The mitochondrial genome of Moniliophthora roreri, the frosty pod rot pathogen of cacao
In this study, we report the sequence of the mitochondrial (mt) genome of the Basidiomycete fungus Moniliophthora roreri, which is the etiologic agent of frosty pod rot of cacao (Theobroma cacao L.). We also compare it to the mtDNA from the closely-related species Moniliophthora perniciosa, which ca...
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| Veröffentlicht in: | Fungal biology 2012-05, Vol.116 (5), p.551-562 |
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| creator | Costa, Gustavo G.L. Cabrera, Odalys G. Tiburcio, Ricardo A. Medrano, Francisco J. Carazzolle, Marcelo F. Thomazella, Daniela P.T. Schuster, Stephen C. Carlson, John E. Guiltinan, Mark J. Bailey, Bryan A. Mieczkowski, Piotr Pereira, Gonçalo A.G. Meinhardt, Lyndel W. |
| description | In this study, we report the sequence of the mitochondrial (mt) genome of the Basidiomycete fungus Moniliophthora roreri, which is the etiologic agent of frosty pod rot of cacao (Theobroma cacao L.). We also compare it to the mtDNA from the closely-related species Moniliophthora perniciosa, which causes witches’ broom disease of cacao. The 94 Kb mtDNA genome of M. roreri has a circular topology and codes for the typical 14 mt genes involved in oxidative phosphorylation. It also codes for both rRNA genes, a ribosomal protein subunit, 13 intronic open reading frames (ORFs), and a full complement of 27 tRNA genes. The conserved genes of M. roreri mtDNA are completely syntenic with homologous genes of the 109 Kb mtDNA of M. perniciosa. As in M. perniciosa, M. roreri mtDNA contains a high number of hypothetical ORFs (28), a remarkable feature that make Moniliophthoras the largest reservoir of hypothetical ORFs among sequenced fungal mtDNA. Additionally, the mt genome of M. roreri has three free invertron-like linear mt plasmids, one of which is very similar to that previously described as integrated into the main M. perniciosa mtDNA molecule. Moniliophthora roreri mtDNA also has a region of suspected plasmid origin containing 15 hypothetical ORFs distributed in both strands. One of these ORFs is similar to an ORF in the mtDNA gene encoding DNA polymerase in Pleurotus ostreatus. The comparison to M. perniciosa showed that the 15 Kb difference in mtDNA sizes is mainly attributed to a lower abundance of repetitive regions in M. roreri (5.8 Kb vs 20.7 Kb). The most notable differences between M. roreri and M. perniciosa mtDNA are attributed to repeats and regions of plasmid origin. These elements might have contributed to the rapid evolution of mtDNA. Since M. roreri is the second species of the genus Moniliophthora whose mtDNA genome has been sequenced, the data presented here contribute valuable information for understanding the evolution of fungal mt genomes among closely-related species.
► We report the 94 kbp mtDNA genome of the cacao pathogen Moniliophthora roreri. ► We compare M. roreri mt genome to its congener Moniliophthora perniciosa. ► Moniliophthora roreri harbours three free linear mt plasmids that encode DNA and RNA polymerases. ► One of the M. roreri free plasmids is 90 % similar to M. perniciosa integrated plasmid. ► Both Moniliophthoras have an atypical high number of hypothetical ORFs. |
| doi_str_mv | 10.1016/j.funbio.2012.01.008 |
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► We report the 94 kbp mtDNA genome of the cacao pathogen Moniliophthora roreri. ► We compare M. roreri mt genome to its congener Moniliophthora perniciosa. ► Moniliophthora roreri harbours three free linear mt plasmids that encode DNA and RNA polymerases. ► One of the M. roreri free plasmids is 90 % similar to M. perniciosa integrated plasmid. ► Both Moniliophthoras have an atypical high number of hypothetical ORFs.