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Yang Z, Zhang B, Hu Y, Zhao L, Chen Z, Zhong J, Su J, Chen Y. Molecular characterization of a novel gammapartitivirus infecting the fungus Nigrospora oryzae. Arch Virol 2024; 169:188. [PMID: 39187668 DOI: 10.1007/s00705-024-06111-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2024] [Accepted: 07/23/2024] [Indexed: 08/28/2024]
Abstract
Here, we identified a new mycovirus infecting the phytopathogenic fungus Nigrospora oryzae, which we have designated "Nigrospora oryzae partitivirus 2" (NoPV2). The genome of NoPV2 consists of two dsRNA segments (dsRNA 1 and dsRNA 2), measuring 1771 and 1440 bp in length, respectively. dsRNA 1 and dsRNA 2 each contain a single open reading frame (ORF) that encodes the RNA-dependent RNA polymerase (RdRp) and capsid protein (CP), respectively. A BLASTp search showed that the RdRp of NoPV2 had significant sequence similarity to the RdRps of other partitiviruses, including Nigrospora sphaerica partitivirus 1 (75.61% identity) and Magnaporthe oryzae partitivirus 1 (67.53% identity). Phylogenetic analysis revealed that NoPV2 is a new member of the genus Gammapartitivirus in the family Partitiviridae. This study provides important information for understanding the diversity of mycoviruses in N. oryzae.
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Affiliation(s)
- Zhijuan Yang
- Dali Tobacco Company of Yunnan Province, Dali City, Yunnan Province, 671000, P.R. China
| | - Baolin Zhang
- Qujing Tobacco Company of Yunnan Province, Qujing Yunnan Province, 655000, P.R. China
| | - Yang Hu
- Chuxiong Company of Yunnan Provincial Tobacco Corporation, Chuxiong, 675000, P.R. China
| | - Lianjing Zhao
- Chuxiong Company of Yunnan Provincial Tobacco Corporation, Chuxiong, 675000, P.R. China
| | - Zengmin Chen
- Chuxiong Company of Yunnan Provincial Tobacco Corporation, Chuxiong, 675000, P.R. China
| | - Jie Zhong
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Nongda Road 1, Furong District, Changsha City, Hunan Province, 410128, P.R. China
| | - Jiaen Su
- Dali Tobacco Company of Yunnan Province, Dali City, Yunnan Province, 671000, P.R. China.
| | - Yi Chen
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, Yunnan Province, 650021, P.R. China.
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Zhong J, Sui WW, Li P, Tang QJ, Liu TB, Xiao YS. Characterization of a novel victorivirus from Nigrospora chinensis, a fungus isolated from tobacco. Arch Virol 2022; 167:2851-2855. [PMID: 36255526 DOI: 10.1007/s00705-022-05619-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2022] [Accepted: 08/24/2022] [Indexed: 12/14/2022]
Abstract
Here, we characterized a new mycovirus from the fungus Nigrospora chinensis, which was named "Nigrospora chinensis victorivirus 1" (NcVV1). The NcVV1 genome is 5283 bp in length, containing two continuous open reading frames (ORFs), ORF1 and ORF2. ORF1 and ORF2 were predicted to encode a putative coat protein (CP) and an RNA-dependent RNA polymerase (RdRp), respectively. The stop codon of ORF1 overlaps with the start codon of ORF2 by the tetranucleotide sequence AUGA. Phylogenetic analysis based on amino acid sequences of RdRp and CP indicated that NcVV1 clustered with members of the genus Victorivirus in the family Totiviridae. To our knowledge, this was the first report of a mycovirus infecting N. chinensis.
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Affiliation(s)
- Jie Zhong
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Nongda Road 1, Furong District, Changsha, 410128, Hunan, People's Republic of China.
| | - Wen Wen Sui
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Nongda Road 1, Furong District, Changsha, 410128, Hunan, People's Republic of China
| | - Ping Li
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Nongda Road 1, Furong District, Changsha, 410128, Hunan, People's Republic of China
| | - Qian Jun Tang
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Nongda Road 1, Furong District, Changsha, 410128, Hunan, People's Republic of China
| | - Tian Bo Liu
- Tobacco Research Institute of Hunan Province, Changsha, 410004, Hunan, People's Republic of China.
| | - Yan Song Xiao
- Chenzhou Tobacco Company of Hunan Province, Chenzhou, 423000, Hunan, People's Republic of China.
