse
|
9
|
Arias LA, D'Ippolito S, Frik J, Amigo NL, Marchetti F, Casalongué CA, Pagnussat GC, Fiol DF. The DC1 Domain Protein BINUCLEATE POLLEN is Required for POLLEN Development in Arabidopsis thaliana. PLANT & CELL PHYSIOLOGY 2023; 63:1994-2007. [PMID: 36001044 DOI: 10.1093/pcp/pcac122] [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: 05/12/2022] [Revised: 08/19/2022] [Accepted: 08/23/2022] [Indexed: 06/15/2023]
Abstract
The development of the male gametophyte is a tightly regulated process that requires the precise control of cell division and gene expression. A relevant aspect to understand the events underlying pollen development regulation constitutes the identification and characterization of the genes required for this process. In this work, we showed that the DC1 domain protein BINUCLEATE POLLEN (BNP) is essential for pollen development and germination. Pollen grains carrying a defective BNP alleles failed to complete mitosis II and exhibited impaired pollen germination. By yeast two-hybrid analysis and bimolecular fluorescence complementation assays, we identified a set of BNP-interacting proteins. Among confirmed interactors, we found the NAC family transcriptional regulators Vascular Plant One-Zinc Finger 1 (VOZ1) and VOZ2. VOZ1 localization changes during pollen development, moving to the vegetative nucleus at the tricellular stage. We observed that this relocalization requires BNP; in the absence of BNP in pollen from bnp/BNP plants, VOZ1 nuclear localization is impaired. As the voz1voz2 double mutants showed the same developmental defect observed in bnp pollen grains, we propose that BNP requirement to complete microgametogenesis could be linked to its interaction with VOZ1/2 proteins. BNP could have the role of a scaffold protein, recruiting VOZ1/2 to the endosomal system into assemblies that are required for their further translocation to the nucleus, where they act as transcriptional regulators.
Collapse
Affiliation(s)
- Leonardo A Arias
- Instituto de investigaciones Biológicas IIB-CONICET - Universidad Nacional de Mar del Plata, Funes 3250, Mar del Plata, Buenos Aires 7600, Argentina
| | - Sebastián D'Ippolito
- Instituto de investigaciones Biológicas IIB-CONICET - Universidad Nacional de Mar del Plata, Funes 3250, Mar del Plata, Buenos Aires 7600, Argentina
| | - Jésica Frik
- Instituto de investigaciones Biológicas IIB-CONICET - Universidad Nacional de Mar del Plata, Funes 3250, Mar del Plata, Buenos Aires 7600, Argentina
| | - Natalia L Amigo
- Instituto de investigaciones Biológicas IIB-CONICET - Universidad Nacional de Mar del Plata, Funes 3250, Mar del Plata, Buenos Aires 7600, Argentina
| | - Fernanda Marchetti
- Instituto de investigaciones Biológicas IIB-CONICET - Universidad Nacional de Mar del Plata, Funes 3250, Mar del Plata, Buenos Aires 7600, Argentina
| | - Claudia A Casalongué
- Instituto de investigaciones Biológicas IIB-CONICET - Universidad Nacional de Mar del Plata, Funes 3250, Mar del Plata, Buenos Aires 7600, Argentina
| | - Gabriela C Pagnussat
- Instituto de investigaciones Biológicas IIB-CONICET - Universidad Nacional de Mar del Plata, Funes 3250, Mar del Plata, Buenos Aires 7600, Argentina
| | - Diego F Fiol
- Instituto de investigaciones Biológicas IIB-CONICET - Universidad Nacional de Mar del Plata, Funes 3250, Mar del Plata, Buenos Aires 7600, Argentina
| |
Collapse
|
10
|
Shi P, Jiang R, Li B, Wang D, Fang D, Yin M, Yin M, Gu M. Genome-Wide Analysis and Expression Profiles of the VOZ Gene Family in Quinoa ( Chenopodium quinoa). Genes (Basel) 2022; 13:1695. [PMID: 36292580 PMCID: PMC9601790 DOI: 10.3390/genes13101695] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2022] [Revised: 09/19/2022] [Accepted: 09/19/2022] [Indexed: 11/26/2023] Open
Abstract
Vascular plant one zinc-finger (VOZ) proteins are a plant-specific transcription factor family and play important roles in plant development and stress responses. However, little is known about the VOZ genes in quinoa. In the present study, a genome-wide investigation of the VOZ gene family in quinoa was performed, including gene structures, conserved motifs, phylogeny, and expression profiles. A total of four quinoa VOZ genes distributed on three chromosomes were identified. Based on phylogenetic analysis, CqVOZ1 and CqVOZ3 belong to subfamily II, and CqVOZ2 and CqVOZ4 belong to subfamily III. Furthermore, the VOZ transcription factors of quinoa and sugarbeet were more closely related than other species. Except for CqVOZ3, all the other three CqVOZs have four exons and four introns. Analysis of conserved motifs indicated that each CqVOZ member contained seven common motifs. Multiple sequence alignment showed that the CqVOZ genes were highly conserved with consensus sequences, which might be plausibly significant for the preservation of structural integrity of the family proteins. Tissue expression analysis revealed that four CqVOZ genes were highly expressed in inflorescence and relatively low in leaves and stems, suggesting that these genes had obvious tissue expression specificity. The expression profiles of the quinoa CqVOZs under various abiotic stresses demonstrated that these genes were differentially induced by cold stress, salt stress, and drought stress. The transcript level of CqVOZ1 and CqVOZ4 were down-regulated by salt stress and drought stress, while CqVOZ2 and CqVOZ3 were up-regulated by cold, salt, and drought stress, which could be used as abiotic stress resistance candidate genes. This study systematically identifies the CqVOZ genes at the genome-wide level, contributing to a better understanding of the quinoa VOZ transcription factor family and laying a foundation for further exploring the molecular mechanism of development and stress resistance of quinoa.
Collapse
Affiliation(s)
- Pibiao Shi
- Xinyang Agricultural Experiment Station of Yancheng City, Jiangsu Academy of Agricultural Sciences, Yancheng 224049, China
| | - Runzhi Jiang
- Xinyang Agricultural Experiment Station of Yancheng City, Jiangsu Academy of Agricultural Sciences, Yancheng 224049, China
| | - Bin Li
- Xinyang Agricultural Experiment Station of Yancheng City, Jiangsu Academy of Agricultural Sciences, Yancheng 224049, China
| | - Deling Wang
- Xinyang Agricultural Experiment Station of Yancheng City, Jiangsu Academy of Agricultural Sciences, Yancheng 224049, China
| | - Di Fang
- Xinyang Agricultural Experiment Station of Yancheng City, Jiangsu Academy of Agricultural Sciences, Yancheng 224049, China
| | - Min Yin
- Xinyang Agricultural Experiment Station of Yancheng City, Jiangsu Academy of Agricultural Sciences, Yancheng 224049, China
| | - Mingming Yin
- Xinyang Agricultural Experiment Station of Yancheng City, Jiangsu Academy of Agricultural Sciences, Yancheng 224049, China
| | - Minfeng Gu
- Xinyang Agricultural Experiment Station of Yancheng City, Jiangsu Academy of Agricultural Sciences, Yancheng 224049, China
| |
Collapse
|
11
|
Chong L, Xu R, Huang P, Guo P, Zhu M, Du H, Sun X, Ku L, Zhu JK, Zhu Y. The tomato OST1-VOZ1 module regulates drought-mediated flowering. THE PLANT CELL 2022; 34:2001-2018. [PMID: 35099557 PMCID: PMC9048945 DOI: 10.1093/plcell/koac026] [Citation(s) in RCA: 40] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Accepted: 01/25/2022] [Indexed: 05/08/2023]
Abstract
Flowering is a critical agricultural trait that substantially affects tomato fruit yield. Although drought stress influences flowering time, the molecular mechanism underlying drought-regulated flowering in tomato remains elusive. In this study, we demonstrated that loss of function of tomato OPEN STOMATA 1 (SlOST1), a protein kinase essential for abscisic acid (ABA) signaling and abiotic stress responses, lowers the tolerance of tomato plants to drought stress. slost1 mutants also exhibited a late flowering phenotype under both normal and drought stress conditions. We also established that SlOST1 directly interacts with and phosphorylates the NAC (NAM, ATAF and CUC)-type transcription factor VASCULAR PLANT ONE-ZINC FINGER 1 (SlVOZ1), at residue serine 67, thereby enhancing its stability and nuclear translocation in an ABA-dependent manner. Moreover, we uncovered several SlVOZ1 binding motifs from DNA affinity purification sequencing analyses and revealed that SlVOZ1 can directly bind to the promoter of the major flowering-integrator gene SINGLE FLOWER TRUSS to promote tomato flowering transition in response to drought. Collectively, our data uncover the essential role of the SlOST1-SlVOZ1 module in regulating flowering in response to drought stress in tomato and offer insights into a novel strategy to balance drought stress response and flowering.
Collapse
Affiliation(s)
| | | | | | - Pengcheng Guo
- State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng 475001, China
- Sanya Institute of Henan University, Sanya, 572025, China
| | - Mingku Zhu
- Institute of Integrative Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou 221116, China
| | - Hai Du
- College of Agronomy and Biotechnology, Chongqing Engineering Research Center for Rapeseed, Southwest University, Chongqing 400716, China
| | - Xiaoli Sun
- Crop Stress Molecular Biology Laboratory, Heilongjiang Bayi Agricultural University, Daqing 163319, China
| | - Lixia Ku
- College of Agronomy, Synergetic Innovation Center of Henan Grain Crops and National Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450046, China
| | - Jian-Kang Zhu
- Shanghai Center for Plant Stress Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, Indiana 47907, USA
| | | |
Collapse
|
12
|
Xu Q, Liesche J. Sugar export from Arabidopsis leaves: actors and regulatory strategies. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:5275-5284. [PMID: 34037757 DOI: 10.1093/jxb/erab241] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2021] [Accepted: 05/22/2021] [Indexed: 06/12/2023]
Abstract
Plant acclimation and stress responses depend on the dynamic optimization of carbon balance between source and sink organs. This optimization also applies to the leaf export rate of photosynthetically produced sugars. So far, investigations into the molecular mechanisms of how the rate is controlled have focused on sugar transporters responsible for loading sucrose into the phloem sieve element-companion cell complex of leaf veins. Here, we take a broader view of the various proteins with potential direct influence on the leaf sugar export rate in the model plant Arabidopsis thaliana, helped by the cell type-specific transcriptome data that have recently become available. Furthermore, we integrate current information on the regulation of these potential target proteins. Our analysis identifies putative control points and units of transcriptionally and post-transcriptionally co-regulated genes. Most notable is the potential regulatory unit of sucrose transporters (SUC2, SWEET11, SWEET12, and SUC4) and proton pumps (AHA3 and AVP1). Our analysis can guide future research aimed at understanding the regulatory network controlling leaf sugar export by providing starting points for characterizing regulatory strategies and identifying regulatory factors that link sugar export rate to the major signaling pathways.
Collapse
Affiliation(s)
- Qiyu Xu
- College of Life Sciences, Northwest A&F University, Yangling, China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, China
- Biomass Energy Center for Arid and Semiarid Lands, Northwest A&F University, Yangling, China
| | - Johannes Liesche
- College of Life Sciences, Northwest A&F University, Yangling, China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, China
- Biomass Energy Center for Arid and Semiarid Lands, Northwest A&F University, Yangling, China
- Institute for Molecular Physiology, Heinrich Heine University Düsseldorf, Düsseldorf, Germany
| |
Collapse
|
13
|
Rehman SU, Qanmber G, Tahir MHN, Irshad A, Fiaz S, Ahmad F, Ali Z, Sajjad M, Shees M, Usman M, Geng Z. Characterization of Vascular plant One-Zinc finger (VOZ) in soybean (Glycine max and Glycine soja) and their expression analyses under drought condition. PLoS One 2021; 16:e0253836. [PMID: 34214130 PMCID: PMC8253436 DOI: 10.1371/journal.pone.0253836] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2021] [Accepted: 06/15/2021] [Indexed: 11/18/2022] Open
Abstract
Vascular plant one-zinc-finger (VOZ) transcription factors regulate plant growth and development under drought conditions. Six VOZ transcription factors encoding genes exist in soybean genome (both in Glycine max and Glycine soja). Herein, GmVOZs and GsVOZs were identified through in silico analysis and characterized with different bioinformatics tools and expression analysis. Phylogenetic analysis classified VOZ genes in four groups. Sequence logos analysis among G. max and G. soja amino acid residues revealed higher conservation. Presence of stress related cis-elements in the upstream regions of GmVOZs and GsVOZs highlights their role in tolerance against abiotic stresses. The collinearity analysis identified 14 paralogous/orthologous gene pairs within and between G. max and G. soja. The Ka/Ks values showed that soybean VOZ genes underwent selection pressure with limited functional deviation arising from whole genome and segmental duplication. The GmVOZs and GsVOZs were found to express in roots and leaves at seedling stage. The qRT-PCR revealed that GmVOZs and GsVOZs transcripts can be regulated by abiotic stresses such as polyethylene glycol (PEG). The findings of this study will provide a reference to decipher physiological and molecular functions of VOZ genes in soybean.