</description><identifier>ISSN: 1878-6146</identifier><identifier>EISSN: 1878-6162</identifier><identifier>DOI: 10.1016/j.funbio.2012.01.008</identifier><identifier>PMID: 22559916</identifier><language>eng</language><publisher>Netherlands: Elsevier Ltd</publisher><subject>Abundance ; Agaricales - classification ; Agaricales - genetics ; Agaricales - isolation & purification ; Base Sequence ; Basidiomycetes ; Basidiomycota ; Cacao - microbiology ; Chromosome Mapping ; Data processing ; DNA-directed DNA polymerase ; Evolution ; Frosty pod rot ; fungi ; genes ; Genome, Mitochondrial ; Genomes ; Mitochondria ; Mitochondrial DNA ; Mitochondrial genome ; Mitochondrial plasmids ; Molecular Sequence Data ; Moniliophthora perniciosa ; Moniliophthora roreri ; Nucleotide sequence ; Open reading frames ; Oxidative phosphorylation ; Pathogens ; Phylogeny ; Plant Diseases - microbiology ; Plasmids ; Pleurotus ostreatus ; Pod rot ; protein subunits ; Ribosomal proteins ; ribosomal RNA ; rRNA ; Synteny ; Theobroma cacao ; topology ; transfer RNA ; tRNA ; Witches’ broom disease</subject><ispartof>Fungal biology, 2012-05, Vol.116 (5), p.551-562</ispartof><rights>2012</rights><rights>Crown Copyright © 2012. Published by Elsevier Ltd. All rights reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c485t-2f1c549e7924b223e08b72a67e7d2291a45c74abcea5d5eb3df1508752adebcb3</citedby><cites>FETCH-LOGICAL-c485t-2f1c549e7924b223e08b72a67e7d2291a45c74abcea5d5eb3df1508752adebcb3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S1878614612000244$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65534</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/22559916$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Costa, Gustavo G.L.</creatorcontrib><creatorcontrib>Cabrera, Odalys G.</creatorcontrib><creatorcontrib>Tiburcio, Ricardo A.</creatorcontrib><creatorcontrib>Medrano, Francisco J.</creatorcontrib><creatorcontrib>Carazzolle, Marcelo F.</creatorcontrib><creatorcontrib>Thomazella, Daniela P.T.</creatorcontrib><creatorcontrib>Schuster, Stephen C.</creatorcontrib><creatorcontrib>Carlson, John E.</creatorcontrib><creatorcontrib>Guiltinan, Mark J.</creatorcontrib><creatorcontrib>Bailey, Bryan A.</creatorcontrib><creatorcontrib>Mieczkowski, Piotr</creatorcontrib><creatorcontrib>Pereira, Gonçalo A.G.</creatorcontrib><creatorcontrib>Meinhardt, Lyndel W.</creatorcontrib><title>The mitochondrial genome of Moniliophthora roreri, the frosty pod rot pathogen of cacao</title><title>Fungal biology</title><addtitle>Fungal Biol</addtitle><description>In this study, we report the sequence of the mitochondrial (mt) genome of the Basidiomycete fungus Moniliophthora roreri, which is the etiologic agent of frosty pod rot of cacao (Theobroma cacao L.). We also compare it to the mtDNA from the closely-related species Moniliophthora perniciosa, which causes witches’ broom disease of cacao. The 94 Kb mtDNA genome of M. roreri has a circular topology and codes for the typical 14 mt genes involved in oxidative phosphorylation. It also codes for both rRNA genes, a ribosomal protein subunit, 13 intronic open reading frames (ORFs), and a full complement of 27 tRNA genes. The conserved genes of M. roreri mtDNA are completely syntenic with homologous genes of the 109 Kb mtDNA of M. perniciosa. As in M. perniciosa, M. roreri mtDNA contains a high number of hypothetical ORFs (28), a remarkable feature that make Moniliophthoras the largest reservoir of hypothetical ORFs among sequenced fungal mtDNA. Additionally, the mt genome of M. roreri has three free invertron-like linear mt plasmids, one of which is very similar to that previously described as integrated into the main M. perniciosa mtDNA molecule. Moniliophthora roreri mtDNA also has a region of suspected plasmid origin containing 15 hypothetical ORFs distributed in both strands. One of these ORFs is similar to an ORF in the mtDNA gene encoding DNA polymerase in Pleurotus ostreatus. The comparison to M. perniciosa showed that the 15 Kb difference in mtDNA sizes is mainly attributed to a lower abundance of repetitive regions in M. roreri (5.8 Kb vs 20.7 Kb). The most notable differences between M. roreri and M. perniciosa mtDNA are attributed to repeats and regions of plasmid origin. These elements might have contributed to the rapid evolution of mtDNA. Since M. roreri is the second species of the genus Moniliophthora whose mtDNA genome has been sequenced, the data presented here contribute valuable information for understanding the evolution of fungal mt genomes among closely-related species.
