Molecular identification and phylogeny of Armillaria isolates from South America and Indo-Malaysia
Armillaria root rot is a serious disease, chiefly of woody plants, caused by many species of Armillaria that occur in temperate, tropical and subtropical regions of the world. Very little is known about Armillaria in South America and Southeast Asia, although Armillaria root rot is well known in the...
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| Veröffentlicht in: | Mycologia 2003-03, Vol.95 (2), p.285-293 |
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| creator | Coetzee, M.P.A Wingfield, B.D Bloomer, P Ridley, G.S Wingfield, M.J |
| description | Armillaria root rot is a serious disease, chiefly of woody plants, caused by many species of Armillaria that occur in temperate, tropical and subtropical regions of the world. Very little is known about Armillaria in South America and Southeast Asia, although Armillaria root rot is well known in these areas. In this study, we consider previously unidentified isolates collected from trees with symptoms of Armillaria root rot in Chile, Indonesia and Malaysia. In addition, isolates from basidiocarps resembling A. novae-zelandiae and A. limonea, originating from Chile and Argentina, respectively, were included in this study because their true identity has been uncertain. All isolates in this study were compared, based on their similarity in ITS sequences with previously sequenced Armillaria species, and their phylogenetic relationship with species from the Southern Hemisphere was considered. ITS sequence data for Armillaria also were compared with those available at GenBank. Parsimony and distance analyses were conducted to determine the phylogenetic relationships between the unknown isolates and the species that showed high ITS sequence similarity. In addition, IGS-1 sequence data were obtained for some of the species to validate the trees obtained from the ITS data set. Results of this study showed that the ITS sequences of the isolates obtained from basidiocarps resembling A. novae-zelandiae are most similar to those for this species. ITS sequences for isolates from Indonesia and Malaysia had the highest similarity to A. novae-zelandiae but were phylogenetically separated from this species. Isolates from Chile, for which basidiocarps were not found, were similar in their ITS and IGS-1 sequences to the isolate from Argentina that resembled A. limonea. These isolates, however, had the highest ITS and IGS-1 sequence similarity to authentic isolates of A. luteobubalina and were phylogenetically more closely related to this species than to A. limonea. |
| doi_str_mv | 10.1080/15572536.2004.11833113 |
| format | Article |
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Very little is known about Armillaria in South America and Southeast Asia, although Armillaria root rot is well known in these areas. In this study, we consider previously unidentified isolates collected from trees with symptoms of Armillaria root rot in Chile, Indonesia and Malaysia. In addition, isolates from basidiocarps resembling A. novae-zelandiae and A. limonea, originating from Chile and Argentina, respectively, were included in this study because their true identity has been uncertain. All isolates in this study were compared, based on their similarity in ITS sequences with previously sequenced Armillaria species, and their phylogenetic relationship with species from the Southern Hemisphere was considered. ITS sequence data for Armillaria also were compared with those available at GenBank. Parsimony and distance analyses were conducted to determine the phylogenetic relationships between the unknown isolates and the species that showed high ITS sequence similarity. In addition, IGS-1 sequence data were obtained for some of the species to validate the trees obtained from the ITS data set. Results of this study showed that the ITS sequences of the isolates obtained from basidiocarps resembling A. novae-zelandiae are most similar to those for this species. ITS sequences for isolates from Indonesia and Malaysia had the highest similarity to A. novae-zelandiae but were phylogenetically separated from this species. Isolates from Chile, for which basidiocarps were not found, were similar in their ITS and IGS-1 sequences to the isolate from Argentina that resembled A. limonea. These isolates, however, had the highest ITS and IGS-1 sequence similarity to authentic isolates of A. luteobubalina and were phylogenetically more closely related to this species than to A. limonea.