Collapse
Affiliation(s)
- Shoaib Ur Rehman
- Institute of Plant Breeding and Biotechnology, Muhammad Nawaz Shareef University of Agriculture Multan, Multan, Pakistan
| | - Ghulam Qanmber
- State Key Laboratory of Cotton Biology, Cotton Research Institute of Chinese Academy of Agricultural Sciences, Anyang, Henan, China
| | - Muhammad Hammad Nadeem Tahir
- Institute of Plant Breeding and Biotechnology, Muhammad Nawaz Shareef University of Agriculture Multan, Multan, Pakistan
| | - Ahsan Irshad
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, National Engineering Laboratory of Crop Molecular Breeding, National Center of Space Mutagenesis for Crop Improvement, Beijing, China
| | - Sajid Fiaz
- Department of Plant Breeding and Genetics, The University of Haripur, Haripur, Pakistan
| | - Furqan Ahmad
- Institute of Plant Breeding and Biotechnology, Muhammad Nawaz Shareef University of Agriculture Multan, Multan, Pakistan
- Institute of Crop Science, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China
| | - Zulfiqar Ali
- Institute of Plant Breeding and Biotechnology, Muhammad Nawaz Shareef University of Agriculture Multan, Multan, Pakistan
| | - Muhammad Sajjad
- Department of Biosciences, COMSATS University Islamabad (CUI), Islamabad, Pakistan
| | - Muhammad Shees
- Institute of Plant Breeding and Biotechnology, Muhammad Nawaz Shareef University of Agriculture Multan, Multan, Pakistan
| | - Muhammad Usman
- Institute of Plant Breeding and Biotechnology, Muhammad Nawaz Shareef University of Agriculture Multan, Multan, Pakistan
| | - Zhide Geng
- Institute of Food Crops, Yunnan Academy of Agricultural Sciences, Kunming, China
| |
Collapse
|
14
|
Amin I, Rasool S, Mir MA, Wani W, Masoodi KZ, Ahmad P. Ion homeostasis for salinity tolerance in plants: a molecular approach. PHYSIOLOGIA PLANTARUM 2021; 171:578-594. [PMID: 32770745 DOI: 10.1111/ppl.13185] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Revised: 06/23/2020] [Accepted: 08/06/2020] [Indexed: 05/07/2023]
Abstract
Soil salinity is one of the major environmental stresses faced by the plants. Sodium chloride is the most important salt responsible for inducing salt stress by disrupting the osmotic potential. Due to various innate mechanisms, plants adapt to the sodic niche around them. Genes and transcription factors regulating ion transport and exclusion such as salt overly sensitive (SOS), Na+ /H+ exchangers (NHXs), high sodium affinity transporter (HKT) and plasma membrane protein (PMP) are activated during salinity stress and help in alleviating cells of ion toxicity. For salt tolerance in plants signal transduction and gene expression is regulated via transcription factors such as NAM (no apical meristem), ATAF (Arabidopsis transcription activation factor), CUC (cup-shaped cotyledon), Apetala 2/ethylene responsive factor (AP2/ERF), W-box binding factor (WRKY) and basic leucine zipper domain (bZIP). Cross-talk between all these transcription factors and genes aid in developing the tolerance mechanisms adopted by plants against salt stress. These genes and transcription factors regulate the movement of ions out of the cells by opening various membrane ion channels. Mutants or knockouts of all these genes are known to be less salt-tolerant compared to wild-types. Using novel molecular techniques such as analysis of genome, transcriptome, ionome and metabolome of a plant, can help in expanding the understanding of salt tolerance mechanism in plants. In this review, we discuss the genes responsible for imparting salt tolerance under salinity stress through transport dynamics of ion balance and need to integrate high-throughput molecular biology techniques to delineate the issue.
Collapse
Affiliation(s)
- Insha Amin
- Molecular Biology Lab, Division of Veterinary Biochemistry, FVSc & A.H., SKUAST, Shuhama, India
| | - Saiema Rasool
- Department of School Education, Govt. of Jammu & Kashmir, Srinagar, 190001, India
| | - Mudasir A Mir
- Transcriptomics Lab, Division of Plant Biotechnology, SKUAST-Kashmir, Shalimar, 190025, India
| | - Wasia Wani
- Transcriptomics Lab, Division of Plant Biotechnology, SKUAST-Kashmir, Shalimar, 190025, India
| | - Khalid Z Masoodi
- Transcriptomics Lab, Division of Plant Biotechnology, SKUAST-Kashmir, Shalimar, 190025, India
| | - Parvaiz Ahmad
- Botany and Microbiology Department, College of Sciences, King Saud University, Riyadh, 11451, Saudi Arabia
- Department of Botany, S. P. College, Srinagar, Jammu and Kashmir, 190001, India
| |
Collapse
|
15
|
Wang J, Wang R, Fang H, Zhang C, Zhang F, Hao Z, You X, Shi X, Park CH, Hua K, He F, Bellizzi M, Xuan Vo KT, Jeon JS, Ning Y, Wang GL. Two VOZ transcription factors link an E3 ligase and an NLR immune receptor to modulate immunity in rice. MOLECULAR PLANT 2021; 14:253-266. [PMID: 33186754 DOI: 10.1016/j.molp.2020.11.005] [Citation(s) in RCA: 42] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2020] [Revised: 10/03/2020] [Accepted: 11/08/2020] [Indexed: 05/11/2023]
Abstract
Nucleotide-binding leucine-rich repeat (NLR) proteins play critical roles in plant immunity. However, how NLRs are regulated and activate defense signaling is not fully understood. The rice (Oryza sativa) NLR receptor Piz-t confers broad-spectrum resistance to the fungal pathogen Magnaporthe oryzae and the RING-type E3 ligase AVRPIZ-T INTERACTING PROTEIN 10 (APIP10) negatively regulates Piz-t accumulation. In this study, we found that APIP10 interacts with two rice transcription factors, VASCULAR PLANT ONE-ZINC FINGER 1 (OsVOZ1) and OsVOZ2, and promotes their degradation through the 26S proteasome pathway. OsVOZ1 displays transcriptional repression activity while OsVOZ2 confers transcriptional activation activity in planta. The osvoz1 and osvoz2 single mutants display modest but opposite M. oryzae resistance in the non-Piz-t background. However, the osvoz1 osvoz2 double mutant exhibits strong dwarfism and cell death, and silencing of both genes via RNA interference also leads to dwarfism, mild cell death, and enhanced resistance to M. oryzae in the non-Piz-t background. Both OsVOZ1 and OsVOZ2 interact with Piz-t. Double silencing of OsVOZ1 and OsVOZ2 in the Piz-t background decreases Piz-t protein accumulation and transcription, reactive oxygen species-dependent cell death, and resistance to M. oryzae containing AvrPiz-t. Taken together, these results indicate that OsVOZ1 and OsVOZ2 negatively regulate basal defense but contribute positively to Piz-t-mediated immunity.
Collapse
Affiliation(s)
- Jiyang Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China; Department of Plant Pathology, Ohio State University, Columbus, OH 43210, USA
| | - Ruyi Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China; Department of Plant Pathology, Ohio State University, Columbus, OH 43210, USA
| | - Hong Fang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Chongyang Zhang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Fan Zhang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Zeyun Hao
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Xiaoman You
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Xuetao Shi
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Chan Ho Park
- Department of Plant Pathology, Ohio State University, Columbus, OH 43210, USA
| | - Kangyu Hua
- Department of Plant Pathology, Ohio State University, Columbus, OH 43210, USA
| | - Feng He
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China
| | - Maria Bellizzi
- Department of Plant Pathology, Ohio State University, Columbus, OH 43210, USA
| | - Kieu Thi Xuan Vo
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin 17104, Korea
| | - Jong-Seong Jeon
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin 17104, Korea
| | - Yuese Ning
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China.
| | - Guo-Liang Wang
- Department of Plant Pathology, Ohio State University, Columbus, OH 43210, USA.
| |
Collapse
|
16
|
Luo D, Qu L, Zhong M, Li X, Wang H, Miao J, Liu X, Zhao X. Vascular plant one-zinc finger 1 (VOZ1) and VOZ2 negatively regulate phytochrome B-mediated seed germination in Arabidopsis. Biosci Biotechnol Biochem 2020; 84:1384-1393. [DOI: 10.1080/09168451.2020.1740971] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
Abstract
Seed germination is regulated by light. Phytochromes (Phys) act as red and far-red light photoreceptors to mediate seed germination. However, the mechanism of this process is not well understood. In this study, we found that the Arabidopsis thaliana mutants vascular plant one-zinc finger 1 (voz1) and voz2 showed higher seed germination percentage than wild type when PhyB was inactivated by far-red light. In wild type, VOZ1 and VOZ2 expression were downregulated after seed imbibition, repressed by PhyB, and upregulated by Phytochrome-interacting factor 1 (PIF1), a key negative regulator of seed germination. Red light irradiation and the voz1voz2 mutation caused increased expression of Gibberellin 3-oxidase 1 (GA3ox1), a gibberellin (GA) biosynthetic gene. We also found that VOZ2 is bound directly to the promoter of GA3ox1 in vitro and in vivo. Our findings suggest that VOZs play a negative role in PhyB-mediated seed germination, possibly by directly regulating GA3ox1 expression.
Collapse
Affiliation(s)
- Dan Luo
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
- Shenzhen Institute, Hunan University, Shenzhen, China
| | - Lina Qu
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
- Shenzhen Institute, Hunan University, Shenzhen, China
| | - Ming Zhong
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
- Shenzhen Institute, Hunan University, Shenzhen, China
| | - Xinmei Li
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
- Shenzhen Institute, Hunan University, Shenzhen, China
| | - Han Wang
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
| | - Jiahui Miao
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
| | - Xuanming Liu
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
| | - Xiaoying Zhao
- College of Biology, Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, State Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha, China
- Shenzhen Institute, Hunan University, Shenzhen, China
| |
Collapse
|
17
|
Wei H. Construction of a hierarchical gene regulatory network centered around a transcription factor. Brief Bioinform 2020; 20:1021-1031. [PMID: 29186304 DOI: 10.1093/bib/bbx152] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2017] [Revised: 10/11/2017] [Indexed: 12/24/2022] Open
Abstract
We have modified a multitude of transcription factors (TFs) in numerous plant species and some animal species, and obtained transgenic lines that exhibit phenotypic alterations. Whenever we observe phenotypic changes in a TF's transgenic lines, we are always eager to identify its target genes, collaborative regulators and even upstream high hierarchical regulators. This issue can be addressed by establishing a multilayered hierarchical gene regulatory network (ML-hGRN) centered around a given TF. In this article, a practical approach for constructing an ML-hGRN centered on a TF using a combined approach of top-down and bottom-up network construction methods is described. Strategies for constructing ML-hGRNs are vitally important, as these networks provide key information to advance our understanding of how biological processes are regulated.
Collapse
Affiliation(s)
- Hairong Wei
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, Heilongjiang, China.,School of Forest Resources and Environmental Science, Michigan Technological University, Houghton, MI, USA
| |
Collapse
|
18
|
Li B, Zheng JC, Wang TT, Min DH, Wei WL, Chen J, Zhou YB, Chen M, Xu ZS, Ma YZ. Expression Analyses of Soybean VOZ Transcription Factors and the Role of GmVOZ1G in Drought and Salt Stress Tolerance. Int J Mol Sci 2020; 21:E2177. [PMID: 32245276 PMCID: PMC7139294 DOI: 10.3390/ijms21062177] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2020] [Revised: 03/11/2020] [Accepted: 03/16/2020] [Indexed: 01/31/2023] Open
Abstract
Vascular plant one-zinc-finger (VOZ) transcription factor, a plant specific one-zinc-finger-type transcriptional activator, is involved in regulating numerous biological processes such as floral induction and development, defense against pathogens, and response to multiple types of abiotic stress. Six VOZ transcription factor-encoding genes (GmVOZs) have been reported to exist in the soybean (Glycine max) genome. In spite of this, little information is currently available regarding GmVOZs. In this study, GmVOZs were cloned and characterized. GmVOZ genes encode proteins possessing transcriptional activation activity in yeast cells. GmVOZ1E, GmVOZ2B, and GmVOZ2D gene products were widely dispersed in the cytosol, while GmVOZ1G was primarily located in the nucleus. GmVOZs displayed a differential expression profile under dehydration, salt, and salicylic acid (SA) stress conditions. Among them, GmVOZ1G showed a significantly induced expression in response to all stress treatments. Overexpression of GmVOZ1G in soybean hairy roots resulted in a greater tolerance to drought and salt stress. In contrast, RNA interference (RNAi) soybean hairy roots suppressing GmVOZ1G were more sensitive to both of these stresses. Under drought treatment, soybean composite plants with an overexpression of hairy roots had higher relative water content (RWC). In response to drought and salt stress, lower malondialdehyde (MDA) accumulation and higher peroxidase (POD) and superoxide dismutase (SOD) activities were observed in soybean composite seedlings with an overexpression of hairy roots. The opposite results for each physiological parameter were obtained in RNAi lines. In conclusion, GmVOZ1G positively regulates drought and salt stress tolerance in soybean hairy roots. Our results will be valuable for the functional characterization of soybean VOZ transcription factors under abiotic stress.
