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Descriptions are generated automatically from the ICTVdB database including links. Some descriptions are only very basic and links may point to documents that are not yet published on the Web.

00.067.0.01. Sobemovirus

Cite this publication as: ICTVdB Management (2006). 00.067.0.01. Sobemovirus. In: ICTVdB - The Universal Virus Database, version 4. Büchen-Osmond, C. (Ed), Columbia University, New York, USA

Cite this site as: ICTVdB - The Universal Virus Database, version 4. http://www.ncbi.nlm.nih.gov/ICTVdb/ICTVdB/

Table of Contents

Classification

This is a description of a plant virus at the genus level (not yet assigned to a family).

ICTVdB Virus Code: 00.067.0.01. Virus accession number: 067001GE. Obsolete virus code: 67.0.1.; superceded accession number: 67010000.
NCBI Taxon Identifier NCBI Taxonomy ID: 12137.

Name, Synonyms and Lineage

Synonym(s): Southern bean mosaic virus group. Virus is not assigned to a family.

Virion Properties

Morphology

Virions consist of a capsid. Virus capsid is not enveloped, round with icosahedral symmetry. The isometric capsid has a diameter of 25-28.38-33 nm. Capsids appear round, or hexagonal in outline. The capsomer arrangement is clearly visible (T=3), or is not obvious. The capsid consists of 32 capsomers (180 protein subunits).

Electron microscopic preparation and references: Virus preparation contains few virions, or many virions.





















3D image of virus reconstruction can be found at Virus World, Molecular Virology, Madison. .









Physicochemical and Physical Properties

Virions have a buoyant density in CsCl of 1.34-1.39 g cm-3; sucrose of 1.1 g cm-3. There are 1 sedimenting component(s) found in purified preparations. The sedimentation coefficient is 104-112.5-120 S20w; of the other(s) are 102 S20w. Isoelectric point pH is 4.4-5.137-6. A260/A280 ratio is 1.46-1.597-1.72. The thermal inactivation point (TIP) is at 60-78.72-96°C. The longevity in vitro (LIV) is 3-95.37-365 days. Although the titer is dependent on the host, the decimal exponent (DEX) of the dilution end point is usually around 3-4, or 5, or 6, or 7, or 8, or 9. The infectivity is not changed by treatment with ether; retained when deproteinized with proteases, or lost when deproteinized with proteases; retained when deproteinized with phenol or detergent.

Nucleic Acid

The Mr of the genome constitutes 17-21.5-28% of the virion by weight. The genome is monopartite. Only one particle size of linear, positive-sense, single-stranded RNA is recovered. Minor species of non-genomic nucleic acid are also found in virions, or not found in virions. The encapsidated nucleic acid is mainly of genomic origin, but virions may also contain subgenomic RNA and satellite RNA that has a viroid-like structure (associated with some species). The complete genome is 4100-4318-5700 nucleotides long, is fully sequenced, complete sequence is 4100-4317-5700 nucleotides long. The genome has a base ratio of 24-25.8-29 % guanine; 21-23.98-26 % adenine; 22-25.3-28.4 % cytosine; 21.6-24.85-27 % uracil. The 5'-end of the genome has a genome-linked protein (VPg) (which is probably essential for infectivity).

GenBank records for nucleotide sequences; complete genome sequences.

Proteins

Proteins constitute about 72-78.5-83% of the particle weight.

The viral genome encodes structural proteins and non-structural proteins. Virions consist of 1 structural protein(s), or 2 structural protein(s), or 3 structural protein(s) located in the capsid.

Structural Proteins: Capsid protein COAT_SBMV. Capsid protein has a molecular mass of 30527 Da (279 AA) with 180 copies per virion; sequence has the accession number [P03607]; is the coat protein.

Non-Structural Proteins: Virus-coded non-structural proteins have been identified by sequence analysis and 3 non-structural protein(s) are found.

Lipids

Lipids are not reported.

Genome Organization and Replication

By itself, genomic nucleic acid is not infectious, or infectious.

Transcription: Sub-genomic RNA is present in infected cells, or absent from infected cells. The genome expression is based on RNA production which can be analyzed by the dsRNA patterns found in the infected tissues. Usually there are 3 virus specified dsRNA species found in infected cells. Size of largest virus specified dsRNA 4.6 kbp. 2nd largest 3 kbp. 3rd largest 1.3 kbp.

Translation: Virions may provide helper functions to dependent virus during replication. Virion acts as helper for a satellite virus, or a satellite RNA.

Biological Properties

Natural Host

Domain
Viral hosts belong to the Domain Eucarya.

Domain Eucarya
Kingdom Plantae.

Kingdom Plantae
Phylum Magnoliophyta (Angiosperms, Class Magnoliopsida (Dicotyledonae), or Liliopsida (Monocotyledonae).

Severity and Occurrence of Disease

Host: Infection is apparent, or not apparent. Signs and symptoms persist, or vary seasonally, or disappear soon after infection.

