Low abundance of Archaeorhizomycetes among fungi in soil metatranscriptomes
The Archaeorhizomycetes are recently discovered fungi with poorly resolved ecology. Even their abundance in soil fungal communities is currently disputed. Here we applied a PCR-independent, RNA-based metatranscriptomic approach to determine their abundance among fungi in eleven different soils acros...
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| Veröffentlicht in: | Scientific reports 2016-12, Vol.6 (1), p.38455-38455, Article 38455 |
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| description | The Archaeorhizomycetes are recently discovered fungi with poorly resolved ecology. Even their abundance in soil fungal communities is currently disputed. Here we applied a PCR-independent, RNA-based metatranscriptomic approach to determine their abundance among fungi in eleven different soils across Europe. Using small subunit (SSU) ribosomal RNA transcripts as marker, we detected Archaeorhizomycetes in 17 out of 28 soil metatranscriptomes. They had average relative SSU rRNA abundance of 2.0% with a maximum of 9.4% among fungal SSU rRNAs. Network analysis revealed that they co-occur with arbuscular mycorrhizal Glomerales, which is in line with their previously suggested association with plant roots. Moreover, Archaeorhizomycetes ranked among the potential keystone taxa. This metatranscriptomic survey exemplifies the usage of non-targeted molecular approaches for the study of soil fungi. It provides PCR- and DNA-independent evidence for the low abundance of Archaeorhizomycetes in soil fungal communities, although they might be non-negligible players despite their low abundance. |
| doi_str_mv | 10.1038/srep38455 |
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Bárta, Jiří ; Šantrůčková, Hana ; Urich, Tim</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c438t-e0d3b1d68a855e863e64014f5be87113f465e9a0917092ae25d4248a3f937b883</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2016</creationdate><topic>631/326/193/2539</topic><topic>631/326/193/2541</topic><topic>Abundance</topic><topic>Arbuscular mycorrhizas</topic><topic>Biodiversity</topic><topic>Fungi</topic><topic>Gene Regulatory Networks</topic><topic>Glomeromycota - classification</topic><topic>Glomeromycota - genetics</topic><topic>Humanities and Social Sciences</topic><topic>Metagenome - genetics</topic><topic>multidisciplinary</topic><topic>Phylogeny</topic><topic>Polymerase chain reaction</topic><topic>rRNA</topic><topic>Science</topic><topic>Soil Microbiology</topic><topic>Soil microorganisms</topic><topic>Soils</topic><topic>Transcriptome - genetics</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Choma, Michal</creatorcontrib><creatorcontrib>Bárta, Jiří</creatorcontrib><creatorcontrib>Šantrůčková, Hana</creatorcontrib><creatorcontrib>Urich, Tim</creatorcontrib><collection>Springer Nature OA Free Journals</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Science Database (Alumni Edition)</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Science Database</collection><collection>Biological Science Database</collection><collection>Access via ProQuest (Open Access)</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central Basic</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Scientific reports</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Choma, Michal</au><au>Bárta, Jiří</au><au>Šantrůčková, Hana</au><au>Urich, Tim</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Low abundance of Archaeorhizomycetes among fungi in soil metatranscriptomes</atitle><jtitle>Scientific reports</jtitle><stitle>Sci Rep</stitle><addtitle>Sci Rep</addtitle><date>2016-12-23</date><risdate>2016</risdate><volume>6</volume><issue>1</issue><spage>38455</spage><epage>38455</epage><pages>38455-38455</pages><artnum>38455</artnum><issn>2045-2322</issn><eissn>2045-2322</eissn><abstract>The Archaeorhizomycetes are recently discovered fungi with poorly resolved ecology. Even their abundance in soil fungal communities is currently disputed. Here we applied a PCR-independent, RNA-based metatranscriptomic approach to determine their abundance among fungi in eleven different soils across Europe. Using small subunit (SSU) ribosomal RNA transcripts as marker, we detected Archaeorhizomycetes in 17 out of 28 soil metatranscriptomes. They had average relative SSU rRNA abundance of 2.0% with a maximum of 9.4% among fungal SSU rRNAs. Network analysis revealed that they co-occur with arbuscular mycorrhizal Glomerales, which is in line with their previously suggested association with plant roots. Moreover, Archaeorhizomycetes ranked among the potential keystone taxa. This metatranscriptomic survey exemplifies the usage of non-targeted molecular approaches for the study of soil fungi. It provides PCR- and DNA-independent evidence for the low abundance of Archaeorhizomycetes in soil fungal communities, although they might be non-negligible players despite their low abundance.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>28009005</pmid><doi>10.1038/srep38455</doi><tpages>1</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | 631/326/193/2539 631/326/193/2541 Abundance Arbuscular mycorrhizas Biodiversity Fungi Gene Regulatory Networks Glomeromycota - classification Glomeromycota - genetics Humanities and Social Sciences Metagenome - genetics multidisciplinary Phylogeny Polymerase chain reaction rRNA Science Soil Microbiology Soil microorganisms Soils Transcriptome - genetics |
| title | Low abundance of Archaeorhizomycetes among fungi in soil metatranscriptomes |
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