The diversity of retrotransposons in the yeast Cryptococcus neoformans
We have undertaken an analysis of the retrotransposons in the medically important basidiomycetous fungus Cryptococcus neoformans. Using the data generated by a C. neoformans genome sequencing project at the Stanford Genome Technology Center, 15 distinct families of LTR retrotransposons and several f...
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Veröffentlicht in: | Yeast (Chichester, England) England), 2001-06, Vol.18 (9), p.865-880 |
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description | We have undertaken an analysis of the retrotransposons in the medically important basidiomycetous fungus Cryptococcus neoformans. Using the data generated by a C. neoformans genome sequencing project at the Stanford Genome Technology Center, 15 distinct families of LTR retrotransposons and several families of non‐LTR retrotransposons were identified. Members of at least seven families have transposed recently and are probably still active. For several families, only partial elements could be identified and these are quite diverse in sequence, suggesting that they are ancient components of the C. neoformans genome. Most C. neoformans elements are not closely related to previously identified fungal retrotransposons, suggesting that the diversity of fungal retrotransposons has been only sparsely sampled to date. C. neoformans has fewer distinct retrotransposon families than Candida albicans (37 or more), in particular fewer families represented solely by ancient and inactive elements, but it has considerably more families than either Saccharomyces cerevisiae (five) or Schizosaccharomyces pombe (two). The findings suggest that elimination of retrotransposons is faster in C. neoformans than in C. albicans, but perhaps not as rapid as in S. cerevisiae or Sz. pombe. The identification of the retrotransposons of C. neoformans should assist in the molecular characterization of this important pathogen, and also further our understanding of the role played by retroelements in genome evolution. Copyright © 2001 John Wiley & Sons, Ltd. |
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D. ; Poulter, Russell T. M.</creator><creatorcontrib>Goodwin, Timothy J. D. ; Poulter, Russell T. M.</creatorcontrib><description>We have undertaken an analysis of the retrotransposons in the medically important basidiomycetous fungus Cryptococcus neoformans. Using the data generated by a C. neoformans genome sequencing project at the Stanford Genome Technology Center, 15 distinct families of LTR retrotransposons and several families of non‐LTR retrotransposons were identified. Members of at least seven families have transposed recently and are probably still active. For several families, only partial elements could be identified and these are quite diverse in sequence, suggesting that they are ancient components of the C. neoformans genome. Most C. neoformans elements are not closely related to previously identified fungal retrotransposons, suggesting that the diversity of fungal retrotransposons has been only sparsely sampled to date. C. neoformans has fewer distinct retrotransposon families than Candida albicans (37 or more), in particular fewer families represented solely by ancient and inactive elements, but it has considerably more families than either Saccharomyces cerevisiae (five) or Schizosaccharomyces pombe (two). The findings suggest that elimination of retrotransposons is faster in C. neoformans than in C. albicans, but perhaps not as rapid as in S. cerevisiae or Sz. pombe. The identification of the retrotransposons of C. neoformans should assist in the molecular characterization of this important pathogen, and also further our understanding of the role played by retroelements in genome evolution. Copyright © 2001 John Wiley & Sons, Ltd.</description><identifier>ISSN: 0749-503X</identifier><identifier>EISSN: 1097-0061</identifier><identifier>DOI: 10.1002/yea.733</identifier><identifier>PMID: 11427969</identifier><language>eng</language><publisher>Chichester, UK: John Wiley & Sons, Ltd</publisher><subject>Amino Acid Sequence ; Base Sequence ; Candida albicans ; Conserved Sequence - genetics ; Cryptococcus neoformans ; Cryptococcus neoformans - genetics ; DNA, Fungal - genetics ; Evolution, Molecular ; Fungal Proteins - chemistry ; Fungal Proteins - genetics ; Genes, Fungal - genetics ; genome ; Genome, Fungal ; Molecular Sequence Data ; Multigene Family - genetics ; Phylogeny ; Retroelements - genetics ; retrotransposon ; Saccharomyces cerevisiae ; Schizosaccharomyces pombe ; Sequence Analysis, DNA ; Terminal Repeat Sequences - genetics ; yeast</subject><ispartof>Yeast (Chichester, England), 2001-06, Vol.18 (9), p.865-880</ispartof><rights>Copyright © 2001 John Wiley & Sons, Ltd.