Transmission and Vector Relationships

Virus is transmitted by a vector. Virus is transmitted by mechanical inoculation; transmitted by grafting; not transmitted by contact between hosts; transmitted by seeds, or not transmitted by seeds; transmitted by pollen to the seed, or transmitted by pollen to the pollinated plant, or not transmitted by pollen.

Vector Transmission:
Virus is transmitted by arthropods, by insects of the order Hemiptera, Coleoptera; arthropod-borne virus is transmitted by family Aphididae, Cicadellidae. Virus is transmitted in a non-persistent manner, or in a semi-persistent manner; lost by the vector when it moults; does not replicate in the vector; not transmitted congenitally to the progeny of the vector; does not require a helper virus for vector transmission.

Experimental Hosts and Symptoms

Under experimental conditions susceptibility to infection by virus is found in several families, few families. Susceptible host species are found in the Family Amaranthaceae, Chenopodiaceae, Compositae, Cruciferae, Cucurbitaceae, Ericaceae, Gramineae, Leguminosae-Caesalpinioideae, Leguminosae-Papilionoideae, Oleaceae, Rosaceae, Solanaceae, Tetragoniaceae, Vitidaceae, Zingiberaceae. The following species were susceptible to experimental virus infection: Agrostis puchella, Agrostis stolonifera, Agrostis tenuis, Atriplex hortensis, Atriplex suberecta, Avena fatua, Avena sativa, Avena strigosa, Bauhinia purpurea, Beta macrocarpa, Beta vulgaris, Brassica campestris ssp. napus, Brassica campestris ssp. pekinensis, Brassica campestris ssp. rapa, Bromus inermis, Bromus mollis, Bromus racemosus, Bromus secalinus, Bromus tectorum, Celosia cristata, Chenopodium album, Chenopodium amaranticolor, Chenopodium capitatum, Chenopodium murale, Chenopodium quinoa, Cicer arietinum, Cucumis sativus, Cucurbita maxima, Cucurbita pepo, Cyamopsis tetragonoloba, Cynosurus cristatus, Dactylis glomerata, Datura metel, Datura stramonium, Dinebra retroflexa, Eremochloa ophiuroides, or Fabaceae, Festuca pratensis, Festuca rubra, Glycine max, Gomphrena globosa, Holcus lanatus, Hordeum vulgare, Lagurus ovatus, Lamarckia aurea, Lolium multiflorum, Lolium multiflorum x L. perenne, Lolium perenne, Lolium persicum, Lolium temulentum, Lupinus albus, Lupinus angustifolius, Medicago sativa, Medicago scutellata, Momordica balsamina, Muhlenbergia schreberi, Nicandra physalodes, Nicotiana benthamiana, Nicotiana bigelovii, Nicotiana clevelandii, Nicotiana debneyi, Nicotiana glutinosa, Nicotiana megalosiphon, Nicotiana rustica, Nicotiana tabacum, Nicotiana velutina, Nicotiana x edwardsonii, Olea europaea, Oryza barthii, Oryza longistaminata, Oryza punctata, Oryza sativa, Panicum dichotomiflorum, Panicum miliaceum, Panicum virgatum, Paspalum membranaceum, Petunia x hybrida, Phalaris arundinacea, Phaseolus lunatus, Phaseolus vulgaris, Phleum arenarium, Phleum pratense, Pisum sativum, Poa annua, Poa compressa, Poa trivialis, Prunus domestica, Rottboellia cochinchinensis, Secale cereale, Setaria italica, Setaria viridis, or Solanaceae, Solanum melongena, Solanum nigrum, Solanum nitidibaccatum, Solanum nodiflorum, Solanum rostratum, Sorghum bicolor, Spinacia oleracea, Stenotaphrum secundatum, Tetragonia tetragonioides, Trifolium incarnatum, Trifolium subterraneum, Triticum aestivum, Triticum durum, Vaccinium, Vaccinium angustifolium, Vaccinium corymbosum, Vicia faba, Vicia sativa, Vigna mungo, Vigna radiata, Vigna unguiculata, Vigna unguiculata ssp. sesquipedalis , Vitis, Zea mays, Zingiber officinale, Zinnia elegans.

