Molecular epidemiology of Impatiens necrotic spot virus on greenhouse ornamental plants in a local area of Japan
Impatiens necrotic spot virus (INSV), belonging to the genus Tospovirus, causes severe damage to greenhouse ornamental plants. We conducted population genetic analyses of INSV isolated from various greenhouse flowers in Iwate Prefecture as a model to elucidate how the virus invaded and spread within...
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description | Impatiens necrotic spot virus (INSV), belonging to the genus Tospovirus, causes severe damage to greenhouse ornamental plants. We conducted population genetic analyses of INSV isolated from various greenhouse flowers in Iwate Prefecture as a model to elucidate how the virus invaded and spread within a local area of Japan. Forty-two and 30 sequences of the nucleocapsid protein gene (NG) and intergenic regions (IGR), respectively, of the small RNA of the virus were generated from 42 isolates collected from seven greenhouses in three districts, and then they were divided into 10 NG haplotypes and 13 IGR haplotypes. A combined haplotype analysis for the two loci revealed the presence of 14 NG/IGR haplotypes in the region. Genetic structure of the INSV population based on the NG sequences was differentiated according to districts and greenhouses, and 3 major NG haplotypes were predominant in each district. Genetic analysis based on IGR sequences showed that the population structure in some greenhouses consisted of 1 major IGR haplotype and some minor haplotypes with the same NG haplotype. Phylogenetic analysis based on NG and IGR sequences illustrated that INSV haplotypes were clustered according to geographic origin, including the isolates previously reported in Japan and other countries. Host species did not seem to influence the genetic structure of the INSV population. These results suggest that some founder isolates were introduced individually from other epidemic regions to each district in the region through different routes and then spread within the local areas and greenhouses. |
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We conducted population genetic analyses of INSV isolated from various greenhouse flowers in Iwate Prefecture as a model to elucidate how the virus invaded and spread within a local area of Japan. Forty-two and 30 sequences of the nucleocapsid protein gene (NG) and intergenic regions (IGR), respectively, of the small RNA of the virus were generated from 42 isolates collected from seven greenhouses in three districts, and then they were divided into 10 NG haplotypes and 13 IGR haplotypes. A combined haplotype analysis for the two loci revealed the presence of 14 NG/IGR haplotypes in the region. Genetic structure of the INSV population based on the NG sequences was differentiated according to districts and greenhouses, and 3 major NG haplotypes were predominant in each district. Genetic analysis based on IGR sequences showed that the population structure in some greenhouses consisted of 1 major IGR haplotype and some minor haplotypes with the same NG haplotype. Phylogenetic analysis based on NG and IGR sequences illustrated that INSV haplotypes were clustered according to geographic origin, including the isolates previously reported in Japan and other countries. Host species did not seem to influence the genetic structure of the INSV population. These results suggest that some founder isolates were introduced individually from other epidemic regions to each district in the region through different routes and then spread within the local areas and greenhouses.</description><identifier>ISSN: 1345-2630</identifier><identifier>EISSN: 1610-739X</identifier><identifier>DOI: 10.1007/s10327-015-0615-x</identifier><identifier>CODEN: JGPPBQ</identifier><language>eng</language><publisher>Tokyo: Springer Japan</publisher><subject>Agriculture ; Biomedical and Life Sciences ; Epidemiology ; Genetic structure ; Greenhouses ; Haplotypes ; Impatiens necrotic spot virus ; Life Sciences ; Microbiology ; Ornamental plants ; Plant diseases ; Plant Pathology ; Population genetics ; Population structure ; Tospovirus ; Viral and Viroid Diseases</subject><ispartof>Journal of general plant pathology : JGPP, 2015-11, Vol.81 (6), p.429-438</ispartof><rights>The Phytopathological Society of Japan and Springer Japan 2015</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c509t-2753addd4f2e79e3a58baac2da1306b0366e8e8cbbbc648bf3a44d0a92c740263</citedby><cites>FETCH-LOGICAL-c509t-2753addd4f2e79e3a58baac2da1306b0366e8e8cbbbc648bf3a44d0a92c740263</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s10327-015-0615-x$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10327-015-0615-x$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27923,27924,41487,42556,51318</link.rule.ids></links><search><creatorcontrib>Nekoduka, Syuuichi</creatorcontrib><creatorcontrib>Kobayashi, Kappei</creatorcontrib><creatorcontrib>Fuji, Shin-ichi</creatorcontrib><creatorcontrib>Okuda, Mitsuru</creatorcontrib><creatorcontrib>Sano, Teruo</creatorcontrib><title>Molecular epidemiology of Impatiens necrotic spot virus on greenhouse ornamental plants in a local area of Japan</title><title>Journal of general plant pathology : JGPP</title><addtitle>J Gen Plant Pathol</addtitle><description>Impatiens necrotic spot virus (INSV), belonging to the genus Tospovirus, causes severe damage to greenhouse ornamental plants. We conducted population genetic analyses of INSV isolated from various greenhouse flowers in Iwate Prefecture as a model to elucidate how the virus invaded and spread within a local area of Japan. Forty-two and 30 sequences of the nucleocapsid protein gene (NG) and intergenic