Collapse
Affiliation(s)
- Bo Li
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing 100081, China; (B.L.); (Y.-B.Z.); (M.C.); (Y.-Z.M.)
| | - Jia-Cheng Zheng
- Anhui Science and Technology University, Fengyang 233100, China;
| | - Ting-Ting Wang
- College of Agriculture, Yangtze University; Hubei Collaborative Innovation Center for Grain Industry; Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education, Jingzhou 434025, China; (T.-T.W.); (W.-L.W.)
| | - Dong-Hong Min
- College of Agronomy, Northwest A&F University/State Key Laboratory of Crop Stress Biology for Arid Areas, Yangling, Shaanxi 712100, China;
| | - Wen-Liang Wei
- College of Agriculture, Yangtze University; Hubei Collaborative Innovation Center for Grain Industry; Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education, Jingzhou 434025, China; (T.-T.W.); (W.-L.W.)
| | - Jun Chen
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing 100081, China; (B.L.); (Y.-B.Z.); (M.C.); (Y.-Z.M.)
| | - Yong-Bin Zhou
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing 100081, China; (B.L.); (Y.-B.Z.); (M.C.); (Y.-Z.M.)
| | - Ming Chen
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing 100081, China; (B.L.); (Y.-B.Z.); (M.C.); (Y.-Z.M.)
| | - Zhao-Shi Xu
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing 100081, China; (B.L.); (Y.-B.Z.); (M.C.); (Y.-Z.M.)
| | - You-Zhi Ma
- Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing 100081, China; (B.L.); (Y.-B.Z.); (M.C.); (Y.-Z.M.)
| |
Collapse
|
19
|
Wang X, Chen S, Shi X, Liu D, Zhao P, Lu Y, Cheng Y, Liu Z, Nie X, Song W, Sun Q, Xu S, Ma C. Hybrid sequencing reveals insight into heat sensing and signaling of bread wheat. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2019; 98:1015-1032. [PMID: 30891832 PMCID: PMC6850178 DOI: 10.1111/tpj.14299] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2018] [Revised: 01/17/2019] [Accepted: 02/19/2019] [Indexed: 05/19/2023]
Abstract
Wheat (Triticum aestivum L.), a globally important crop, is challenged by increasing temperatures (heat stress, HS). However its polyploid nature, the incompleteness of its genome sequences and annotation, the lack of comprehensive HS-responsive transcriptomes and the unexplored heat sensing and signaling of wheat hinder our full understanding of its adaptations to HS. The recently released genome sequences of wheat, as well as emerging single-molecular sequencing technologies, provide an opportunity to thoroughly investigate the molecular mechanisms of the wheat response to HS. We generated a high-resolution spatio-temporal transcriptome map of wheat flag leaves and filling grain under HS at 0 min, 5 min, 10 min, 30 min, 1 h and 4 h by combining full-length single-molecular sequencing and Illumina short reads sequencing. This hybrid sequencing newly discovered 4947 loci and 70 285 transcripts, generating the comprehensive and dynamic list of HS-responsive full-length transcripts and complementing the recently released wheat reference genome. Large-scale analysis revealed a global landscape of heat adaptations, uncovering unexpected rapid heat sensing and signaling, significant changes of more than half of HS-responsive genes within 30 min, heat shock factor-dependent and -independent heat signaling, and metabolic alterations in early HS-responses. Integrated analysis also demonstrated the differential responses and partitioned functions between organs and subgenomes, and suggested a differential pattern of transcriptional and alternative splicing regulation in the HS response. This study provided comprehensive data for dissecting molecular mechanisms of early HS responses in wheat and highlighted the genomic plasticity and evolutionary divergence of polyploidy wheat.
Collapse
Affiliation(s)
- Xiaoming Wang
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Siyuan Chen
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of Life SciencesNorthwest A&F UniversityYangling712100ShaanxiChina
- Center of BioinformaticsCollege of Life SciencesNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Xue Shi
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Danni Liu
- FrasergenWuhan East Lake High‐tech ZoneWuhan430075China
| | - Peng Zhao
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Yunze Lu
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Yanbing Cheng
- FrasergenWuhan East Lake High‐tech ZoneWuhan430075China
| | - Zhenshan Liu
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Xiaojun Nie
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Weining Song
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Qixin Sun
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
- Department of Plant Genetics & BreedingChina Agricultural UniversityYuanmingyuan Xi Road No. 2, Haidian DistrictBeijing100193China
| | - Shengbao Xu
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of AgronomyNorthwest A&F UniversityYangling712100ShaanxiChina
| | - Chuang Ma
- State Key Laboratory of Crop Stress Biology for Arid AreasCollege of Life SciencesNorthwest A&F UniversityYangling712100ShaanxiChina
- Center of BioinformaticsCollege of Life SciencesNorthwest A&F UniversityYangling712100ShaanxiChina
| |
Collapse
|
20
|
Takahashi N, Ogita N, Takahashi T, Taniguchi S, Tanaka M, Seki M, Umeda M. A regulatory module controlling stress-induced cell cycle arrest in Arabidopsis. eLife 2019; 8:43944. [PMID: 30944065 PMCID: PMC6449083 DOI: 10.7554/elife.43944] [Citation(s) in RCA: 66] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2018] [Accepted: 03/10/2019] [Indexed: 11/13/2022] Open
Abstract
Cell cycle arrest is an active response to stresses that enables organisms to survive under fluctuating environmental conditions. While signalling pathways that inhibit cell cycle progression have been elucidated, the putative core module orchestrating cell cycle arrest in response to various stresses is still elusive. Here we report that in Arabidopsis, the NAC-type transcription factors ANAC044 and ANAC085 are required for DNA damage-induced G2 arrest. Under genotoxic stress conditions, ANAC044 and ANAC085 enhance protein accumulation of the R1R2R3-type Myb transcription factor (Rep-MYB), which represses G2/M-specific genes. ANAC044/ANAC085-dependent accumulation of Rep-MYB and cell cycle arrest are also observed in the response to heat stress that causes G2 arrest, but not to osmotic stress that retards G1 progression. These results suggest that plants deploy the ANAC044/ANAC085-mediated signalling module as a hub which perceives distinct stress signals and leads to G2 arrest. During environmental stresses, such as high light or a drought, plants do not have the opportunity to up and leave. Instead, they need to buy time and energy by pausing their growth, which means stopping their cells from dividing. In this case, the cell cycle, a series of stages during which a cell prepares itself for division, must be halted. If the genetic information in cells is damaged, often under the influence of the environment, plants stop their cell cycle in the step just before division. However, it is still unclear how this process takes place, and which proteins participate in it. Researchers also do not know whether environmental stresses can directly trigger this mechanism. To investigate, Takahashi et al. conducted a series of genetic experiments on a common plant known as Arabidopsis thaliana, and they identified two proteins, ANAC044 and ANAC085, which could stop the cell cycle when the genetic information is damaged. In particular, ANAC044 and ANAC085 worked by stabilizing other proteins that turn off certain genes that the cell needed to divide. Additional experiments showed that other types of stresses, such as heat, halted the cell cycle using the ANAC044 and ANAC085 pathway. This suggests that this mechanism may be a central ‘hub’ that responds to various stress signals from the environment to prevent cells from dividing. In the field, environmental stresses stop plants from growing, which reduces crop yields; ultimately, manipulating ANAC044 or ANAC085 might help to boost plant productivity even when external conditions fluctuate.
Collapse
Affiliation(s)
- Naoki Takahashi
- Graduate School of Science and Technology, Nara Institute of Science and Technology, Nara, Japan
| | - Nobuo Ogita
- Graduate School of Science and Technology, Nara Institute of Science and Technology, Nara, Japan
| | - Tomonobu Takahashi
- Graduate School of Science and Technology, Nara Institute of Science and Technology, Nara, Japan
| | - Shoji Taniguchi
- Graduate School of Science and Technology, Nara Institute of Science and Technology, Nara, Japan
| | - Maho Tanaka
- RIKEN Center for Sustainable Resource Science, Yokohama, Japan.,RIKEN Cluster for Pioneering Research, Wako, Japan
| | - Motoaki Seki
- RIKEN Cluster for Pioneering Research, Wako, Japan
| | - Masaaki Umeda
- Graduate School of Science and Technology, Nara Institute of Science and Technology, Nara, Japan
| |
Collapse
|
21
|
Prasad KVSK, Xing D, Reddy ASN. Vascular Plant One-Zinc-Finger (VOZ) Transcription Factors Are Positive Regulators of Salt Tolerance in Arabidopsis. Int J Mol Sci 2018; 19:ijms19123731. [PMID: 30477148 PMCID: PMC6321167 DOI: 10.3390/ijms19123731] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2018] [Revised: 11/19/2018] [Accepted: 11/20/2018] [Indexed: 11/16/2022] Open
Abstract
Soil salinity, a significant problem in agriculture, severely limits the productivity of crop plants. Plants respond to and cope with salt stress by reprogramming gene expression via multiple signaling pathways that converge on transcription factors. To develop strategies to generate salt-tolerant crops, it is necessary to identify transcription factors that modulate salt stress responses in plants. In this study, we investigated the role of VOZ (VASCULAR PLANT ONE-ZINC FINGER PROTEIN) transcription factors (VOZs) in salt stress response. Transcriptome analysis in WT (wild-type), voz1-1, voz2-1 double mutant and a VOZ2 complemented line revealed that many stress-responsive genes are regulated by VOZs. Enrichment analysis for gene ontology terms in misregulated genes in voz double mutant confirmed previously identified roles of VOZs and suggested a new role for them in salt stress. To confirm VOZs role in salt stress, we analyzed seed germination and seedling growth of WT, voz1, voz2-1, voz2-2 single mutants, voz1-1voz2-1 double mutant and a complemented line under different concentrations of NaCl. Only the double mutant exhibited hypersensitivity to salt stress as compared to WT, single mutants, and a complemented line. Expression analysis showed that hypersensitivity of the double mutant was accompanied by reduced expression of salt-inducible genes. These results suggest that VOZ transcription factors act as positive regulators of several salt-responsive genes and that the two VOZs are functionally redundant in salt stress.
Collapse
Affiliation(s)
- Kasavajhala V S K Prasad
- Department of Biology and Cell and Molecular Biology Program, Colorado State University, Fort Collins, CO 80523, USA.
| | - Denghui Xing
- Department of Biology and Cell and Molecular Biology Program, Colorado State University, Fort Collins, CO 80523, USA.
- Genomics Core Lab, Division of Biological Sciences, University of Montana, Missoula, MT 59812, USA.
| | - Anireddy S N Reddy
- Department of Biology and Cell and Molecular Biology Program, Colorado State University, Fort Collins, CO 80523, USA.
| |
Collapse
|
22
|
Gao B, Chen M, Li X, Liang Y, Zhu F, Liu T, Zhang D, Wood AJ, Oliver MJ, Zhang J. Evolution by duplication: paleopolyploidy events in plants reconstructed by deciphering the evolutionary history of VOZ transcription factors. BMC PLANT BIOLOGY 2018; 18:256. [PMID: 30367626 PMCID: PMC6204039 DOI: 10.1186/s12870-018-1437-8] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2017] [Accepted: 09/23/2018] [Indexed: 05/15/2023]
Abstract
BACKGROUND Facilitated by the rapid progress of sequencing technology, comparative genomic studies in plants have unveiled recurrent whole genome duplication (i.e. polyploidization) events throughout plant evolution. The evolutionary past of plant genes should be analyzed in a background of recurrent polyploidy events in distinctive plant lineages. The Vascular Plant One Zinc-finger (VOZ) gene family encode transcription factors associated with a number of important traits including control of flowering time and photoperiodic pathways, but the evolutionary trajectory of this gene family remains uncharacterized. RESULTS In this study, we deciphered the evolutionary history of the VOZ gene family by analyses of 107 VOZ genes in 46 plant genomes using integrated methods: phylogenic reconstruction, Ks-based age estimation and genomic synteny comparisons. By scrutinizing the VOZ gene family phylogeny the core eudicot γ event was well circumscribed, and relics of the precommelinid τ duplication event were detected by incorporating genes from oil palm and banana. The more recent T and ρ polyploidy events, closely coincident with the species diversification in Solanaceae and Poaceae, respectively, were also identified. Other important polyploidy events captured included the "salicoid" event in poplar and willow, the "early legume" and "soybean specific" events in soybean, as well as the recent polyploidy event in Physcomitrella patens. Although a small transcription factor gene family, the evolutionary history of VOZ genes provided an outstanding record of polyploidy events in plants. The evolutionary past of VOZ gene family demonstrated a close correlation with critical plant polyploidy events which generated species diversification and provided answer to Darwin's "abominable mystery". CONCLUSIONS We deciphered the evolutionary history of VOZ transcription factor family in plants and ancestral polyploidy events in plants were recapitulated simultaneously. This analysis allowed for the generation of an idealized plant gene tree demonstrating distinctive retention and fractionation patterns following polyploidy events.