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Wang X, Lai J, Hu H, Yang J, Zang K, Zhao F, Zeng G, Liao Q, Gu Z, Du Z. Infection of Nigrospora nonsegmented RNA Virus 1 Has Important Biological Impacts on a Fungal Host. Viruses 2022; 14:v14040795. [PMID: 35458525 PMCID: PMC9029208 DOI: 10.3390/v14040795] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2022] [Revised: 04/04/2022] [Accepted: 04/06/2022] [Indexed: 01/27/2023] Open
Abstract
Nigrospora nonsegmented RNA virus 1 (NoNRV1) has been reported previously in the fungus Nigrospora oryzae, but its biological effects on its host are unknown. In this work, we isolated a strain 9-1 of N. oryzae from a chrysanthemum leaf and identified NoNRV1 infection in the isolated strain. The genome sequence of NoNRV1 identified here is highly homologous to that of the isolate HN-21 of NoNRV1 previously reported; thus, we tentatively designated the newly identified NoNRV1 as NoNRV1-ZJ. Drug treatment with Ribavirin successfully removed NoNRV1-ZJ from the strain 9-1, which provided us with an ideal control to determine the biological impacts of NoNRV1 infection on host fungi. By comparing the virus-carrying (9-1) and virus-cured (9-1C) strains, our results indicated that infection with NoNRV1 promoted the pigmentation of the host cells, while it had no discernable effects on host growth on potato dextrose agar plates when subjected to osmotic or oxidative stress. Interestingly, we observed inhibitory impacts of virus infection on the thermotolerance of N. oryzae and the pathogenicity of the host fungus in cotton leaves. Collectively, our work provides clear evidence of the biological relevance of NoNRV1 infection in N. oryzae, including pigmentation, hypovirulence, and thermotolerance.
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Affiliation(s)
| | | | | | | | | | | | | | | | - Zhouhang Gu
- Correspondence: (Z.G.); (Z.D.); Tel.: +86-571-8684-3195 (Z.D.)
| | - Zhiyou Du
- Correspondence: (Z.G.); (Z.D.); Tel.: +86-571-8684-3195 (Z.D.)
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Wang Y, Yao J, Li Z, Huo J, Zhou S, Liu W, Wu H. Genome Sequence Resource for Nigrospora oryzae, an Important Pathogenic Fungus Threatening Crop Production. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2021; 34:835-838. [PMID: 33769830 DOI: 10.1094/mpmi-11-20-0311-a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Nigrospora oryzae is an important phytopathogenic fungus with a broad host range. Here, we report an annotated draft of the genome of N. oryzae field strain GZL1 collected from maize assembled from PacBio and Illumina sequencing reads. The assembly we obtained has 15 scaffolds with an N50 length of 4,037,616 bp. The resulting GZL1 draft genome is 43,214,190 bp, with GC content of 58.19%. The completeness of GZL1 genome assembly is 99.30%. This study is the first report of the genome sequence of N. oryzae, which can facilitate future study of the genetic variation and pathogenic mechanism of this important fungal pathogen.[Formula: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.
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Affiliation(s)
- Yafei Wang
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, 440307, Shenzhen, China
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, 100193, Beijing, China
| | - Jinai Yao
- Fujian Key Laboratory for Monitoring and Integrated Management of Crop Pests/Institute of Plant Protection, Fujian Academy of Agricultural Sciences, 350013, Fuzhou, China
| | - Zhiqiang Li
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, 100193, Beijing, China
| | - Jianfei Huo
- Institute of Plant Protection, Tianjin Academy of Agricultural Sciences, 300381, Tianjin, China
| | - Shaoqun Zhou
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, 440307, Shenzhen, China
| | - Wende Liu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, 100193, Beijing, China
| | - Hanxiang Wu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, 100193, Beijing, China
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Zhong J, Yang ZZ, Yang X, Guo ZJ, Xie W, Zhang YJ. Molecular characterization of a novel partitivirus and a fusarivirus coinfecting the fungus Nigrospora sphaerica. Arch Virol 2021; 166:2325-2331. [PMID: 34057607 DOI: 10.1007/s00705-021-05095-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2020] [Accepted: 03/22/2021] [Indexed: 10/21/2022]
Abstract
In this report, we describe the molecular characterization of two novel mycoviruses coinfecting the plant pathogenic fungus Nigrospora sphaerica, which were designated "Nigrospora sphaerica fusarivirus 1" (NsFV1) and "Nigrospora sphaerica partitivirus 1" (NsPV1). NsFV1 has an undivided genome measuring 6,147 nt, excluding the polyA tail, and was predicted to contain two nonoverlapping open reading frames (ORF1 and 2). The larger ORF1 encodes a polyprotein containing a conserved RNA-dependent RNA polymerase (RdRp) and a helicase domain that has functions related to RNA replication, and the smaller ORF2 encodes a putative protein with an unknown function. NsPV1 consists of two genome segments, which measure 1,796 bp and 1,455 bp in length. Each of the two dsRNAs has a single ORF, and they are predicted to encode proteins with homology to viral RdRps and coat proteins of members of the family Partitiviridae. Phylogenetic analysis indicated that NsFV1 is a member of the recently proposed family "Fusariviridae", while NsPV1 was determined to belong to the genus Gammapartitivirus in the family Partitiviridae. To the best of our knowledge, this report is the first to describe mycoviruses infecting N. sphaerica.
