Genome sequence of a white rot fungus Schizopora paradoxa KUC8140 for wood decay and mycoremediation
•First draft genome sequence of a saprophytic white rot fungus, Schizopora paradoxa KUC8140.•Supplementing the lignocellulosic biomass decay models.•Potential biotechnological application of S. paradoxa KUC8149 in mycoremediation. Schizopora paradoxa KUC8140 is a white rot wood degrader commonly fou...
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| Veröffentlicht in: | Journal of biotechnology 2015-10, Vol.211 (C), p.42-43 |
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| creator | Min, Byoungnam Park, Hongjae Jang, Yeongseon Kim, Jae-Jin Kim, Kyoung Heon Pangilinan, Jasmyn Lipzen, Anna Riley, Robert Grigoriev, Igor V. Spatafora, Joseph W. Choi, In-Geol |
| description | •First draft genome sequence of a saprophytic white rot fungus, Schizopora paradoxa KUC8140.•Supplementing the lignocellulosic biomass decay models.•Potential biotechnological application of S. paradoxa KUC8149 in mycoremediation.
Schizopora paradoxa KUC8140 is a white rot wood degrader commonly found in Korea. Tolerance to heavy metals and polycyclic aromatic hydrocarbons and dye decolorization activity make this strain a potential candidate for mycoremediation. We report the genome sequence of S. paradoxa KUC8140 containing 44.4Mbp. Based on ab initio gene prediction, homology search and RNA-seq, total 17,098 gene models were annotated. We identified 17 lignin-modifying peroxidases and other 377 carbohydrate-active enzymes for modeling lignocellulose deconstruction and mycoremediation. |
| doi_str_mv | 10.1016/j.jbiotec.2015.06.426 |
| format | Article |
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Schizopora paradoxa KUC8140 is a white rot wood degrader commonly found in Korea. Tolerance to heavy metals and polycyclic aromatic hydrocarbons and dye decolorization activity make this strain a potential candidate for mycoremediation. We report the genome sequence of S. paradoxa KUC8140 containing 44.4Mbp. Based on ab initio gene prediction, homology search and RNA-seq, total 17,098 gene models were annotated. We identified 17 lignin-modifying peroxidases and other 377 carbohydrate-active enzymes for modeling lignocellulose deconstruction and mycoremediation.</description><identifier>ISSN: 0168-1656</identifier><identifier>EISSN: 1873-4863</identifier><identifier>DOI: 10.1016/j.jbiotec.2015.06.426</identifier><identifier>PMID: 26188242</identifier><language>eng</language><publisher>Netherlands: Elsevier B.V</publisher><subject>Basidiomycota - genetics ; Biodegradation, Environmental ; Decoloring ; Enzymes ; Gene sequencing ; Genes ; Genome, Fungal ; Genomes ; Mathematical models ; Mycoremediation ; Schizopora ; Schizopora paradoxa KUC8140 ; Searching ; Sequence Analysis, DNA ; White rot ; Wood ; Wood - microbiology ; Wood decaying fungus</subject><ispartof>Journal of biotechnology, 2015-10, Vol.211 (C), p.42-43</ispartof><rights>2015 Elsevier B.V.</rights><rights>Copyright © 2015 Elsevier B.V. All rights reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c608t-a85def2f3a3198628b44c1f6f8e1f5ab21ddc4f62abb4a7faf235c60113b27833</citedby><cites>FETCH-LOGICAL-c608t-a85def2f3a3198628b44c1f6f8e1f5ab21ddc4f62abb4a7faf235c60113b27833</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0168165615300407$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>230,314,776,780,881,3537,27901,27902,65306</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/26188242$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink><backlink>$$Uhttps://www.osti.gov/biblio/1246541$$D View this record in Osti.gov$$Hfree_for_read</backlink></links><search><creatorcontrib>Min, Byoungnam</creatorcontrib><creatorcontrib>Park, Hongjae</creatorcontrib><creatorcontrib>Jang, Yeongseon</creatorcontrib><creatorcontrib>Kim, Jae-Jin</creatorcontrib><creatorcontrib>Kim, Kyoung Heon</creatorcontrib><creatorcontrib>Pangilinan, Jasmyn</creatorcontrib><creatorcontrib>Lipzen, Anna</creatorcontrib><creatorcontrib>Riley, Robert</creatorcontrib><creatorcontrib>Grigoriev, Igor V.</creatorcontrib><creatorcontrib>Spatafora, Joseph W.</creatorcontrib><creatorcontrib>Choi, In-Geol</creatorcontrib><title>Genome sequence of a white rot fungus Schizopora paradoxa KUC8140 for wood decay and mycoremediation</title><title>Journal of biotechnology</title><addtitle>J Biotechnol</addtitle><description>•First draft genome sequence of a saprophytic white rot fungus, Schizopora paradoxa KUC8140.•Supplementing the lignocellulosic biomass decay models.•Potential biotechnological application of S. paradoxa KUC8149 in mycoremediation.
