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Lagzian A, Ghorbani A, Tabein S, Riseh RS. Genetic variations and gene expression profiles of Rice Black-streaked dwarf virus (RBSDV) in different host plants and insect vectors: insights from RNA-Seq analysis. BMC Genomics 2024; 25:736. [PMID: 39080552 PMCID: PMC11289972 DOI: 10.1186/s12864-024-10649-9] [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: 02/27/2024] [Accepted: 07/22/2024] [Indexed: 08/02/2024] Open
Abstract
Rice black-streaked dwarf virus (RBSDV) is an etiological agent of a destructive disease infecting some economically important crops from the Gramineae family in Asia. While RBSDV causes high yield losses, genetic characteristics of replicative viral populations have not been investigated within different host plants and insect vectors. Herein, eleven publicly available RNA-Seq datasets from Chinese RBSDV-infected rice, maize, and viruliferous planthopper (Laodelphax striatellus) were obtained from the NCBI database. The patterns of SNP and RNA expression profiles of expected RBSDV populations were analyzed by CLC Workbench 20 and Geneious Prime software. These analyses discovered 2,646 mutations with codon changes in RBSDV whole transcriptome and forty-seven co-mutated hotspots with high variant frequency within the crucial regions of S5-1, S5-2, S6, S7-1, S7-2, S9, and S10 open reading frames (ORFs) which are responsible for some virulence and host range functions. Moreover, three joint mutations are located on the three-dimensional protein of P9-1. The infected RBSDV-susceptible rice cultivar KTWYJ3 and indigenous planthopper datasets showed more co-mutated hotspot numbers than others. Our analyses showed the expression patterns of viral genomic fragments varied depending on the host type. Unlike planthopper, S5-1, S2, S6, and S9-1 ORFs, respectively had the greatest read numbers in host plants; and S5-2, S9-2, and S7-2 were expressed in the lowest level. These findings underscore virus/host complexes are effective in the genetic variations and gene expression profiles of plant viruses. Our analysis revealed no evidence of recombination events. Interestingly, the negative selection was observed at 12 RBSDV ORFs, except for position 1015 in the P1 protein, where a positive selection was detected. The research highlights the potential of SRA datasets for analysis of the virus cycle and enhances our understanding of RBSDV's genetic diversity and host specificity.
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Affiliation(s)
- Arezoo Lagzian
- Department of Plant Protection, Faculty of Agriculture, Vali-e-Asr University of Rafsanjan, Rafsanjan, Iran
| | - Abozar Ghorbani
- Nuclear Agriculture Research School, Nuclear Science and Technology Research Institute, Karaj, Iran.
| | - Saeid Tabein
- Department of Plant Protection, Faculty of Agriculture, Shahid Chamran University of Ahvaz, Ahvaz, Iran
| | - Roohallah Saberi Riseh
- Department of Plant Protection, Faculty of Agriculture, Vali-e-Asr University of Rafsanjan, Rafsanjan, Iran
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2
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Wang S, Wang X, Li S, Sun X, Xue M, Di D, Zhang A, Zhang Y, Xia Y, Zhou T, Fan Z. Maize lipid droplet-associated protein 2 is recruited by a virus to enhance viral multiplication and infection through regulating cellular fatty acid metabolism. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024. [PMID: 39007841 DOI: 10.1111/tpj.16934] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2024] [Revised: 06/05/2024] [Accepted: 06/26/2024] [Indexed: 07/16/2024]
Abstract
Pathogen infection induces massive reprogramming of host primary metabolism. Lipid and fatty acid (FA) metabolism is generally disrupted by pathogens and co-opted for their proliferation. Lipid droplets (LDs) that play important roles in regulating cellular lipid metabolism are utilized by a variety of pathogens in mammalian cells. However, the function of LDs during pathogenic infection in plants remains unknown. We show here that infection by rice black streaked dwarf virus (RBSDV) affects the lipid metabolism of maize, which causes elevated accumulation of C18 polyunsaturated fatty acids (PUFAs) leading to viral proliferation and symptom development. The overexpression of one of the two novel LD-associated proteins (LDAPs) of maize (ZmLDAP1 and ZmLDAP2) induces LD clustering. The core capsid protein P8 of RBSDV interacts with ZmLDAP2 and prevents its degradation through the ubiquitin-proteasome system mediated by a UBX domain-containing protein, PUX10. In addition, silencing of ZmLDAP2 downregulates the expression of FA desaturase genes in maize, leading to a decrease in C18 PUFAs levels and suppression of RBSDV accumulation. Our findings reveal that plant virus may recruit LDAP to regulate cellular FA metabolism to promote viral multiplication and infection. These results expand the knowledge of LD functions and viral infection mechanisms in plants.
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Affiliation(s)
- Siyuan Wang
- MARA-Key Laboratory of Surveillance and Management for Plant Quarantine Pests, College of Plant Protection, and State Key Laboratory for Maize Bio-breeding, China Agricultural University, Beijing, 100193, China
| | - Xinyu Wang
- MARA-Key Laboratory of Surveillance and Management for Plant Quarantine Pests, College of Plant Protection, and State Key Laboratory for Maize Bio-breeding, China Agricultural University, Beijing, 100193, China
| | - Siqi Li
- MARA-Key Laboratory of Surveillance and Management for Plant Quarantine Pests, College of Plant Protection, and State Key Laboratory for Maize Bio-breeding, China Agricultural University, Beijing, 100193, China
| | - Xi Sun
- MARA-Key Laboratory of Surveillance and Management for Plant Quarantine Pests, College of Plant Protection, and State Key Laboratory for Maize Bio-breeding, China Agricultural University, Beijing, 100193, China
| | - Mingshuo Xue
- MARA-Key Laboratory of Surveillance and Management for Plant Quarantine Pests, College of Plant Protection, and State Key Laboratory for Maize Bio-breeding, China Agricultural University, Beijing, 100193, China
| | - Dianping Di
- Plant Protection Institute, Hebei Academy of Agriculture and Forestry Sciences, Baoding, 071000, China
| | - Aihong Zhang
- Plant Protection Institute, Hebei Academy of Agriculture and Forestry Sciences, Baoding, 071000, China
| | - Yongjiang Zhang
- Chinese Academy of Inspection and Quarantine, Beijing, 100176, China
| | - Yiji Xia
- Department of Biology, Hong Kong Baptist University, Hong Kong, SAR, China
- State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong, SAR, China
| | - Tao Zhou
- MARA-Key Laboratory of Surveillance and Management for Plant Quarantine Pests, College of Plant Protection, and State Key Laboratory for Maize Bio-breeding, China Agricultural University, Beijing, 100193, China
| | - Zaifeng Fan
- MARA-Key Laboratory of Surveillance and Management for Plant Quarantine Pests, College of Plant Protection, and State Key Laboratory for Maize Bio-breeding, China Agricultural University, Beijing, 100193, China
- Sanya Institute of China Agricultural University, Sanya, 572025, China
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3
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Wu W, Wang M, Deng Z, Xi M, Dong Y, Wang H, Zhang J, Wang C, Zhou Y, Xu Q. The miR-184-3p promotes rice black-streaked dwarf virus infection by suppressing Ken in Laodelphax striatellus (Fallén). PEST MANAGEMENT SCIENCE 2024; 80:1849-1858. [PMID: 38050810 DOI: 10.1002/ps.7917] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Revised: 11/02/2023] [Accepted: 12/05/2023] [Indexed: 12/06/2023]
Abstract
BACKGROUND MicroRNAs (miRNAs) play a key role in various biological processes by influencing the translation of target messenger RNAs (mRNAs) through post-transcriptional regulation. The miR-184-3p has been identified as an abundant conserved miRNA in insects. However, less is known about its functions in insect-plant virus interactions. RESULTS The function of miR-184-3p in regulation of plant viral infection in insects was investigated using a rice black-streaked dwarf virus (RBSDV) and Laodelphax striatellus (Fallén) interaction system. We found that the expression of miR-184-3p increased in L. striatellus after RBSDV infection. Injection of miR-184-3p mimics increased RBSDV accumulation, while treatment with miR-184-3p antagomirs inhibits the viral accumulation in L. striatellus. Ken, a zinc finger protein, was identified as a target of miR-184-3p. Knockdown of Ken increased the virus accumulation and promoted RBSDV transmission by L. striatellus. CONCLUSION This study demonstrates that RBSDV infection induces the expression of miR-184-3p in its insect vector L. striatellus. The miR-184-3p targets Ken to promote RBSDV accumulation and transmission. These findings provide a new insight into the function of the miRNAs in regulating plant viral infection in its insect vector. © 2023 Society of Chemical Industry.
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Affiliation(s)
- Wei Wu
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
- Key laboratory of Acupuncture and Medicine Research of Ministry of Education, Nanjing University of Chinese Medicine, Nanjing, China
| | - Man Wang
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Zhiting Deng
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
- College of Life Sciences, Zhejiang Normal University, Jinhua, China
| | - Minmin Xi
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
- College of Life Sciences, Zhejiang Normal University, Jinhua, China
| | - Yan Dong
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Haitao Wang
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Jianhua Zhang
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Changchun Wang
- College of Life Sciences, Zhejiang Normal University, Jinhua, China
| | - Yijun Zhou
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Qiufang Xu
- Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
- College of Life Sciences, Anhui Normal University, Wuhu, China
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Dong J, Chen Y, Xie Y, Cao M, Fu S, Wu J. The Identification of Viral Pathogens in a Physostegia virginiana Plant Using High-Throughput RNA Sequencing. Viruses 2023; 15:1972. [PMID: 37766378 PMCID: PMC10534606 DOI: 10.3390/v15091972] [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: 09/05/2023] [Revised: 09/18/2023] [Accepted: 09/20/2023] [Indexed: 09/29/2023] Open
Abstract
Physostegia virginiana is an important ornamental and cut-flower plant in China. Its commonly used method of clonal propagation leads to virus accumulation in this plant. However, which viruses can infect the Physostegia virginiana plant remains to be illuminated. In this work, five viral pathogens in a Physostegia virginiana plant with virus-like symptoms of yellow, shriveled, and curled leaves were identified using RNA-seq, bioinformatics, and molecular biological techniques. These techniques allowed us to identify five viruses comprising one known alfalfa mosaic virus (AMV) and four novel viruses. The novel viruses include a virus belonging to the genus Fabavirus, temporarily named Physostegia virginiana crinkle-associated virus 1 (PVCaV1); two viruses belonging to the genus Caulimovirus, temporarily named Physostegia virginiana caulimovirus 1 and 2 (PVCV1 and PVCV2); and a virus belonging to the genus Fijivirus, temporarily named Physostegia virginiana fijivirus (PVFV). The genome sequences of PVCaV1, PVCV1, and PVCV2, and the partial genome sequence of PVFV were identified. Genome organizations and genetic evolutionary relationships of all four novel viruses were analyzed. PVCaV1 has a relatively close evolutionary relationship with five analyzed fabiviruses. PVCV1 and PVCV2 have separately a closest evolutionary relationship with lamium leaf distortion-associated virus (LLDAV) and figwort mosaic virus (FMV), and PVFV has a close evolutionary relationship with the five analyzed fijiviruses. Additionally, PVCaV1 can infect Nicotiana benthamiana plants via friction inoculation. The findings enrich our understanding of Physostegia virginiana viruses and contribute to the prevention and control of Physostegia virginiana viral diseases.
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Affiliation(s)
- Jinxi Dong
- Hainan Institute, Zhejiang University, Sanya 572025, China; (J.D.); (Y.C.)
- State Key Laboratory of Rice Biology, Key Laboratory of Biology of Crop Pathogens and Insects of Zhejiang Province, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China;
| | - Yuanling Chen
- Hainan Institute, Zhejiang University, Sanya 572025, China; (J.D.); (Y.C.)
- State Key Laboratory of Rice Biology, Key Laboratory of Biology of Crop Pathogens and Insects of Zhejiang Province, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China;
| | - Yi Xie
- State Key Laboratory of Rice Biology, Key Laboratory of Biology of Crop Pathogens and Insects of Zhejiang Province, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China;
| | - Mengji Cao
- National Citrus Engineering and Technology Research Center, Citrus Research Institute, Southwest University, Chongqing 400712, China
| | - Shuai Fu
- Research Center for Biological Computation, Zhejiang Lab, Hangzhou 311100, China
| | - Jianxiang Wu
- Hainan Institute, Zhejiang University, Sanya 572025, China; (J.D.); (Y.C.)
- State Key Laboratory of Rice Biology, Key Laboratory of Biology of Crop Pathogens and Insects of Zhejiang Province, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China;
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5
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Qin S, Chen X, Xu Z, Li T, Zhao S, Hu R, Zhu J, Li Y, Yang Y, Liu M. Telomere G-triplex lights up Thioflavin T for RNA detection: new wine in an old bottle. Anal Bioanal Chem 2022; 414:6149-6156. [PMID: 35725832 PMCID: PMC9208972 DOI: 10.1007/s00216-022-04180-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2022] [Revised: 06/06/2022] [Accepted: 06/13/2022] [Indexed: 02/07/2023]
Abstract
Few reports are found working on the features and functions of the human telomere G-triplex (ht-G3) though the telomere G-quadruplex has been intensely studied and widely implemented to develop various biosensors. We herein report that ht-G3 lights up Thioflavin T (ThT) and establish a sensitive biosensing platform for RNA detection by introducing a target recycling strategy. An optimal condition was selected out for ht-G3 to promote ThT to generate a strong fluorescence. Accordingly, an ht-G3-based molecular beacon was successfully designed against the corresponding RNA sequence of the SARS-CoV-2 N-gene. The sensitivity for the non-amplified RNA target achieves 0.01 nM, improved 100 times over the conventional ThT–based method. We believe this ht-G3/ThT–based label-free strategy could be widely applied for RNA detection.