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Affiliation(s)
- Jie Zhong
- Department of Plant Protection, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.,Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Nongda Road 1, Furong District, Changsha City, Hunan Province, 410128, People's Republic of China
| | - Ze Zhong Yang
- Department of Plant Protection, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Xin Yang
- Department of Plant Protection, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Zhao Jiang Guo
- Department of Plant Protection, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Wen Xie
- Department of Plant Protection, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - You Jun Zhang
- Department of Plant Protection, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
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A novel totivirus isolated from the phytopathogenic fungus Rhodosporidiobolus odoratus strain GZ2017. Arch Virol 2020; 165:1911-1914. [PMID: 32488617 DOI: 10.1007/s00705-020-04684-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2020] [Accepted: 04/26/2020] [Indexed: 10/24/2022]
Abstract
To our knowledge, there have been no reports of mycoviruses infecting Rhodosporidiobolus odoratus. Here, we describe the sequence of a novel mycovirus isolated from R. odoratus, which was designated "Rhodosporidiobolus odoratus RNA virus 1" (RoRV1). Sequence analysis revealed that RoRV1 has two discontinuous open reading frames (ORFs), ORF1 and ORF2, potentially encoding a hypothetical protein and an RNA-dependent RNA polymerase (RdRp), respectively. Phylogenetic analysis based on RdRp sequences clearly placed RoRV1 in the genus Totivirus, family Totiviridae. The fungus also contains two additional, smaller dsRNAs, which might represent RoRV1 satellite RNAs.
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Liu H, Liu R, Li CX, Wang H, Zhu HJ, Gao BD, Zhou Q, Zhong J. A Victorivirus and Two Novel Mitoviruses Co-Infected the Plant Pathogen Nigrospora oryzae. Viruses 2019; 11:E83. [PMID: 30669450 PMCID: PMC6356909 DOI: 10.3390/v11010083] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Revised: 01/16/2019] [Accepted: 01/17/2019] [Indexed: 12/24/2022] Open
Abstract
Three dsRNAs, in sizes of approximately 2.5⁻5 kbp, were detected in the plant pathogenic fungus Nigrospora oryzae strain CS-7.5-4. Genomic analysis showed that the 5.0 kb dsRNA was a victorivirus named as Nigrospora oryzae victorivirus 2 (NoRV2). The genome of NoRV2 was 5166 bp in length containing two overlapping open reading frames (ORFs), ORF1 and ORF2. ORF1 was deduced to encode a coat protein (CP) showing homology to the CPs of viruses belonging to the Totiviridae family. The stop codon of ORF1 and the start codon of ORF2 were overlapped by the tetranucleotide sequence AUGA. ORF2 was predicted to encode an RNA-dependent RNA polymerase (RdRp), which was highly similar to the RdRps of victoriviruses. Virus-like particle examination demonstrated that the genome of NoRV2 was solely encapsidated by viral particles with a diameter of approximately 35 nm. The other two dsRNAs that were less than 3.0 kb were predicted to be the genomes of two mitoviruses, named as Nigrospora oryzae mitovirus 1 (NoMV1) and Nigrospora oryzae mitovirus 2 (NoMV2). Both NoMV1 and NoMV2 were A-U rich and with lengths of 2865 and 2507 bp, respectively. Mitochondrial codon usage inferred that each of the two mitoviruses contains a major large ORF encoding a mitoviral RdRp. Horizontal transfer experiments showed that the NoMV1 and NoMV2 could be cotransmitted horizontally via hyphal contact to other virus-free N. oryzae strains and causes phenotypic change to the recipient, such as an increase in growth rate. This is the first report of mitoviruses in N. oryzae.