Collapse
Affiliation(s)
- Bei Gao
- School of Life Sciences and the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong, China
| | - Moxian Chen
- Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, China
| | - Xiaoshuang Li
- Key Laboratory of Biogeography and Bioresources, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011 China
| | - Yuqing Liang
- Key Laboratory of Biogeography and Bioresources, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011 China
| | - Fuyuan Zhu
- College of Biology and the Environment, Nanjing Forestry University, Nanjing, Jiangsu Province, 210037 China
| | - Tieyuan Liu
- School of Life Sciences and the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong, China
| | - Daoyuan Zhang
- Key Laboratory of Biogeography and Bioresources, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011 China
| | - Andrew J. Wood
- Department of Plant Biology, Southern Illinois University-Carbondale, Carbondale, IL 62901-6509 USA
| | - Melvin J. Oliver
- USDA-ARS, Plant Genetic Research Unit, University of Missouri, Columbia, MO 65211 USA
| | - Jianhua Zhang
- School of Life Sciences and the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong, China
- Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, China
- Department of Biology, Faculty of Science, Hong Kong Baptist University, Hong Kong, China
| |
Collapse
|
23
|
Selote D, Matthiadis A, Gillikin JW, Sato MH, Long TA. The E3 ligase BRUTUS facilitates degradation of VOZ1/2 transcription factors. PLANT, CELL & ENVIRONMENT 2018; 41:2463-2474. [PMID: 29878379 DOI: 10.1111/pce.13363] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Revised: 05/30/2018] [Accepted: 06/01/2018] [Indexed: 05/08/2023]
Abstract
BRUTUS (BTS) is an iron binding E3 ligase that has been shown to bind to and influence the accumulation of target basic helix-loop-helix transcription factors through 26S proteasome-mediated degradation in Arabidopsis thaliana. Vascular Plant One-Zinc finger 1 (VOZ1) and Vascular plant One-Zinc finger 2 (VOZ2) are NAM, ATAF1/2 and CUC2 (NAC) domain transcription factors that negatively regulate drought and cold stress responses in plants and have previously been shown to be degraded via the 26S proteasome. However, the mechanism that initializes this degradation is unknown. Here, we show that BTS interacts with VOZ1 and VOZ2 and that the presence of the BTS RING domain is essential for these interactions. Through cell-free degradation and immunodetection analyses, we demonstrate that BTS facilitates the degradation of Vascular plant One-Zinc finger 1/2 (VOZ1/2) protein in the nucleus particularly under drought and cold stress conditions. In addition to its known role in controlling the iron-deficiency response in plants, here, we report that BTS may play a role in drought and possibly other abiotic stress responses by facilitating the degradation of transcription factors, VOZ1/2.
Collapse
Affiliation(s)
- Devarshi Selote
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, North Carolina, USA
| | - Anna Matthiadis
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, North Carolina, USA
| | - Jeffrey W Gillikin
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, North Carolina, USA
| | - Masa H Sato
- Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, Kyoto, Japan
| | - Terri A Long
- Department of Plant and Microbial Biology, North Carolina State University, Raleigh, North Carolina, USA
| |
Collapse
|
24
|
Yoo Y, Park JC, Cho MH, Yang J, Kim CY, Jung KH, Jeon JS, An G, Lee SW. Lack of a Cytoplasmic RLK, Required for ROS Homeostasis, Induces Strong Resistance to Bacterial Leaf Blight in Rice. FRONTIERS IN PLANT SCIENCE 2018; 9:577. [PMID: 29868050 PMCID: PMC5968223 DOI: 10.3389/fpls.2018.00577] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2018] [Accepted: 04/13/2018] [Indexed: 05/02/2023]
Abstract
Many scientific findings have been reported on the beneficial function of reactive oxygen species (ROS) in various cellular processes, showing that they are not just toxic byproducts. The double-edged role of ROS shows the importance of the regulation of ROS level. We report a gene, rrsRLK (required for ROS-scavenging receptor-like kinase), that encodes a cytoplasmic RLK belonging to the non-RD kinase family. The gene was identified by screening rice RLK mutant lines infected with Xanthomonas oryzae pv. oryzae (Xoo), an agent of bacterial leaf blight of rice. The mutant (ΔrrsRLK) lacking the Os01g02290 gene was strongly resistant to many Xoo strains, but not to the fungal pathogen Magnaporthe grisea. ΔrrsRLK showed significantly higher expression of OsPR1a, OsPR1b, OsLOX, RBBTI4, and jasmonic acid-related genes than wild type. We showed that rrsRLK protein interacts with OsVOZ1 (vascular one zinc-finger 1) and OsPEX11 (peroxisomal biogenesis factor 11). In the further experiments, abnormal biogenesis of peroxisomes, hydrogen peroxide (H2O2) accumulation, and reduction of activity of ROS-scavenging enzymes were investigated in ΔrrsRLK. These results suggest that the enhanced resistance in ΔrrsRLK is due to H2O2 accumulation caused by irregular ROS-scavenging mechanism, and rrsRLK is most likely a key regulator required for ROS homeostasis in rice.
Collapse
Affiliation(s)
- Youngchul Yoo
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
| | - Jong-Chan Park
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
| | - Man-Ho Cho
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
| | - Jungil Yang
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
- Institute for Molecular Physiology, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany
- Max Planck Institute for Plant Breeding Research, Cologne, Germany
| | - Chi-Yeol Kim
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
| | - Ki-Hong Jung
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
| | - Jong-Seong Jeon
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
| | - Gynheung An
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
| | - Sang-Won Lee
- Graduate School of Biotechnology and Crop Biotech Institute, Kyung Hee University, Yongin, South Korea
| |
Collapse
|
25
|
Ogita N, Okushima Y, Tokizawa M, Yamamoto YY, Tanaka M, Seki M, Makita Y, Matsui M, Okamoto-Yoshiyama K, Sakamoto T, Kurata T, Hiruma K, Saijo Y, Takahashi N, Umeda M. Identifying the target genes of SUPPRESSOR OF GAMMA RESPONSE 1, a master transcription factor controlling DNA damage response in Arabidopsis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2018; 94:439-453. [PMID: 29430765 DOI: 10.1111/tpj.13866] [Citation(s) in RCA: 97] [Impact Index Per Article: 16.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2017] [Revised: 01/31/2018] [Accepted: 02/01/2018] [Indexed: 05/17/2023]
Abstract
In mammalian cells, the transcription factor p53 plays a crucial role in transmitting DNA damage signals to maintain genome integrity. However, in plants, orthologous genes for p53 and checkpoint proteins are absent. Instead, the plant-specific transcription factor SUPPRESSOR OF GAMMA RESPONSE 1 (SOG1) controls most of the genes induced by gamma irradiation and promotes DNA repair, cell cycle arrest, and stem cell death. To date, the genes directly controlled by SOG1 remain largely unknown, limiting the understanding of DNA damage signaling in plants. Here, we conducted a microarray analysis and chromatin immunoprecipitation (ChIP)-sequencing, and identified 146 Arabidopsis genes as direct targets of SOG1. By using ChIP-sequencing data, we extracted the palindromic motif [CTT(N)7 AAG] as a consensus SOG1-binding sequence, which mediates target gene induction in response to DNA damage. Furthermore, DNA damage-triggered phosphorylation of SOG1 is required for efficient binding to the SOG1-binding sequence. Comparison between SOG1 and p53 target genes showed that both transcription factors control genes responsible for cell cycle regulation, such as CDK inhibitors, and DNA repair, whereas SOG1 preferentially targets genes involved in homologous recombination. We also found that defense-related genes were enriched in the SOG1 target genes. Consistent with this finding, SOG1 is required for resistance against the hemi-biotrophic fungus Colletotrichum higginsianum, suggesting that SOG1 has a unique function in controlling the immune response.
Collapse
Affiliation(s)
- Nobuo Ogita
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Yoko Okushima
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Mutsutomo Tokizawa
- The United Graduate School of Agricultural Science, Gifu University, Gifu, Gifu, 501-1193, Japan
| | - Yoshiharu Y Yamamoto
- Faculty of Applied Biological Sciences, Gifu University, Gifu, Gifu, 501-1193, Japan
| | - Maho Tanaka
- RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan
| | - Motoaki Seki
- RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan
- JST, CREST, Kawaguchi, Saitama, 332-0012, Japan
| | - Yuko Makita
- RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan
| | - Minami Matsui
- RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan
| | - Kaoru Okamoto-Yoshiyama
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Tomoaki Sakamoto
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Tetsuya Kurata
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Kei Hiruma
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Yusuke Saijo
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Naoki Takahashi
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
| | - Masaaki Umeda
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara, 630-0192, Japan
- JST, CREST, Ikoma, Nara, 630-0192, Japan
| |
Collapse
|
26
|
Almeida DM, Oliveira MM, Saibo NJM. Regulation of Na+ and K+ homeostasis in plants: towards improved salt stress tolerance in crop plants. Genet Mol Biol 2017; 40:326-345. [PMID: 28350038 PMCID: PMC5452131 DOI: 10.1590/1678-4685-gmb-2016-0106] [Citation(s) in RCA: 226] [Impact Index Per Article: 32.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2016] [Accepted: 08/18/2016] [Indexed: 01/17/2023] Open
Abstract
Soil salinity is a major abiotic stress that results in considerable crop yield losses worldwide. However, some plant genotypes show a high tolerance to soil salinity, as they manage to maintain a high K+/Na+ ratio in the cytosol, in contrast to salt stress susceptible genotypes. Although, different plant genotypes show different salt tolerance mechanisms, they all rely on the regulation and function of K+ and Na+ transporters and H+ pumps, which generate the driving force for K+ and Na+ transport. In this review we will introduce salt stress responses in plants and summarize the current knowledge about the most important ion transporters that facilitate intra- and intercellular K+ and Na+ homeostasis in these organisms. We will describe and discuss the regulation and function of the H+-ATPases, H+-PPases, SOS1, HKTs, and NHXs, including the specific tissues where they work and their response to salt stress.
Collapse
Affiliation(s)
- Diego M Almeida
- Genomics of Plant Stress Unit, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa and Instituto de Biologia Experimental e Tecnológica, Oeiras, Portugal
| | - M Margarida Oliveira
- Genomics of Plant Stress Unit, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa and Instituto de Biologia Experimental e Tecnológica, Oeiras, Portugal
| | - Nelson J M Saibo
- Genomics of Plant Stress Unit, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa and Instituto de Biologia Experimental e Tecnológica, Oeiras, Portugal
| |
Collapse
|
27
|
Koguchi M, Yamasaki K, Hirano T, Sato MH. Vascular plant one-zinc-finger protein 2 is localized both to the nucleus and stress granules under heat stress in Arabidopsis. PLANT SIGNALING & BEHAVIOR 2017; 12:e1295907. [PMID: 28277968 PMCID: PMC5399895 DOI: 10.1080/15592324.2017.1295907] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
VASCULAR PLANT ONE-ZINC FINGER (VOZ)1/and VOZ2 have an ability to bind to the specific cis-element in the AVP1 promoter of Arabidopsis, which function on the PhyB-dependent flowering and possibly in various stress responses as potential transcription factors, although nuclear localization of VOZ proteins is still unclear. In this study, we found that VOZ2 is dispersed throughout the cytoplasm under normal growth conditions, whereas VOZ2 is transferred not only to the nucleus but also to the cytoplasmic foci under heat stress conditions. The VOZ2 foci predominantly co-localized with a marker of stress granules (SGs), which were cytoplasmic granular structures for mRNA storage and decay under abiotic stress conditions. We also demonstrated that GFP-VOZ2 with a nuclear localization signal was rapidly degraded via the ubiquitin/proteasome pathway under the heat stress conditions. Also, stress-related expression of DREB2A in the voz1voz2 mutant was significantly upregulated by heat stress as compared with that in the wild-type Arabidopsis. Our results suggest that VOZ2 is localized to SGs and nucleus under heat stress conditions, and functions as a transcriptional repressor of DREB2A in Arabidopsis.
