Discovery of a Novel Member of the <em>Carlavirus</em> Genus from Soybean (<em>Glycine max</em> L. Merr.)
A novel member of the <i>Carlavirus</i> genus, provisionally named soybean carlavirus 1 (SCV1), was discovered by RNA-seq analysis of randomly collected soybean leaves in Illinois, USA. The SCV1 genome contains six open reading frames that encode a viral replicase, triple gene block prot...
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MDPI AG
2021-02-01
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| Series: | Pathogens |
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| Online Access: | https://www.mdpi.com/2076-0817/10/2/223 |
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| author | Thanuja Thekke-Veetil Nancy K. McCoppin Houston A. Hobbs Glen L. Hartman Kris N. Lambert Hyoun-Sub Lim Leslie. L. Domier |
| author_facet | Thanuja Thekke-Veetil Nancy K. McCoppin Houston A. Hobbs Glen L. Hartman Kris N. Lambert Hyoun-Sub Lim Leslie. L. Domier |
| author_sort | Thanuja Thekke-Veetil |
| collection | DOAJ |
| description | A novel member of the <i>Carlavirus</i> genus, provisionally named soybean carlavirus 1 (SCV1), was discovered by RNA-seq analysis of randomly collected soybean leaves in Illinois, USA. The SCV1 genome contains six open reading frames that encode a viral replicase, triple gene block proteins, a coat protein (CP) and a nucleic acid binding protein. The proteins showed highest amino acid sequence identities with the corresponding proteins of red clover carlavirus A (RCCVA). The predicted amino acid sequence of the SCV1 replicase was only 60.6% identical with the replicase of RCCVA, which is below the demarcation criteria for a new species in the family <i>Betaflexiviridae</i>. The predicted replicase and CP amino acid sequences of four SCV1 isolates grouped phylogenetically with those of members of the <i>Carlavirus</i> genus in the family <i>Betaflexiviridae</i>. The features of the encoded proteins, low nucleotide and amino acid sequence identities of the replicase with the closest member, and the phylogenetic grouping suggest SCV1 is a new member of the <i>Carlavirus</i> genus. |
| first_indexed | 2024-03-09T00:45:35Z |
| format | Article |
| id | doaj.art-5777c6c33fa544cb8a5715981a86186d |
| institution | Directory Open Access Journal |
| issn | 2076-0817 |
| language | English |
| last_indexed | 2024-03-09T00:45:35Z |
| publishDate | 2021-02-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Pathogens |
| spelling | doaj.art-5777c6c33fa544cb8a5715981a86186d2023-12-11T17:32:45ZengMDPI AGPathogens2076-08172021-02-0110222310.3390/pathogens10020223Discovery of a Novel Member of the <em>Carlavirus</em> Genus from Soybean (<em>Glycine max</em> L. Merr.)Thanuja Thekke-Veetil0Nancy K. McCoppin1Houston A. Hobbs2Glen L. Hartman3Kris N. Lambert4Hyoun-Sub Lim5Leslie. L. Domier6Department of Crop Sciences, University of Illinois, Urbana, IL 61801, USASoybean/Maize Germplasm, Pathology, and Genetics Research Unit, United States Department of Agriculture-Agricultural Research Service, Urbana, IL 61801, USADepartment of Crop Sciences, University of Illinois, Urbana, IL 61801, USADepartment of Crop Sciences, University of Illinois, Urbana, IL 61801, USADepartment of Crop Sciences, University of Illinois, Urbana, IL 61801, USADepartment of Applied Biology, College of Agriculture and Life Sciences, Chungnam National University, Daejeon 305-764, KoreaDepartment of Crop Sciences, University of Illinois, Urbana, IL 61801, USAA novel member of the <i>Carlavirus</i> genus, provisionally named soybean carlavirus 1 (SCV1), was discovered by RNA-seq analysis of randomly collected soybean leaves in Illinois, USA. The SCV1 genome contains six open reading frames that encode a viral replicase, triple gene block proteins, a coat protein (CP) and a nucleic acid binding protein. The proteins showed highest amino acid sequence identities with the corresponding proteins of red clover carlavirus A (RCCVA). The predicted amino acid sequence of the SCV1 replicase was only 60.6% identical with the replicase of RCCVA, which is below the demarcation criteria for a new species in the family <i>Betaflexiviridae</i>. The predicted replicase and CP amino acid sequences of four SCV1 isolates grouped phylogenetically with those of members of the <i>Carlavirus</i> genus in the family <i>Betaflexiviridae</i>. The features of the encoded proteins, low nucleotide and amino acid sequence identities of the replicase with the closest member, and the phylogenetic grouping suggest SCV1 is a new member of the <i>Carlavirus</i> genus.https://www.mdpi.com/2076-0817/10/2/223<i>Carlavirus</i><i>Betaflexiviridae</i>soybean carlavirus 1high throughput sequencing |
| spellingShingle | Thanuja Thekke-Veetil Nancy K. McCoppin Houston A. Hobbs Glen L. Hartman Kris N. Lambert Hyoun-Sub Lim Leslie. L. Domier Discovery of a Novel Member of the <em>Carlavirus</em> Genus from Soybean (<em>Glycine max</em> L. Merr.) Pathogens <i>Carlavirus</i> <i>Betaflexiviridae</i> soybean carlavirus 1 high throughput sequencing |
| title | Discovery of a Novel Member of the <em>Carlavirus</em> Genus from Soybean (<em>Glycine max</em> L. Merr.) |
| title_full | Discovery of a Novel Member of the <em>Carlavirus</em> Genus from Soybean (<em>Glycine max</em> L. Merr.) |
| title_fullStr | Discovery of a Novel Member of the <em>Carlavirus</em> Genus from Soybean (<em>Glycine max</em> L. Merr.) |
| title_full_unstemmed | Discovery of a Novel Member of the <em>Carlavirus</em> Genus from Soybean (<em>Glycine max</em> L. Merr.) |
| title_short | Discovery of a Novel Member of the <em>Carlavirus</em> Genus from Soybean (<em>Glycine max</em> L. Merr.) |
| title_sort | discovery of a novel member of the em carlavirus em genus from soybean em glycine max em l merr |
| topic | <i>Carlavirus</i> <i>Betaflexiviridae</i> soybean carlavirus 1 high throughput sequencing |
| url | https://www.mdpi.com/2076-0817/10/2/223 |
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