Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus
[EN] Tomato mosaic virus (ToMV), a member of the genus Tobamovirus, infects several ornamental and horticultural crops worldwide. In this study, the nucleotide sequences of the coat protein gene of worldwide ToMV isolates were analyzed to estimate the genetic structure and diversity of this virus an...
Published in: | Virus Genes |
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Format: | Article in Journal/Newspaper |
Language: | English |
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Springer Verlag (Germany)
2011
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Online Access: | http://hdl.handle.net/10251/83102 https://doi.org/10.1007/s11262-011-0651-3 |
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Politechnical University of Valencia: RiuNet |
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topic |
Phylogeny Plant virus Selection Tobamovirus ToMV Water Article Aubergine Bootstrapping Bottleneck population Brazil China Cladistics Coat protein gene Controlled study Cornus Deglaciation Denmark Gene structure Genetic stability Genetic variability Genotype Geographic distribution Germany Higher plant Iran Kazakhstan Korea Lake Lilac Malaysia Molecular evolution Nonhuman Nucleotide sequence Pepper Priority journal Purifying selection Red spruce Sequence analysis Sequence homology Spain Stream (river) Taiwan Tea Tomato Tomato mosaic virus United States Virus gene Virus isolation Capsid Proteins |
spellingShingle |
Phylogeny Plant virus Selection Tobamovirus ToMV Water Article Aubergine Bootstrapping Bottleneck population Brazil China Cladistics Coat protein gene Controlled study Cornus Deglaciation Denmark Gene structure Genetic stability Genetic variability Genotype Geographic distribution Germany Higher plant Iran Kazakhstan Korea Lake Lilac Malaysia Molecular evolution Nonhuman Nucleotide sequence Pepper Priority journal Purifying selection Red spruce Sequence analysis Sequence homology Spain Stream (river) Taiwan Tea Tomato Tomato mosaic virus United States Virus gene Virus isolation Capsid Proteins Rangel, Ezequiel Alfaro Fernández, Ana Olvido Font San Ambrosio, Maria Isabel Luis-Arteaga, M. Rubio, Luis Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus |
topic_facet |
Phylogeny Plant virus Selection Tobamovirus ToMV Water Article Aubergine Bootstrapping Bottleneck population Brazil China Cladistics Coat protein gene Controlled study Cornus Deglaciation Denmark Gene structure Genetic stability Genetic variability Genotype Geographic distribution Germany Higher plant Iran Kazakhstan Korea Lake Lilac Malaysia Molecular evolution Nonhuman Nucleotide sequence Pepper Priority journal Purifying selection Red spruce Sequence analysis Sequence homology Spain Stream (river) Taiwan Tea Tomato Tomato mosaic virus United States Virus gene Virus isolation Capsid Proteins |
description |
[EN] Tomato mosaic virus (ToMV), a member of the genus Tobamovirus, infects several ornamental and horticultural crops worldwide. In this study, the nucleotide sequences of the coat protein gene of worldwide ToMV isolates were analyzed to estimate the genetic structure and diversity of this virus and the involved evolutionary forces. The phylogenetic analysis showed three clades with high bootstrap support: Clade I contained three ToMV isolates from Brazil collected from pepper, Clade II comprised one Brazilian ToMV isolate from pepper, and Clade III was composed of ToMV isolates collected from different plant hosts (pepper, tomato, eggplant, lilac, camellia, dogwood, red spruce, etc.) and water (from melting ice, lakes and streams) from different countries: USA, Brazil, Korea, Germany, Spain, Denmark (Greenland), China, Taiwan, Malaysia, Iran, and Kazakhstan. With the exception of Brazil, nucleotide diversity within and between different geographic regions was very low, although statistical analyses suggested some gene flow between most of these regions. Our analyses also suggested a strong negative selection which could have contributed to the genetic stability of ToMV. © Springer Science+Business Media, LLC 2011. E. A. Rangel was the recipient of a predoctoral fellowship from the Instituto Nacional de Investigaciones Agricolas (INIA) from Venezuela. Rangel, E.; Alfaro Fernández, AO.; Font San Ambrosio, MI.; Luis-Arteaga, M.; Rubio, L. (2011). Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus. Virus Genes. 43(3):435-438. doi:10.1007/s11262-011-0651-3 S 435 438 43 3 J. Holland, K. Spindler, F. Horodyski, E. Grabau, S. Nichol, S. VandePol, Science 215, 1577–1585 (1982) E.R. Chare, E.C. Holmes, Arch. Virol. 151, 933–948 (1996) A. Moya, E.C. Holmes, F. Gónzalez-Candelas, Nat. Rev. Microbiol. 2, 279–288 (2004) F. García-Arenal, A. Fraile, J.M. Malpica, Annu. Rev. Phytopathol. 39, 157–186 (2001) M.C. Vives, L. Rubio, L. Galipienso, L. Navarro, P. ... |
author2 |
Universitat Politècnica de València. Instituto Agroforestal Mediterráneo - Institut Agroforestal Mediterrani Universitat Politècnica de València. Escuela Técnica Superior de Ingeniería Agronómica y del Medio Natural - Escola Tècnica Superior d'Enginyeria Agronòmica i del Medi Natural Instituto Nacional de Investigaciones Agrícolas, Venezuela |
format |
Article in Journal/Newspaper |
author |
Rangel, Ezequiel Alfaro Fernández, Ana Olvido Font San Ambrosio, Maria Isabel Luis-Arteaga, M. Rubio, Luis |
author_facet |
Rangel, Ezequiel Alfaro Fernández, Ana Olvido Font San Ambrosio, Maria Isabel Luis-Arteaga, M. Rubio, Luis |
author_sort |
Rangel, Ezequiel |
title |
Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus |
title_short |
Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus |
title_full |
Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus |
title_fullStr |
Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus |
title_full_unstemmed |
Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus |
title_sort |
genetic variability and evolutionary analyses of the coat protein gene of tomato mosaic virus |
publisher |
Springer Verlag (Germany) |
publishDate |
2011 |
url |
http://hdl.handle.net/10251/83102 https://doi.org/10.1007/s11262-011-0651-3 |
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Alfaro Greenland Ice Lakes Navarro Rubio |
geographic_facet |
Alfaro Greenland Ice Lakes Navarro Rubio |
genre |
Greenland |
genre_facet |
Greenland |
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Virus Genes |
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ftunivpvalencia:oai:riunet.upv.es:10251/83102 2023-05-15T16:30:35+02:00 Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus Rangel, Ezequiel Alfaro Fernández, Ana Olvido Font San Ambrosio, Maria Isabel Luis-Arteaga, M. Rubio, Luis Universitat Politècnica de València. Instituto Agroforestal Mediterráneo - Institut Agroforestal Mediterrani Universitat Politècnica de València. Escuela Técnica Superior de Ingeniería Agronómica y del Medio Natural - Escola Tècnica Superior d'Enginyeria Agronòmica i del Medi Natural Instituto Nacional de Investigaciones Agrícolas, Venezuela 2011-12 http://hdl.handle.net/10251/83102 https://doi.org/10.1007/s11262-011-0651-3 eng eng Springer Verlag (Germany) Virus Genes http://doi.org/10.1007/s11262-011-0651-3 10.1126/science.7041255 10.1007/s00705-005-0675-x 10.1038/nrmicro863 10.1146/annurev.phyto.39.1.157 10.1099/0022-1317-83-10-2587 10.1099/vir.0.006858-0 10.1146/annurev.py.14.090176.000451 10.1111/j.1439-0434.2010.01706.x 10.1094/PDIS.1997.81.2.222 