Schizopora paradoxa KUC8140 is a white rot wood degrader commonly found in Korea. Tolerance to heavy metals and polycyclic aromatic hydrocarbons and dye decolorization activity make this strain a potential candidate for mycoremediation. We report the genome sequence of S. paradoxa KUC8140 containing 44.4Mbp. Based on ab initio gene prediction, homology search and RNA-seq, total 17,098 gene models were annotated. We identified 17 lignin-modifying peroxidases and other 377 carbohydrate-active enzymes for modeling lignocellulose deconstruction and mycoremediation.</description><subject>Basidiomycota - genetics</subject><subject>Biodegradation, Environmental</subject><subject>Decoloring</subject><subject>Enzymes</subject><subject>Gene sequencing</subject><subject>Genes</subject><subject>Genome, Fungal</subject><subject>Genomes</subject><subject>Mathematical models</subject><subject>Mycoremediation</subject><subject>Schizopora</subject><subject>Schizopora paradoxa KUC8140</subject><subject>Searching</subject><subject>Sequence Analysis, DNA</subject><subject>White rot</subject><subject>Wood</subject><subject>Wood - microbiology</subject><subject>Wood decaying fungus</subject><issn>0168-1656</issn><issn>1873-4863</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqNkU1vEzEQhi0EomnhJ4AsTlx28fhrnRNCEbSIShygZ8vrD-Iouw72bkv49XiVwJWe5vK8M5r3QegVkBYIyHe7dtfHNHnbUgKiJbLlVD5BK1Ada7iS7ClaVU41IIW8QJel7AghfC3gObqgEpSinK6Qu_ZjGjwu_ufsR-txCtjgh22cPM5pwmEef8wFf7Pb-DsdUjb4YLJx6ZfBX-42CjjBIWX8kJLDzltzxGZ0eDjalP3gXTRTTOML9CyYffEvz_MK3X36-H1z09x-vf68-XDbWEnU1BglnA80MMNgrSRVPecWggzKQxCmp-Cc5UFS0_fcdMEEykSNArCedoqxK_TmtDeVKepi6xN2a9M4ejtpoFwKDhV6e4IOOdWfy6SHWKzf783o01w0dJ0idE0EeQTKpVIcJHsECkJKoB2tqDihNqdSsg_6kONg8lED0YtbvdNnt3pxq4nU1W3NvT6fmPta7b_UX5kVeH8CfO34Pvq8VLBIdTEvDbgU_3PiD2rYtow</recordid><startdate>20151001</startdate><enddate>20151001</enddate><creator>Min, Byoungnam</creator><creator>Park, Hongjae</creator><creator>Jang, Yeongseon</creator><creator>Kim, Jae-Jin</creator><creator>Kim, Kyoung Heon</creator><creator>Pangilinan, Jasmyn</creator><creator>Lipzen, Anna</creator><creator>Riley, Robert</creator><creator>Grigoriev, Igor V.</creator><creator>Spatafora, Joseph W.</creator><creator>Choi, In-Geol</creator><general>Elsevier B.V</general><general>Elsevier</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7QO</scope><scope>7TM</scope><scope>8FD</scope><scope>FR3</scope><scope>M7N</scope><scope>P64</scope><scope>7U5</scope><scope>L7M</scope><scope>OTOTI</scope></search><sort><creationdate>20151001</creationdate><title>Genome sequence of a white rot fungus Schizopora paradoxa KUC8140 for wood decay and mycoremediation</title><author>Min, Byoungnam ; Park, Hongjae ; Jang, Yeongseon ; Kim, Jae-Jin ; Kim, Kyoung Heon ; Pangilinan, Jasmyn ; Lipzen, Anna ; Riley, Robert ; Grigoriev, Igor V. ; Spatafora, Joseph W. ; Choi, In-Geol</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c608t-a85def2f3a3198628b44c1f6f8e1f5ab21ddc4f62abb4a7faf235c60113b27833</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Basidiomycota - genetics</topic><topic>Biodegradation, Environmental</topic><topic>Decoloring</topic><topic>Enzymes</topic><topic>Gene sequencing</topic><topic>Genes</topic><topic>Genome, Fungal</topic><topic>Genomes</topic><topic>Mathematical models</topic><topic>Mycoremediation</topic><topic>Schizopora</topic><topic>Schizopora