</description><identifier>ISSN: 0027-5514</identifier><identifier>EISSN: 1557-2536</identifier><identifier>DOI: 10.1080/15572536.2004.11833113</identifier><identifier>PMID: 21156614</identifier><language>eng</language><publisher>England: Taylor & Francis</publisher><subject>Armillaria ; Armillaria limonea ; Armillaria luteobubalina ; Armillaria novae-zelandiae ; Biological taxonomies ; Fungal fruiting bodies ; IGS-1 ; Internal transcribed spacers ; ITS ; maximum parsimony analysis ; Molecular Evolution and Systematics ; molecular systematics ; Parsimony ; Phylogenetics ; Phylogeny ; Plant diseases ; plant pathogenic fungi ; Plant roots ; Polymerase chain reaction ; ribosomal DNA ; root rot ; sequence analysis ; systematics</subject><ispartof>Mycologia, 2003-03, Vol.95 (2), p.285-293</ispartof><rights>2004 by The Mycological Society of America 2004</rights><rights>Copyright 2003 The Mycological Society of America</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c365t-4aa0b4fff883c568429c361630a80833f7d727ef9f99da84213073a737531f953</citedby><cites>FETCH-LOGICAL-c365t-4aa0b4fff883c568429c361630a80833f7d727ef9f99da84213073a737531f953</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.jstor.org/stable/pdf/3762039$$EPDF$$P50$$Gjstor$$H</linktopdf><linktohtml>$$Uhttps://www.jstor.org/stable/3762039$$EHTML$$P50$$Gjstor$$H</linktohtml><link.rule.ids>314,776,780,799,27903,27904,57995,58228</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/21156614$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Coetzee, M.P.A</creatorcontrib><creatorcontrib>Wingfield, B.D</creatorcontrib><creatorcontrib>Bloomer, P</creatorcontrib><creatorcontrib>Ridley, G.S</creatorcontrib><creatorcontrib>Wingfield, M.J</creatorcontrib><title>Molecular identification and phylogeny of Armillaria isolates from South America and Indo-Malaysia</title><title>Mycologia</title><addtitle>Mycologia</addtitle><description>Armillaria root rot is a serious disease, chiefly of woody plants, caused by many species of Armillaria that occur in temperate, tropical and subtropical regions of the world. Very little is known about Armillaria in South America and Southeast Asia, although Armillaria root rot is well known in these areas. In this study, we consider previously unidentified isolates collected from trees with symptoms of Armillaria root rot in Chile, Indonesia and Malaysia. In addition, isolates from basidiocarps resembling A. novae-zelandiae and A. limonea, originating from Chile and Argentina, respectively, were included in this study because their true identity has been uncertain. All isolates in this study were compared, based on their similarity in ITS sequences with previously sequenced Armillaria species, and their phylogenetic relationship with species from the Southern Hemisphere was considered. ITS sequence data for Armillaria also were compared with those available at GenBank. Parsimony and distance analyses were conducted to determine the phylogenetic relationships between the unknown isolates and the species that showed high ITS sequence similarity. In addition, IGS-1 sequence data were obtained for some of the species to validate the trees obtained from the ITS data set. Results of this study showed that the ITS sequences of the isolates obtained from basidiocarps resembling A. novae-zelandiae are most similar to those for this species. ITS sequences for isolates from Indonesia and Malaysia had the highest similarity to A. novae-zelandiae but were phylogenetically separated from this species. Isolates from Chile, for which basidiocarps were not found, were similar in their ITS and IGS-1 sequences to the isolate from Argentina that resembled A. limonea. These isolates, however, had the highest ITS and IGS-1 sequence similarity to authentic isolates of A. luteobubalina and were phylogenetically more closely related to this species than to A. limonea.</description><subject>Armillaria</subject><subject>Armillaria limonea</subject><subject>Armillaria luteobubalina</subject><subject>Armillaria novae-zelandiae</subject><subject>Biological taxonomies</subject><subject>Fungal fruiting bodies</subject><subject>IGS-1</subject><subject>Internal transcribed spacers</subject><subject>ITS</subject><subject>maximum parsimony analysis</subject><subject>Molecular Evolution and Systematics</subject><subject>molecular systematics</subject><subject>Parsimony</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Plant diseases</subject><subject>plant pathogenic fungi</subject><subject>Plant roots</subject><subject>Polymerase chain reaction</subject><subject>ribosomal DNA</subject><subject>root rot</subject><subject>sequence analysis</subject><subject>systematics</subject><issn>0027-5514</issn><issn>1557-2536</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2003</creationdate><recordtype>article</recordtype><recordid>eNqFkUFP3DAQha2qVdnS_gXqQ1VOWTyxndjHFWopEqgH4GzNJjYYJfHWToT239chbNUTnCzrfe95xo-QE2BrYIqdgZR1KXm1LhkTawDFOQB_R1azUMzKe7JirKwLKUEckU8pPeZrVtlHclQCyKoCsSLb69DZZuowUt_aYfTONzj6MFAcWrp72Hfh3g57GhzdxN53GfRIfQodjjZRF0NPb8I0PtBNb2P2PvsuhzYU19jhPnn8TD447JL98nIek7ufP27PfxVXvy8uzzdXRcMrORYCkW2Fc04p3shKiVJnASrOULG8nqvbuqyt007rFrMMnNUca15LDk5LfkxOl9xdDH8mm0bT-9TYPPJgw5SMAiUYcDGT318lQSkQ6jmyWsAmhpSidWYXfY9xb4CZuQdz6MHMPZhDD9l48vLCtO1t-892-PgMfFuAxzSG-H9smdcyvK5KxnXGNgvmBxdij08hdq0ZMdcSXcSh8cnwN2f5umQ4DAbvY7bc3ZT5JxjTUmsm-F_8TKrt</recordid><startdate>200303</startdate><enddate>200303</enddate><creator>Coetzee, M.P.A</creator><creator>Wingfield, B.D</creator><creator>Bloomer, P</creator><creator>Ridley, G.S</creator><creator>Wingfield, M.J</creator><general>Taylor & Francis</general><general>Mycological Society of America</general><scope>FBQ</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>M7N</scope><scope>7X8</scope></search><sort><creationdate>200303</creationdate><title>Molecular identification and phylogeny of Armillaria isolates from South America and Indo-Malaysia</title><author>Coetzee, M.P.A ; Wingfield, B.D ; Bloomer, P ; Ridley, G.S ; Wingfield, M.J</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c365t-4aa0b4fff883c568429c361630a80833f7d727ef9f99da84213073a737531f953</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2003</creationdate><topic>Armillaria</topic><topic>Armillaria limonea</topic><topic>Armillaria luteobubalina</topic><topic>Armillaria novae-zelandiae</topic><topic>Biological taxonomies</topic><topic>Fungal fruiting bodies</topic><topic>IGS-1</topic><topic>Internal transcribed spacers</topic><topic>ITS</topic><topic>maximum parsimony analysis</topic><topic>Molecular Evolution and Systematics</topic><topic>molecular systematics</topic><topic>Parsimony</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Plant diseases</topic><topic>plant pathogenic fungi</topic><topic>Plant roots</topic><topic>Polymerase chain reaction</topic><topic>ribosomal DNA</topic><topic>root rot</topic><topic>sequence analysis</topic><topic>systematics</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Coetzee, M.P.A</creatorcontrib><creatorcontrib>Wingfield, B.D</creatorcontrib><creatorcontrib>Bloomer, P</creatorcontrib><creatorcontrib>Ridley, G.S</creatorcontrib><creatorcontrib>Wingfield, M.J</creatorcontrib><collection>AGRIS</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>MEDLINE - Academic</collection><jtitle>Mycologia</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Coetzee, M.P.A</au><au>Wingfield, B.D</au><au>Bloomer, P</au><au>Ridley, G.S</au><au>Wingfield, M.J</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Molecular identification and phylogeny of Armillaria isolates from South America and Indo-Malaysia</atitle><jtitle>Mycologia</jtitle><addtitle>Mycologia</addtitle><date>2003-03</date><risdate>2003</risdate><volume>95</volume><issue>2</issue><spage>285</spage><epage>293</epage><pages>285-293</pages><issn>0027-5514</issn><eissn>1557-2536</eissn><abstract>Armillaria root rot is a serious disease, chiefly of woody plants, caused by many species of Armillaria that occur in temperate, tropical and subtropical regions of the world. Very little is known about Armillaria in South America and Southeast Asia, although Armillaria root rot is well known in these areas. In this study, we consider previously unidentified isolates collected from trees with symptoms of Armillaria root rot in Chile, Indonesia and Malaysia. In addition, isolates from basidiocarps resembling A. novae-zelandiae and A. limonea, originating from Chile and Argentina, respectively, were included in this study because their true identity has been uncertain. All isolates in this study were compared, based on their similarity in ITS sequences with previously sequenced Armillaria species, and their phylogenetic relationship with species from the Southern Hemisphere was considered. ITS sequence data for Armillaria also were compared with those available at GenBank. Parsimony and distance analyses were conducted to determine the phylogenetic relationships between the unknown isolates and the species that showed high ITS sequence similarity. In addition, IGS-1 sequence data were obtained for some of the species to validate the trees obtained from the ITS data set. Results of this study showed that the ITS sequences of the isolates obtained from basidiocarps resembling A. novae-zelandiae are most similar to those for this species. ITS sequences for isolates from Indonesia and Malaysia had the highest similarity to A. novae-zelandiae but were phylogenetically separated from this species. Isolates from Chile, for which basidiocarps were not found, were similar in their ITS and IGS-1 sequences to the isolate from Argentina that resembled A. limonea. These isolates, however, had the highest ITS and IGS-1 sequence similarity to authentic isolates of A. luteobubalina and were phylogenetically more closely related to this species than to A. limonea.</abstract><cop>England</cop><pub>Taylor & Francis</pub><pmid>21156614</pmid><doi>10.1080/15572536.2004.11833113</doi><tpages>9</tpages></addata></record> |
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| source | Jstor Complete Legacy; Alma/SFX Local Collection |
| subjects | Armillaria Armillaria limonea Armillaria luteobubalina Armillaria novae-zelandiae Biological taxonomies Fungal fruiting bodies IGS-1 Internal transcribed spacers ITS maximum parsimony analysis Molecular Evolution and Systematics molecular systematics Parsimony Phylogenetics Phylogeny Plant diseases plant pathogenic fungi Plant roots Polymerase chain reaction ribosomal DNA root rot sequence analysis systematics |
| title | Molecular identification and phylogeny of Armillaria isolates from South America and Indo-Malaysia |
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