Experimentally infected insusceptible Hosts: Families containing insusceptible hosts: Amaranthaceae, Apocynaceae, or Caryophyllaceae, Chenopodiaceae, Compositae, Cruciferae, or Cucurbitaceae, Gramineae, Leguminosae-Caesalpinioideae, or Leguminosae-Papilionoideae, Liliaceae, Musaceae, Scrophulariaceae, or Solanaceae, Tetragoniaceae, Umbelliferae, Zingiberaceae (1/13). Species inoculated with virus that do not show signs of susceptibility: Amaranthus retroflexus, Anthoxanthum odoratum, Apium graveolens, Arachis hypogaea, Avena sativa, Beta vulgaris, Brassica campestris, Brassica campestris ssp. pekinensis, Brassica oleracea var. capitata, Bromus commutatus, Bromus mollis, Bromus sterilis, Cajanus cajan, Calendula officinalis, Capsicum annuum, Capsicum frutescens, Cassia occidentalis, Cassia tora, Catharanthus roseus, Chenopodium album, Chenopodium amaranticolor, Chenopodium ambrosioides, Chenopodium capitatum, Chenopodium foetidum, Chenopodium foliosum, Chenopodium hybridum, Chenopodium murale, Chenopodium quinoa, Cicer arietinum, Crotalaria spectabilis, Cucumis melo, Cucumis sativus, Cucurbita maxima, Cucurbita pepo, Cyamopsis tetragonoloba, Dactylis glomerata, Datura metel, Datura stramonium, Daucus carota, Dianthus barbatus, Echinochloa colona, Echinochloa crus-galli, Elettaria cardamomum, Elytrigia intermedia, Elytrigia repens, Festuca pratensis, Glycine max, Gomphrena globosa, Hedychium gardnerianum, Helianthus annuus, Hordeum vulgare, Lablab purpureus, Lactuca sativa, Lamarckia aurea, Lens culinaris, Lilium formosanum, Lolium multiflorum, Lolium perenne, Lotus corniculatus, Lupinus albus, Lycopersicon esculentum, Macroptilium lathyroides, Macrotyloma uniflorum, Medicago sativa, Melilotus albus, Momordica balsamina, Musa acuminata, Musa balbisiana, Nicotiana benthamiana, Nicotiana clevelandii, Nicotiana debneyi, Nicotiana glutinosa, Nicotiana megalosiphon, Nicotiana rustica, Nicotiana sylvestris, Nicotiana tabacum, Oryza sativa, Panicum miliaceum, Petunia x hybrida, Phalaris arundinacea, Phaseolus lunatus, Phaseolus vulgaris, Phleum pratense, Physalis floridana, Pisum sativum, Poa annua, Poa pratensis, Poa trivialis, Secale cereale, Sesbania exaltata, Setaria italica, Setaria viridis, Solanum melongena, Solanum nigrum, Solanum nodiflorum, Sorghum bicolor, Sorghum halepense, Spinacia oleracea, Tetragonia tetragonioides, Tithonia speciosa, Torenia fournieri, Trifolium incarnatum, Trifolium pratense, Trifolium repens, Trifolium subterraneum, Triticum aestivum, Triticum durum, Vicia faba, Vigna angularis, Vigna radiata, Vigna unguiculata, Vigna unguiculata ssp. cylindrica, Zea mays, Zinnia elegans.

Histopathology: Virions are found in the cytoplasm, or nucleus, or cell vacuole.

Cytopathology: Inclusions are present in infected cells, or not present in infected cells. Inclusion bodies in the host cell are found in the cytoplasm. Cytoplasmic inclusions are crystals, or membranous bodies. Inclusions contain mature virions.

Geographical Distribution

The virus spreads in Africa, or North America, or South and Central Americas. The virus occurs in Australia, or Bulgaria, or Burkina Faso, or Canada, or Cote d'Ivoire, or Czechoslovakia (former), or Denmark, or France, or Germany, or Italy, or Japan, or Kenya, or Liberia, or Mali, or Mexico, or New Zealand (Aotearoa), or Niger, or Nigeria, or Norway, or Sierra Leone, or Tanzania, or the United Kingdom, or the United States of America, or Yugoslavia.

Taxonomic Structure of the Genus

Type species 00.067.0.01.001. Southern bean mosaic virus .

Species in the Genus

List of Species in the Genus.
Tentative Species in the Genus.

Data Sources and Contributions

The description has been compiled from data in the ICTV Report presented by Hull R.

References

The following generic references are cited in the most recent ICTV Report.

PubMed References.

Images

Taxon images: • EM from IACR Rothamsted.



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DELTA - DEscription Language for TAxonomy developed by Dr Mike Dallwitz, Toni Paine and Eric Zurcher, CSIRO Entomology, Canberra, Australia. ICTVdB - The Universal Virus Database, developed for the International Committee on Taxonomy of Viruses by Dr Cornelia Büchen-Osmond is written in DELTA. The virus descriptions in ICTVdB are coded by, or using data from experts in the field of virology or members ICTV. The character list is the underlying code. All virus descriptions are based on the character list and natural language translations are automatically generated and formatted for display on the Web from the descriptions in DELTA-format. The description has been generated automatically from DELTA files. DELTA - DEscription Language for TAxonomy developed by Dr Mike Dallwitz, Toni Paine and Eric Zurcher, CSIRO Entomology, Canberra, Australia.

ICTVdB - The Universal Virus Database, developed for the International Committee on Taxonomy of Viruses (ICTV) by Dr Cornelia Büchen-Osmond, is written in DELTA. The virus descriptions in ICTVdB are coded by ICTV members and experts, or by the ICTVdB Management using data provided by the experts, the literature or the latest ICTV Report. The character list is the underlying code. All virus descriptions are based on the character list and natural language translations from the encoded descriptions are automatically generated and formatted for display on the Web.

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Last updated on 25 April 2006 by Cornelia Büchen-Osmond
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