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Affiliation(s)
- Shanshan Qin
- State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology - Wuhan National Laboratory for Optoelectronics, Chinese Academy of Sciences, Wuhan, 430071, China
- University of Chinese Academy of Sciences, Beijing, 10049, China
| | - Xuliang Chen
- Department of Cardiovascular Surgery, Xiangya Hospital, Central South University, Changsha, 410008, China
| | - Zhichen Xu
- State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology - Wuhan National Laboratory for Optoelectronics, Chinese Academy of Sciences, Wuhan, 430071, China
- University of Chinese Academy of Sciences, Beijing, 10049, China
| | - Tao Li
- State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology - Wuhan National Laboratory for Optoelectronics, Chinese Academy of Sciences, Wuhan, 430071, China
- University of Chinese Academy of Sciences, Beijing, 10049, China
| | - Shuhong Zhao
- University of Chinese Academy of Sciences, Beijing, 10049, China
- Wuhan National Laboratory for Optoelectronics, Huazhong University of Science and Technology, Wuhan, 430074, Hubei, China
| | - Rui Hu
- State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology - Wuhan National Laboratory for Optoelectronics, Chinese Academy of Sciences, Wuhan, 430071, China
- University of Chinese Academy of Sciences, Beijing, 10049, China
| | - Jiang Zhu
- State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology - Wuhan National Laboratory for Optoelectronics, Chinese Academy of Sciences, Wuhan, 430071, China
- University of Chinese Academy of Sciences, Beijing, 10049, China
| | - Ying Li
- State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology - Wuhan National Laboratory for Optoelectronics, Chinese Academy of Sciences, Wuhan, 430071, China.
- University of Chinese Academy of Sciences, Beijing, 10049, China.
| | - Yunhuang Yang
- State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology - Wuhan National Laboratory for Optoelectronics, Chinese Academy of Sciences, Wuhan, 430071, China.
- University of Chinese Academy of Sciences, Beijing, 10049, China.
| | - Maili Liu
- State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology - Wuhan National Laboratory for Optoelectronics, Chinese Academy of Sciences, Wuhan, 430071, China
- University of Chinese Academy of Sciences, Beijing, 10049, China
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6
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Rezapanah MR, Ziafati Kafi Z, Ashrafi Tamai I, Sadri N, Hojabr Rajeoni A, Jamiri F, GhalyanchiLangeroudi A. Complete genome sequence of Himetobi P strain Sh.Moghaddam, isolated from the Laodelphax striatellus (small brown planthopper). BMC Res Notes 2022; 15:138. [PMID: 35422010 PMCID: PMC9008957 DOI: 10.1186/s13104-022-06027-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Accepted: 04/05/2022] [Indexed: 11/17/2022] Open
Abstract
Objective Himetobi P virus (HiPV) is an insect virus belonging to the genus Cripavirus in the Dicistroviridae family within the Picornavirales order. Himetobi P strain. Sh.Moghaddam is the first study reported, was isolated from the Laodelphax striatellus (small brown planthopper) of an internal chicken organ in Iran. Data description Genomic analysis showed a nucleotide identity of 93.16% with the family Dicistroviridae, genus Triatovirus, and species Himetobi P. The genome assembly comprised 9227 bp, with a 38.8% GC content. Annotation of the genome showed 2 ORF, a total of 2 genes: including 2 coding sequences (CDs) (total) and 8 Miss features. Thus, the whole-genome sequence presented in this study serves as a platform for detecting new genes that may contribute to the pathogenicity of the Himetobi P strain. Sh.Moghaddam.
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Affiliation(s)
- Mohammad Reza Rezapanah
- Iranian Research Institute of Plant Protection (IRIPP), Agricultural Research Education and Extension Organization (AREEO), Tehran, Iran.,Center of Excellence for Organic Agriculture, University of Tehran, Tehran, Iran.,Iranian Network for Research in Viral Diseases, University of Tehran, Tehran, Iran
| | - Zahra Ziafati Kafi
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran
| | - Iradj Ashrafi Tamai
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran
| | - Naser Sadri
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran
| | - Ali Hojabr Rajeoni
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran
| | - Fahimeh Jamiri
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran
| | - Arash GhalyanchiLangeroudi
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran.
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7
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Liu Q, Yan T, Tan X, Wei Z, Li Y, Sun Z, Zhang H, Chen J. Genome-Wide Identification and Gene Expression Analysis of the OTU DUB Family in Oryza sativa. Viruses 2022; 14:v14020392. [PMID: 35215984 PMCID: PMC8878984 DOI: 10.3390/v14020392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Revised: 02/03/2022] [Accepted: 02/11/2022] [Indexed: 12/10/2022] Open
Abstract
Ovarian tumor domain (OTU)-containing deubiquitinating enzymes (DUBs) are an essential DUB to maintain protein stability in plants and play important roles in plant growth development and stress response. However, there is little genome-wide identification and analysis of the OTU gene family in rice. In this study, we identified 20 genes of the OTU family in rice genome, which were classified into four groups based on the phylogenetic analysis. Their gene structures, conserved motifs and domains, chromosomal distribution, and cis elements in promoters were further studied. In addition, OTU gene expression patterns in response to plant hormone treatments, including SA, MeJA, NAA, BL, and ABA, were investigated by RT-qPCR analysis. The results showed that the expression profile of OsOTU genes exhibited plant hormone-specific expression. Expression levels of most of the rice OTU genes were significantly changed in response to rice stripe virus (RSV), rice black-streaked dwarf virus (RBSDV), Southern rice black-streaked dwarf virus (SRBSDV), and Rice stripe mosaic virus (RSMV). These results suggest that the rice OTU genes are involved in diverse hormone signaling pathways and in varied responses to virus infection, providing new insights for further functional study of OsOTU genes.
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Affiliation(s)
- Qiannan Liu
- College of Plant Protection, Northwest Agriculture and Forestry University, Yangling, Xianyang 712100, China; (Q.L.); (T.Y.); (X.T.)
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China; (Z.W.); (Y.L.); (Z.S.)
| | - Tingyun Yan
- College of Plant Protection, Northwest Agriculture and Forestry University, Yangling, Xianyang 712100, China; (Q.L.); (T.Y.); (X.T.)
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China; (Z.W.); (Y.L.); (Z.S.)
| | - Xiaoxiang Tan
- College of Plant Protection, Northwest Agriculture and Forestry University, Yangling, Xianyang 712100, China; (Q.L.); (T.Y.); (X.T.)
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China; (Z.W.); (Y.L.); (Z.S.)
| | - Zhongyan Wei
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China; (Z.W.); (Y.L.); (Z.S.)
| | - Yanjun Li
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China; (Z.W.); (Y.L.); (Z.S.)
| | - Zongtao Sun
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China; (Z.W.); (Y.L.); (Z.S.)
| | - Hehong Zhang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China; (Z.W.); (Y.L.); (Z.S.)
- Correspondence: (H.Z.); (J.C.)
| | - Jianping Chen
- College of Plant Protection, Northwest Agriculture and Forestry University, Yangling, Xianyang 712100, China; (Q.L.); (T.Y.); (X.T.)
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory of Biotechnology in Plant Protection of Ministry of Agriculture and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo 315211, China; (Z.W.); (Y.L.); (Z.S.)
- Correspondence: (H.Z.); (J.C.)
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8
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Li L, Duan C, Weng J, Qi X, Liu C, Li X, Zhu J, Xie C. A field-deployable method for single and multiplex detection of DNA or RNA from pathogens using Cas12 and Cas13. SCIENCE CHINA. LIFE SCIENCES 2021; 65:1456-1465. [PMID: 34962615 PMCID: PMC8713540 DOI: 10.1007/s11427-021-2028-x] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Accepted: 10/28/2021] [Indexed: 12/26/2022]
Abstract
For some Cas nucleases, trans-cleavage activity triggered by CRISPR/Cas-mediated cis-cleavage upon target nucleic acid recognition has been explored for diagnostic detection. Portable single and multiplex nucleic acid-based detection is needed for crop pathogen management in agriculture. Here, we harnessed and characterized RfxCas13d as an additional CRISPR/Cas nucleic acid detection tool. We systematically characterized AsCas12a, LbCas12a, LwaCas13a, and RfxCas13d combined with isothermal amplification to develop a CRISPR/Cas nucleic acid-based tool for single or multiplex pathogen detection. Our data indicated that sufficient detection sensitivity was achieved with just a few copies of DNA/RNA targets as input. Using this tool, we successfully detected DNA from Fusarium graminearum and Fusarium verticillioides and RNA from rice black-streaked dwarf virus in crude extracts prepared in the field. Our method, from sample preparation to result readout, could be rapidly and easily deployed in the field. This system could be extended to other crop pathogens, including those that currently lack a detection method and have metabolite profiles that make detection challenging. This nucleic acid detection system could also be used for single-nucleotide polymorphism genotyping, transgene detection, and qualitative detection of gene expression in the field.
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Affiliation(s)
- Lina Li
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China
| | - Canxing Duan
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China
| | - Jianfeng Weng
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China
| | - Xiantao Qi
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China
| | - Changlin Liu
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China
| | - Xinhai Li
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China.,Biotechnology Research Institute, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China
| | - Jinjie Zhu
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China.
| | - Chuanxiao Xie
- National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100081, China.
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9
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Genome Editing of Rice eIF4G Loci Confers Partial Resistance to Rice Black-Streaked Dwarf Virus. Viruses 2021; 13:v13102100. [PMID: 34696530 PMCID: PMC8539751 DOI: 10.3390/v13102100] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Revised: 10/09/2021] [Accepted: 10/13/2021] [Indexed: 01/23/2023] Open
Abstract
Rice black-streaked dwarf disease, caused by rice black-streaked dwarf virus (RBSDV), is a serious constraint in Chinese rice production. Breeding disease-resistant varieties through multigene aggregation is considered an effective way to control diseases, but few disease-resistant resources have been characterized thus far. To develop novel resources for resistance to RBSDV through CRISPR/Cas9-mediated genome editing, a guide RNA sequence targeting exon 1 of eIF4G was designed and cloned into a binary vector, pHUE401. This recombinant vector was used to generate mutations in the rice cultivar Nipponbare via Agrobacterium-mediated transformation. This approach produced heritable homozygous mutations in the transgene-free T1 generation. Sequence analysis of the eIF4G target region from T1 transgenic plants identified 3 bp deletion mutants, and analysis of the predicted amino acid sequence identified one amino acid deletion in mutants that possess near full-length eIF4G. Furthermore, our data suggest that eIF4G may plays an important role in rice normal development, as there were no eIF4G knock-out homozygous mutants in T1 generation plants. When homozygous mutant lines were inoculated with RBSDV, they exhibited enhanced tolerance to virus infection, without visibly affecting plant growth and development. However, the eif4g mutant plants showed the same sensitivity to rice stripe virus (RSV) infection as wild-type plants. Notably, the wild-type and mutant N-termini of eIF4G interacted directly with RBSDV P8 in yeast and in planta. Additionally, compared to wild-type plants, the eIF4G transcript level was reduced twofold in the mutant plants. These results indicate that site-specific mutation of rice eIF4G successfully conferred partial resistance specific to RBSDV associated with less transcription of eIF4G in mutants. Therefore, this study demonstrates that the novel eIF4G alleles generated by CRISPR/Cas9 represent valuable disease-resistant resources that can be used to develop RBSDV-resistant varieties.
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10
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Liu Q, Lan G, Zhu Y, Chen K, Shen C, Zhao X, Zhang F, Xu J, Li Z. Genome-Wide Association Study on Resistance to Rice Black-Streaked Dwarf Disease Caused by Rice black-streaked dwarf virus. PLANT DISEASE 2021; 105:607-615. [PMID: 32830595 DOI: 10.1094/pdis-10-19-2263-re] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Rice black-streaked dwarf disease caused by Rice black-streaked dwarf virus (RBSDV) is one of the most destructive viral diseases of rice. Thus, it is imperative that resistant rice germplasms are screened for novel RBSDV-resistant genes. RBSDV resistance of a diverse global collection comprising 1,953 rice accessions was evaluated under natural conditions across 3 years. The average disease incidences of the Xian/indica (XI) subgroup were significantly lower than those of the Geng/japonica (GJ) subgroup. Interestingly, most XI-1A accessions in the Xian subgroup were significantly more susceptible than XI-1B accessions, even though XI-1A and XI-1B have a close phylogenetic relationship. Four Xian accessions stably and highly resistant to RBSDV were consistently identified in 2 years. Ten genomic regions (GRs) with 147 single nucleotide polymorphisms associated with RBSDV resistance were detected by a single-locus genome-wide association study (GWAS), of which five were repeatedly identified in a multilocus GWAS. Two previously reported GRs, grRBSDV-6.1 and grRBSDV-6.3, which were repeatedly detected as stably and highly associated with RBSDV resistance, contained 17 and seven genes, respectively, with significant differences of resistance among haplotypes. Haplotype analyses of the candidate genes LOC_Os06g03150 in grRBSDV-6.1 and LOC_Os06g31190 in grRBSDV-6.3 suggested that the former gene is mainly associated with the differentiation of resistance within the Xian subgroup and the latter gene mainly explains the difference in the resistance between Xian and Geng. Another three novel resistance GRs (grRBSDV-1.1, grRBSDV-7.1, and grRBSDV-9.1) were identified. Our findings may enhance the application of disease-resistant rice germplasms for breeding RBSDV-resistant varieties.
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Affiliation(s)
- Qing Liu
- Institute of Crop Sciences, National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Guofang Lan
- Key Laboratory of Plant Functional Genomics of Ministry of Education/College of Bioscience and Biotechnology, Yangzhou University, 225009 Yangzhou, China
- Changshu Institute of Agricultural Science, Changshu 215500, China
| | - Yajun Zhu
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Kai Chen
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Congcong Shen
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Xiuqin Zhao
- Institute of Crop Sciences, National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Fan Zhang
- Institute of Crop Sciences, National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Jianlong Xu
- Institute of Crop Sciences, National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Zhikang Li
- Institute of Crop Sciences, National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China
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11
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Feng Z, Yuan M, Zou J, Wu L, Wei L, Chen T, Zhou N, Xue W, Zhang Y, Chen Z, Hu K, Wang G, Liu W, Pan X, Zuo S. Development of marker-free rice with stable and high resistance to rice black-streaked dwarf virus disease through RNA interference. PLANT BIOTECHNOLOGY JOURNAL 2021; 19:212-214. [PMID: 32741105 PMCID: PMC7868976 DOI: 10.1111/pbi.13459] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2020] [Revised: 06/18/2020] [Accepted: 07/09/2020] [Indexed: 05/31/2023]
Abstract
The rice black-streaked dwarf virus (RBSDV) disease causes severe rice yield losses in Asia. RNA interference (RNAi) has been widely applied to develop antiviral varieties in plants. So far, only a few studies reported the application of RNAi in rice against RBSDV and most of them are lack of enough data to support its breeding potential, which limited the progress on developing RBSDV-resistant variety. In this study, we generated three RNAi constructs to specifically target three RBSDV genes (S1, S2 and S6), respectively. We confirmed that RNAi targeting RBSDV S6 conferred rice with almost full immunity to RBSDV through phenotyping test in eight consecutive years in both artificial inoculation and field trials, while RNAi of S1 or S2 only leads to partially increased resistance. The S6RNAi was also found conferring strong resistance to southern rice black-streaked dwarf virus (SRBSDV), a novel species closely related to RBSDV that outbroke recently in Southern China. In particular, no adverse effects on agronomical and developmental traits were found in S6RNAi transgenic lines. The marker-free transgenic lines with S6RNAi, driven by either maize ubiquitin-1 promoter or rice rbcS green tissue expression promoter, in elite rice background should have great potential in breeding of resistant varieties to both RBSDV and SRBSDV and provide a basis for further safety evaluation and commercial application.