Collapse
Affiliation(s)
- Misaki Koguchi
- Laboratory of Cellular Dynamics, Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, Shimogamo-nakaragi-cho, Sakyo-ku, Kyoto, Japan
| | - Kanako Yamasaki
- Laboratory of Cellular Dynamics, Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, Shimogamo-nakaragi-cho, Sakyo-ku, Kyoto, Japan
| | - Tomoko Hirano
- Laboratory of Cellular Dynamics, Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, Shimogamo-nakaragi-cho, Sakyo-ku, Kyoto, Japan
| | - Masa H. Sato
- Laboratory of Cellular Dynamics, Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, Shimogamo-nakaragi-cho, Sakyo-ku, Kyoto, Japan
- CONTACT Masa H. Sato Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, Shimogamo-nakaragi-cho, Sakyo-ku, Kyoto 606-8522, Japan
| |
Collapse
|
28
|
Singh RK, Jaishankar J, Muthamilarasan M, Shweta S, Dangi A, Prasad M. Genome-wide analysis of heat shock proteins in C4 model, foxtail millet identifies potential candidates for crop improvement under abiotic stress. Sci Rep 2016; 6:32641. [PMID: 27586959 PMCID: PMC5009299 DOI: 10.1038/srep32641] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2016] [Accepted: 08/10/2016] [Indexed: 11/12/2022] Open
Abstract
Heat shock proteins (HSPs) perform significant roles in conferring abiotic stress tolerance to crop plants. In view of this, HSPs and their encoding genes were extensively characterized in several plant species; however, understanding their structure, organization, evolution and expression profiling in a naturally stress tolerant crop is necessary to delineate their precise roles in stress-responsive molecular machinery. In this context, the present study has been performed in C4 panicoid model, foxtail millet, which resulted in identification of 20, 9, 27, 20 and 37 genes belonging to SiHSP100, SiHSP90, SiHSP70, SiHSP60 and SisHSP families, respectively. Comprehensive in silico characterization of these genes followed by their expression profiling in response to dehydration, heat, salinity and cold stresses in foxtail millet cultivars contrastingly differing in stress tolerance revealed significant upregulation of several genes in tolerant cultivar. SisHSP-27 showed substantial higher expression in response to heat stress in tolerant cultivar, and its over-expression in yeast system conferred tolerance to several abiotic stresses. Methylation analysis of SiHSP genes suggested that, in susceptible cultivar, higher levels of methylation might be the reason for reduced expression of these genes during stress. Altogether, the study provides novel clues on the role of HSPs in conferring stress tolerance.
Collapse
Affiliation(s)
- Roshan Kumar Singh
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi - 110067, India
| | - Jananee Jaishankar
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi - 110067, India
| | | | - Shweta Shweta
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi - 110067, India
| | - Anand Dangi
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi - 110067, India
| | - Manoj Prasad
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi - 110067, India
| |
Collapse
|
29
|
Zhao J, Liu JS, Meng FN, Zhang ZZ, Long H, Lin WH, Luo XM, Wang ZY, Zhu SW. ANAC005 is a membrane-associated transcription factor and regulates vascular development in Arabidopsis. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2016; 58:442-51. [PMID: 26178734 PMCID: PMC5054944 DOI: 10.1111/jipb.12379] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2015] [Accepted: 07/08/2015] [Indexed: 05/18/2023]
Abstract
Vascular tissues are very important for providing both mechanical strength and long-distance transport. The molecular mechanisms of regulation of vascular tissue development are still not fully understood. In this study we identified ANAC005 as a membrane-associated NAC family transcription factor that regulates vascular tissue development. Reporter gene assays showed that ANAC005 was expressed mainly in the vascular tissues. Increased expression of ANAC005 protein in transgenic Arabidopsis caused dwarf phenotype, reduced xylem differentiation, decreased lignin content, repression of a lignin biosynthetic gene and genes related to cambium and primary wall, but activation of genes related to the secondary wall. Expression of a dominant repressor fusion of ANAC005 had overall the opposite effects on vascular tissue differentiation and lignin synthetic gene expression. The ANAC005-GFP fusion protein was localized at the plasma membrane, whereas deletion of the last 20 amino acids, which are mostly basic, caused its nuclear localization. These results indicate that ANAC005 is a cell membrane-associated transcription factor that inhibits xylem tissue development in Arabidopsis.
Collapse
Affiliation(s)
- Jun Zhao
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Jiang-Shu Liu
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Fu-Ning Meng
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Zhen-Zhen Zhang
- Institute of Molecular Cell Biology, College of Life Science, Hebei Normal University, Shijiazhuang, 050016, China
| | - Hao Long
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Wen-Hui Lin
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Xiao-Min Luo
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Zhi-Yong Wang
- Department of Plant Biology, Carnegie Institution for Science, Stanford, California, 94305, USA
| | - Sheng-Wei Zhu
- Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| |
Collapse
|
30
|
Munir S, Khan MRG, Song J, Munir S, Zhang Y, Ye Z, Wang T. Genome-wide identification, characterization and expression analysis of calmodulin-like (CML) proteins in tomato (Solanum lycopersicum). PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2016; 102:167-79. [PMID: 26949025 DOI: 10.1016/j.plaphy.2016.02.020] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2015] [Revised: 02/11/2016] [Accepted: 02/15/2016] [Indexed: 05/01/2023]
Abstract
Calcium (Ca(2+)) has emerged as a significant secondary messenger that regulates the activities of hormonal and environmental signals that are associated with biotic and abiotic stresses. Ca(2+) binding proteins typically contain a Ca(2+) binding EF-hand (a helix-loop-helix structure) motif. In this study, tomato genes encoding calmodulin-like (CML) proteins that possess EF-hand motifs and no other identifiable functional domains were analyzed. Using genome analysis and BLAST searches in database, 52 CML genes were identified in tomato. Comprehensive analyses, including evolutionary relationships, gene structures, chromosomal locations, functional annotations, and gene duplications, were performed. Distribution mapping exhibited that 52 SlCML proteins containing different intron/exon patterns were unevenly distributed among ten chromosomes. In addition, 24 SlCML proteins were predicted as segmentally duplicated. Conserved motifs, promoter cis-regulatory elements, organ-based expression patterns and expression analyses indicated the potential responsiveness of SlCML proteins to abiotic stresses and phytohormones. These results illustrate the complexity of the CML gene family and indicate a potential vital role for these molecules in tomato growth and development as Ca(2+) signal transducers.
Collapse
Affiliation(s)
- Shoaib Munir
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan 430070, China
| | - Muhammad Rehman Gul Khan
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan 430070, China
| | - Jianwen Song
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan 430070, China
| | - Sadia Munir
- National R&D Branch Center for Conventional Freshwater Fish Processing, College of Food Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Yuyang Zhang
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan 430070, China
| | - Zhibiao Ye
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan 430070, China
| | - Taotao Wang
- Key Laboratory of Horticultural Plant Biology (Ministry of Education), College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan 430070, China.
| |
Collapse
|
31
|
Mann KS, Bejerman N, Johnson KN, Dietzgen RG. Cytorhabdovirus P3 genes encode 30K-like cell-to-cell movement proteins. Virology 2016; 489:20-33. [PMID: 26700068 DOI: 10.1016/j.virol.2015.11.028] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2015] [Revised: 11/25/2015] [Accepted: 11/26/2015] [Indexed: 12/13/2022]
Abstract
Plant viruses encode movement proteins (MP) to facilitate cell-to-cell transport through plasmodesmata. In this study, using trans-complementation of a movement-defective turnip vein-clearing tobamovirus (TVCV) replicon, we show for the first time for cytorhabdoviruses (lettuce necrotic yellows virus (LNYV) and alfalfa dwarf virus (ADV)) that their P3 proteins function as MP similar to the TVCV P30 protein. All three MP localized to plasmodesmata when ectopically expressed. In addition, we show that these MP belong to the 30K superfamily since movement was inhibited by mutation of an aspartic acid residue in the critical 30K-specific LxD/N50-70G motif. We also report that Nicotiana benthamiana microtubule-associated VOZ1-like transcriptional activator interacts with LNYV P3 and TVCV P30 but not with ADV P3 or any of the MP point mutants. This host protein, which is known to interact with P3 of sonchus yellow net nucleorhabdovirus, may be involved in aiding the cell-to-cell movement of LNYV and TVCV.
Collapse
Affiliation(s)
- Krin S Mann
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Nicolas Bejerman
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Karyn N Johnson
- School of Biological Sciences, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Ralf G Dietzgen
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD 4072, Australia.
| |
Collapse
|
32
|
Lehmeyer M, Kanofsky K, Hanko EKR, Ahrendt S, Wehrs M, Machens F, Hehl R. Functional dissection of a strong and specific microbe-associated molecular pattern-responsive synthetic promoter. PLANT BIOTECHNOLOGY JOURNAL 2016; 14:61-71. [PMID: 25819608 DOI: 10.1111/pbi.12357] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2014] [Revised: 01/12/2015] [Accepted: 02/06/2015] [Indexed: 06/04/2023]
Abstract
Synthetic promoters are important for temporal and spatial gene expression in transgenic plants. To identify novel microbe-associated molecular pattern (MAMP)-responsive cis-regulatory sequences for synthetic promoter design, a combination of bioinformatics and experimental approaches was employed. One cis-sequence was identified which confers strong MAMP-responsive reporter gene activity with low background activity. The 35-bp-long cis-sequence was identified in the promoter of the Arabidopsis thaliana DJ1E gene, a homologue of the human oncogene DJ1. In this study, this cis-sequence is shown to be a tripartite cis-regulatory module (CRM). A synthetic promoter with four copies of the CRM linked to a minimal promoter increases MAMP-responsive reporter gene expression compared to the wild-type DJ1E promoter. The CRM consists of two WT-boxes (GGACTTTT and GGACTTTG) and a variant of the GCC-box (GCCACC), all required for MAMP and salicylic acid (SA) responsivity. Yeast one-hybrid screenings using a transcription factor (TF)-only prey library identified two AP2/ERFs, ORA59 and ERF10, interacting antagonistically with the CRM. ORA59 activates reporter gene activity and requires the consensus core sequence GCCNCC for gene expression activation. ERF10 down-regulates MAMP-responsive gene expression. No TFs interacting with the WT-boxes GGACTTTT and GGACTTTG were selected in yeast one-hybrid screenings with the TF-only prey library. In transgenic Arabidopsis, the synthetic promoter confers strong and specific reporter gene activity in response to biotrophs and necrotrophs as well as SA.
Collapse
Affiliation(s)
- Mona Lehmeyer
- Institut für Genetik, Technische Universität Braunschweig, Braunschweig, Germany
| | - Konstantin Kanofsky
- Institut für Genetik, Technische Universität Braunschweig, Braunschweig, Germany
| | - Erik K R Hanko
- Institut für Genetik, Technische Universität Braunschweig, Braunschweig, Germany
| | - Sarah Ahrendt
- Institut für Genetik, Technische Universität Braunschweig, Braunschweig, Germany
| | - Maren Wehrs
- Institut für Genetik, Technische Universität Braunschweig, Braunschweig, Germany
| | - Fabian Machens
- Institut für Genetik, Technische Universität Braunschweig, Braunschweig, Germany
| | - Reinhard Hehl
- Institut für Genetik, Technische Universität Braunschweig, Braunschweig, Germany
| |
Collapse
|
33
|
Bianchi VJ, Rubio M, Trainotti L, Verde I, Bonghi C, Martínez-Gómez P. Prunus transcription factors: breeding perspectives. FRONTIERS IN PLANT SCIENCE 2015; 6:443. [PMID: 26124770 PMCID: PMC4464204 DOI: 10.3389/fpls.2015.00443] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2015] [Accepted: 05/29/2015] [Indexed: 05/18/2023]
Abstract
Many plant processes depend on differential gene expression, which is generally controlled by complex proteins called transcription factors (TFs). In peach, 1533 TFs have been identified, accounting for about 5.5% of the 27,852 protein-coding genes. These TFs are the reference for the rest of the Prunus species. TF studies in Prunus have been performed on the gene expression analysis of different agronomic traits, including control of the flowering process, fruit quality, and biotic and abiotic stress resistance. These studies, using quantitative RT-PCR, have mainly been performed in peach, and to a lesser extent in other species, including almond, apricot, black cherry, Fuji cherry, Japanese apricot, plum, and sour and sweet cherry. Other tools have also been used in TF studies, including cDNA-AFLP, LC-ESI-MS, RNA, and DNA blotting or mapping. More recently, new tools assayed include microarray and high-throughput DNA sequencing (DNA-Seq) and RNA sequencing (RNA-Seq). New functional genomics opportunities include genome resequencing and the well-known synteny among Prunus genomes and transcriptomes. These new functional studies should be applied in breeding programs in the development of molecular markers. With the genome sequences available, some strategies that have been used in model systems (such as SNP genotyping assays and genotyping-by-sequencing) may be applicable in the functional analysis of Prunus TFs as well. In addition, the knowledge of the gene functions and position in the peach reference genome of the TFs represents an additional advantage. These facts could greatly facilitate the isolation of genes via QTL (quantitative trait loci) map-based cloning in the different Prunus species, following the association of these TFs with the identified QTLs using the peach reference genome.
