1
|
Herschlag R, Okada R, Alcalá-Briseño RI, de Souto ER, Valverde RA. Identification of a novel endornavirus in Geranium carolinianum and occurrence within three agroecosystems. Virus Res 2020; 288:198116. [PMID: 32795491 DOI: 10.1016/j.virusres.2020.198116] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2020] [Revised: 08/05/2020] [Accepted: 08/06/2020] [Indexed: 10/23/2022]
Abstract
A putative endornavirus was detected in Carolina geranium (Geranium carolinianum) in Louisiana, USA. The virus was provisionally named Geranium carolinianum endornavirus 1 (GcEV1). The viral RNA was sequenced, and it consisted of 14,625 nt containing a single ORF coding a putative polyprotein of 4815 aa with conserved domains for a helicase 1, peptidase C97, glycosyl transferase GTB-type, and RNA-dependent RNA polymerase 2. The 5'end consisted of 130 nt while the 3'end consisted of 54 nt ending in nine cytosine residues. The closest relative to GcEV1 was Phaseolus vulgaris endornavirus 3. In phylogenetic analyses, GcEV1 clustered with members of the genus Alphaendornavirus. GcEV1 was detected in 57 of 60 G. carolinianum plants collected from three distinct agroecosystems. The virus was not detected in eight other species of the genus Geranium. There was no association of a particular phenotypic trait of the host with the presence or absence of the virus. GcEV1 was transmitted at a rate of 100% in seeds of a self-pollinated G. carolinianum plant.
Collapse
Affiliation(s)
- Rachel Herschlag
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA, USA
| | - Ryo Okada
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo, 183-8509, Japan
| | | | - Eliezer Rodrigues de Souto
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA, USA
| | - Rodrigo A Valverde
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA, USA.
| |
Collapse
|
2
|
Otulak-Kozieł K, Kozieł E, Escalante C, Valverde RA. Ultrastructural Analysis of Cells From Bell Pepper ( Capsicum annuum) Infected With Bell Pepper Endornavirus. FRONTIERS IN PLANT SCIENCE 2020; 11:491. [PMID: 32411163 PMCID: PMC7199235 DOI: 10.3389/fpls.2020.00491] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2020] [Accepted: 04/01/2020] [Indexed: 05/05/2023]
Abstract
Endornaviruses include viruses that infect fungi, oomycetes, and plants. The genome of plant endornaviruses consists of linear ssRNA ranging in size from approximately 13-18 kb and lacking capsid protein and cell-to-cell movement capability. Although, plant endornaviruses have not been shown to cause detectable changes in the plant phenotype, they have been associated with alterations of the host physiology. Except for the association of cytoplasmic vesicles with infections by Vicia faba endornavirus, effects on the plant cell ultrastructure caused by endornaviruses have not been reported. Bell pepper endornavirus (BPEV) has been identified in several pepper (Capsicum spp.) species. We conducted ultrastructural analyses of cells from two near-isogenic lines of the bell pepper (C. annuum) cv. Marengo, one infected with BPEV and the other BPEV-free, and found cellular alterations associated with BPEV-infections. Some cells of plants infected with BPEV exhibited alterations of organelles and other cell components. Affected cells were located mainly in the mesophyll and phloem tissues. Altered organelles included mitochondrion, chloroplast, and nucleus. The mitochondria from BPEV-infected plants exhibited low number of cristae and electron-lucent regions. Chloroplasts contained plastoglobules and small vesicles in the surrounding cytoplasm. Translucent regions in thylakoids were observed, as well as hypertrophy of the chloroplast structure. Many membranous vesicles were observed in the stroma along the envelope. The nuclei revealed a dilation of the nuclear envelope with vesicles and perinuclear areas. The organelle changes were accompanied by membranous structure rearrangements, such as paramural bodies and multivesicular bodies. These alterations were not observed in cells from plants of the BPEV-free line. Overall, the observed ultrastructural cell alterations associated with BPEV are similar to those caused by plant viruses and viroids and suggest some degree of parasitic interaction between BPEV and the plant host.