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Affiliation(s)
- Zhiming Feng
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
- Co‐Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Key Laboratory of Crop Genetics and Physiology of Jiangsu ProvinceYangzhou UniversityYangzhouChina
| | - Meng Yuan
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene ResearchCollege of Life Science and TechnologyHuazhong Agricultural UniversityWuhanChina
| | - Jie Zou
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
| | - Lin‐Bo Wu
- Institute for Molecular PhysiologyHeinrich Heine University of DüsseldorfDüsseldorfGermany
| | - Lang Wei
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
| | - Taiyu Chen
- National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene ResearchCollege of Life Science and TechnologyHuazhong Agricultural UniversityWuhanChina
| | - Nana Zhou
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
| | - Wenxia Xue
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
| | - Yafang Zhang
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
| | - Zongxiang Chen
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
- Co‐Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Key Laboratory of Crop Genetics and Physiology of Jiangsu ProvinceYangzhou UniversityYangzhouChina
| | - Keming Hu
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
- Co‐Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Key Laboratory of Crop Genetics and Physiology of Jiangsu ProvinceYangzhou UniversityYangzhouChina
| | - Guo‐Liang Wang
- Department of Plant PathologyOhio State UniversityColumbusOhioUSA
| | - Wende Liu
- State Key Laboratory for biology of plant diseases and insect pests/Institute of plant protectionChinese academy of agricultural sciencesBeijingChina
| | - Xuebiao Pan
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
| | - Shimin Zuo
- Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular BreedingAgricultural College of Yangzhou UniversityYangzhouChina
- Co‐Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Key Laboratory of Crop Genetics and Physiology of Jiangsu ProvinceYangzhou UniversityYangzhouChina
- Joint International Research Laboratory of Agriculture and Agri‐Product Safetythe Ministry of Education of ChinaInstitutes of Agricultural Science and Technology DevelopmentYangzhou UniversityYangzhouChina
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12
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He Z, Dong Z, Gan H. Comprehensive codon usage analysis of rice black-streaked dwarf virus based on P8 and P10 protein coding sequences. INFECTION GENETICS AND EVOLUTION 2020; 86:104601. [PMID: 33122052 DOI: 10.1016/j.meegid.2020.104601] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2020] [Revised: 10/05/2020] [Accepted: 10/18/2020] [Indexed: 12/21/2022]
Abstract
Rice black-streaked dwarf virus (RBSDV) belongs to the genus Fijivirus of the family Reoviridae and is an important pathogen that damages rice, maize and wheat worldwide. Previously, several reports have described the genetic variation and population structure of RBSDV. However, the details of the evolutionary changes, synonymous codon usage patterns and host adaptation of the virus are largely unclear. Here, we performed a detailed analysis of the codon usage and host adaptability of RBSDV based on 130 full-length P8 and 234 full-length P10 sequences. Infrequent recombination and frequent segment reassortment influence the genomic evolution of RBSDV. Our phylogenetic analysis found three and four lineages based on the P8 and P10 non-recombinant sequences respectively. We found relatively stable and conserved genomic composition with lower codon usage choice in the RBSDV P8 and P10 protein coding sequences. Both ENC-plot and neutrality-plot analyses showed that natural selection is the key factor that shapes the codon usage pattern of RBSDV. Codon adaptation index (CAI), relative codon deoptimization index (RCDI) and similarity index (SiD) analyses indicated strong correlation between RBSDV and rice rather than maize, wheat or Laodelphax striatellus. Our study provides deep insight into the evaluation of the codon usage pattern and adaptive evolution of RBSDV based on P8 and P10 sequences and should be taken into consideration for the prevention and control of this virus.
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Affiliation(s)
- Zhen He
- School of Horticulture and Plant Protection, Yangzhou University, Wenhui East Road No.48, Yangzhou, 225009, Jiangsu Province, PR China; Joint International Research Laboratory of Agriculture and Agri-Product Safety of Ministry of Education of China, Yangzhou University, Wenhui East Road No.48, Yangzhou, 225009, Jiangsu Province, PR China.
| | - Zhuozhuo Dong
- School of Horticulture and Plant Protection, Yangzhou University, Wenhui East Road No.48, Yangzhou, 225009, Jiangsu Province, PR China
| | - Haifeng Gan
- School of Horticulture and Plant Protection, Yangzhou University, Wenhui East Road No.48, Yangzhou, 225009, Jiangsu Province, PR China
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13
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Liu H, Zhou Y, Xu Q, Wong SM. Selection of DNA Aptamers for Subcellular Localization of RBSDV P10 Protein in the Midgut of Small Brown Planthoppers by Emulsion PCR-Based SELEX. Viruses 2020; 12:v12111239. [PMID: 33143344 PMCID: PMC7692627 DOI: 10.3390/v12111239] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2020] [Revised: 10/06/2020] [Accepted: 10/29/2020] [Indexed: 12/31/2022] Open
Abstract
Rice black-streaked dwarf virus (RBSDV), classified under the Reoviridae, Fijivirus genus, caused an epidemic in the eastern provinces of China and other East Asian countries and resulted in severe yield loss in rice and wheat production. RBSDV is transmitted by the small brown planthopper (SBPH, Laodelphax striatellus Fallén) in a persistent manner. In order to provide a stable and cost-effective detection probe, in this study we selected three DNA aptamers (R3, R5 and R11) by an optimized, standardized and time saving emulsion PCR-based SELEX, for the detection of RBSDV outer-shell P10 protein for in situ localization studies in the midgut of SBPH. The specificity of these three DNA aptamers was tested through detection of the P10 protein using an enzyme-linked oligonucleotide assay (ELONA) and aptamer-based dot-blot ELISA. All three DNA aptamers can be used to detect RBSDV P10 protein by immunofluorescent labeling in the midgut of RBSDV-infected SBPH. These data show that the selected aptamers can be used for the detection of RBSDV P10 protein in vitro and in vivo. This is the first report of aptamers being selected for detection of a rice virus capsid protein.
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Affiliation(s)
- Haoqiu Liu
- Department of Biological Sciences, National University of Singapore, Singapore 117543, Singapore;
- National University of Singapore (Suzhou) Research Institute, Suzhou 215123, China
| | - Yijun Zhou
- Key Laboratory of Food Quality and Safety of Jiangsu Province, State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China;
| | - Qiufang Xu
- Key Laboratory of Food Quality and Safety of Jiangsu Province, State Key Laboratory Breeding Base, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China;
- Correspondence: (Q.X.); (S.-M.W.); Tel.: +86-25-84390394 (Q.X.); +65-65162976 (S.-M.W.); Fax: +86-25-84390391 (Q.X.); +65-67792486 (S.-M.W.)
| | - Sek-Man Wong
- Department of Biological Sciences, National University of Singapore, Singapore 117543, Singapore;
- National University of Singapore (Suzhou) Research Institute, Suzhou 215123, China
- Temasek Life Sciences Laboratory, 1 Research Link, Singapore 117604, Singapore
- Correspondence: (Q.X.); (S.-M.W.); Tel.: +86-25-84390394 (Q.X.); +65-65162976 (S.-M.W.); Fax: +86-25-84390391 (Q.X.); +65-67792486 (S.-M.W.)
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14
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Zhang JH, Dong Y, Wu W, Yi DS, Wang M, Wang HT, Xu QF. Comprehensive Identification and Characterization of Long Non-coding RNAs Associated With Rice Black-Streaked Dwarf Virus Infection in Laodelphax striatellus (Fallén) Midgut. Front Physiol 2020; 11:1011. [PMID: 32903522 PMCID: PMC7437459 DOI: 10.3389/fphys.2020.01011] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2020] [Accepted: 07/24/2020] [Indexed: 11/24/2022] Open
Abstract
Long non-coding RNAs (lncRNAs) are involved in a variety of biological functions through transcriptional and post-transcriptional regulation. However, little is known about their functions in the process of insect mediated virus transmission. In the present study, we analyzed using RNA-Seq, the lncRNAs that were differentially expressed in response to Rice black-streaked dwarf virus (RBSDV) infection in Laodelphax striatellus (Fallén) midgut. A total of 13,927 lncRNAs were identified and over 69% were assigned to intergenic regions. Among them, 176 lncRNAs were differentially expressed and predicted to target 168 trans-regulatory genes. Ten differentially expressed lncRNAs were selected and their expression changes were validated by RT-qPCR. KEGG analysis showed that these target genes were enriched in the essential biological process, such as Purine metabolism, Valine, leucine and isoleucine degradation, and Fatty acid elongation. The expression levels of the differentially expressed lncRNAs and the predicted target genes that were significantly enriched in the Human papillomavirus infection pathway were analyzed by RT-qPCR. The results showed that several lncRNAs were co-expressed with their target genes. One of the lncRNAs called MSTRG15394 and its target gene, encoding a secreted protease inhibitor (PI), were up-regulated at the transcriptional level after RBSDV infection. Knockdown of MSTRG15394 could down-regulate the PI expression at mRNA level. Inhibition of either MSTRG15394 or PI expression by RNA interference promoted RBSDV accumulation in L. striatellus midgut. Our finding provides new insights into the function of lncRNAs in regulating virus infection in an important insect vector.
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Affiliation(s)
- Jian-Hua Zhang
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Yan Dong
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China.,Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Nanjing, China
| | - Wei Wu
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Dian-Shan Yi
- Nanjing Plant Protection and Quarantine Station, Nanjing, China
| | - Man Wang
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Hai-Tao Wang
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China.,Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Nanjing, China
| | - Qiu-Fang Xu
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, China.,Key Laboratory of Food Quality and Safety of Jiangsu Province - State Key Laboratory Breeding Base, Nanjing, China
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15
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Wu N, Zhang L, Ren Y, Wang X. Rice black-streaked dwarf virus: From multiparty interactions among plant-virus-vector to intermittent epidemics. MOLECULAR PLANT PATHOLOGY 2020; 21:1007-1019. [PMID: 32510844 PMCID: PMC7368121 DOI: 10.1111/mpp.12946] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Revised: 05/06/2020] [Accepted: 05/06/2020] [Indexed: 05/18/2023]
Abstract
UNLABELLED Rice black-streaked dwarf virus (RBSDV) (species Rice black-streaked dwarf virus, genus Fijivirus, family Reoviridae) is the causal agent of rice black-streaked dwarf and maize rough dwarf diseases, which occur in intermittent epidemics in East Asian countries and are responsible for considerable yield losses. Intermittency of epidemics make accurate forecasting and designing of effective management strategies difficult. However, recent insights into host-virus-vector insect interactions are now informing forecasting and disease control measures. Resistance genes are also being identified and mapped. SYMPTOMATOLOGY AND HOST RANGE RBSDV induces extreme stunting, darkened, and stiff leaves of crops and weeds only in the family Poaceae, including Oryza sativa, Zea mays, and Triticum aestivum. Infected plants produce totally or partially deformed panicles and remain alive through harvest. GENOME AND GENE FUNCTION The nonenveloped virus particles comprise a double-layered capsid, 50-nm core with genomic double-stranded RNA (dsRNA), and six proteins. The genome of RBSDV contains 10 segments of dsRNA, named S1 to S10 in decreasing order of molecular weight. Segments 1, 2, 3, 4, 6, 8, and 10 encode the RNA-dependent RNA polymerase (RdRp), the major core structural protein, a protein with guanylyltransferase activity, an outer-shell B-spike protein, viral RNA-silencing suppressor, the major capsid protein, and the outer capsid protein, respectively. Each of the segments 5, 7, and 9 encodes two proteins: P5-1, a component of viroplasms; P5-2 of unknown function; nonstructural protein P7-1, involved in forming the structural matrix of tubular structures in infected tissues; P7-2 of unknown function; P9-1, the main component of viroplasms in infected cells and involved in viral replication; and P9-2 of unknown function. TRANSMISSION AND EPIDEMIOLOGY RBSDV is transmitted by Laodelphax striatellus in a persistent propagative manner. The vector insect is the only means of virus spread in nature, so its migration and transmission efficiency are obligatory for disease epidemics to develop. Susceptible varieties are widely planted, but efficient transmission by vectors is the primary reason for the epidemics. Cultivation system, pesticide overuse, and climatic conditions also contribute to epidemics by affecting the development of the vector insects and their population dynamics. DISEASE MANAGEMENT In the absence of resistant varieties, integrated disease management aims at disrupting the cycle of virus transmission by the insect vector. Inheritance studies have indicated that resistance is mostly governed by quantitative trait loci or multiple genes. Genetic engineering through RNA-interference and gene-editing strategies are potential approaches for disease control.