</rights><rights>Copyright 2001 John Wiley & Sons, Ltd.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4103-2616ed4d6f41421e43d5cefb35254a1891c5b09c1d3639cbd259cc5bec57ae8a3</citedby><cites>FETCH-LOGICAL-c4103-2616ed4d6f41421e43d5cefb35254a1891c5b09c1d3639cbd259cc5bec57ae8a3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1002%2Fyea.733$$EPDF$$P50$$Gwiley$$H</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1002%2Fyea.733$$EHTML$$P50$$Gwiley$$H</linktohtml><link.rule.ids>314,780,784,1417,1433,27924,27925,45574,45575,46409,46833</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/11427969$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Goodwin, Timothy J. D.</creatorcontrib><creatorcontrib>Poulter, Russell T. M.</creatorcontrib><title>The diversity of retrotransposons in the yeast Cryptococcus neoformans</title><title>Yeast (Chichester, England)</title><addtitle>Yeast</addtitle><description>We have undertaken an analysis of the retrotransposons in the medically important basidiomycetous fungus Cryptococcus neoformans. Using the data generated by a C. neoformans genome sequencing project at the Stanford Genome Technology Center, 15 distinct families of LTR retrotransposons and several families of non‐LTR retrotransposons were identified. Members of at least seven families have transposed recently and are probably still active. For several families, only partial elements could be identified and these are quite diverse in sequence, suggesting that they are ancient components of the C. neoformans genome. Most C. neoformans elements are not closely related to previously identified fungal retrotransposons, suggesting that the diversity of fungal retrotransposons has been only sparsely sampled to date. C. neoformans has fewer distinct retrotransposon families than Candida albicans (37 or more), in particular fewer families represented solely by ancient and inactive elements, but it has considerably more families than either Saccharomyces cerevisiae (five) or Schizosaccharomyces pombe (two). The findings suggest that elimination of retrotransposons is faster in C. neoformans than in C. albicans, but perhaps not as rapid as in S. cerevisiae or Sz. pombe. The identification of the retrotransposons of C. neoformans should assist in the molecular characterization of this important pathogen, and also further our understanding of the role played by retroelements in genome evolution. Copyright © 2001 John Wiley & Sons, Ltd.</description><subject>Amino Acid Sequence</subject><subject>Base Sequence</subject><subject>Candida albicans</subject><subject>Conserved Sequence - genetics</subject><subject>Cryptococcus neoformans</subject><subject>Cryptococcus neoformans - genetics</subject><subject>DNA, Fungal - genetics</subject><subject>Evolution, Molecular</subject><subject>Fungal Proteins - chemistry</subject><subject>Fungal Proteins - genetics</subject><subject>Genes, Fungal - genetics</subject><subject>genome</subject><subject>Genome, Fungal</subject><subject>Molecular Sequence Data</subject><subject>Multigene Family - genetics</subject><subject>Phylogeny</subject><subject>Retroelements - genetics</subject><subject>retrotransposon</subject><subject>Saccharomyces cerevisiae</subject><subject>Schizosaccharomyces pombe</subject><subject>Sequence Analysis, DNA</subject><subject>Terminal Repeat Sequences - genetics</subject><subject>yeast</subject><issn>0749-503X</issn><issn>1097-0061</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2001</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqF0EFLwzAUB_AgiptT_AbSkx6k872maZejjE2FgZcJeipp-oqVtqlJq_Tbm7GBJ_H0IPz4570_Y5cIcwSI7kZS85TzIzZFkGkIkOAxm0Iay1AAf52wM-c-ABBFtDhlE8Q4SmUip2y9faegqL7IuqofA1MGlnpreqta1xlnWhdUbdB75L9wfbC0Y9cbbbQeXNCSKY1tPD1nJ6WqHV0c5oy9rFfb5WO4eX54Wt5vQh0j8DBKMKEiLpIy9hsgxbwQmsqci0jEChcStchBaix4wqXOi0hI7Z9Ii1TRQvEZu97ndtZ8DuT6rKmcprpWfpfBZSnIBCPg_0JMJUgpdvBmD7U1zlkqs85WjbJjhpDtus384Znv1surQ-SQN1T8ukOZHtzuwXdV0_hXTva2ut_F_QBblILd</recordid><startdate>20010630</startdate><enddate>20010630</enddate><creator>Goodwin, Timothy J. D.</creator><creator>Poulter, Russell T. M.