Collapse
Affiliation(s)
- Katarzyna Otulak-Kozieł
- Institute of Biology, Department of Botany, Warsaw University of Life Sciences—SGGW, Warsaw, Poland
| | - Edmund Kozieł
- Institute of Biology, Department of Botany, Warsaw University of Life Sciences—SGGW, Warsaw, Poland
| | - Cesar Escalante
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA, United States
| | - Rodrigo A. Valverde
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA, United States
| |
Collapse
|
3
|
Herschlag R, Escalante C, de Souto ER, Khankhum S, Okada R, Valverde RA. Occurrence of putative endornaviruses in non-cultivated plant species in South Louisiana. Arch Virol 2019; 164:1863-1868. [DOI: 10.1007/s00705-019-04270-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2018] [Accepted: 03/30/2019] [Indexed: 01/12/2023]
|
4
|
Velasco L, Arjona-Girona I, Cretazzo E, López-Herrera C. Viromes in Xylariaceae fungi infecting avocado in Spain. Virology 2019; 532:11-21. [PMID: 30986551 DOI: 10.1016/j.virol.2019.03.021] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2019] [Revised: 03/29/2019] [Accepted: 03/29/2019] [Indexed: 12/25/2022]
Abstract
Four isolates of Entoleuca sp., family Xylariaceae, Ascomycota, recovered from avocado rhizosphere in Spain were analyzed for mycoviruses presence. For that, the dsRNAs from the mycelia were extracted and subjected to metagenomics analysis that revealed the presence of eleven viruses putatively belonging to families Partitiviridae, Hypoviridae, Megabirnaviridae, and orders Tymovirales and Bunyavirales, in addition to one ourmia-like virus plus other two unclassified virus species. Moreover, a sequence with 98% nucleotide identity to plant endornavirus Phaseolus vulgaris alphaendornavirus 1 has been identified in the Entoleuca sp. isolates. Concerning the virome composition, the four isolates only differed in the presence of the bunyavirus and the ourmia-like virus, while all other viruses showed common patterns. Specific primers allowed the detection by RT-PCR of these viruses in a collection of Entoleuca sp. and Rosellinia necatrix isolates obtained from roots of avocado trees. Results indicate that intra- and interspecies horizontal virus transmission occur frequently in this pathosystem.
Collapse
Affiliation(s)
- Leonardo Velasco
- Instituto Andaluz de Investigación y Formación Agraria (IFAPA), 29140, Churriana, Málaga, Spain.
| | - Isabel Arjona-Girona
- Departamento de Protección de Cultivos, Instituto de Agricultura Sostenible, C.S.I.C, Córdoba, Spain
| | - Enrico Cretazzo
- Instituto Andaluz de Investigación y Formación Agraria (IFAPA), 29140, Churriana, Málaga, Spain
| | - Carlos López-Herrera
- Departamento de Protección de Cultivos, Instituto de Agricultura Sostenible, C.S.I.C, Córdoba, Spain
| |
Collapse
|
5
|
Endornaviruses: persistent dsRNA viruses with symbiotic properties in diverse eukaryotes. Virus Genes 2019; 55:165-173. [DOI: 10.1007/s11262-019-01635-5] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2018] [Accepted: 01/07/2019] [Indexed: 10/27/2022]
|
6
|
Safari M, Roossinck MJ. Coevolution of a Persistent Plant Virus and Its Pepper Hosts. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2018; 31:766-776. [PMID: 29845896 DOI: 10.1094/mpmi-12-17-0312-r] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
There are many nonpathogenic viruses that are maintained in a persistent lifestyle in plants. Plant persistent viruses are widespread, replicating in their hosts for many generations. So far, Endornaviridae is the only family of plant persistent viruses with a single-stranded RNA genome, containing one large open reading frame. Bell pepper endornavirus (BPEV), Hot pepper endornavirus, Capsicum frutescens endornavirus 1 (CFEV 1) have been identified from peppers. Peppers are native to Central and South America and, as domesticated plants, human selection accelerated their evolution. We investigated the evolution of these endornaviruses in different peppers including Capsicum annuum, C. chacoense, C. chinense, C. frutescens, C. baccutum, and C. pubescens using two fragments from the viral helicase (Hel) and RNA dependent RNA polymerase (RdRp) domains. In addition, using single nucleotide polymorphisms, we analyzed the pepper host populations and phylogenies. The endornaviruses phylogeny was correlated with its Capsicum species host. In this study, BPEV was limited to C. annuum species, and the RdRp and Hel phylogenies identified two clades that correlated with the host pungency. No C. annuum infected with CFEV 1 was found in this study, but the CFEV 1 RdRp fragment was recovered from C. chinense, C. frutescens, C. baccutum, and C. pubescens. Hence, during pepper speciation, the ancestor of CFEV 1 may have evolved as a new endornavirus, BPEV, in C. annuum peppers.