paradoxa KUC8140</topic><topic>Searching</topic><topic>Sequence Analysis, DNA</topic><topic>White rot</topic><topic>Wood</topic><topic>Wood - microbiology</topic><topic>Wood decaying fungus</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Min, Byoungnam</creatorcontrib><creatorcontrib>Park, Hongjae</creatorcontrib><creatorcontrib>Jang, Yeongseon</creatorcontrib><creatorcontrib>Kim, Jae-Jin</creatorcontrib><creatorcontrib>Kim, Kyoung Heon</creatorcontrib><creatorcontrib>Pangilinan, Jasmyn</creatorcontrib><creatorcontrib>Lipzen, Anna</creatorcontrib><creatorcontrib>Riley, Robert</creatorcontrib><creatorcontrib>Grigoriev, Igor V.</creatorcontrib><creatorcontrib>Spatafora, Joseph W.</creatorcontrib><creatorcontrib>Choi, In-Geol</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Biotechnology Research Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Solid State and Superconductivity Abstracts</collection><collection>Advanced Technologies Database with Aerospace</collection><collection>OSTI.GOV</collection><jtitle>Journal of biotechnology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Min, Byoungnam</au><au>Park, Hongjae</au><au>Jang, Yeongseon</au><au>Kim, Jae-Jin</au><au>Kim, Kyoung Heon</au><au>Pangilinan, Jasmyn</au><au>Lipzen, Anna</au><au>Riley, Robert</au><au>Grigoriev, Igor V.</au><au>Spatafora, Joseph W.</au><au>Choi, In-Geol</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome sequence of a white rot fungus Schizopora paradoxa KUC8140 for wood decay and mycoremediation</atitle><jtitle>Journal of biotechnology</jtitle><addtitle>J Biotechnol</addtitle><date>2015-10-01</date><risdate>2015</risdate><volume>211</volume><issue>C</issue><spage>42</spage><epage>43</epage><pages>42-43</pages><issn>0168-1656</issn><eissn>1873-4863</eissn><abstract>•First draft genome sequence of a saprophytic white rot fungus, Schizopora paradoxa KUC8140.•Supplementing the lignocellulosic biomass decay models.•Potential biotechnological application of S. paradoxa KUC8149 in mycoremediation.
Schizopora paradoxa KUC8140 is a white rot wood degrader commonly found in Korea. Tolerance to heavy metals and polycyclic aromatic hydrocarbons and dye decolorization activity make this strain a potential candidate for mycoremediation. We report the genome sequence of S. paradoxa KUC8140 containing 44.4Mbp. Based on ab initio gene prediction, homology search and RNA-seq, total 17,098 gene models were annotated. We identified 17 lignin-modifying peroxidases and other 377 carbohydrate-active enzymes for modeling lignocellulose deconstruction and mycoremediation.</abstract><cop>Netherlands</cop><pub>Elsevier B.V</pub><pmid>26188242</pmid><doi>10.1016/j.jbiotec.2015.06.426</doi><tpages>2</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Journal of biotechnology, 2015-10, Vol.211 (C), p.42-43 |
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| subjects | Basidiomycota - genetics Biodegradation, Environmental Decoloring Enzymes Gene sequencing Genes Genome, Fungal Genomes Mathematical models Mycoremediation Schizopora Schizopora paradoxa KUC8140 Searching Sequence Analysis, DNA White rot Wood Wood - microbiology Wood decaying fungus |
| title | Genome sequence of a white rot fungus Schizopora paradoxa KUC8140 for wood decay and mycoremediation |
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