► We report the 94 kbp mtDNA genome of the cacao pathogen Moniliophthora roreri. ► We compare M. roreri mt genome to its congener Moniliophthora perniciosa. ► Moniliophthora roreri harbours three free linear mt plasmids that encode DNA and RNA polymerases. ► One of the M. roreri free plasmids is 90 % similar to M. perniciosa integrated plasmid. ► Both Moniliophthoras have an atypical high number of hypothetical ORFs.</description><subject>Abundance</subject><subject>Agaricales - classification</subject><subject>Agaricales - genetics</subject><subject>Agaricales - isolation & purification</subject><subject>Base Sequence</subject><subject>Basidiomycetes</subject><subject>Basidiomycota</subject><subject>Cacao - microbiology</subject><subject>Chromosome Mapping</subject><subject>Data processing</subject><subject>DNA-directed DNA polymerase</subject><subject>Evolution</subject><subject>Frosty pod rot</subject><subject>fungi</subject><subject>genes</subject><subject>Genome, Mitochondrial</subject><subject>Genomes</subject><subject>Mitochondria</subject><subject>Mitochondrial DNA</subject><subject>Mitochondrial genome</subject><subject>Mitochondrial plasmids</subject><subject>Molecular Sequence Data</subject><subject>Moniliophthora perniciosa</subject><subject>Moniliophthora roreri</subject><subject>Nucleotide sequence</subject><subject>Open reading frames</subject><subject>Oxidative phosphorylation</subject><subject>Pathogens</subject><subject>Phylogeny</subject><subject>Plant Diseases - microbiology</subject><subject>Plasmids</subject><subject>Pleurotus ostreatus</subject><subject>Pod rot</subject><subject>protein subunits</subject><subject>Ribosomal proteins</subject><subject>ribosomal RNA</subject><subject>rRNA</subject><subject>Synteny</subject><subject>Theobroma cacao</subject><subject>topology</subject><subject>transfer RNA</subject><subject>tRNA</subject><subject>Witches’ broom disease</subject><issn>1878-6146</issn><issn>1878-6162</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkU1v3CAQhlHVqImS_QdV62MPXYfBYPClUhU1H1KiHpqoR4RhnGVlGxe8kfbfh5XTHBMuIPQ8AzMvIZ-BlkChPt-W3W5sfSgZBVZSKClVH8gJKKnWNdTs4-uZ18dkldKW5lVBpRr5iRwzJkTTQH1C_t5vsBj8HOwmjC560xePOIYBi9AVd2H0vQ_TZt6EaIoYIkb_vZiz0sWQ5n0xBZev52IyGcniwbLGmnBGjjrTJ1y97Kfk4fLX_cX1-vb31c3Fz9u15UrMa9aBFbxB2TDeMlYhVa1kppYoHWMNGC6s5Ka1aIQT2FauA0GVFMw4bG1bnZJvS90phn87TLMefLLY92bEsEsaaMUVCJabfx8FEJyqSmSUL6jNbaaInZ6iH0zcZ-jA1XqrlwD0IQBNQecAsvbl5YVdO6B7lf6POwNfF6AzQZvH6JN--JMr8ByOoELJTPxYCMxDe_IYdbIeR4vOR7SzdsG__YdnNPWhrA</recordid><startdate>20120501</startdate><enddate>20120501</enddate><creator>Costa, Gustavo G.L.</creator><creator>Cabrera, Odalys G.</creator><creator>Tiburcio, Ricardo A.</creator><creator>Medrano, Francisco J.</creator><creator>Carazzolle, Marcelo F.</creator><creator>Thomazella, Daniela P.T.</creator><creator>Schuster, Stephen C.</creator><creator>Carlson, John E.</creator><creator>Guiltinan, Mark J.</creator><creator>Bailey, Bryan A.</creator><creator>Mieczkowski, Piotr</creator><creator>Pereira, Gonçalo A.G.</creator><creator>Meinhardt, Lyndel W.</creator><general>Elsevier Ltd</general><scope>FBQ</scope><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>M7N</scope></search><sort><creationdate>20120501</creationdate><title>The mitochondrial genome of Moniliophthora roreri, the frosty pod rot pathogen of cacao</title><author>Costa, Gustavo G.L. ; Cabrera, Odalys G. ; Tiburcio, Ricardo A. ; Medrano, Francisco J. ; Carazzolle, Marcelo F. ; Thomazella, Daniela P.T. ; Schuster, Stephen C. ; Carlson, John E. ; Guiltinan, Mark J. ; Bailey, Bryan A. ; Mieczkowski, Piotr ; Pereira, Gonçalo A.G. ; Meinhardt, Lyndel W.