Collapse
Affiliation(s)
- Maliheh Safari
- 1 Department of Plant Pathology and Environmental Microbiology; and
- 2 Center for Infectious Disease Dynamics, Pennsylvania State University, State College, PA 16802, U.S.A
| | - Marilyn J Roossinck
- 1 Department of Plant Pathology and Environmental Microbiology; and
- 2 Center for Infectious Disease Dynamics, Pennsylvania State University, State College, PA 16802, U.S.A
| |
Collapse
|
7
|
Alcalá-Briseño RI, Okada R, Herrera F, Valverde RA. A novel endornavirus isolated from cluster bean (Cyamopsis tetragonoloba). Arch Virol 2018; 163:2279-2282. [PMID: 29696407 DOI: 10.1007/s00705-018-3831-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2018] [Accepted: 02/22/2018] [Indexed: 11/25/2022]
Abstract
Cluster bean (Cyamopsis tetragonoloba), also called guar, is a drought-tolerant annual legume. We conducted investigations to characterize a large dsRNA (~13-14 kbp) detected in a symptomless cluster bean genotype. The dsRNA was gel-purified and used for Illumina MiSeq sequencing. Reads were assembled, and BLASTx search results showed sequence similarity with viruses classified within the family Endornaviridae. The complete sequence of the putative endornavirus consisted of 12,895 nt and contained an open reading frame which coded for a polyprotein of 4,207 aa with conserved domains for methyltransferase, helicase, and RNA-dependent RNA polymerase. The virus was named cluster bean endornavirus 1 (CBEV-1). A BLASTx search using the polyprotein sequence showed that the closest endornavirus to CBEV-1 was Hordeum vulgare endornavirus.
Collapse
Affiliation(s)
| | - Ryo Okada
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo, 183-8509, Japan
| | - Favio Herrera
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA, USA
| | - Rodrigo A Valverde
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, LA, USA.
| |
Collapse
|
8
|
Complete genome sequence of a new strain of Lagenaria siceraria endornavirus from China. Arch Virol 2017; 163:805-808. [DOI: 10.1007/s00705-017-3664-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2017] [Accepted: 11/28/2017] [Indexed: 10/18/2022]
|
9
|
Ong JW, Li H, Sivasithamparam K, Dixon KW, Jones MG, Wylie SJ. Novel Endorna-like viruses, including three with two open reading frames, challenge the membership criteria and taxonomy of the Endornaviridae. Virology 2016; 499:203-211. [DOI: 10.1016/j.virol.2016.08.019] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2016] [Revised: 08/11/2016] [Accepted: 08/19/2016] [Indexed: 10/21/2022]
|
10
|
Molecular and biological properties of an endornavirus infecting winged bean (Psophocarpus tetragonolobus). Virus Genes 2016; 53:141-145. [DOI: 10.1007/s11262-016-1398-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2016] [Accepted: 09/30/2016] [Indexed: 10/20/2022]
|
11
|
Du Z, Lin W, Qiu P, Liu X, Guo L, Wu K, Zhang S, Wu Z. Complete sequence of a double-stranded RNA from the phytopathogenic fungus Erysiphe cichoracearum that might represent a novel endornavirus. Arch Virol 2016; 161:2343-6. [PMID: 27255746 DOI: 10.1007/s00705-016-2911-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2016] [Accepted: 05/25/2016] [Indexed: 11/30/2022]
Abstract
A double-stranded RNA (dsRNA) HBJZ1506 recovered from the phytopathogenic fungus Erysiphe cichoracearum infecting Calendula officinalis in Jingzhou, Hubei Province, China, was sequenced. HBJZ1506 comprises 11,908 nucleotides (nt) and contains a 11,859-nt-long open reading frame (ORF) coding for a polypeptide that is 61 % identical to that of a putative endornavirus named grapevine endophyte endornavirus (GeEV). The putative polyprotein has an RNA-dependent RNA polymerase (RdRp) domain and an RNA helicase domain, which show homology to and have an arrangement that is similar to that of their counterparts in approved or putative endornaviruses. In a phylogenetic tree constructed using amino acid sequences of the RdRp region of HBJZ1506 and selected endornaviruses, HBJZ1506 clustered with endornaviruses and formed a well-supported monophyletic branch with GeEV. These results suggest that HBJZ1506 might represent a novel endornavirus, for which the name Erysiphe cichoracearum endornavirus (EcEV) is proposed.