regions (IGR), respectively, of the small RNA of the virus were generated from 42 isolates collected from seven greenhouses in three districts, and then they were divided into 10 NG haplotypes and 13 IGR haplotypes. A combined haplotype analysis for the two loci revealed the presence of 14 NG/IGR haplotypes in the region. Genetic structure of the INSV population based on the NG sequences was differentiated according to districts and greenhouses, and 3 major NG haplotypes were predominant in each district. Genetic analysis based on IGR sequences showed that the population structure in some greenhouses consisted of 1 major IGR haplotype and some minor haplotypes with the same NG haplotype. Phylogenetic analysis based on NG and IGR sequences illustrated that INSV haplotypes were clustered according to geographic origin, including the isolates previously reported in Japan and other countries. Host species did not seem to influence the genetic structure of the INSV population. These results suggest that some founder isolates were introduced individually from other epidemic regions to each district in the region through different routes and then spread within the local areas and greenhouses.</description><subject>Agriculture</subject><subject>Biomedical and Life Sciences</subject><subject>Epidemiology</subject><subject>Genetic structure</subject><subject>Greenhouses</subject><subject>Haplotypes</subject><subject>Impatiens necrotic spot virus</subject><subject>Life Sciences</subject><subject>Microbiology</subject><subject>Ornamental plants</subject><subject>Plant diseases</subject><subject>Plant Pathology</subject><subject>Population genetics</subject><subject>Population structure</subject><subject>Tospovirus</subject><subject>Viral and Viroid 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epidemiology of Impatiens necrotic spot virus on greenhouse ornamental plants in a local area of Japan</title><author>Nekoduka, Syuuichi ; Kobayashi, Kappei ; Fuji, Shin-ichi ; Okuda, Mitsuru ; Sano, Teruo</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c509t-2753addd4f2e79e3a58baac2da1306b0366e8e8cbbbc648bf3a44d0a92c740263</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Agriculture</topic><topic>Biomedical and Life Sciences</topic><topic>Epidemiology</topic><topic>Genetic structure</topic><topic>Greenhouses</topic><topic>Haplotypes</topic><topic>Impatiens necrotic spot virus</topic><topic>Life Sciences</topic><topic>Microbiology</topic><topic>Ornamental plants</topic><topic>Plant diseases</topic><topic>Plant Pathology</topic><topic>Population genetics</topic><topic>Population structure</topic><topic>Tospovirus</topic><topic>Viral and Viroid Diseases</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Nekoduka, Syuuichi</creatorcontrib><creatorcontrib>Kobayashi, Kappei</creatorcontrib><creatorcontrib>Fuji, Shin-ichi</creatorcontrib><creatorcontrib>Okuda, Mitsuru</creatorcontrib><creatorcontrib>Sano, Teruo</creatorcontrib><collection>AGRIS</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Virology and AIDS Abstracts</collection><collection>Agricultural Science Collection</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Technology Research 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Pathol</stitle><date>2015-11-01</date><risdate>2015</risdate><volume>81</volume><issue>6</issue><spage>429</spage><epage>438</epage><pages>429-438</pages><issn>1345-2630</issn><eissn>1610-739X</eissn><coden>JGPPBQ</coden><abstract>Impatiens necrotic spot virus (INSV), belonging to the genus Tospovirus, causes severe damage to greenhouse ornamental plants. We conducted population genetic analyses of INSV isolated from various greenhouse flowers in Iwate Prefecture as a model to elucidate how the virus invaded and spread within a local area of Japan. Forty-two and 30 sequences of the nucleocapsid protein gene (NG) and intergenic regions (IGR), respectively, of the small RNA of the virus were generated from 42 isolates collected from seven greenhouses in three districts, and then they were divided into 10 NG haplotypes and 13 IGR haplotypes. A combined haplotype analysis for the two loci revealed the presence of 14 NG/IGR haplotypes in the region. Genetic structure of the INSV population based on the NG sequences was differentiated according to districts and greenhouses, and 3 major NG haplotypes were predominant in each district. Genetic analysis based on IGR sequences showed that the population structure in some greenhouses consisted of 1 major IGR haplotype and some minor haplotypes with the same NG haplotype. Phylogenetic analysis based on NG and IGR sequences illustrated that INSV haplotypes were clustered according to geographic origin, including the isolates previously reported in Japan and other countries. Host species did not seem to influence the genetic structure of the INSV population. These results suggest that some founder isolates were introduced individually from other epidemic regions to each district in the region through different routes and then spread within the local areas and greenhouses.</abstract><cop>Tokyo</cop><pub>Springer Japan</pub><doi>10.1007/s10327-015-0615-x</doi><tpages>10</tpages></addata></record> |
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subjects | Agriculture Biomedical and Life Sciences Epidemiology Genetic structure Greenhouses Haplotypes Impatiens necrotic spot virus Life Sciences Microbiology Ornamental plants Plant diseases Plant Pathology Population genetics Population structure Tospovirus Viral and Viroid Diseases |
title | Molecular epidemiology of Impatiens necrotic spot virus on greenhouse ornamental plants in a local area of Japan |
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