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Affiliation(s)
- Nan Wu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijingChina
| | - Lu Zhang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijingChina
| | - Yingdang Ren
- Institute of Plant ProtectionHenan Academy of Agricultural SciencesZhengzhouChina
| | - Xifeng Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijingChina
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16
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Liu Q, Deng S, Liu B, Tao Y, Ai H, Liu J, Zhang Y, Zhao Y, Xu M. A helitron-induced RabGDIα variant causes quantitative recessive resistance to maize rough dwarf disease. Nat Commun 2020; 11:495. [PMID: 31980630 PMCID: PMC6981192 DOI: 10.1038/s41467-020-14372-3] [Citation(s) in RCA: 41] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2018] [Accepted: 01/01/2020] [Indexed: 12/15/2022] Open
Abstract
Maize rough dwarf disease (MRDD), caused by various species of the genus Fijivirus, threatens maize production worldwide. We previously identified a quantitative locus qMrdd1 conferring recessive resistance to one causal species, rice black-streaked dwarf virus (RBSDV). Here, we show that Rab GDP dissociation inhibitor alpha (RabGDIα) is the host susceptibility factor for RBSDV. The viral P7-1 protein binds tightly to the exon-10 and C-terminal regions of RabGDIα to recruit it for viral infection. Insertion of a helitron transposon into RabGDIα intron 10 creates alternative splicing to replace the wild-type exon 10 with a helitron-derived exon 10. The resultant splicing variant RabGDIα-hel has difficulty being recruited by P7-1, thus leading to quantitative recessive resistance to MRDD. All naturally occurring resistance alleles may have arisen from a recent single helitron insertion event. These resistance alleles are valuable to improve maize resistance to MRDD and potentially to engineer RBSDV resistance in other crops. Maize rough dwarf disease threatens its production. Here, the authors show that a helitron transposon insertion in the Rab GDP dissociation inhibitor alpha leads to recessive viral resistance by affecting its interaction with viral P7-1 protein and that all naturally occurring alleles come from a single mutation event after domestication.
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Affiliation(s)
- Qingcai Liu
- State Key Laboratory of Plant Physiology and Biochemistry/College of Agronomy and Biotechnology/National Maize Improvement Center/Center for Crop Functional Genomics and Molecular Breeding, China Agricultural University, 2 West Yuanmingyuan Road, Beijing, 100193, P. R. China
| | - Suining Deng
- State Key Laboratory of Plant Physiology and Biochemistry/College of Agronomy and Biotechnology/National Maize Improvement Center/Center for Crop Functional Genomics and Molecular Breeding, China Agricultural University, 2 West Yuanmingyuan Road, Beijing, 100193, P. R. China
| | - Baoshen Liu
- College of Agronomy/State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, P. R. China
| | - Yongfu Tao
- State Key Laboratory of Plant Physiology and Biochemistry/College of Agronomy and Biotechnology/National Maize Improvement Center/Center for Crop Functional Genomics and Molecular Breeding, China Agricultural University, 2 West Yuanmingyuan Road, Beijing, 100193, P. R. China
| | - Haiyue Ai
- State Key Laboratory of Plant Physiology and Biochemistry/College of Agronomy and Biotechnology/National Maize Improvement Center/Center for Crop Functional Genomics and Molecular Breeding, China Agricultural University, 2 West Yuanmingyuan Road, Beijing, 100193, P. R. China
| | - Jianju Liu
- State Key Laboratory of Plant Physiology and Biochemistry/College of Agronomy and Biotechnology/National Maize Improvement Center/Center for Crop Functional Genomics and Molecular Breeding, China Agricultural University, 2 West Yuanmingyuan Road, Beijing, 100193, P. R. China
| | - Yongzhong Zhang
- College of Agronomy/State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, P. R. China
| | - Yan Zhao
- College of Agronomy/State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, 271018, P. R. China
| | - Mingliang Xu
- State Key Laboratory of Plant Physiology and Biochemistry/College of Agronomy and Biotechnology/National Maize Improvement Center/Center for Crop Functional Genomics and Molecular Breeding, China Agricultural University, 2 West Yuanmingyuan Road, Beijing, 100193, P. R. China.
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17
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Zhang H, Tan X, Li L, He Y, Hong G, Li J, Lin L, Cheng Y, Yan F, Chen J, Sun Z. Suppression of auxin signalling promotes rice susceptibility to Rice black streaked dwarf virus infection. MOLECULAR PLANT PATHOLOGY 2019; 20:1093-1104. [PMID: 31250531 PMCID: PMC6640184 DOI: 10.1111/mpp.12814] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Auxin plays a fundamental role in plant growth and development, and also influences plant defence against various pathogens. Previous studies have examined the different roles of the auxin pathway during infection by biotrophic bacteria and necrotrophic fungi. We now show that the auxin signalling pathway was markedly down-regulated following infection of rice by Rice black streaked dwarf virus (RBSDV), a dsRNA virus. Repression of the auxin receptor TIR1 by a mutant overexpressing miR393 increased rice susceptibility to RBSDV. Mutants overexpressing the auxin signalling repressors OsIAA20 and OsIAA31 were also more susceptible to RBSDV. The induction of jasmonic acid (JA) pathway genes in response to RBSDV was supressed in auxin signalling mutants, suggesting that activation of the JA pathway may be part of the auxin signalling-mediated rice defence against RBSDV. More importantly, our results also revealed that OsRboh-mediated reactive oxygen species levels played important roles in this defence. The results offer novel insights into the regulatory mechanisms of auxin signalling in the rice-RBSDV interaction.
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Affiliation(s)
- Hehong Zhang
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
| | - Xiaoxiang Tan
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
| | - Lulu Li
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
| | - Yuqing He
- Key Laboratory of Biotechnology in Plant Protection of MOA and Zhejiang ProvinceInstitute of Virology and Biotechnology, Zhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Gaojie Hong
- Key Laboratory of Biotechnology in Plant Protection of MOA and Zhejiang ProvinceInstitute of Virology and Biotechnology, Zhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Junmin Li
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
- Key Laboratory of Biotechnology in Plant Protection of MOA and Zhejiang ProvinceInstitute of Virology and Biotechnology, Zhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Lin Lin
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
- Key Laboratory of Biotechnology in Plant Protection of MOA and Zhejiang ProvinceInstitute of Virology and Biotechnology, Zhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Ye Cheng
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
- Key Laboratory of Biotechnology in Plant Protection of MOA and Zhejiang ProvinceInstitute of Virology and Biotechnology, Zhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Fei Yan
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
- Key Laboratory of Biotechnology in Plant Protection of MOA and Zhejiang ProvinceInstitute of Virology and Biotechnology, Zhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Jianping Chen
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
- Key Laboratory of Biotechnology in Plant Protection of MOA and Zhejiang ProvinceInstitute of Virology and Biotechnology, Zhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Zongtao Sun
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and DiseaseInstitute of Plant Virology, Ningbo UniversityNingbo315211China
- Key Laboratory of Biotechnology in Plant Protection of MOA and Zhejiang ProvinceInstitute of Virology and Biotechnology, Zhejiang Academy of Agricultural SciencesHangzhou310021China
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18
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Zhang H, He Y, Tan X, Xie K, Li L, Hong G, Li J, Cheng Y, Yan F, Chen J, Sun Z. The Dual Effect of the Brassinosteroid Pathway on Rice Black-Streaked Dwarf Virus Infection by Modulating the Peroxidase-Mediated Oxidative Burst and Plant Defense. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2019; 32:685-696. [PMID: 30540528 DOI: 10.1094/mpmi-10-18-0285-r] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
The phytohormone brassinosteroid (BR) not only plays key roles in regulating plant growth and development but is also involved in modulating the plant defense system in response to pathogens. We previously found that BR application made rice plants more susceptible to the devastating pathogen rice black-streaked dwarf virus (RBSDV), but the mechanism of BR-mediated susceptibility remains unclear. We now show that both BR-deficient and -insensitive mutants are resistant to RBSDV infection. High-throughput sequencing showed that the defense hormone salicylic acid and jasmonic acid pathways were activated in the RBSDV-infected BR mutant. Meanwhile, a number of class III peroxidases (OsPrx) were significantly changed and basal reactive oxygen species (ROS) accumulated in BR mutants. Treatment with exogenous hormones and other chemicals demonstrated that the BR pathway could suppress the levels of OsPrx and the ROS burst by directly binding the promoters of OsPrx genes. Together, our findings indicate that BR-mediated susceptibility is at least partly caused by inhibition of the action of defense hormones, preventing the accumulation of the peroxidase-mediated oxidative burst.
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Affiliation(s)
- Hehong Zhang
- 1 College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- 2 Institute of Plant Virology, Ningbo University, Ningbo, China; and
- 3 The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, China and Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Yuqing He
- 3 The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, China and Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Xiaoxiang Tan
- 2 Institute of Plant Virology, Ningbo University, Ningbo, China; and
- 3 The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, China and Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Kaili Xie
- 1 College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- 2 Institute of Plant Virology, Ningbo University, Ningbo, China; and
| | - Lulu Li
- 1 College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- 3 The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, China and Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Gaojie Hong
- 3 The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, China and Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Junmin Li
- 2 Institute of Plant Virology, Ningbo University, Ningbo, China; and
| | - Ye Cheng
- 2 Institute of Plant Virology, Ningbo University, Ningbo, China; and
| | - Fei Yan
- 2 Institute of Plant Virology, Ningbo University, Ningbo, China; and
| | - Jianping Chen
- 1 College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- 2 Institute of Plant Virology, Ningbo University, Ningbo, China; and
- 3 The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, China and Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Zongtao Sun
- 1 College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- 2 Institute of Plant Virology, Ningbo University, Ningbo, China; and
- 3 The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, China and Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
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19
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Matsukura K, Sanada-Morimura S, Fujii T, Matsumura M. Potential Risks of Poaceous Plants as Infectious Sources of Rice Black-Streaked Dwarf Virus Transmitted by the Small Brown Planthopper, Laodelphax striatellus. PLANT DISEASE 2019; 103:1244-1248. [PMID: 30964417 DOI: 10.1094/pdis-08-18-1340-re] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
The recent reemergence of rice black-streaked dwarf virus (RBSDV) has caused severe rice yield losses in several areas of East Asia. To identify the most important infectious sources of RBSDV, we compared the susceptibility of major poaceous plants to RBSDV infection and survival and the RBSDV acquisition efficiency of a vector insect, the small brown planthopper Laodelphax striatellus. RBSDV infection and survival rates of L. striatellus were significantly high in wheat (Triticum aestivum 'Norin61') and rice (Oryza sativa 'Reiho'), indicating that these crops can be important sources of RBSDV. Our results also showed that RBSDV can complete its infection cycle between Italian ryegrass (Lolium multiflorum 'Hataaoba') and L. striatellus. These results indicate that control of RBSDV and L. striatellus on winter-spring crops of wheat and Italian ryegrass may avoid an RBSDV epidemic on rice during the following summer. In addition to infections of wheat and Italian ryegrass, RBSDV infections were detected in Avena fatua, Avena sterilis subsp. ludoviciana, Cynosurus echinatus, Festuca arundinacea, Festuca pratensis, Lolium perenne, and Vulpia myuros var. megalura, although the infection efficiency varied.
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Affiliation(s)
- Keiichiro Matsukura
- National Agricultural Research Organization Kyushu Okinawa Agricultural Research Center, Kumamoto 861-1192, Japan
| | - Sachiyo Sanada-Morimura
- National Agricultural Research Organization Kyushu Okinawa Agricultural Research Center, Kumamoto 861-1192, Japan
| | - Tomohisa Fujii
- National Agricultural Research Organization Kyushu Okinawa Agricultural Research Center, Kumamoto 861-1192, Japan
| | - Masaya Matsumura
- National Agricultural Research Organization Kyushu Okinawa Agricultural Research Center, Kumamoto 861-1192, Japan
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20
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Zhang H, Tan X, He Y, Xie K, Li L, Wang R, Hong G, Li J, Li J, Taliansky M, MacFarlane S, Yan F, Chen J, Sun Z. Rice black-streaked dwarf virus P10 acts as either a synergistic or antagonistic determinant during superinfection with related or unrelated virus. MOLECULAR PLANT PATHOLOGY 2019; 20:641-655. [PMID: 30623552 PMCID: PMC6637905 DOI: 10.1111/mpp.12782] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Rice black-streaked dwarf virus (RBSDV), a member of the genus Fijivirus, is a devastating pathogen of crop plants. RBSDV S10 encodes a capsid protein (P10) that is an important component of the double-layered particle. However, little information is available on the roles of RBSDV P10 in viral infection or in interactions with other viruses. Here, we demonstrate that the expression of P10 in plants alleviates the symptoms of both RBSDV and the closely related Southern rice black-streaked dwarf virus (SRBSDV), and reduces the disease incidence, but renders the plants more susceptible to the unrelated Rice stripe virus (RSV). Further experiments suggest that P10-mediated resistance to RBSDV and SRBSDV operates at the protein level, rather than the RNA level, and is not a result of post-transcriptional gene silencing. Transcriptomic data reveal that the expression of P10 in plants significantly suppresses the expression of rice defence-related genes, which may play important roles in resistance to RSV infection. After infection with RBSDV, plants are more resistant to subsequent challenge by SRBSDV, but more susceptible to RSV. Overall, these results indicate that P10 acts as an important effector in virus interactions.