Collapse
Affiliation(s)
- Zhenguo Du
- Fujian Province Key Laboratory of Plant Virology, Institute of Plant Virology, Plant Protection College, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Wenzhong Lin
- Fujian Province Key Laboratory of Plant Virology, Institute of Plant Virology, Plant Protection College, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Ping Qiu
- Fujian Province Key Laboratory of Plant Virology, Institute of Plant Virology, Plant Protection College, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Xiaojuan Liu
- Fujian Province Key Laboratory of Plant Virology, Institute of Plant Virology, Plant Protection College, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Lingfang Guo
- Engineering Research Centre of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou, 434025, Hubei, China
| | - Kangcheng Wu
- Fujian Province Key Laboratory of Plant Virology, Institute of Plant Virology, Plant Protection College, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China
| | - Songbai Zhang
- Engineering Research Centre of Ecology and Agricultural Use of Wetland, Ministry of Education, Yangtze University, Jingzhou, 434025, Hubei, China.
| | - Zujian Wu
- Fujian Province Key Laboratory of Plant Virology, Institute of Plant Virology, Plant Protection College, Fujian Agriculture and Forestry University, Fuzhou, 350002, Fujian, China.
| |
Collapse
|
12
|
Sabanadzovic S, Wintermantel WM, Valverde RA, McCreight JD, Aboughanem-Sabanadzovic N. Cucumis melo endornavirus: Genome organization, host range and co-divergence with the host. Virus Res 2016; 214:49-58. [DOI: 10.1016/j.virusres.2016.01.001] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2015] [Revised: 12/30/2015] [Accepted: 01/03/2016] [Indexed: 01/30/2023]
|
13
|
Complete genome sequence of a novel endornavirus isolated from hot pepper. Arch Virol 2015; 160:3153-6. [DOI: 10.1007/s00705-015-2616-7] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2015] [Accepted: 09/15/2015] [Indexed: 11/26/2022]
|
14
|
Abstract
Linear double-stranded RNAs (dsRNAs) of about 15 kbp in length are often found from healthy plants, such as bell pepper and rice plants. Nucleotide sequencing and phylogenetic analyses reveal that these dsRNAs are not transcribed from host genomic DNAs, encode a single long open reading frame (ORF) with a viral RNA-dependent RNA polymerase domain, and contain a site-specific nick in the 5' region of their coding strands. Consequently the International Committee on Taxonomy of Viruses has approved that these dsRNAs are viruses forming a distinct taxon, the family Endornaviridae the genus Endornavirus. Endornaviruses have common properties that differ from those of conventional viruses: they have no obvious effect on the phenotype of their host plants, and they are efficiently transmitted to the next generation via both pollen and ova, but their horizontal transfer to other plants has never been proven. Conventional single-stranded RNA viruses, such as cucumber mosaic virus, propagate hugely and systemically in host plants to sometime kill their hosts eventually and transmit horizontally (infect to other plants). In contrast, copy numbers of endornaviruses are low and constant (about 100 copies/cell), and they symbiotically propagate with host plants and transmit vertically. Therefore, endornaviruses are unique plant viruses with symbiotic properties.
Collapse
|
15
|
Das S, Falloon RE, Stewart A, Pitman AR. Molecular characterisation of an endornavirus from Rhizoctonia solani AG-3PT infecting potato. Fungal Biol 2014; 118:924-34. [PMID: 25442295 DOI: 10.1016/j.funbio.2014.08.003] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2014] [Revised: 07/20/2014] [Accepted: 08/18/2014] [Indexed: 10/24/2022]
Abstract
Rhizoctonia solani (teleomorph: Thanatephorus cucumeris) is a soil-borne plant pathogenic fungus that has a broad host range, including potato. In this study, the double-stranded RNA (dsRNA) profiles were defined for 39 Rhizoctonia solani isolates representative of two different anastomosis groups (AGs) associated with black scurf of potato in New Zealand. A large dsRNA of c. 12 kb-18 kb was detected in each of the isolates, regardless of AG or virulence on potato. Characterisation of the large dsRNA from R. solani AG-3PT isolate RS002, using random amplification of total dsRNA and analyses of overlapping cDNA sequences, resulted in the assembly of a consensus sequence of 14 694 nt. A single, large open reading frame was identified on the positive strand of the assembled sequence encoding a putative polypeptide of at least 4893 amino acids, with a predicted molecular mass of 555.6 kDa. Conserved domains within this polypeptide included those for a viral methyltransferase, a viral RNA helicase 1 and an RNA-dependent RNA polymerase. The domains and their sequential organisation revealed the polyprotein was very similar to those encoded by dsRNA viruses of the genus Endornavirus, in the family Endornaviridae. This is the first report of an endornavirus in R. solani, and thus the putative virus is herein named Rhizoctonia solani endornavirus - RS002 (RsEV-RS002). Partial characterisation of the large dsRNAs in five additional AG-3PT isolates of R. solani also identified them as probable endornaviruses, suggesting this family of viruses is widespread in R. solani infecting potato. The ubiquitous nature of endornaviruses in this plant pathogen implies they may have an important, but yet uncharacterised, role in R. solani.