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c485t-2f1c549e7924b223e08b72a67e7d2291a45c74abcea5d5eb3df1508752adebcb3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2012</creationdate><topic>Abundance</topic><topic>Agaricales - classification</topic><topic>Agaricales - genetics</topic><topic>Agaricales - isolation & purification</topic><topic>Base Sequence</topic><topic>Basidiomycetes</topic><topic>Basidiomycota</topic><topic>Cacao - microbiology</topic><topic>Chromosome Mapping</topic><topic>Data processing</topic><topic>DNA-directed DNA polymerase</topic><topic>Evolution</topic><topic>Frosty pod rot</topic><topic>fungi</topic><topic>genes</topic><topic>Genome, Mitochondrial</topic><topic>Genomes</topic><topic>Mitochondria</topic><topic>Mitochondrial DNA</topic><topic>Mitochondrial genome</topic><topic>Mitochondrial plasmids</topic><topic>Molecular Sequence Data</topic><topic>Moniliophthora perniciosa</topic><topic>Moniliophthora roreri</topic><topic>Nucleotide sequence</topic><topic>Open reading frames</topic><topic>Oxidative phosphorylation</topic><topic>Pathogens</topic><topic>Phylogeny</topic><topic>Plant Diseases - microbiology</topic><topic>Plasmids</topic><topic>Pleurotus ostreatus</topic><topic>Pod rot</topic><topic>protein subunits</topic><topic>Ribosomal proteins</topic><topic>ribosomal RNA</topic><topic>rRNA</topic><topic>Synteny</topic><topic>Theobroma cacao</topic><topic>topology</topic><topic>transfer RNA</topic><topic>tRNA</topic><topic>Witches’ broom disease</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Costa, Gustavo G.L.</creatorcontrib><creatorcontrib>Cabrera, Odalys G.</creatorcontrib><creatorcontrib>Tiburcio, Ricardo A.</creatorcontrib><creatorcontrib>Medrano, Francisco J.</creatorcontrib><creatorcontrib>Carazzolle, Marcelo F.</creatorcontrib><creatorcontrib>Thomazella, Daniela P.T.</creatorcontrib><creatorcontrib>Schuster, Stephen C.</creatorcontrib><creatorcontrib>Carlson, John E.</creatorcontrib><creatorcontrib>Guiltinan, Mark J.</creatorcontrib><creatorcontrib>Bailey, Bryan A.</creatorcontrib><creatorcontrib>Mieczkowski, Piotr</creatorcontrib><creatorcontrib>Pereira, Gonçalo A.G.</creatorcontrib><creatorcontrib>Meinhardt, Lyndel W.</creatorcontrib><collection>AGRIS</collection><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>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><jtitle>Fungal biology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Costa, Gustavo G.L.</au><au>Cabrera, Odalys G.</au><au>Tiburcio, Ricardo A.</au><au>Medrano, Francisco J.</au><au>Carazzolle, Marcelo F.</au><au>Thomazella, Daniela P.T.</au><au>Schuster, Stephen C.</au><au>Carlson, John E.</au><au>Guiltinan, Mark J.</au><au>Bailey, Bryan A.</au><au>Mieczkowski, Piotr</au><au>Pereira, Gonçalo A.G.</au><au>Meinhardt, Lyndel W.