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Affiliation(s)
- Hehong Zhang
- Institute of Plant VirologyNingbo UniversityNingbo315211China
- College of Plant ProtectionNanjing Agricultural UniversityNanjing210095China
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and BiotechnologyZhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Xiaoxiang Tan
- Institute of Plant VirologyNingbo UniversityNingbo315211China
- College of Plant ProtectionNorthwest Agriculture and Forestry UniversityYangling 712100ShaanxiChina
| | - Yuqing He
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and BiotechnologyZhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Kaili Xie
- Institute of Plant VirologyNingbo UniversityNingbo315211China
- College of Plant ProtectionNanjing Agricultural UniversityNanjing210095China
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and BiotechnologyZhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Lulu Li
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and BiotechnologyZhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Rong Wang
- Institute of Plant VirologyNingbo UniversityNingbo315211China
- College of Plant ProtectionNanjing Agricultural UniversityNanjing210095China
| | - Gaojie Hong
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and BiotechnologyZhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Junmin Li
- Institute of Plant VirologyNingbo UniversityNingbo315211China
| | - Jing Li
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and BiotechnologyZhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Michael Taliansky
- The James Hutton Institute, Cell and Molecular Sciences GroupInvergowrieDundeeDD2 5DAUK
| | - Stuart MacFarlane
- The James Hutton Institute, Cell and Molecular Sciences GroupInvergowrieDundeeDD2 5DAUK
| | - Fei Yan
- Institute of Plant VirologyNingbo UniversityNingbo315211China
| | - Jianping Chen
- Institute of Plant VirologyNingbo UniversityNingbo315211China
- College of Plant ProtectionNanjing Agricultural UniversityNanjing210095China
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and BiotechnologyZhejiang Academy of Agricultural SciencesHangzhou310021China
| | - Zongtao Sun
- Institute of Plant VirologyNingbo UniversityNingbo315211China
- College of Plant ProtectionNanjing Agricultural UniversityNanjing210095China
- The State Key Laboratory Breeding Base for Sustainable Control of Pest and Disease, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Virology and BiotechnologyZhejiang Academy of Agricultural SciencesHangzhou310021China
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21
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Wang Z, Yu C, Peng Y, Ding C, Li Q, Wang D, Yuan X. Close evolutionary relationship between rice black-streaked dwarf virus and southern rice black-streaked dwarf virus based on analysis of their bicistronic RNAs. Virol J 2019; 16:53. [PMID: 31029143 PMCID: PMC6486993 DOI: 10.1186/s12985-019-1163-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2019] [Accepted: 04/15/2019] [Indexed: 11/30/2022] Open
Abstract
Background Rice black-streaked dwarf virus (RBSDV) and Southern rice black-streaked dwarf virus (SRBSDV) seriously interfered in the production of rice and maize in China. These two viruses are members of the genus Fijivirus in the family Reoviridae and can cause similar dwarf symptoms in rice. Although some studies have reported the phylogenetic analysis on RBSDV or SRBSDV, the evolutionary relationship between these viruses is scarce. Methods In this study, we analyzed the evolutionary relationships between RBSDV and SRBSDV based on the data from the analysis of codon usage, RNA recombination and phylogenetic relationship, selection pressure and genetic characteristics of the bicistronic RNAs (S5, S7 and S9). Results RBSDV and SRBSDV showed similar patterns of codon preference: open reading frames (ORFs) in S7 and S5 had with higher and lower codon usage bias, respectively. Some isolates from RBSDV and SRBSDV formed a clade in the phylogenetic tree of S7 and S9. In addition, some recombination events in S9 occurred between RBSDV and SRBSDV. Conclusions Our results suggest close evolutionary relationships between RBSDV and SRBSDV. Selection pressure, gene flow, and neutrality tests also supported the evolutionary relationships. Electronic supplementary material The online version of this article (10.1186/s12985-019-1163-3) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Zenghui Wang
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277160, People's Republic of China.,College of Plant Protection, Shandong Agricultural University, Tai'an, 271018, People's Republic of China
| | - Chengming Yu
- College of Plant Protection, Shandong Agricultural University, Tai'an, 271018, People's Republic of China
| | - Yuanhao Peng
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277160, People's Republic of China
| | - Chengshi Ding
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277160, People's Republic of China
| | - Qingliang Li
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277160, People's Republic of China
| | - Deya Wang
- College of Life Sciences, Zaozhuang University, Zaozhuang, 277160, People's Republic of China.
| | - Xuefeng Yuan
- College of Plant Protection, Shandong Agricultural University, Tai'an, 271018, People's Republic of China.
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22
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Zhao C, Sun F, Li X, Lan Y, Du L, Zhou T, Zhou Y. Reverse transcription-recombinase polymerase amplification combined with lateral flow strip for detection of rice black-streaked dwarf virus in plants. J Virol Methods 2018; 263:96-100. [PMID: 30395887 DOI: 10.1016/j.jviromet.2018.11.001] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2018] [Revised: 10/31/2018] [Accepted: 11/01/2018] [Indexed: 10/27/2022]
Abstract
Rice black-streaked dwarf virus (RBSDV) infects rice plants, a major crop, and is transmitted via the small brown planthopper (SBPH: Laodelphax striatellus Fallén), causing significant economic loss in China. To rapidly diagnose RBSDV, a reverse transcription-recombinase polymerase amplification (RT-RPA) method was developed using P10 virus-specific primers and probes. Detection of terminally labeled amplification products was achieved with the lateral flow strip method. Our results demonstrate that RT-RPA and RT-PCR assays offer similar sensitivity and specificity in RBSDV detection using cDNA as template. The optimum RT-RPA reaction temperature and time was 37 °C and 20 min, respectively. By screening twenty-one field suspected rice plants, the RT-RPA assay was confirmed to be simple, rapid and reliable. Thus, the RBSDV RT-RPA assay developed here will be a successful tool for quick diagnosis of RBSDV-infected rice plants.
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Affiliation(s)
- Chong Zhao
- College of Plant Protection, Nanjing Agricultural University, Nanjing, 210095, China; Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China; Key Laboratory of Food Safety Evaluation, MOA, Nanjing, 210014, China
| | - Feng Sun
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China; Key Laboratory of Food Safety Evaluation, MOA, Nanjing, 210014, China
| | - Xuejuan Li
- College of Plant Protection, Nanjing Agricultural University, Nanjing, 210095, China; Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China; Key Laboratory of Food Safety Evaluation, MOA, Nanjing, 210014, China
| | - Ying Lan
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China; Key Laboratory of Food Safety Evaluation, MOA, Nanjing, 210014, China
| | - Linlin Du
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China; Key Laboratory of Food Safety Evaluation, MOA, Nanjing, 210014, China
| | - Tong Zhou
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China; Key Laboratory of Food Safety Evaluation, MOA, Nanjing, 210014, China
| | - Yijun Zhou
- College of Plant Protection, Nanjing Agricultural University, Nanjing, 210095, China; Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China; Key Laboratory of Food Safety Evaluation, MOA, Nanjing, 210014, China.
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23
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Xie K, Li L, Zhang H, Wang R, Tan X, He Y, Hong G, Li J, Ming F, Yao X, Yan F, Sun Z, Chen J. Abscisic acid negatively modulates plant defence against rice black-streaked dwarf virus infection by suppressing the jasmonate pathway and regulating reactive oxygen species levels in rice. PLANT, CELL & ENVIRONMENT 2018; 41:2504-2514. [PMID: 29920686 DOI: 10.1111/pce.13372] [Citation(s) in RCA: 51] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Accepted: 06/12/2018] [Indexed: 05/20/2023]
Abstract
Abscisic acid (ABA) plays a multifaceted role in plant immunity and can either increase resistance or increase susceptibility to some bacterial and fungal pathogens depending on the pathosystem. ABA is also known to mediate plant defence to some viruses. In this study, the relationship between the ABA pathway and rice black-streaked dwarf virus (RBSDV) was investigated in rice. The expression of ABA pathway genes was significantly reduced upon RBSDV infection. Application of exogenous hormones and various ABA pathway mutants revealed that the ABA pathway plays a negative role in rice defence against RBSDV. Exogenous hormone treatment and virus inoculation showed that ABA inhibits the jasmonate-mediated resistance to RBSDV. ABA treatment also suppressed accumulation of reactive oxygen species by inducing the expression of superoxidase dismutases and catalases. Thus, ABA modulates the rice-RBSDV interaction by suppressing the jasmonate pathway and regulating reactive oxygen species levels. This is the first example of ABA increasing susceptibility to a plant virus.
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Affiliation(s)
- Kaili Xie
- College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- Institute of Plant Virology, Ningbo University, Ningbo, China
- Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key laboratory of Plant Protection, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Lulu Li
- Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key laboratory of Plant Protection, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
- College of Plant Protection, Anhui Agricultural University, Hefei, China
| | - Hehong Zhang
- College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key laboratory of Plant Protection, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Rong Wang
- College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key laboratory of Plant Protection, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Xiaoxiang Tan
- Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key laboratory of Plant Protection, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Yuqing He
- Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key laboratory of Plant Protection, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Gaojie Hong
- Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key laboratory of Plant Protection, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Junmin Li
- Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Feng Ming
- School of Life Sciences, Fudan University, Shanghai, China
| | - Xuefeng Yao
- Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Fei Yan
- Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Zongtao Sun
- College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Jianping Chen
- College of Plant Protection, Nanjing Agricultural University, Nanjing, China
- Institute of Plant Virology, Ningbo University, Ningbo, China
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24
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Yue R, Lu C, Han X, Guo S, Yan S, Liu L, Fu X, Chen N, Guo X, Chi H, Tie S. Comparative proteomic analysis of maize (Zea mays L.) seedlings under rice black-streaked dwarf virus infection. BMC PLANT BIOLOGY 2018; 18:191. [PMID: 30208842 PMCID: PMC6136180 DOI: 10.1186/s12870-018-1419-x] [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: 12/15/2017] [Accepted: 09/06/2018] [Indexed: 05/03/2023]
Abstract
BACKGROUND Maize rough dwarf disease (MRDD) is a severe disease that has been occurring frequently in southern China and many other Asian countries. MRDD is caused by the infection of Rice black streaked dwarf virus (RBSDV) and leads to significant economic losses in maize production. To well understand the destructive effects of RBSDV infection on maize growth, comparative proteomic analyses of maize seedlings under RBSDV infection was performed using an integrated approach involving LC-MS/MS and Tandem Mass Tag (TMT) labeling. RESULTS In total, 7615 maize proteins, 6319 of which were quantified. A total of 116 differentially accumulated proteins (DAPs) were identified, including 35 up- and 81 down-regulated proteins under the RBSDV infection. Enrichment analysis showed that the DAPs were most strongly associated with cyanoamino acid metabolism, protein processing in ER, and ribosome-related pathways. Two sulfur metabolism-related proteins were significantly reduced, indicating that sulfur may participate in the resistance against RBSDV infection. Furthermore, 15 DAPs involved in six metabolic pathways were identified in maize under the RBSDV infection. CONCLUSIONS Our data revealed that the responses of maize to RBSDV infection were controlled by various metabolic pathways.
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Affiliation(s)
- Runqing Yue
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Caixia Lu
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Xiaohua Han
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Shulei Guo
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Shufeng Yan
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Lu Liu
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Xiaolei Fu
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Nana Chen
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Xinhai Guo
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Haifeng Chi
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
| | - Shuanggui Tie
- Henan Academy of Agricultural Sciences, Zhengzhou, China
- The Henan Provincial Key Laboratory of Maize Biology, Zhengzhou, China
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25
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Huang R, Li Y, Tang G, Hui S, Yang Z, Zhao J, Liu H, Cao J, Yuan M. Dynamic phytohormone profiling of rice upon rice black-streaked dwarf virus invasion. JOURNAL OF PLANT PHYSIOLOGY 2018; 228:92-100. [PMID: 29886196 DOI: 10.1016/j.jplph.2018.06.001] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2018] [Revised: 06/01/2018] [Accepted: 06/01/2018] [Indexed: 06/08/2023]
Abstract
Rice black-streaked dwarf virus (RBSDV) is the causal agent of rice black-streaked dwarf disease, a serious constraint to rice production. A great deal of effort has been made to elucidate the transcriptome and proteome changes of rice upon virus inoculation. However, the relationship between RBSDV invasion and rice endogenous phytohormone profiling is largely unclear. Here, we surveyed the dynamic content profiling of endogenous phytohormones, which were severely disturbed by RBSDV invasion. The levels of abscisic acid (ABA) and cytokinins (CTKs) increased, while indole-3-acetic acid (IAA), gibberellins (GAs), jasmonic acid (JA), and salicylic acid (SA) decreased, accompanied by changes in the transcripts of genes participating in phytohormone metabolism and signalling pathways. Moreover, exogenously supplied GA3 could rescue the typical dwarfing symptom, and pre-application of SA largely decreased the occurrence of RBSDV disease in rice. The results partially suggest that RBSDV successfully invaded host rice by modulating the expression patterns of phytohormone metabolism to upset the balance of plant endogenous phytohormones.
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Affiliation(s)
- Renyan Huang
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Yueyue Li
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Guilin Tang
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Shugang Hui
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Zeyu Yang
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Junwei Zhao
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Hongbo Liu
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Jianbo Cao
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China
| | - Meng Yuan
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China.
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Zhou Y, Zhang X, Wang D, Weng J, Di H, Zhang L, Dong L, Zhang H, Zu H, Li X, Wang Z. Differences in Molecular Characteristics of Segment 8 in Rice black-streaked dwarf virus and Southern rice black-streaked dwarf virus. PLANT DISEASE 2018; 102:1115-1123. [PMID: 30673437 DOI: 10.1094/pdis-10-17-1652-re] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Rice black-streaked dwarf virus (RBSDV) and Southern rice black-streaked dwarf virus (SRBSDV) cause maize rough dwarf disease (MRDD) and rice black-streaked dwarf disease (RBSDD) in China. RBSDV segment 8 (S8) contains the only deletion mutation in the genomes of these viruses, which are both members of the genus Fijivirus. To illuminate the molecular differences between the RBSDV and SRBSDV genomes and better understand the evolution of these viruses, and to determine which virus is specifically associated with MRDD and RBSDD in each region, S8 was analyzed in 66 virus isolates collected from 10 geographic locations in China and 14 S8 sequences obtained from the National Center for Biotechnology Information GenBank. Phylogenetic analysis showed that the pathogen associated with MRDD and RBSDD in the Yellow and Huai River valleys was RBSDV, whereas the pathogen associated with these diseases in Sanya was SRBSDV. Codon usage bias in S8 differed significantly between RBSDV and SRBSDV, as indicated by effective number of codons used by a gene (Nc) and GC values, Nc plots, and variation explained by the first axis in correspondence analysis. The nucleotide identities among these 66 RBSDV and SRBSDV isolates ranged from 66.2 to 68.2%, and were considerably lower than the nucleotide identities within RBSDV (from 94.1 to 99.9%) or SRBSDV (from 93.9 to 100%) isolates. Most S8 polymorphisms were identified in the region from 1,000 to 1,200 bp in RBSDV and in the region from 500 to 700 bp in SRBSDV. The difference in the lengths of RBSDV (1,936 bp) and SRBSDV (1,928 bp) was due to an 8-bp deletion in the 3'-untranslated region of SRBSDV. Six recombination events were detected in S8 in RBSDV and two recombination events were detected in S8 in SRBSDV. Recombination breakpoints were found within the region containing the deletion mutation in nine isolates. However, no recombination events were detected between RBSDV and SRBSDV. Both of these viruses were under negative and purifying selection, although the ratio of nonsynonymous mutations to synonymous mutations (Ka/Ks) for RBSDV S8 (0.0530) was not significantly lower than that of SRBSDV S8 (0.0823, P = 0.1550). We found that SRBSDV was more highly genetically differentiated (product of effective population size and the migration rate among populations < 1; values for the among-populations component of genetic variation or normalized variation > 0.33; and P values of the sequence statistic, the rank statistic, and the nearest-neighbor statistic < 0.01) than RBSDV. However, gene flow between RBSDV and SRBSDV was not frequent.