Collapse
Affiliation(s)
- Subha Das
- Bio-Protection Research Centre, PO Box 85084, Lincoln University 7647, Canterbury, New Zealand; The New Zealand Institute for Plant & Food Research Limited, PB 4704, Christchurch, New Zealand.
| | - Richard E Falloon
- Bio-Protection Research Centre, PO Box 85084, Lincoln University 7647, Canterbury, New Zealand; The New Zealand Institute for Plant & Food Research Limited, PB 4704, Christchurch, New Zealand.
| | - Alison Stewart
- Bio-Protection Research Centre, PO Box 85084, Lincoln University 7647, Canterbury, New Zealand; Marrone Bio Innovations, Inc., 2121 Second St, Suite 107B Davis, CA 95618, USA.
| | - Andrew R Pitman
- Bio-Protection Research Centre, PO Box 85084, Lincoln University 7647, Canterbury, New Zealand; The New Zealand Institute for Plant & Food Research Limited, PB 4704, Christchurch, New Zealand.
| |
Collapse
|
16
|
Khalifa ME, Pearson MN. Molecular characterisation of an endornavirus infecting the phytopathogen Sclerotinia sclerotiorum. Virus Res 2014; 189:303-9. [PMID: 24979045 DOI: 10.1016/j.virusres.2014.06.010] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2014] [Revised: 06/17/2014] [Accepted: 06/20/2014] [Indexed: 11/15/2022]
Abstract
The complete sequence and genome organisation of an endornavirus from the phytopathogenic fungus Sclerotinia sclerotiorum isolate 11691 was described and the name Sclerotinia sclerotiorum endornavirus 1 (SsEV1/11691) proposed. The genome is 10,513 nucleotides (nts) long with a single open reading frame (ORF) that codes for a single polyprotein of 3459 amino acid (aa) residues. The polyprotein contains cysteine-rich region (CRR), viral methyltransferase (MTR), putative DEXDc, viral helicase (Hel), phytoreo_S7 (S7) and RNA-dependent RNA polymerase (RdRp) domains. The polyprotein and the conserved domains are phylogenetically related to endornaviruses. However, the coding strand of SsEV1/11691 does not contain a site-specific nick characteristic of most previously described endornaviruses. The elimination of SsEV1/11691 did not result in any significant changes in the host phenotype and virulence.
Collapse
Affiliation(s)
- Mahmoud E Khalifa
- School of Biological Sciences, The University of Auckland, PO Box 92019, Auckland 1010, New Zealand.
| | - Michael N Pearson
- School of Biological Sciences, The University of Auckland, PO Box 92019, Auckland 1010, New Zealand
| |
Collapse
|
17
|
The complete genome of a putative endornavirus identified in yerba mate (Ilex paraguariensis St. Hil.). Virus Genes 2014; 49:348-50. [DOI: 10.1007/s11262-014-1096-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2014] [Accepted: 06/07/2014] [Indexed: 10/25/2022]
|
18
|
Complete nucleotide sequence and genome organization of an endornavirus from bottle gourd (Lagenaria siceraria) in California, U.S.A. Virus Genes 2014; 49:163-8. [PMID: 24818693 DOI: 10.1007/s11262-014-1064-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2013] [Accepted: 03/21/2014] [Indexed: 10/25/2022]
Abstract
The full-length nucleotide sequence and genome organization of an Endornavirus isolated from ornamental hard shell bottle gourd plants (Lagenaria siceraria (Molina) Standl.) in California (CA), USA tentatively named L. siceraria endornavirus-California (LsEV-CA) was determined. The LsEV-CA genome was 15088 bp in length, with a G + C content of 36.55 %. The lengths of the 5' and 3' untranslated regions were 111 and 52 bp, respectively. The genome of LsEV-CA contained one large ORF encoding a 576 kDa polyprotein. The predicted protein contains two glycosyltransferase motifs, as well as RNA-dependent RNA polymerase and helicase domains. LsEV-CA was detected in healthy-looking field-grown gourd plants, as well as plants expressing yellows symptoms. It was also detected in non-symptomatic greenhouse-grown gourd seedlings grown from seed obtained from the same field sites. These preliminary data indicate that LsEV-CA is likely not associated with the gourd-yellows syndrome observed in the field.