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Affiliation(s)
- Hong Liu
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Changsha 410128, China.
| | - Rui Liu
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Changsha 410128, China.
| | - Chang Xin Li
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Changsha 410128, China.
| | - Hui Wang
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Changsha 410128, China.
| | - Hong Jian Zhu
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Changsha 410128, China.
| | - Bi Da Gao
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Changsha 410128, China.
| | - Qian Zhou
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Changsha 410128, China.
| | - Jie Zhong
- Hunan Provincial Key Laboratory for Biology and Control of Plant Diseases and Insect Pests, Hunan Agricultural University, Changsha 410128, China.
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de Lima JGS, Teixeira DG, Freitas TT, Lima JPMS, Lanza DCF. Evolutionary origin of 2A-like sequences in Totiviridae genomes. Virus Res 2018; 259:1-9. [PMID: 30339789 DOI: 10.1016/j.virusres.2018.10.011] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2018] [Revised: 08/28/2018] [Accepted: 10/15/2018] [Indexed: 12/20/2022]
Abstract
In recent years there has been a significant increase in the number of new species potentially belonging to the Totiviridae family. Most of these new viruses have not yet been covered by the Committee on Taxonomy of Viruses (ICTV) official classification. In this study, a phylogenetic analysis including new sequences of Totiviridae candidates revealed a clade including Giardiavirus and a great diversity of new totiviruses, which infect arthropods, protozoa and mollusc. This expanded Giardiavirus clade comprises two monophyletic groups, one of them including Giardia lamblia virus (GLV) grouped with viruses that infect arthropods and vertebrates (GLV-like group), and the other includes the previously proposed Artivirus group (IMNV-like group). A screening of the members of the GLV-like group in search of genomic elements already described in IMNV-like group revealed the existence of sites with a high propensity to become 2 A-like oligopeptides, mainly in a specific subgroup of arthropod viruses, suggesting that these viruses preserved ancestral characteristics. The existence of these "pseudo 2 A-sites" associated to phylogenetic reconstruction indicates that these sequences appear at a decisive stage for viral evolution. If they are changed to functional 2 A-like sequences, an irreversible route to increase the genome complexity will be initiated.
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Affiliation(s)
- Juliana G S de Lima
- Applied Molecular Biology Lab - LAPLIC, Department of Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil; Postgraduate Program in Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil
| | - Diego G Teixeira
- Laboratory of Metabolic Systems and Bioinformatics - LASIS, Department of Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil; Postgraduate Program in Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil
| | - Tiago T Freitas
- Applied Molecular Biology Lab - LAPLIC, Department of Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil; Postgraduate Program in Science, Technology and Innovation, Federal University of Rio Grande do Norte, Natal, RN, Brazil
| | - João P M S Lima
- Laboratory of Metabolic Systems and Bioinformatics - LASIS, Department of Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil; Postgraduate Program in Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil
| | - Daniel C F Lanza
- Applied Molecular Biology Lab - LAPLIC, Department of Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil; Postgraduate Program in Biochemistry, Federal University of Rio Grande do Norte, Natal, RN, Brazil; Postgraduate Program in Science, Technology and Innovation, Federal University of Rio Grande do Norte, Natal, RN, Brazil.
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Yu JX, Zhu JZ, Wang Y, Zhang CJ, Zhong J, Zhu HJ, Da Gao B, Zhou Q. Molecular characterization of a putative gammapartitivirus in the phytopathogenic fungus Nigrospora oryzae. Arch Virol 2018; 163:1091-1095. [DOI: 10.1007/s00705-017-3671-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2017] [Accepted: 11/20/2017] [Indexed: 10/18/2022]
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Zhong J, Zhao SQ, Li GF, Pang XD, Deng XJ, Zhu HJ, Da Gao B, Zhou Q. A novel fusarivirus isolated from the phytopathogenic fungus Nigrospora oryzae. Virus Genes 2016; 52:891-895. [DOI: 10.1007/s11262-016-1371-5] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2016] [Accepted: 07/02/2016] [Indexed: 10/21/2022]
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