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Affiliation(s)
- Yu Zhou
- Northeast Agricultural University, Xiangfang District, Harbin, Heilongjiang Province, China
| | - Xiaoming Zhang
- Northeast Agricultural University, Xiangfang District, Harbin, Heilongjiang Province, China
| | - Dandan Wang
- Northeast Agricultural University, Xiangfang District, Harbin, Heilongjiang Province, China
| | - Jianfeng Weng
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Haidian District, Beijing, China
| | - Hong Di
- Northeast Agricultural University, Harbin, China
| | - Lin Zhang
- Northeast Agricultural University, Harbin, China
| | - Ling Dong
- Northeast Agricultural University, Harbin, China
| | - Hong Zhang
- Northeast Agricultural University, Harbin, China
| | - Hongyue Zu
- Northeast Agricultural University, Harbin, China
| | - Xinhai Li
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Haidian District, Beijing, China
| | - Zhenhua Wang
- Northeast Agricultural University, Harbin, China
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A simple method for obtaining rice black-streaked dwarf virus-infected small brown planthopper nymphs. J Virol Methods 2017; 251:80-82. [PMID: 29050971 DOI: 10.1016/j.jviromet.2017.10.018] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2017] [Revised: 09/01/2017] [Accepted: 10/16/2017] [Indexed: 11/20/2022]
Abstract
Rice black-streaked dwarf virus (RBSDV), an important rice virus, is transmitted by vector small brown planthopper (SBPH) in a persistent manner, but not transovarial transmission. In order to obtain viruliferous SBPH nymphs for relevant research, a simple and reliable method was developed, through allowing SBPH adults laying eggs on RBSDV-infected rice plants. The results showed the hatching nymphs on diseased plants could early acquire virus, and the virus was detected in 2nd-instar nymphs from the spawning method, which was earlier than insect feed on diseased plant. The average viruliferous rate of SBPH from the spawning method was 32.9%, which was not lower than the feeding diseased plant method. The novel method was very easy to operate and time-saving, facilitating the study on the interaction between RBSDV and SBPH nymphs (especially young 2nd-4th instar nymphs), such as, the effect of RBSDV on nymph development, host plant orientation preference of viruliferous nymph, identification of viral interacting protein in nymph, etc.
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28
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Ran L, Ding Y, Luo L, Gan X, Li X, Chen Y, Hu D, Song B. Interaction research on an antiviral molecule that targets the coat protein of southern rice black-streaked dwarf virus. Int J Biol Macromol 2017; 103:919-930. [DOI: 10.1016/j.ijbiomac.2017.05.059] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2017] [Accepted: 05/14/2017] [Indexed: 01/10/2023]
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Zhou Y, Zhang L, Zhang X, Zu H, Di H, Dong L, Liu X, Zeng X, Weng J, Wang Z, Li X. Rice black-streaked dwarf virus Genome in China: Diversification, Phylogeny, and Selection. PLANT DISEASE 2017; 101:1588-1596. [PMID: 30677338 DOI: 10.1094/pdis-12-16-1814-re] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Rice black-streaked dwarf virus (RBSDV), a Fijivirus, causes maize rough dwarf disease and rice black-streaked dwarf disease in the summer maize-growing regions of the Yellow and Huai rivers, respectively, in China. Nevertheless, the diversification and selection of the entire genome from S1 to S10 have not been illuminated. Molecular variation, evolution, conserved regions, and other genomic properties were analyzed in 21 RBSDV isolates from maize (Zea mays L.) and rice (Oryza sativa) hosts sampled from nine geographic locations in China. Low codon adaptation index values ranging from 0.1878 to 0.2918 indicated a low degree of codon-usage bias and low potential expression for all 13 RBSDV open reading frames (ORFs). ORF9-2 showed a stronger effect of codon usage bias than did other ORFs, as the majority of points for this ORF lay close to the standard curve in the Nc plot (the effective number of codons [Nc] versus the frequency of G+C at synonymous third-base positions [GC3]). A 9-bp deletion mutation was detected in the RBSDV genome in the 3' UTR of S8. Nucleotide diversity analysis indicated that the structural proteins of RBSDV, such as S2 and S4, were all more conserved than nonstructural proteins such as S9. Nucleotide diversity (π) was highest among S9 sequences (0.0656), and was significantly higher than among S4 sequences (0.0225, P < 0.01). The number of conserved regions among the 10 segments varied substantially. The highest number of conserved regions (5) was found in S5, whereas no conserved regions were identified in S9. Nucleotide diversity and the number of conserved regions were independent of the lengths of segments. Nucleotide diversity was also not correlated with the number of conserved regions in segments. Ten recombination events in 21 isolates were found in seven segments with breakpoint positions in UTRs, intergenic spacer regions, and gene coding regions. The number of recombination events was also independent of the lengths of segments. RBSDV isolates from China could be phylogenetically classified into two groups using either 10 segment sequences or the concatenated sequence of S1 through S10, regardless of host or geographical location. The phylogenetic tree generated from pairwise nucleotide identities of individual RBSDV segments such as S9 and S3, with nucleotide identity values of 93.74% and 95.86%, respectively, is similar to the tree constructed from the concatenated sequences of the entire RBSDV genome. The 13 RBSDV ORFs were under negative and purifying selection (Ka/Ks < 1). ORF5-2 was under the greatest selection pressure; however, ORF2, which encodes the core protein of RBSDV, was under the lowest selection pressure.
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Affiliation(s)
- Yu Zhou
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China; and Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Lin Zhang
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China
| | - Xiaoming Zhang
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China
| | - Hongyue Zu
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China
| | - Hong Di
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China
| | - Ling Dong
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China
| | - Xianjun Liu
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China
| | - Xing Zeng
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China
| | - Jianfeng Weng
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Zhenhua Wang
- College of Agronomy, Northeast Agricultural University, Harbin, Heilongjiang Province, China
| | - Xinhai Li
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China
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30
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Tao T, Zhou CJ, Wang Q, Chen XR, Sun Q, Zhao TY, Ye JC, Wang Y, Zhang ZY, Zhang YL, Guo ZJ, Wang XB, Li DW, Yu JL, Han CG. Rice black streaked dwarf virus P7-2 forms a SCF complex through binding to Oryza sativa SKP1-like proteins, and interacts with GID2 involved in the gibberellin pathway. PLoS One 2017; 12:e0177518. [PMID: 28494021 PMCID: PMC5426791 DOI: 10.1371/journal.pone.0177518] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Accepted: 04/29/2017] [Indexed: 11/18/2022] Open
Abstract
As a core subunit of the SCF complex that promotes protein degradation through the 26S proteasome, S-phase kinase-associated protein 1 (SKP1) plays important roles in multiple cellular processes in eukaryotes, including gibberellin (GA), jasmonate, ethylene, auxin and light responses. P7-2 encoded by Rice black streaked dwarf virus (RBSDV), a devastating viral pathogen that causes severe symptoms in infected plants, interacts with SKP1 from different plants. However, whether RBSDV P7-2 forms a SCF complex and targets host proteins is poorly understood. In this study, we conducted yeast two-hybrid assays to further explore the interactions between P7-2 and 25 type I Oryza sativa SKP1-like (OSK) proteins, and found that P7-2 interacted with eight OSK members with different binding affinity. Co-immunoprecipitation assay further confirmed the interaction of P7-2 with OSK1, OSK5 and OSK20. It was also shown that P7-2, together with OSK1 and O. sativa Cullin-1, was able to form the SCF complex. Moreover, yeast two-hybrid assays revealed that P7-2 interacted with gibberellin insensitive dwarf2 (GID2) from rice and maize plants, which is essential for regulating the GA signaling pathway. It was further demonstrated that the N-terminal region of P7-2 was necessary for the interaction with GID2. Overall, these results indicated that P7-2 functioned as a component of the SCF complex in rice, and interaction of P7-2 with GID2 implied possible roles of the GA signaling pathway during RBSDV infection.
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Affiliation(s)
- Tao Tao
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Cui-Ji Zhou
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Qian Wang
- Key Laboratory for Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, Shandong Province, People's Republic of China
| | - Xiang-Ru Chen
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Qian Sun
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Tian-Yu Zhao
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Jian-Chun Ye
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Ying Wang
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Zong-Ying Zhang
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Yong-Liang Zhang
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Ze-Jian Guo
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Xian-Bing Wang
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Da-Wei Li
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Jia-Lin Yu
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
| | - Cheng-Gui Han
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, People's Republic of China
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31
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Molecular variation and expansion of a rice black-streaked dwarf virus population based on analysis of segment 1 in Jining, China. Arch Virol 2016; 161:3435-3443. [DOI: 10.1007/s00705-016-3052-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2016] [Accepted: 09/04/2016] [Indexed: 11/25/2022]
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32
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Ahmed MMS, Bian S, Wang M, Zhao J, Zhang B, Liu Q, Zhang C, Tang S, Gu M, Yu H. RNAi-mediated resistance to rice black-streaked dwarf virus in transgenic rice. Transgenic Res 2016; 26:197-207. [PMID: 27900537 DOI: 10.1007/s11248-016-9999-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2016] [Accepted: 11/13/2016] [Indexed: 10/20/2022]
Abstract
Rice black-streaked dwarf virus (RBSDV), a member of the genus Fijivirus in the family Reoviridae, causes significant economic losses in rice production in China and many other Asian countries. Development of resistant varieties by using conventional breeding methods is limited, as germplasm with high level of resistance to RBSDV have not yet been found. One of the most promising methods to confer resistance against RBSDV is the use of RNA interference (RNAi) technology. RBSDV non-structural protein P7-2, encoded by S7-2 gene, is a potential F-box protein and involved in the plant-virus interaction through the ubiquitination pathway. P8, encoded by S8 gene, is the minor core protein that possesses potent active transcriptional repression activity. In this study, we transformed rice calli using a mini-twin T-DNA vector harboring RNAi constructs of the RBSDV genes S7-2 or S8, and obtained plants harboring the target gene constructs and the selectable marker gene, hygromycin phosphotransferase (HPT). From the offspring of these transgenic plants, we obtained selectable marker (HPT gene)-free plants. Homozygous T5 transgenic lines which harbored either S7-2-RNAi or S8-RNAi exhibited high level resistance against RBSDV under field infection pressure from indigenous viruliferous small brown planthoppers. Thus, our results showed that RNA interference with the expression of S7-2 or S8 genes seemed an effective way to induce high level resistance in rice against RBSD disease.
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Affiliation(s)
- Mohamed M S Ahmed
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China.,Department of Crop Protection, Faculty of Agriculture, University of Khartoum, 13314, Khartoum North, Sudan
| | - Shiquan Bian
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China
| | - Muyue Wang
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China
| | - Jing Zhao
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China
| | - Bingwei Zhang
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China
| | - Qiaoquan Liu
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China
| | - Changquan Zhang
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China
| | - Shuzhu Tang
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China
| | - Minghong Gu
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China
| | - Hengxiu Yu
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou, 225009, China.
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33
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Abstract
Rice reoviruses, transmitted by leafhopper or planthopper vectors in a persistent propagative manner, seriously threaten the stability of rice production in Asia. Understanding the mechanisms that enable viral transmission by insect vectors is a key to controlling these viral diseases. This review describes current understanding of replication cycles of rice reoviruses in vector cell lines, transmission barriers, and molecular determinants of vector competence and persistent infection. Despite recent breakthroughs, such as the discoveries of actin-based tubule motility exploited by viruses to overcome transmission barriers and mutually beneficial relationships between viruses and bacterial symbionts, there are still many gaps in our knowledge of transmission mechanisms. Advances in genome sequencing, reverse genetics systems, and molecular technologies will help to address these problems. Investigating the multiple interaction systems among the virus, insect vector, insect symbiont, and plant during natural infection in the field is a central topic for future research on rice reoviruses.
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Affiliation(s)
- Taiyun Wei
- Fujian Province Key Laboratory of Plant Virology, Institute of Plant Virology, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, People's Republic of China;
| | - Yi Li
- State Key Laboratory of Protein and Plant Gene Research, College of Life Sciences, Peking University, Beijing 100871, People's Republic of China;
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Zhou Y, Xu Z, Duan C, Chen Y, Meng Q, Wu J, Hao Z, Wang Z, Li M, Yong H, Zhang D, Zhang S, Weng J, Li X. Dual transcriptome analysis reveals insights into the response to Rice black-streaked dwarf virus in maize. JOURNAL OF EXPERIMENTAL BOTANY 2016; 67:4593-609. [PMID: 27493226 PMCID: PMC4973738 DOI: 10.1093/jxb/erw244] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
Maize rough dwarf disease (MRDD) is a viral infection that results in heavy yield losses in maize worldwide, particularly in the summer maize-growing regions of China. MRDD is caused by the Rice black-streaked dwarf virus (RBSDV). In the present study, analyses of microRNAs (miRNAs), the degradome, and transcriptome sequences were used to elucidate the RBSDV-responsive pathway(s) in maize. Genomic analysis indicated that the expression of three non-conserved and 28 conserved miRNAs, representing 17 known miRNA families and 14 novel miRNAs, were significantly altered in response to RBSDV when maize was inoculated at the V3 (third leaf) stage. A total of 99 target transcripts from 48 genes of 10 known miRNAs were found to be responsive to RBSDV infection. The annotations of these target genes include a SQUAMOSA promoter binding (SPB) protein, a P450 reductase, an oxidoreductase, and a ubiquitin-related gene, among others. Characterization of the entire transcriptome suggested that a total of 28 and 1085 differentially expressed genes (DEGs) were detected at 1.5 and 3.0 d, respectively, after artificial inoculation with RBSDV. The expression patterns of cell wall- and chloroplast-related genes, and disease resistance- and stress-related genes changed significantly in response to RBSDV infection. The negatively regulated genes GRMZM2G069316 and GRMZM2G031169, which are the target genes for miR169i-p5 and miR8155, were identified as a nucleolin and a NAD(P)-binding Rossmann-fold superfamily protein in maize, respectively. The gene ontology term GO:0003824, including GRMZM2G031169 and other 51 DEGs, was designated as responsive to RBSDV.