Collapse
|
19
|
Li W, Zhang T, Sun H, Deng Y, Zhang A, Chen H, Wang K. Complete genome sequence of a novel endornavirus in the wheat sharp eyespot pathogen Rhizoctonia cerealis. Arch Virol 2013; 159:1213-6. [DOI: 10.1007/s00705-013-1893-2] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2013] [Accepted: 10/09/2013] [Indexed: 11/30/2022]
|
20
|
Okada R, Yong CK, Valverde RA, Sabanadzovic S, Aoki N, Hotate S, Kiyota E, Moriyama H, Fukuhara T. Molecular characterization of two evolutionarily distinct endornaviruses co-infecting common bean (Phaseolus vulgaris). J Gen Virol 2013; 94:220-229. [DOI: 10.1099/vir.0.044487-0] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/30/2023] Open
Abstract
Two high-molecular-mass dsRNAs of approximately 14 and 15 kbp were isolated from the common bean (Phaseolus vulgaris) cultivar Black Turtle Soup. These dsRNAs did not appear to cause obvious disease symptoms, and were transmitted through seeds at nearly 100 % efficiency. Sequence information indicates that they are the genomes of distinct endornavirus species, for which the names Phaseolus vulgaris endornavirus 1 (PvEV-1) and Phaseolus vulgaris endornavirus 2 (PvEV-2) are proposed. The PvEV-1 genome consists of 13 908 bp and potentially encodes a single polyprotein of 4496 aa, while that of PvEV-2 consists of 14 820 bp and potentially encodes a single ORF of 4851 aa. PvEV-1 is more similar to Oryza sativa endornavirus, while PvEV-2 is more similar to bell pepper endornavirus. Both viruses have a site-specific nick near the 5′ region of the coding strand, which is a common property of the endornaviruses. Their polyproteins contain domains of RNA helicase, UDP-glycosyltransferase and RNA-dependent RNA polymerase, which are conserved in other endornaviruses. However, a viral methyltransferase domain was found in the N-terminal region of PvEV-2, but was absent in PvEV-1. Results of cell-fractionation studies suggested that their subcellular localizations were different. Most endornavirus-infected bean cultivars tested were co-infected with both viruses.
Collapse
Affiliation(s)
- Ryo Okada
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo 183-8509, Japan
| | - Chee Keat Yong
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo 183-8509, Japan
| | - Rodrigo A. Valverde
- Department of Plant Pathology and Crop Physiology, Louisiana State University Agricultural Center, Baton Rouge, 70803, USA
| | - Sead Sabanadzovic
- Department of Biochemistry, Molecular Biology, Entomology and Plant Pathology, Mississippi State University, Mississippi State, MS 39762, USA
| | - Nanako Aoki
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo 183-8509, Japan
| | - Shunsuke Hotate
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo 183-8509, Japan
| | - Eri Kiyota
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo 183-8509, Japan
| | - Hiromitsu Moriyama
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo 183-8509, Japan
| | - Toshiyuki Fukuhara
- Laboratory of Molecular and Cellular Biology, Faculty of Agriculture, Tokyo University of Agriculture and Technology, Tokyo 183-8509, Japan
| |
Collapse
|
21
|
Nelson OW, Garrity GM. Genome sequences published outside of Standards in Genomic Sciences, January-March 2012. Stand Genomic Sci 2012. [DOI: 10.4056/sigs.1756022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Affiliation(s)
- Oranmiyan W. Nelson
- 1Editorial Office, Standards in Genomic Sciences and Department of Microbiology, Michigan State University, East Lansing, MI, USA
| | - George M. Garrity
- 1Editorial Office, Standards in Genomic Sciences and Department of Microbiology, Michigan State University, East Lansing, MI, USA
| |
Collapse
|