</creator><general>John Wiley & Sons, Ltd</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>8FD</scope><scope>FR3</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20010630</creationdate><title>The diversity of retrotransposons in the yeast Cryptococcus neoformans</title><author>Goodwin, Timothy J. D. ; Poulter, Russell T. M.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4103-2616ed4d6f41421e43d5cefb35254a1891c5b09c1d3639cbd259cc5bec57ae8a3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2001</creationdate><topic>Amino Acid Sequence</topic><topic>Base Sequence</topic><topic>Candida albicans</topic><topic>Conserved Sequence - genetics</topic><topic>Cryptococcus neoformans</topic><topic>Cryptococcus neoformans - genetics</topic><topic>DNA, Fungal - genetics</topic><topic>Evolution, Molecular</topic><topic>Fungal Proteins - chemistry</topic><topic>Fungal Proteins - genetics</topic><topic>Genes, Fungal - genetics</topic><topic>genome</topic><topic>Genome, Fungal</topic><topic>Molecular Sequence Data</topic><topic>Multigene Family - genetics</topic><topic>Phylogeny</topic><topic>Retroelements - genetics</topic><topic>retrotransposon</topic><topic>Saccharomyces cerevisiae</topic><topic>Schizosaccharomyces pombe</topic><topic>Sequence Analysis, DNA</topic><topic>Terminal Repeat Sequences - genetics</topic><topic>yeast</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Goodwin, Timothy J. D.</creatorcontrib><creatorcontrib>Poulter, Russell T. M.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</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>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Yeast (Chichester, England)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Goodwin, Timothy J. D.</au><au>Poulter, Russell T. M.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The diversity of retrotransposons in the yeast Cryptococcus neoformans</atitle><jtitle>Yeast (Chichester, England)</jtitle><addtitle>Yeast</addtitle><date>2001-06-30</date><risdate>2001</risdate><volume>18</volume><issue>9</issue><spage>865</spage><epage>880</epage><pages>865-880</pages><issn>0749-503X</issn><eissn>1097-0061</eissn><abstract>We have undertaken an analysis of the retrotransposons in the medically important basidiomycetous fungus Cryptococcus neoformans. Using the data generated by a C. neoformans genome sequencing project at the Stanford Genome Technology Center, 15 distinct families of LTR retrotransposons and several families of non‐LTR retrotransposons were identified. Members of at least seven families have transposed recently and are probably still active. For several families, only partial elements could be identified and these are quite diverse in sequence, suggesting that they are ancient components of the C. neoformans genome. Most C. neoformans elements are not closely related to previously identified fungal retrotransposons, suggesting that the diversity of fungal retrotransposons has been only sparsely sampled to date. C. neoformans has fewer distinct retrotransposon families than Candida albicans (37 or more), in particular fewer families represented solely by ancient and inactive elements, but it has considerably more families than either Saccharomyces cerevisiae (five) or Schizosaccharomyces pombe (two). The findings suggest that elimination of retrotransposons is faster in C. neoformans than in C. albicans, but perhaps not as rapid as in S. cerevisiae or Sz. pombe. The identification of the retrotransposons of C. neoformans should assist in the molecular characterization of this important pathogen, and also further our understanding of the role played by retroelements in genome evolution. Copyright © 2001 John Wiley & Sons, Ltd.</abstract><cop>Chichester, UK</cop><pub>John Wiley & Sons, Ltd</pub><pmid>11427969</pmid><doi>10.1002/yea.733</doi><tpages>16</tpages></addata></record> |
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subjects | Amino Acid Sequence Base Sequence Candida albicans Conserved Sequence - genetics Cryptococcus neoformans Cryptococcus neoformans - genetics DNA, Fungal - genetics Evolution, Molecular Fungal Proteins - chemistry Fungal Proteins - genetics Genes, Fungal - genetics genome Genome, Fungal Molecular Sequence Data Multigene Family - genetics Phylogeny Retroelements - genetics retrotransposon Saccharomyces cerevisiae Schizosaccharomyces pombe Sequence Analysis, DNA Terminal Repeat Sequences - genetics yeast |
title | The diversity of retrotransposons in the yeast Cryptococcus neoformans |
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