Collapse
Affiliation(s)
- Valmor J. Bianchi
- Department of Plant Physiology, Instituto de Biologia, Universidade Federal de PelotasPelotas-RS, Brazil
| | - Manuel Rubio
- Department of Plant Breeding, Centro de Edafología y Biología Aplicada del Segura, Consejo Superior de Investigaciones CientíficasMurcia, Spain
| | | | - Ignazio Verde
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CRA) - Centro di ricerca per la frutticolturaRoma, Italy
| | - Claudio Bonghi
- Department of Agronomy, Food, Natural Resources, and Environment (DAFNAE). University of PaduaPadova, Italy
| | - Pedro Martínez-Gómez
- Department of Plant Breeding, Centro de Edafología y Biología Aplicada del Segura, Consejo Superior de Investigaciones CientíficasMurcia, Spain
| |
Collapse
|
34
|
Gao B, Zhang D, Li X, Yang H, Wood AJ. De novo assembly and characterization of the transcriptome in the desiccation-tolerant moss Syntrichia caninervis. BMC Res Notes 2014; 7:490. [PMID: 25086984 PMCID: PMC4124477 DOI: 10.1186/1756-0500-7-490] [Citation(s) in RCA: 41] [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: 07/15/2014] [Accepted: 07/24/2014] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Syntrichia caninervis is a desiccation-tolerant moss and the dominant bryophyte of the Biological Soil Crusts (BSCs) found in the Mojave and Gurbantunggut deserts. Next generation high throughput sequencing technologies offer an efficient and economic choice for characterizing non-model organism transcriptomes with little or no prior molecular information available. RESULTS In this study, we employed next generation, high-throughput, Illumina RNA-Seq to analyze the poly-(A) + mRNA from hydrated, dehydrating and desiccated S. caninervis gametophores. Approximately 58.0 million paired-end short reads were obtained and 92,240 unigenes were assembled with an average size of 493 bp, N50 value of 662 bp and a total size of 45.48 Mbp. Sequence similarity searches against five public databases (NR, Swiss-Prot, COSMOSS, KEGG and COG) found 54,125 unigenes (58.7%) with significant similarity to an existing sequence (E-value ≤ 1e-5) and could be annotated. Gene Ontology (GO) annotation assigned 24,183 unigenes to the three GO terms: Biological Process, Cellular Component or Molecular Function. GO comparison between P. patens and S. caninervis demonstrated similar sequence enrichment across all three GO categories. 29,370 deduced polypeptide sequences were assigned Pfam domain information and categorized into 4,212 Pfam domains/families. Using the PlantTFDB, 778 unigenes were predicted to be involved in the regulation of transcription and were classified into 49 transcription factor families. Annotated unigenes were mapped to the KEGG pathways and further annotated using MapMan. Comparative genomics revealed that 44% of protein families are shared in common by S. caninervis, P. patens and Arabidopsis thaliana and that 80% are shared by both moss species. CONCLUSIONS This study is one of the first comprehensive transcriptome analyses of the moss S. caninervis. Our data extends our knowledge of bryophyte transcriptomes, provides an insight to plants adapted to the arid regions of central Asia, and continues the development of S. caninervis as a model for understanding the molecular aspects of desiccation-tolerance.
Collapse
Affiliation(s)
- Bei Gao
- Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi 830011, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Daoyuan Zhang
- Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi 830011, China
| | - Xiaoshuang Li
- Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi 830011, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- Department of Plant Biology, Southern Illinois University-Carbondale, Carbondale 62901-6509, IL, USA
| | - Honglan Yang
- Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi 830011, China
| | - Andrew J Wood
- Department of Plant Biology, Southern Illinois University-Carbondale, Carbondale 62901-6509, IL, USA
| |
Collapse
|
35
|
Yasui Y, Kohchi T. VASCULAR PLANT ONE-ZINC FINGER1 and VOZ2 repress the FLOWERING LOCUS C clade members to control flowering time in Arabidopsis. Biosci Biotechnol Biochem 2014; 78:1850-5. [PMID: 25351333 DOI: 10.1080/09168451.2014.932670] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Floral transition is regulated by environmental and endogenous signals. Previously, we identified VASCULAR PLANT ONE-ZINC FINGER1 (VOZ1) and VOZ2 as phytochrome B-interacting factors. VOZ1 and VOZ2 redundantly promote flowering and have pivotal roles in the downregulation of FLOWERING LOCUS C (FLC), a central repressor of flowering in Arabidopsis. Here, we showed that the late-flowering phenotypes of the voz1 voz2 mutant were suppressed by vernalization in the Columbia and FRIGIDA (FRI)-containing accessions, which indicates that the late-flowering phenotype of voz1 voz2 mutants was caused by upregulation of FLC. We also showed that the other FLC clade members, MADS AFFECTING FLOWERING (MAF) genes, were also a downstream target of VOZ1 and VOZ2 as their expression levels were also increased in the voz1 voz2 mutant. Our results suggest that the FLC clade genes integrate signals from VOZ1/VOZ2 and vernalization to regulate flowering.
Collapse
Affiliation(s)
- Yukiko Yasui
- a Graduate School of Biostudies , Kyoto University , Kyoto , Japan
| | | |
Collapse
|
36
|
Identification of cucurbitacins and assembly of a draft genome for Aquilaria agallocha. BMC Genomics 2014; 15:578. [PMID: 25005802 PMCID: PMC4108785 DOI: 10.1186/1471-2164-15-578] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2013] [Accepted: 07/01/2014] [Indexed: 12/22/2022] Open
Abstract
BACKGROUND Agarwood is derived from Aquilaria trees, the trade of which has come under strict control with a listing in Appendix II of the Convention on International Trade in Endangered Species of Wild Fauna and Flora. Many secondary metabolites of agarwood are known to have medicinal value to humans, including compounds that have been shown to elicit sedative effects and exhibit anti-cancer properties. However, little is known about the genome, transcriptome, and the biosynthetic pathways responsible for producing such secondary metabolites in agarwood. RESULTS In this study, we present a draft genome and a putative pathway for cucurbitacin E and I, compounds with known medicinal value, from in vitro Aquilaria agallocha agarwood. DNA and RNA data are utilized to annotate many genes and protein functions in the draft genome. The expression changes for cucurbitacin E and I are shown to be consistent with known responses of A. agallocha to biotic stress and a set of homologous genes in Arabidopsis thaliana related to cucurbitacin bio-synthesis is presented and validated through qRT-PCR. CONCLUSIONS This study is the first attempt to identify cucurbitacin E and I from in vitro agarwood and the first draft genome for any species of Aquilaria. The results of this study will aid in future investigations of secondary metabolite pathways in Aquilaria and other non-model medicinal plants.
Collapse
|
37
|
Lindemose S, Jensen MK, Van de Velde J, O'Shea C, Heyndrickx KS, Workman CT, Vandepoele K, Skriver K, De Masi F. A DNA-binding-site landscape and regulatory network analysis for NAC transcription factors in Arabidopsis thaliana. Nucleic Acids Res 2014; 42:7681-93. [PMID: 24914054 PMCID: PMC4081100 DOI: 10.1093/nar/gku502] [Citation(s) in RCA: 63] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Target gene identification for transcription factors is a prerequisite for the systems wide understanding of organismal behaviour. NAM-ATAF1/2-CUC2 (NAC) transcription factors are amongst the largest transcription factor families in plants, yet limited data exist from unbiased approaches to resolve the DNA-binding preferences of individual members. Here, we present a TF-target gene identification workflow based on the integration of novel protein binding microarray data with gene expression and multi-species promoter sequence conservation to identify the DNA-binding specificities and the gene regulatory networks of 12 NAC transcription factors. Our data offer specific single-base resolution fingerprints for most TFs studied and indicate that NAC DNA-binding specificities might be predicted from their DNA-binding domain's sequence. The developed methodology, including the application of complementary functional genomics filters, makes it possible to translate, for each TF, protein binding microarray data into a set of high-quality target genes. With this approach, we confirm NAC target genes reported from independent in vivo analyses. We emphasize that candidate target gene sets together with the workflow associated with functional modules offer a strong resource to unravel the regulatory potential of NAC genes and that this workflow could be used to study other families of transcription factors.
Collapse
Affiliation(s)
- Søren Lindemose
- Department of Biology, University of Copenhagen, 2200 Copenhagen, Denmark
| | - Michael K Jensen
- Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2970 Hørsholm, Denmark
| | - Jan Van de Velde
- Department of Plant Systems Biology, VIB, 9052 Ghent, Belgium Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
| | - Charlotte O'Shea
- Department of Biology, University of Copenhagen, 2200 Copenhagen, Denmark
| | - Ken S Heyndrickx
- Department of Plant Systems Biology, VIB, 9052 Ghent, Belgium Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
| | - Christopher T Workman
- Center for Biological Sequence Analysis, Institute for Systems Biology, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark
| | - Klaas Vandepoele
- Department of Plant Systems Biology, VIB, 9052 Ghent, Belgium Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium
| | - Karen Skriver
- Department of Biology, University of Copenhagen, 2200 Copenhagen, Denmark
| | - Federico De Masi
- Center for Biological Sequence Analysis, Institute for Systems Biology, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark
| |
Collapse
|
38
|
Haraguchi T, Tominaga M, Matsumoto R, Sato K, Nakano A, Yamamoto K, Ito K. Molecular characterization and subcellular localization of Arabidopsis class VIII myosin, ATM1. J Biol Chem 2014; 289:12343-55. [PMID: 24637024 PMCID: PMC4007431 DOI: 10.1074/jbc.m113.521716] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2013] [Revised: 03/12/2014] [Indexed: 02/02/2023] Open
Abstract
Land plants possess myosin classes VIII and XI. Although some information is available on the molecular properties of class XI myosins, class VIII myosins are not characterized. Here, we report the first analysis of the enzymatic properties of class VIII myosin. The motor domain of Arabidopsis class VIII myosin, ATM1 (ATM1-MD), and the motor domain plus one IQ motif (ATM1-1IQ) were expressed in a baculovirus system and characterized. ATM1-MD and ATM1-1IQ had low actin-activated Mg(2+)-ATPase activity (Vmax = 4 s(-1)), although their affinities for actin were high (Kactin = 4 μM). The actin-sliding velocities of ATM1-MD and ATM1-1IQ were 0.02 and 0.089 μm/s, respectively, from which the value for full-length ATM1 is calculated to be ∼0.2 μm/s. The results of actin co-sedimentation assay showed that the duty ratio of ATM1 was ∼90%. ADP dissociation from the actin·ATM1 complex (acto-ATM1) was extremely slow, which accounts for the low actin-sliding velocity, low actin-activated ATPase activity, and high duty ratio. The rate of ADP dissociation from acto-ATM1 was markedly biphasic with fast and slow phase rates (5.1 and 0.41 s(-1), respectively). Physiological concentrations of free Mg(2+) modulated actin-sliding velocity and actin-activated ATPase activity by changing the rate of ADP dissociation from acto-ATM1. GFP-fused full-length ATM1 expressed in Arabidopsis was localized to plasmodesmata, plastids, newly formed cell walls, and actin filaments at the cell cortex. Our results suggest that ATM1 functions as a tension sensor/generator at the cell cortex and other structures in Arabidopsis.