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Affiliation(s)
- Yu Zhou
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China College of Agronomy, Northeast Agricultural University, Mucai Street, XiangFang District, Harbin, Heilongjiang Province 150030, China
| | - Zhennan Xu
- College of Agronomy, Northeast Agricultural University, Mucai Street, XiangFang District, Harbin, Heilongjiang Province 150030, China
| | - Canxing Duan
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China
| | - Yanping Chen
- Jiangsu Academy of Agricultural Sciences, Zhongling Street, Xuanwu District, Nanjing, Jiangsu Province 210014, China
| | - Qingchang Meng
- Jiangsu Academy of Agricultural Sciences, Zhongling Street, Xuanwu District, Nanjing, Jiangsu Province 210014, China
| | - Jirong Wu
- Jiangsu Academy of Agricultural Sciences, Zhongling Street, Xuanwu District, Nanjing, Jiangsu Province 210014, China
| | - Zhuanfang Hao
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China
| | - Zhenhua Wang
- College of Agronomy, Northeast Agricultural University, Mucai Street, XiangFang District, Harbin, Heilongjiang Province 150030, China
| | - Mingshun Li
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China
| | - Hongjun Yong
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China
| | - Degui Zhang
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China
| | - Shihuang Zhang
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China
| | - Jianfeng Weng
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China
| | - Xinhai Li
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing 100081, China
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35
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Wang F, Li W, Zhu J, Fan F, Wang J, Zhong W, Wang MB, Liu Q, Zhu QH, Zhou T, Lan Y, Zhou Y, Yang J. Hairpin RNA Targeting Multiple Viral Genes Confers Strong Resistance to Rice Black-Streaked Dwarf Virus. Int J Mol Sci 2016; 17:ijms17050705. [PMID: 27187354 PMCID: PMC4881527 DOI: 10.3390/ijms17050705] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2016] [Revised: 05/03/2016] [Accepted: 05/04/2016] [Indexed: 01/13/2023] Open
Abstract
Rice black-streaked dwarf virus (RBSDV) belongs to the genus Fijivirus in the family of Reoviridae and causes severe yield loss in rice-producing areas in Asia. RNA silencing, as a natural defence mechanism against plant viruses, has been successfully exploited for engineering virus resistance in plants, including rice. In this study, we generated transgenic rice lines harbouring a hairpin RNA (hpRNA) construct targeting four RBSDV genes, S1, S2, S6 and S10, encoding the RNA-dependent RNA polymerase, the putative core protein, the RNA silencing suppressor and the outer capsid protein, respectively. Both field nursery and artificial inoculation assays of three generations of the transgenic lines showed that they had strong resistance to RBSDV infection. The RBSDV resistance in the segregating transgenic populations correlated perfectly with the presence of the hpRNA transgene. Furthermore, the hpRNA transgene was expressed in the highly resistant transgenic lines, giving rise to abundant levels of 21-24 nt small interfering RNA (siRNA). By small RNA deep sequencing, the RBSDV-resistant transgenic lines detected siRNAs from all four viral gene sequences in the hpRNA transgene, indicating that the whole chimeric fusion sequence can be efficiently processed by Dicer into siRNAs. Taken together, our results suggest that long hpRNA targeting multiple viral genes can be used to generate stable and durable virus resistance in rice, as well as other plant species.
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Affiliation(s)
- Fangquan Wang
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences/Nanjing Branch of Chinese National Center for Rice Improvement/Jiangsu High Quality Rice R & D Center, Nanjing 210014, China.
- Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.
| | - Wenqi Li
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences/Nanjing Branch of Chinese National Center for Rice Improvement/Jiangsu High Quality Rice R & D Center, Nanjing 210014, China.
- Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.
| | - Jinyan Zhu
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences/Nanjing Branch of Chinese National Center for Rice Improvement/Jiangsu High Quality Rice R & D Center, Nanjing 210014, China.
- Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.
| | - Fangjun Fan
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences/Nanjing Branch of Chinese National Center for Rice Improvement/Jiangsu High Quality Rice R & D Center, Nanjing 210014, China.
- Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.
| | - Jun Wang
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences/Nanjing Branch of Chinese National Center for Rice Improvement/Jiangsu High Quality Rice R & D Center, Nanjing 210014, China.
- Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.
| | - Weigong Zhong
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences/Nanjing Branch of Chinese National Center for Rice Improvement/Jiangsu High Quality Rice R & D Center, Nanjing 210014, China.
- Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.
| | - Ming-Bo Wang
- CSIRO Agriculture, GPO Box 1600, Canberra, ACT 2601, Australia.
| | - Qing Liu
- CSIRO Agriculture, GPO Box 1600, Canberra, ACT 2601, Australia.
| | - Qian-Hao Zhu
- CSIRO Agriculture, GPO Box 1600, Canberra, ACT 2601, Australia.
| | - Tong Zhou
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China.
| | - Ying Lan
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China.
| | - Yijun Zhou
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China.
| | - Jie Yang
- Institute of Food Crops, Jiangsu Academy of Agricultural Sciences/Nanjing Branch of Chinese National Center for Rice Improvement/Jiangsu High Quality Rice R & D Center, Nanjing 210014, China.
- Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.
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Xu Q, Ni H, Zhang J, Lan Y, Ren C, Zhou Y. Whole-genome expression analysis of Rice black-streaked dwarf virus in different plant hosts and small brown planthopper. Gene 2015; 572:169-74. [DOI: 10.1016/j.gene.2015.07.008] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2015] [Revised: 06/30/2015] [Accepted: 07/02/2015] [Indexed: 11/25/2022]
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Gong F, Yang L, Tai F, Hu X, Wang W. "Omics" of maize stress response for sustainable food production: opportunities and challenges. OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY 2015; 18:714-32. [PMID: 25401749 DOI: 10.1089/omi.2014.0125] [Citation(s) in RCA: 50] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Maize originated in the highlands of Mexico approximately 8700 years ago and is one of the most commonly grown cereal crops worldwide, followed by wheat and rice. Abiotic stresses (primarily drought, salinity, and high and low temperatures), together with biotic stresses (primarily fungi, viruses, and pests), negatively affect maize growth, development, and eventually production. To understand the response of maize to abiotic and biotic stresses and its mechanism of stress tolerance, high-throughput omics approaches have been used in maize stress studies. Integrated omics approaches are crucial for dissecting the temporal and spatial system-level changes that occur in maize under various stresses. In this comprehensive analysis, we review the primary types of stresses that threaten sustainable maize production; underscore the recent advances in maize stress omics, especially proteomics; and discuss the opportunities, challenges, and future directions of maize stress omics, with a view to sustainable food production. The knowledge gained from studying maize stress omics is instrumental for improving maize to cope with various stresses and to meet the food demands of the exponentially growing global population. Omics systems science offers actionable potential solutions for sustainable food production, and we present maize as a notable case study.
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Affiliation(s)
- Fangping Gong
- State Key Laboratory of Wheat and Maize Crop Science, College of Life Science, Henan Agricultural University , Zhengzhou, China
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Li X, Zhang W, Ding Y, Wang Z, Wu Z, Yu L, Hu D, Li P, Song B. Characterization of the importance of terminal residues for southern rice black-streaked dwarf virus P9-1 viroplasm formations. Protein Expr Purif 2015; 111:98-104. [DOI: 10.1016/j.pep.2015.04.003] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2015] [Revised: 04/03/2015] [Accepted: 04/08/2015] [Indexed: 11/25/2022]
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Molecular Genetic Analysis and Evolution of Segment 7 in Rice Black-Streaked Dwarf Virus in China. PLoS One 2015; 10:e0131410. [PMID: 26121638 PMCID: PMC4488072 DOI: 10.1371/journal.pone.0131410] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2015] [Accepted: 06/01/2015] [Indexed: 12/03/2022] Open
Abstract
Rice black-streaked dwarf virus (RBSDV) causes maize rough dwarf disease or rice black-streaked dwarf disease and can lead to severe yield losses in maize and rice. To analyse RBSDV evolution, codon usage bias and genetic structure were investigated in 111 maize and rice RBSDV isolates from eight geographic locations in 2013 and 2014. The linear dsRNA S7 is A+U rich, with overall codon usage biased toward codons ending with A (A3s, S7-1: 32.64%, S7-2: 29.95%) or U (U3s, S7-1: 44.18%, S7-2: 46.06%). Effective number of codons (Nc) values of 45.63 in S7-1 (the first open reading frame of S7) and 39.96 in S7-2 (the second open reading frame of S7) indicate low degrees of RBSDV-S7 codon usage bias, likely driven by mutational bias regardless of year, host, or geographical origin. Twelve optimal codons were detected in S7. The nucleotide diversity (π) of S7 sequences in 2013 isolates (0.0307) was significantly higher than in 2014 isolates (0.0244, P = 0.0226). The nucleotide diversity (π) of S7 sequences in isolates from Jinan (0.0391) was higher than that from the other seven locations (P < 0.01). Only one S7 recombinant was detected in Baoding. RBSDV isolates could be phylogenetically classified into two groups according to S7 sequences, and further classified into two subgroups. S7-1 and S7-2 were under negative and purifying selection, with respective Ka/Ks ratios of 0.0179 and 0.0537. These RBSDV populations were expanding (P < 0.01) as indicated by negative values for Tajima's D, Fu and Li's D, and Fu and Li's F. Genetic differentiation was detected in six RBSDV subpopulations (P < 0.05). Absolute Fst (0.0790) and Nm (65.12) between 2013 and 2014, absolute Fst (0.1720) and Nm (38.49) between maize and rice, and absolute Fst values of 0.0085-0.3069 and Nm values of 0.56-29.61 among these eight geographic locations revealed frequent gene flow between subpopulations. Gene flow between 2013 and 2014 was the most frequent.
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Liu XY, Yang J, Xie L, Li J, Song XJ, Chen JP, Zhang HM. P5-2 of rice black-streaked dwarf virus is a non-structural protein targeted to chloroplasts. Arch Virol 2015; 160:1211-7. [PMID: 25749897 DOI: 10.1007/s00705-015-2382-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2014] [Accepted: 02/24/2015] [Indexed: 12/29/2022]
Abstract
The genome segment S5 of rice black-streaked dwarf virus (genus Fijivirus, family Reoviridae) is functionally bicistronic in infected plants. It has a conserved second ORF (P5-2) partially overlapping the major ORF in a different reading frame, but its function remains unknown. P5-2 was detected in infected plants, but not in purified viral particles by Western blotting, indicating that it is a non-structural protein. In immunoelectron microscopy, polyclonal antibodies against P5-2 specifically labelled chloroplasts of infected rice plants. When P5-2 fused with green fluorescent protein was transiently expressed in leaves of Nicotiana benthamiana, fluorescence was also co-localized with chloroplasts. Experiments with deletion mutants of P5-2 showed that its N-terminal part was responsible for its targeting to chloroplasts.
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Affiliation(s)
- Xiao-Ya Liu
- College of Chemistry and Life Science, Zhejiang Normal University, Jinhua, 321004, China
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Zhou Y, Weng JF, Chen YP, Liu CL, Han XH, Hao ZF, Li MS, Yong HJ, Zhang DG, Zhang SH, Li XH. Phylogenetic and recombination analysis of rice black-streaked dwarf virus segment 9 in China. Arch Virol 2015; 160:1119-23. [PMID: 25633210 DOI: 10.1007/s00705-014-2291-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2014] [Accepted: 11/16/2014] [Indexed: 11/28/2022]
Abstract
Rice black-streaked dwarf virus (RBSDV) is an economically important virus that causes maize rough dwarf disease and rice black-streaked dwarf disease in East Asia. To study RBSDV variation and recombination, we examined the segment 9 (S9) sequences of 49 RBSDV isolates from maize and rice in China. Three S9 recombinants were detected in Baoding, Jinan, and Jining, China. Phylogenetic analysis showed that Chinese RBSDV isolates could be classified into two groups based on their S9 sequences, regardless of host or geographical origin. Further analysis suggested that S9 has undergone negative and purifying selection.
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Affiliation(s)
- Yu Zhou
- Institute of Crop Science, Chinese Academy of Agricultural Sciences, Zhongguancun South Street, Haidian District, Beijing, 100081, China
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Li S, Wang X, Xu J, Ji Y, Zhou Y. A simplified method for simultaneous detection of Rice stripe virus and Rice black-streaked dwarf virus in insect vector. J Virol Methods 2014; 211:32-5. [PMID: 25455902 DOI: 10.1016/j.jviromet.2014.10.006] [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] [Received: 06/30/2014] [Revised: 10/09/2014] [Accepted: 10/14/2014] [Indexed: 10/24/2022]
Abstract
Rice stripe virus (RSV) and Rice black-streaked dwarf virus (RBSDV) are transmitted by their common vector small brown planthopper (SBPH) that cause serious crop losses in China. A simple reverse transcription-PCR method was developed for the simultaneous detection of RSV and RBSDV in single SBPH. Three primers targeted to RSV-RNA4 and RBSDV-S2 segments were designed to amplify respectively 1114-bp and 414-bp fragments in a reaction. The method is reliable, rapid and inexpensive for detecting the two viruses in vector, which could facilitate better forecasting and control of the virus diseases. Using this method, it was found that SBPH could carry RSV and RBSDV simultaneously.
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Affiliation(s)
- Shuo Li
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, China
| | - Xi Wang
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, China; College of Horticulture and Plant Protection, Yangzhou University, Yangzhou 225009, China
| | - Jianxiang Xu
- College of Horticulture and Plant Protection, Yangzhou University, Yangzhou 225009, China
| | - Yinghua Ji
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, China
| | - Yijun Zhou
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, China.
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Sun F, Yuan X, Xu Q, Zhou T, Fan Y, Zhou Y. Overexpression of rice black-streaked dwarf virus p7-1 in Arabidopsis results in male sterility due to non-dehiscent anthers. PLoS One 2013; 8:e79514. [PMID: 24260239 PMCID: PMC3829848 DOI: 10.1371/journal.pone.0079514] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2013] [Accepted: 09/21/2013] [Indexed: 12/28/2022] Open
Abstract
Rice black-streaked dwarf virus (RBSDV), a member of the genus Fijivirus in the family Reoviridae, is propagatively transmitted by the small brown planthopper (Laodelphax striatellus Fallén). RBSDV causes rice black-streaked dwarf and maize rough dwarf diseases, which lead to severe yield losses in crops in China. Although several RBSDV proteins have been studied in detail, the functions of the nonstructural protein P7-1 are still largely unknown. To investigate the role of the P7-1 protein in virus pathogenicity, transgenic Arabidopsis thaliana plants were generated in which the P7-1 gene was expressed under the control of the 35S promoter. The RBSDV P7-1-transgenic Arabidopsis plants (named P7-1-OE) were male sterility. Flowers and pollen from P7-1-transgenic plants were of normal size and shape, and anthers developed to the normal size but failed to dehisce. The non-dehiscent anthers observed in P7-1-OE were attributed to decreased lignin content in the anthers. Furthermore, the reactive oxygen species levels were quite low in the transgenic plants compared with the wild type. These results indicate that ectopic expression of the RBSDV P7-1 protein in A. thaliana causes male sterility, possibly through the disruption of the lignin biosynthesis and H2O2-dependent polymerization pathways.