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The mitochondrial genome of Moniliophthora roreri, the frosty pod rot pathogen of cacao</atitle><jtitle>Fungal biology</jtitle><addtitle>Fungal Biol</addtitle><date>2012-05-01</date><risdate>2012</risdate><volume>116</volume><issue>5</issue><spage>551</spage><epage>562</epage><pages>551-562</pages><issn>1878-6146</issn><eissn>1878-6162</eissn><abstract>In this study, we report the sequence of the mitochondrial (mt) genome of the Basidiomycete fungus Moniliophthora roreri, which is the etiologic agent of frosty pod rot of cacao (Theobroma cacao L.). We also compare it to the mtDNA from the closely-related species Moniliophthora perniciosa, which causes witches’ broom disease of cacao. The 94 Kb mtDNA genome of M. roreri has a circular topology and codes for the typical 14 mt genes involved in oxidative phosphorylation. It also codes for both rRNA genes, a ribosomal protein subunit, 13 intronic open reading frames (ORFs), and a full complement of 27 tRNA genes. The conserved genes of M. roreri mtDNA are completely syntenic with homologous genes of the 109 Kb mtDNA of M. perniciosa. As in M. perniciosa, M. roreri mtDNA contains a high number of hypothetical ORFs (28), a remarkable feature that make Moniliophthoras the largest reservoir of hypothetical ORFs among sequenced fungal mtDNA. Additionally, the mt genome of M. roreri has three free invertron-like linear mt plasmids, one of which is very similar to that previously described as integrated into the main M. perniciosa mtDNA molecule. Moniliophthora roreri mtDNA also has a region of suspected plasmid origin containing 15 hypothetical ORFs distributed in both strands. One of these ORFs is similar to an ORF in the mtDNA gene encoding DNA polymerase in Pleurotus ostreatus. The comparison to M. perniciosa showed that the 15 Kb difference in mtDNA sizes is mainly attributed to a lower abundance of repetitive regions in M. roreri (5.8 Kb vs 20.7 Kb). The most notable differences between M. roreri and M. perniciosa mtDNA are attributed to repeats and regions of plasmid origin. These elements might have contributed to the rapid evolution of mtDNA. Since M. roreri is the second species of the genus Moniliophthora whose mtDNA genome has been sequenced, the data presented here contribute valuable information for understanding the evolution of fungal mt genomes among closely-related species.
► We report the 94 kbp mtDNA genome of the cacao pathogen Moniliophthora roreri. ► We compare M. roreri mt genome to its congener Moniliophthora perniciosa. ► Moniliophthora roreri harbours three free linear mt plasmids that encode DNA and RNA polymerases. ► One of the M. roreri free plasmids is 90 % similar to M. perniciosa integrated plasmid. ► Both Moniliophthoras have an atypical high number of hypothetical ORFs.</abstract><cop>Netherlands</cop><pub>Elsevier Ltd</pub><pmid>22559916</pmid><doi>10.1016/j.funbio.2012.01.008</doi><tpages>12</tpages></addata></record> |
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| subjects | Abundance Agaricales - classification Agaricales - genetics Agaricales - isolation & purification Base Sequence Basidiomycetes Basidiomycota Cacao - microbiology Chromosome Mapping Data processing DNA-directed DNA polymerase Evolution Frosty pod rot fungi genes Genome, Mitochondrial Genomes Mitochondria Mitochondrial DNA Mitochondrial genome Mitochondrial plasmids Molecular Sequence Data Moniliophthora perniciosa Moniliophthora roreri Nucleotide sequence Open reading frames Oxidative phosphorylation Pathogens Phylogeny Plant Diseases - microbiology Plasmids Pleurotus ostreatus Pod rot protein subunits Ribosomal proteins ribosomal RNA rRNA Synteny Theobroma cacao topology transfer RNA tRNA Witches’ broom disease |
| title | The mitochondrial genome of Moniliophthora roreri, the frosty pod rot pathogen of cacao |
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