10.1016/S0166-0934(02)00135-0 10.1093/bioinformatics/btm404 10.1073/pnas.93.14.7085 10.1093/molbev/msr121 10.1099/0022-1317-83-10-2575 10.1006/viro.1996.0463 10.1007/BF02407308 10.1093/bioinformatics/bti320 10.1093/bioinformatics/btp187 10.1146/annurev.phyto.41.052002.095559 10.1128/JVI.74.7.3130-3134.2000 10.1016/S1369-5266(00)00090-X 10.1099/vir.0.80134-0 10.1146/annurev.phyto.39.1.419 10.1128/JVI.77.18.9906-9911.2003 10.1128/JVI.00568-06 10.1128/JVI.75.17.8054-8062.2001 urn:issn:0920-8569 http://hdl.handle.net/10251/83102 doi:10.1007/s11262-011-0651-3 21881940 http://rightsstatements.org/vocab/InC/1.0/ info:eu-repo/semantics/closedAccess Phylogeny Plant virus Selection Tobamovirus ToMV Water Article Aubergine Bootstrapping Bottleneck population Brazil China Cladistics Coat protein gene Controlled study Cornus Deglaciation Denmark Gene structure Genetic stability Genetic variability Genotype Geographic distribution Germany Higher plant Iran Kazakhstan Korea Lake Lilac Malaysia Molecular evolution Nonhuman Nucleotide sequence Pepper Priority journal Purifying selection Red spruce Sequence analysis Sequence homology Spain Stream (river) Taiwan Tea Tomato Tomato mosaic virus United States Virus gene Virus isolation Capsid Proteins info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion 2011 ftunivpvalencia https://doi.org/10.1007/s11262-011-0651-3 2022-06-12T20:41:43Z [EN] Tomato mosaic virus (ToMV), a member of the genus Tobamovirus, infects several ornamental and horticultural crops worldwide. In this study, the nucleotide sequences of the coat protein gene of worldwide ToMV isolates were analyzed to estimate the genetic structure and diversity of this virus and the involved evolutionary forces. The phylogenetic analysis showed three clades with high bootstrap support: Clade I contained three ToMV isolates from Brazil collected from pepper, Clade II comprised one Brazilian ToMV isolate from pepper, and Clade III was composed of ToMV isolates collected from different plant hosts (pepper, tomato, eggplant, lilac, camellia, dogwood, red spruce, etc.) and water (from melting ice, lakes and streams) from different countries: USA, Brazil, Korea, Germany, Spain, Denmark (Greenland), China, Taiwan, Malaysia, Iran, and Kazakhstan. With the exception of Brazil, nucleotide diversity within and between different geographic regions was very low, although statistical analyses suggested some gene flow between most of these regions. Our analyses also suggested a strong negative selection which could have contributed to the genetic stability of ToMV. © Springer Science+Business Media, LLC 2011. E. A. Rangel was the recipient of a predoctoral fellowship from the Instituto Nacional de Investigaciones Agricolas (INIA) from Venezuela. Rangel, E.; Alfaro Fernández, AO.; Font San Ambrosio, MI.; Luis-Arteaga, M.; Rubio, L. (2011). Genetic variability and evolutionary analyses of the coat protein gene of Tomato mosaic virus. Virus Genes. 43(3):435-438. doi:10.1007/s11262-011-0651-3 S 435 438 43 3 J. Holland, K. Spindler, F. Horodyski, E. Grabau, S. Nichol, S. VandePol, Science 215, 1577–1585 (1982) E.R. Chare, E.C. Holmes, Arch. Virol. 151, 933–948 (1996) A. Moya, E.C. Holmes, F. Gónzalez-Candelas, Nat. Rev. Microbiol. 2, 279–288 (2004) F. García-Arenal, A. Fraile, J.M. Malpica, Annu. Rev. Phytopathol. 39, 157–186 (2001) M.C. Vives, L. Rubio, L. Galipienso, L. Navarro, P. ... Article in Journal/Newspaper Greenland Politechnical University of Valencia: RiuNet Alfaro ENVELOPE(-60.967,-60.967,-64.200,-64.200) Greenland Ice Lakes ENVELOPE(-131.345,-131.345,60.413,60.413) Navarro ENVELOPE(-62.167,-62.167,-64.650,-64.650) Rubio ENVELOPE(-65.767,-65.767,-65.933,-65.933) Virus Genes 43 3 435 438 |