Collapse
Affiliation(s)
- Takeshi Haraguchi
- From the Department of Biology, Graduate School of Science, Chiba University, Inage-ku, Chiba 263-8522
| | - Motoki Tominaga
- the Live Cell Molecular Imaging Research Team, RIKEN Center for Advanced Photonics, Wako, Saitama 351-0198
- the Japan Science and Technology Agency, PRESTO, 4-1-8 Honcho Kawaguchi, Saitama 332-0012, and
| | - Rie Matsumoto
- From the Department of Biology, Graduate School of Science, Chiba University, Inage-ku, Chiba 263-8522
| | - Kei Sato
- the Department of Biological Sciences, Graduate School of Science, University of Tokyo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Akihiko Nakano
- the Live Cell Molecular Imaging Research Team, RIKEN Center for Advanced Photonics, Wako, Saitama 351-0198
- the Department of Biological Sciences, Graduate School of Science, University of Tokyo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Keiichi Yamamoto
- From the Department of Biology, Graduate School of Science, Chiba University, Inage-ku, Chiba 263-8522
| | - Kohji Ito
- From the Department of Biology, Graduate School of Science, Chiba University, Inage-ku, Chiba 263-8522
| |
Collapse
|
39
|
Sharma N, Bhalla PL, Singh MB. Transcriptome-wide profiling and expression analysis of transcription factor families in a liverwort, Marchantia polymorpha. BMC Genomics 2013; 14:915. [PMID: 24365221 PMCID: PMC3880041 DOI: 10.1186/1471-2164-14-915] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2013] [Accepted: 11/27/2013] [Indexed: 12/31/2022] Open
Abstract
BACKGROUND Transcription factors (TFs) are vital elements that regulate transcription and the spatio-temporal expression of genes, thereby ensuring the accurate development and functioning of an organism. The identification of TF-encoding genes in a liverwort, Marchantia polymorpha, offers insights into TF organization in the members of the most basal lineages of land plants (embryophytes). Therefore, a comparison of Marchantia TF genes with other land plants (monocots, dicots, bryophytes) and algae (chlorophytes, rhodophytes) provides the most comprehensive view of the rates of expansion or contraction of TF genes in plant evolution. RESULTS In this study, we report the identification of TF-encoding transcripts in M. polymorpha for the first time, as evidenced by deep RNA sequencing data. In total, 3,471 putative TF encoding transcripts, distributed in 80 families, were identified, representing 7.4% of the generated Marchantia gametophytic transcriptome dataset. Overall, TF basic functions and distribution across families appear to be conserved when compared to other plant species. However, it is of interest to observe the genesis of novel sequences in 24 TF families and the apparent termination of 2 TF families with the emergence of Marchantia. Out of 24 TF families, 6 are known to be associated with plant reproductive development processes. We also examined the expression pattern of these TF-encoding transcripts in six male and female developmental stages in vegetative and reproductive gametophytic tissues of Marchantia. CONCLUSIONS The analysis highlighted the importance of Marchantia, a model plant system, in an evolutionary context. The dataset generated here provides a scientific resource for TF gene discovery and other comparative evolutionary studies of land plants.
Collapse
Affiliation(s)
- Niharika Sharma
- Plant Molecular Biology and Biotechnology Laboratory, Australian Research Council Centre of Excellence for Integrative Legume Research, Melbourne School of Land and Environment, University of Melbourne, Parkville, Melbourne, Victoria 3010, Australia
| | - Prem L Bhalla
- Plant Molecular Biology and Biotechnology Laboratory, Australian Research Council Centre of Excellence for Integrative Legume Research, Melbourne School of Land and Environment, University of Melbourne, Parkville, Melbourne, Victoria 3010, Australia
| | - Mohan B Singh
- Plant Molecular Biology and Biotechnology Laboratory, Australian Research Council Centre of Excellence for Integrative Legume Research, Melbourne School of Land and Environment, University of Melbourne, Parkville, Melbourne, Victoria 3010, Australia
| |
Collapse
|
40
|
Cheong H, Kim CY, Jeon JS, Lee BM, Sun Moon J, Hwang I. Xanthomonas oryzae pv. oryzae type III effector XopN targets OsVOZ2 and a putative thiamine synthase as a virulence factor in rice. PLoS One 2013; 8:e73346. [PMID: 24019919 PMCID: PMC3760903 DOI: 10.1371/journal.pone.0073346] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2013] [Accepted: 07/18/2013] [Indexed: 01/13/2023] Open
Abstract
Xanthomonasoryzae pv. oryzae (Xoo) is spread systemically through the xylem tissue and causes bacterial blight in rice. We evaluated the roles of Xanthomonas outer proteins (Xop) in the Xoo strain KXO85 in a Japonica-type rice cultivar, Dongjin. Five xop gene knockout mutants (xopQKXO85, xopXKXO85, xopP1KXO85, xopP2KXO85, and xopNKXO85) were generated by EZ-Tn5 mutagenesis, and their virulence was assessed in 3-month-old rice leaves. Among these mutants, the xopNKXO85 mutant appeared to be less virulent than the wild-type KXO85; however, the difference was not statistically significant. In contrast, the xopNKXO85 mutant exhibited significantly less virulence in flag leaves after flowering than the wild-type KXO85. These observations indicate that the roles of Xop in Xoo virulence are dependent on leaf stage. We chose the xopN gene for further characterization because the xopNKXO85 mutant showed the greatest influence on virulence. We confirmed that XopNKXO85 is translocated into rice cells, and its gene expression is positively regulated by HrpX. Two rice proteins, OsVOZ2 and a putative thiamine synthase (OsXNP), were identified as targets of XopNKXO85 by yeast two-hybrid screening. Interactions between XopNKXO85 and OsVOZ2 and OsXNP were further confirmed in planta by bimolecular fluorescence complementation and in vivo pull-down assays. To investigate the roles of OsVOZ2 in interactions between rice and Xoo, we evaluated the virulence of the wild-type KXO85 and xopNKXO85 mutant in the OsVOZ2 mutant line PFG_3A-07565 of Dongjin. The wild-type KXO85 and xopNKXO85 mutant were significantly less virulent in the mutant rice line. These results indicate that XopNKXO85 and OsVOZ2 play important roles both individually and together for Xoo virulence in rice.
Collapse
Affiliation(s)
- Hoon Cheong
- Department of Agricultural Biotechnology, Seoul National University, Seoul, Korea
| | - Chi-Yeol Kim
- Graduate School of Biotechnology & Crop Biotech Institute, Kyung Hee University, Yongin, Korea
| | - Jong-Seong Jeon
- Graduate School of Biotechnology & Crop Biotech Institute, Kyung Hee University, Yongin, Korea
| | - Byoung-Moo Lee
- National Academy of Agricultural Science, Rural Development Administration, Suwon, Korea
| | - Jae Sun Moon
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, Korea
| | - Ingyu Hwang
- Department of Agricultural Biotechnology, Seoul National University, Seoul, Korea
- * E-mail:
| |
Collapse
|
41
|
Celesnik H, Ali GS, Robison FM, Reddy ASN. Arabidopsis thaliana VOZ (Vascular plant One-Zinc finger) transcription factors are required for proper regulation of flowering time. Biol Open 2013; 2:424-31. [PMID: 23616927 PMCID: PMC3625871 DOI: 10.1242/bio.20133764] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2012] [Accepted: 02/01/2013] [Indexed: 12/01/2022] Open
Abstract
Transition to flowering in plants is tightly controlled by environmental cues, which regulate the photoperiod and vernalization pathways, and endogenous signals, which mediate the autonomous and gibberellin pathways. In this work, we investigated the role of two Zn2+-finger transcription factors, the paralogues AtVOZ1 and AtVOZ2, in Arabidopsis thaliana flowering. Single atvoz1-1 and atvoz2-1 mutants showed no significant phenotypes as compared to wild type. However, atvoz1-1 atvoz2-1 double mutant plants exhibited several phenotypes characteristic of flowering-time mutants. The double mutant displayed a severe delay in flowering, together with additional pleiotropic phenotypes. Late flowering correlated with elevated expression of FLOWERING LOCUS C (FLC), which encodes a potent floral repressor, and decreased expression of its target, the floral promoter FD. Vernalization rescued delayed flowering of atvoz1-1 atvoz2-1 and reversed elevated FLC levels. Accumulation of FLC transcripts in atvoz1-1 atvoz2-1 correlated with increased expression of several FLC activators, including components of the PAF1 and SWR1 chromatin-modifying complexes. Additionally, AtVOZs were shown to bind the promoter of MOS3/SAR3 and directly regulate expression of this nuclear pore protein, which is known to participate in the regulation of flowering time, suggesting that AtVOZs exert at least some of their flowering regulation by influencing the nuclear pore function. Complementation of atvoz1-1 atvoz2-1 with AtVOZ2 reversed all double mutant phenotypes, confirming that the observed morphological and molecular changes arise from the absence of functional AtVOZ proteins, and validating the functional redundancy between AtVOZ1 and AtVOZ2.
Collapse
Affiliation(s)
- Helena Celesnik
- Department of Biology, Program in Molecular Plant Biology, Program in Cell and Molecular Biology, Colorado State University , Fort Collins, CO 80523-1878 , USA
| | | | | | | |
Collapse
|
42
|
Paez-Valencia J, Sanchez-Lares J, Marsh E, Dorneles LT, Santos MP, Sanchez D, Winter A, Murphy S, Cox J, Trzaska M, Metler J, Kozic A, Facanha AR, Schachtman D, Sanchez CA, Gaxiola RA. Enhanced proton translocating pyrophosphatase activity improves nitrogen use efficiency in Romaine lettuce. PLANT PHYSIOLOGY 2013; 161:1557-69. [PMID: 23307651 PMCID: PMC3585616 DOI: 10.1104/pp.112.212852] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2012] [Accepted: 01/08/2013] [Indexed: 05/02/2023]
Abstract
Plant nitrate (NO3(-)) acquisition depends on the combined activities of root high- and low-affinity NO3(-) transporters and the proton gradient generated by the plasma membrane H(+)-ATPase. These processes are coordinated with photosynthesis and the carbon status of the plant. Here, we present the characterization of romaine lettuce (Lactuca sativa 'Conquistador') plants engineered to overexpress an intragenic gain-of-function allele of the type I proton translocating pyrophosphatase (H(+)-PPase) of Arabidopsis (Arabidopsis thaliana). The proton-pumping and inorganic pyrophosphate hydrolytic activities of these plants are augmented compared with control plants. Immunohistochemical data show a conspicuous increase in H(+)-PPase protein abundance at the vasculature of the transgenic plants. Transgenic plants displayed an enhanced rhizosphere acidification capacity consistent with the augmented plasma membrane H(+)-ATPase proton transport values, and ATP hydrolytic capacities evaluated in vitro. These transgenic lines outperform control plants when challenged with NO3(-) limitations in laboratory, greenhouse, and field scenarios. Furthermore, we report the characterization of a lettuce LsNRT2.1 gene that is constitutive up-regulated in the transgenic plants. Of note, the expression of the LsNRT2.1 gene in control plants is regulated by NO3(-) and sugars. Enhanced accumulation of (15)N-labeled fertilizer by transgenic lettuce compared with control plants was observed in greenhouse experiments. A negative correlation between the level of root soluble sugars and biomass is consistent with the strong root growth that characterizes these transgenic plants.
Collapse
Affiliation(s)
| | | | - Ellen Marsh
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Liane T. Dorneles
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Mirella P. Santos
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Diego Sanchez
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Alexander Winter
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Sean Murphy
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Jennifer Cox
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Marcin Trzaska
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Jason Metler
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Alex Kozic
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Arnoldo R. Facanha
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Daniel Schachtman
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Charles A. Sanchez
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| | - Roberto A. Gaxiola
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287 (J.P.-V., J.L.-S., L.T.D., M.P.S., A.W., S.M., J.C., M.T., J.M., R.A.G.); Donald Danforth Plant Science Center, St. Louis, Missouri 63132 (E.M., D.Sc.); Universidade de Caxias do Sul Centro de Ciências Exatas, da Natureza e de Tecnologia Alameda João Dal Sasso, 95700–000 Bento Gonçalves, Rio Grande do Su, Brazil (L.T.D.); University of Arizona Yuma Agricultural Center, Yuma, Arizona 85364 (D.Sa., C.A.S.); Department of Plant Sciences, College of Agricultural and Environmental Sciences, University of California, Davis, California 95616 (A.K.); and Laboratorio Biologia Celular e Tecidual, Centro de Biociencias e Biotecnologia, Universidade Estadual do Norte, 28013–600 Campos dos Goytacazes, Rio de Janeiro, Brazil (A.R.F.)
| |
Collapse
|
43
|
Nakai Y, Nakahira Y, Sumida H, Takebayashi K, Nagasawa Y, Yamasaki K, Akiyama M, Ohme-Takagi M, Fujiwara S, Shiina T, Mitsuda N, Fukusaki E, Kubo Y, Sato MH. Vascular plant one-zinc-finger protein 1/2 transcription factors regulate abiotic and biotic stress responses in Arabidopsis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2013; 73:761-75. [PMID: 23167462 DOI: 10.1111/tpj.12069] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/25/2012] [Revised: 11/01/2012] [Accepted: 11/02/2012] [Indexed: 05/18/2023]
Abstract
Plants adapt to abiotic and biotic stresses by activating abscisic acid-mediated (ABA) abiotic stress-responsive and salicylic acid-(SA) or jasmonic acid-mediated (JA) biotic stress-responsive pathways, respectively. Although the abiotic stress-responsive pathway interacts antagonistically with the biotic stress-responsive pathways, the mechanisms that regulate these pathways remain largely unknown. In this study, we provide insight into the function of vascular plant one-zinc-finger proteins (VOZs) that modulate various stress responses in Arabidopsis. The expression of many stress-responsive genes was changed in the voz1voz2 double mutant under normal growth conditions. Consistent with altered stress-responsive gene expression, freezing- and drought-stress tolerances were increased in the voz1voz2 double mutant. In contrast, resistance to a fungal pathogen, Colletotrichum higginsianum, and to a bacterial pathogen, Pseudomonas syringae, was severely impaired. Thus, impairing VOZ function simultaneously conferred increased abiotic tolerance and biotic stress susceptibility. In a chilling stress condition, both the VOZ1 and VOZ2 mRNA expression levels and the VOZ2 protein level gradually decreased. VOZ2 degradation during cold exposure was completely inhibited by the addition of the 26S proteasome inhibitor, MG132, a finding that suggested that VOZ2 degradation is dependent on the ubiquitin/26S proteasome system. In voz1voz2, ABA-inducible transcription factor CBF4 expression was enhanced significantly even under normal growth conditions, despite an unchanged endogenous ABA content. A finding that suggested that VOZs negatively affect CBF4 expression in an ABA-independent manner. These results suggest that VOZs function as both negative and positive regulators of the abiotic and biotic stress-responsive pathways, and control Arabidopsis adaptation to various stress conditions.