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Affiliation(s)
- Feng Sun
- Key Laboratory of Monitoring and Management of Plant Virus Diseases, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu Province, China
| | - Xia Yuan
- Key Laboratory of Monitoring and Management of Plant Virus Diseases, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu Province, China
| | - Qiufang Xu
- Key Laboratory of Monitoring and Management of Plant Virus Diseases, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu Province, China
| | - Tong Zhou
- Key Laboratory of Monitoring and Management of Plant Virus Diseases, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu Province, China
| | - Yongjian Fan
- Key Laboratory of Monitoring and Management of Plant Virus Diseases, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu Province, China
| | - Yijun Zhou
- Key Laboratory of Monitoring and Management of Plant Virus Diseases, Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu Province, China
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Xu Y, Huang L, Wang Z, Fu S, Che J, Qian Y, Zhou X. Identification of Himetobi P virus in the small brown planthopper by deep sequencing and assembly of virus-derived small interfering RNAs. Virus Res 2013; 179:235-40. [PMID: 24239755 DOI: 10.1016/j.virusres.2013.11.004] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2013] [Revised: 10/29/2013] [Accepted: 11/04/2013] [Indexed: 02/08/2023]
Abstract
Profiling and assembly of virus-derived small interfering RNAs (siRNAs) using next-generation sequencing technologies have been very useful for identification and diagnosis of a number of plant and invertebrate viruses. In this work, we have conducted high-throughput pyrosequencing and bioinformatic analysis of the small brown planthopper (SBPH, Laodelphax striatellus), and these analyses unexpectedly showed that the Himetobi P virus (HiPV) was present in our laboratory cultures. HiPV was also found to infect our brown planthopper (BPH, Nilaparvata lugens) and the white-backed planthopper (WBPH, Sogatella furcifera) cultures. The majority of the HiPV-derived siRNAs (Hd-siRNAs) were 21 and 22 nucleotides in length and nearly two-thirds of the siRNAs originated from the HiPV genomic RNA strand. The Hd-siRNAs were evenly distributed across the genome and this indicates that the HiPV genome contributes uniformly to production of Hd-siRNAs. Although HiPV infection appeared to be innocuous to the SBPH, alterations of gene expressions involved in reproduction, cytoskeleton structure and defense responses such as RNA interference pathways (RNAi) genes were observed. Furthermore, we demonstrated that silencing Agronaute 2 in L. striatellus enhanced HiPV accumulation, and this observation provides evidence for the existence of RNAi defenses against HiPV in the SBPH.
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Affiliation(s)
- Yi Xu
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, People's Republic of China
| | - Lingzhe Huang
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, People's Republic of China
| | - Zhencheng Wang
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, People's Republic of China
| | - Shuai Fu
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, People's Republic of China
| | - Jing Che
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, People's Republic of China
| | - Yajuan Qian
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, People's Republic of China
| | - Xueping Zhou
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, People's Republic of China.
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Wang Q, Tao T, Han Y, Chen X, Fan Z, Li D, Yu J, Han C. Nonstructural protein P7-2 encoded by Rice black-streaked dwarf virus interacts with SKP1, a core subunit of SCF ubiquitin ligase. Virol J 2013; 10:325. [PMID: 24176102 PMCID: PMC3819663 DOI: 10.1186/1743-422x-10-325] [Citation(s) in RCA: 28] [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: 07/10/2013] [Accepted: 10/24/2013] [Indexed: 11/16/2022] Open
Abstract
BACKGROUND Rice black-streaked dwarf virus (RBSDV), a member of the genus Fijivirus within the family Reoviridae, causes severe damage to cereal crops in South East Asia. The protein P7-2, encoded by the second open reading frame of segment S7, is conserved among most plant-infecting fijiviruses, but its function is still obscure. RESULTS In this study, P7-2 was used as bait in two-hybrid screens of a cDNA library expressing Zea mays proteins. It was found that there is a strong interaction between P7-2 and Z. mays SKP1 (SKP1Maize), a core subunit of the multicomponent SCF (SKP1/Cullin1/F-box/Rbx1) E3 ubiquitin ligase. The interaction was then confirmed in leaf epidermal cells of Nicotiana benthamiana by bimolecular fluorescence complementation assay. Further investigations indicated that P7-2 also interacts with SKP1 proteins from other plants, including Arabidopsis thaliana, N. benthamiana,Oryza sativa and Saccharum sinense. The C-terminal fragment of SKP1Maize (residues 97-176) and the middle fragment of P7-2 (residues 79-214) are necessary to sustain the interaction, while the C-terminal putative α-helix domain spanning residues 214-295 of P7-2 greatly facilitates the interaction. Agrobacterium-mediated transient suppression assay showed that P7-2 has no obvious activity to suppress local RNA silencing. CONCLUSIONS Taken together, our results indicated that RBSDV P7-2 can interact with SKP1 proteins from different plants. This is the first report linking a Fijivirus protein to a component of the ubiquitin proteasome system. P7-2 might be a potential F-box protein encoded by RBSDV and involved in the plant-virus interaction through ubiquitination pathway.
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Affiliation(s)
- Qian Wang
- Key Laboratory for Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, P. R. China
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Tao Tao
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Yanhong Han
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Xiangru Chen
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Zaifeng Fan
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Dawei Li
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Jialin Yu
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
| | - Chenggui Han
- State Key Laboratory for Agro-biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing 100193, P. R. China
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Cheng Z, Li S, Gao R, Sun F, Liu W, Zhou G, Wu J, Zhou X, Zhou Y. Distribution and genetic diversity of Southern rice black-streaked dwarf virus in China. Virol J 2013; 10:307. [PMID: 24131521 PMCID: PMC4015479 DOI: 10.1186/1743-422x-10-307] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2013] [Accepted: 09/16/2013] [Indexed: 11/18/2022] Open
Abstract
BACKGROUND Rice and maize dwarf diseases caused by the newly introduced Southern rice black-streaked dwarf virus (SRBSDV) have led to severe economic losses in South China in recent years. The distribution and diversity of SRBSDV have not been investigated in the main rice and maize growing areas in China. In this study, the distribution of SRBSDV in China was determined by using reverse transcription-polymerase chain reaction (RT-PCR). RESULTS Between 2009 and 2010, 2404 plant samples (2294 rice, 110 maize samples, and more than 300 cultivars) with dwarf symptoms were collected from fields in 194 counties of 17 provinces in China and SRBSDV was detected. The results indicated that 1545 (64.27%) of samples (both rice and maize) were infected with SRBSDV. SRBSDV was detected widely in Hainan, Guangdong, Guangxi, Yunnan, Guizhou, Chongqing, Fujian, Jiangxi, Hunan, Hubei, Anhui, Jiangsu, and Zhejiang provinces, which suggests SRBSDV is an important pathogen causing rice dwarfing diseases in South China. Phylogenetic analysis of 15 representative virus isolates revealed that SRBSDV isolates in China had high levels of nucleotide and amino acid sequence identities (>97.8%). CONCLUSIONS SRBSDV spreads naturally in Yangtze River basin and south region, the location of the major rice production areas. In comparison, the virus rarely spreads north of Yangtze River in North China. Distribution of SRBSDV is consistent with the migrating and existing ranges of its vector WBPH, suggesting that SRBSDV might be introduced into South China along with the migration of viruliferous WBPH.
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Affiliation(s)
- Zhaobang Cheng
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, P. R. China
| | - Shuo Li
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, P. R. China
| | - Ruizhen Gao
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, P. R. China
| | - Feng Sun
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, P. R. China
| | - Wancai Liu
- National Agro-Tech Extension and Service Center, Beijing 100125, P. R. China
| | - Guohui Zhou
- College of Natural Resources and Environment, South China Agricultural University, Guangzhou 510642, P. R. China
| | - Jianxiang Wu
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, P. R. China
| | - Xueping Zhou
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, P. R. China
| | - Yijun Zhou
- Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Jiangsu Technical Service Center of Diagnosis and Detection for Plant Virus Diseases, Nanjing 210014, P. R. China
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Yang J, Zhang HM, Ying L, Li J, Lv MF, Xie L, Li PP, Liu XY, Liang-Ying D, Chen JP. Rice black-streaked dwarf virus genome segment S5 is a bicistronic mRNA in infected plants. Arch Virol 2013; 159:307-14. [PMID: 24013236 DOI: 10.1007/s00705-013-1832-2] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2013] [Accepted: 07/11/2013] [Indexed: 11/29/2022]
Abstract
Rice black-streaked dwarf virus (RBSDV) is a recognized member of the genus Fijivirus, family Reoviridae. Genome segment S5 has a putative second ORF partially overlapping the major ORF but in a different reading frame. This putative ORF is present in a published sequence and in two Chinese isolates now sequenced. Antibodies were raised against purified P5-1 and P5-2 fusion proteins expressed in a prokaryotic system. In western blots, these antibodies reacted with proteins of about 106 and 27 kDa, respectively, as predicted by sequence analysis. In immunoelectron microscopy, antibodies to P5-1 reacted with viroplasms, indicating that P5-1 is a component of viroplasms, but no labeling was observed with P5-2 antisera. Northern blot assays showed that the genome segment S5 was transcribed as a single mRNA with no subgenomic RNA. These results show that S5 is functionally bicistronic in infected plants. Possible translational mechanisms for P5-2 are discussed.
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Affiliation(s)
- Jian Yang
- College of Bio-Safety Science and Technology, Hunan Agricultural University, Changsha, 410128, China
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Li J, Xue J, Zhang HM, Yang J, Lv MF, Xie L, Meng Y, Li PP, Chen JP. Interactions between the P6 and P5-1 proteins of southern rice black-streaked dwarf fijivirus in yeast and plant cells. Arch Virol 2013; 158:1649-59. [PMID: 23474918 DOI: 10.1007/s00705-013-1660-4] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2012] [Accepted: 01/13/2013] [Indexed: 11/26/2022]
Abstract
Southern rice black-streaked dwarf virus (SRBSDV) is a recently described member of the genus Fijivirus, family Reoviridae. The roles of the proteins encoded by the SRBSDV genome have rarely been studied. In a yeast two-hybrid (YTH) assay in which SRBSDV P6, a putatively multifunctional protein, was used as bait and an SRBSDV cDNA library was used as prey, there was a strong interaction between the P6 and P5-1 proteins. The interaction was confirmed by bimolecular fluorescence complement (BiFC) assay in plant cells. YTH analysis using truncated mutants showed that the N-terminal region (amino acids 9-231) of P5-1 is necessary for binding P5-1 to P6 and that the N-terminal fragment (amino acids 1-93) of P6 is necessary for its interaction with P5-1. SRBSDV P5-1 formed granules positioned at the cell periphery in Nicotiana benthamiana leaves; P6 was present in both the cytoplasm and the nucleus and formed punctate bodies associated with the cell periphery. Immunogold labeling showed that both P6 and P5-1 localized within viroplasms in infected cells of rice plants. These results suggest that the interaction between P5-1 and P6 of SRBSDV may be involved in the formation of viroplasms.
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Affiliation(s)
- Jing Li
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Key Laboratory of Plant Protection and Biotechnology, Ministry of Agriculture, China
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Yin X, Zheng FQ, Tang W, Zhu QQ, Li XD, Zhang GM, Liu HT, Liu BS. Genetic structure of rice black-streaked dwarf virus populations in China. Arch Virol 2013; 158:2505-15. [DOI: 10.1007/s00705-013-1766-8] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2013] [Accepted: 05/06/2013] [Indexed: 01/21/2023]
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Sun L, Xie L, Andika IB, Tan Z, Chen J. Non-structural protein P6 encoded by rice black-streaked dwarf virus is recruited to viral inclusion bodies by binding to the viroplasm matrix protein P9-1. J Gen Virol 2013; 94:1908-1916. [PMID: 23636822 DOI: 10.1099/vir.0.051698-0] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Like other members of the family Reoviridae, rice black-streaked dwarf virus (RBSDV, genus Fijivirus) is thought to replicate and assemble within cytoplasmic viral inclusion bodies, commonly called viroplasms. RBSDV P9-1 is the key protein for the formation of viroplasms, but little is known about the other proteins of the viroplasm or the molecular interactions amongst its components. RBSDV non-structural proteins were screened for their association with P9-1 using a co-immunoprecipitation assay. Only P6 was found to directly interact with P9-1, an interaction that was confirmed by bimolecular fluorescence complementation assay in Spodoptera frugiperda (Sf9) cells. Immunoelectron microscopy showed that P6 and P9-1 co-localized in electron-dense inclusion bodies, indicating that P6 is a constituent of the viroplasm. In addition, non-structural protein P5 also localized to viroplasms and interacted with P6. In Sf9 cells, P6 was diffusely distributed throughout the cytoplasm when expressed alone, but localized to inclusions when co-expressed with P9-1, suggesting that P6 is recruited to viral inclusion bodies by binding to P9-1. P5 localized to the inclusions formed by P9-1 when co-expressed with P6 but did not when P6 was absent, suggesting that P5 is recruited to viroplasms by binding to P6. This study provides a model by which viral non-structural proteins are recruited to RBSDV viroplasms.
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Affiliation(s)
- Liying Sun
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key Laboratory of Plant Virology, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, PR China
| | - Li Xie
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key Laboratory of Plant Virology, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, PR China
| | - Ida Bagus Andika
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key Laboratory of Plant Virology, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, PR China
| | - Zilong Tan
- College of Chemistry and Life Science, Zhejiang Normal University, Jinhua 321004, PR China
| | - Jianping Chen
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Ministry of Agriculture Key Laboratory of Biotechnology in Plant Protection, Zhejiang Provincial Key Laboratory of Plant Virology, Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, PR China
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