Collapse
Affiliation(s)
- Yusuke Nakai
- Graduate School of Life and Environmental Sciences, Kyoto Prefectural University, Kyoto 606-8522, Japan
| | | | | | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
44
|
Nakai Y, Fujiwara S, Kubo Y, Sato MH. Overexpression of VOZ2 confers biotic stress tolerance but decreases abiotic stress resistance in Arabidopsis. PLANT SIGNALING & BEHAVIOR 2013; 8:e23358. [PMID: 23299334 PMCID: PMC3676503 DOI: 10.4161/psb.23358] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
VOZ (vascular plant one zinc-finger protein) is a plant specific one-zinc finger type transcriptional activator, which is highly conserved through land plant evolution. We have previously shown that loss-of-function mutations in VOZ1 and VOZ2 showed increased cold and drought stress tolerances whereas decreased biotic stress resistance in Arabidopsis. Here, we demonstrate that transgenic plants overexpressing VOZ2 impairs freezing and drought stress tolerances but increases resistance to a fungal pathogen, Colletoricum higginsianum. Consistent with changes in the tolerance to biotic and abiotic stresses, the expression of marker genes for these stresses is significantly altered compared with those of the wild-type plant. These results indicate that a overexpression of VOZ2 confers biotic stress tolerance but impairs abiotic stress tolerances in Arabidopsis.
Collapse
Affiliation(s)
- Yusuke Nakai
- National Institute of Advanced Industrial Science and Technology (AIST); Tsukuba, Ibaraki, Japan
| | - Sumire Fujiwara
- National Institute of Advanced Industrial Science and Technology (AIST); Tsukuba, Ibaraki, Japan
| | - Yasuyuki Kubo
- Graduate School of Life and Environmental Sciences; Kyoto Prefectural University; Kyoto, Japan
| | - Masa H. Sato
- Graduate School of Life and Environmental Sciences; Kyoto Prefectural University; Kyoto, Japan
- Correspondence to: Masa H. Sato,
| |
Collapse
|
45
|
Lim CJ, Lee HY, Kim WB, Lee BS, Kim J, Ahmad R, Kim HA, Yi SY, Hur CG, Kwon SY. Screening of tissue-specific genes and promoters in tomato by comparing genome wide expression profiles of Arabidopsis orthologues. Mol Cells 2012; 34:53-9. [PMID: 22699756 PMCID: PMC3887779 DOI: 10.1007/s10059-012-0068-4] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2012] [Revised: 05/10/2012] [Accepted: 05/14/2012] [Indexed: 11/25/2022] Open
Abstract
Constitutive overexpression of transgenes occasionally interferes with normal growth and developmental processes in plants. Thus, the development of tissue-specific promoters that drive transgene expression has become agriculturally important. To identify tomato tissue-specific promoters, tissue-specific genes were screened using a series of in silico-based and experimental procedures, including genome-wide orthologue searches of tomato and Arabidopsis databases, isolation of tissue-specific candidates using an Arabidopsis microarray database, and validation of tissue specificity by reverse transcription-polymerase chain reaction (RT-PCR) analysis and promoter assay. Using these procedures, we found 311 tissue-specific candidate genes and validated 10 tissue-specific genes by RT-PCR. Among these identified genes, histochemical analysis of five isolated promoter::GUS transgenic tomato and Arabidopsis plants revealed that their promoters have different but distinct tissue-specific activities in anther, fruit, and root, respectively. Therefore, it appears these in silico-based screening approaches in addition to the identification of new tissue-specific genes and promoters will be helpful for the further development of tailored crop development.
Collapse
Affiliation(s)
- Chan Ju Lim
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
| | - Ha Yeon Lee
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
| | - Woong Bom Kim
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
| | - Bok-Sim Lee
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
| | - Jungeun Kim
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
- Bioinformatics, University of Science and Technology, Daejeon 305-350,
Korea
| | - Raza Ahmad
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
| | - Hyun A Kim
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
- Biosystems and Bioengineering Program, University of Science and Technology, Daejeon 305-350,
Korea
| | - So Young Yi
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
| | - Cheol-Goo Hur
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
- Bioinformatics, University of Science and Technology, Daejeon 305-350,
Korea
| | - Suk-Yoon Kwon
- Green Bio Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon 305-806,
Korea
- Biosystems and Bioengineering Program, University of Science and Technology, Daejeon 305-350,
Korea
| |
Collapse
|
46
|
Puranik S, Sahu PP, Srivastava PS, Prasad M. NAC proteins: regulation and role in stress tolerance. TRENDS IN PLANT SCIENCE 2012; 17:369-81. [PMID: 22445067 DOI: 10.1016/j.tplants.2012.02.004] [Citation(s) in RCA: 596] [Impact Index Per Article: 49.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2011] [Revised: 01/31/2012] [Accepted: 02/16/2012] [Indexed: 05/17/2023]
Abstract
The plant-specific NAC (NAM, ATAF1,2 and CUC2) proteins constitute a major transcription factor family renowned for their roles in several developmental programs. Despite their highly conserved DNA-binding domains, their remarkable diversification across plants reflects their numerous functions. Lately, they have received much attention as regulators in various stress signaling pathways which may include interplay of phytohormones. This review summarizes the recent progress in research on NACs highlighting the proteins' potential for engineering stress tolerance against various abiotic and biotic challenges. We discuss regulatory components and targets of NAC proteins in the context of their prospective role for crop improvement strategies via biotechnological intervention.
Collapse
Affiliation(s)
- Swati Puranik
- National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi-110067, India
| | | | | | | |
Collapse
|
47
|
DNA binding by the plant-specific NAC transcription factors in crystal and solution: a firm link to WRKY and GCM transcription factors. Biochem J 2012; 444:395-404. [DOI: 10.1042/bj20111742] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
NAC (NAM/ATAF/CUC) plant transcription factors regulate essential processes in development, stress responses and nutrient distribution in important crop and model plants (rice, Populus, Arabidopsis), which makes them highly relevant in the context of crop optimization and bioenergy production. The structure of the DNA-binding NAC domain of ANAC019 has previously been determined by X-ray crystallography, revealing a dimeric and predominantly β-fold structure, but the mode of binding to cognate DNA has remained elusive. In the present study, information from low resolution X-ray structures and small angle X-ray scattering on complexes with oligonucleotides, mutagenesis and (DNase I and uranyl photo-) footprinting, is combined to form a structural view of DNA-binding, and for the first time provide experimental evidence for the speculated relationship between plant-specific NAC proteins, WRKY transcription factors and the mammalian GCM (Glial cell missing) transcription factors, which all use a β-strand motif for DNA-binding. The structure shows that the NAC domain inserts the edge of its core β-sheet into the major groove, while leaving the DNA largely undistorted. The structure of the NAC–DNA complex and a new crystal form of the unbound NAC also indicate limited flexibility of the NAC dimer arrangement, which could be important in recognizing suboptimal binding sites.
Collapse
|
48
|
Gaxiola RA, Sanchez CA, Paez-Valencia J, Ayre BG, Elser JJ. Genetic manipulation of a "vacuolar" H(+)-PPase: from salt tolerance to yield enhancement under phosphorus-deficient soils. PLANT PHYSIOLOGY 2012; 159:3-11. [PMID: 22434041 PMCID: PMC3375966 DOI: 10.1104/pp.112.195701] [Citation(s) in RCA: 67] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Affiliation(s)
- Roberto A Gaxiola
- School of Life Sciences, Arizona State University, Tempe, Arizona 85287-1501, USA.
| | | | | | | | | |
Collapse
|
49
|
Zhu Y, Cao Z, Xu F, Huang Y, Chen M, Guo W, Zhou W, Zhu J, Meng J, Zou J, Jiang L. Analysis of gene expression profiles of two near-isogenic lines differing at a QTL region affecting oil content at high temperatures during seed maturation in oilseed rape (Brassica napus L.). TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2012; 124:515-31. [PMID: 22042481 DOI: 10.1007/s00122-011-1725-2] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2011] [Accepted: 10/07/2011] [Indexed: 05/24/2023]
Abstract
Seed oil production in oilseed rape is greatly affected by the temperature during seed maturation. However, the molecular mechanism of the interaction between genotype and temperature in seed maturation remains largely unknown. We developed two near-isogenic lines (NIL-9 and NIL-1), differing mainly at a QTL region influencing oil content on Brassica napus chromosome C2 (qOC.C2.2) under high temperature during seed maturation. The NILs were treated under different temperatures in a growth chamber after flowering. RNA from developing seeds was extracted on the 25th day after flowering (DAF), and transcriptomes were determined by microarray analysis. Statistical analysis indicated that genotype, temperature, and the interaction between genotype and temperature (G × T) all significantly affected the expression of the genes in the 25 DAF seeds, resulting in 4,982, 19,111, and 839 differentially expressed unisequences, respectively. NIL-9 had higher seed oil content than NIL-1 under all of the temperatures in the experiments, especially at high temperatures. A total of 39 genes, among which six are located at qOC.C2.2, were differentially expressed among the NILs regardless of temperature, indicating the core genetic divergence that was unaffected by temperature. Increasing the temperature caused a reduction in seed oil content that was accompanied by the downregulation of a number of genes associated with red light response, photosynthesis, response to gibberellic acid stimulus, and translational elongation, as well as several genes of importance in the lipid metabolism pathway. These results contribute to our knowledge of the molecular nature of QTLs and the interaction between genotype and temperature.
Collapse
Affiliation(s)
- Yana Zhu
- College of Agriculture and Biotechnology, Zhejiang University, 866 Yu-Hang-Tang Road, Hangzhou, 310058, People's Republic of China
| | | | | | | | | | | | | | | | | | | | | |
Collapse
|
50
|
Paez-Valencia J, Patron-Soberano A, Rodriguez-Leviz A, Sanchez-Lares J, Sanchez-Gomez C, Valencia-Mayoral P, Diaz-Rosas G, Gaxiola R. Plasma membrane localization of the type I H(+)-PPase AVP1 in sieve element-companion cell complexes from Arabidopsis thaliana. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2011; 181:23-30. [PMID: 21600394 DOI: 10.1016/j.plantsci.2011.03.008] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2011] [Revised: 03/07/2011] [Accepted: 03/08/2011] [Indexed: 05/22/2023]
Abstract
Previous literature has shown the presence of a plasma membrane (PM) localized type I H(+)-PPase in sieve elements of Ricinus communis. Unfortunately, the physiological relevance of these findings remains obscure due to the lack of genetic and molecular reagents to study R. communis. The availability of H(+)-PPase gain and loss-of-function mutants in Arabidopsis thaliana makes this plant an attractive genetic model to address the question, but data on the PM localization of this H(+)-PPase in A. thaliana are limited to two proteomic approaches. Here we present the first report on the localization of the type I H(+)-PPase AVP1 in sieve element-companion cell complexes (SE-CCc) from A. thaliana. Double epifluorescence and immunogold labeling experiments are consistent with the co-localization of AVP1 and PIP1 (a bona fide PM maker) in PM of SE-CCc from A. thaliana.
Collapse
Affiliation(s)
- Julio Paez-Valencia
- School of Life Sciences, Arizona State University, Tempe, AZ 85287-1501, USA
| | | | | | | | | | | | | | | |
Collapse
|