In situ analysis of the bacterial community associated with the reindeer lichen Cladonia arbuscula reveals predominance of Alphaproteobacteria
The diversity and spatial pattern of the bacterial community hosted by the shrub-like reindeer lichen Cladonia arbuscula were investigated by general DNA staining and FISH, coupled with confocal laser scanning microscopy (CLSM). Using an optimized protocol for FISH using cryosections of small lichen...
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| Veröffentlicht in: | FEMS microbiology ecology 2008-10, Vol.66 (1), p.63-71 |
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| creator | Cardinale, Massimiliano Vieira de Castro, João Jr Müller, Henry Berg, Gabriele Grube, Martin |
| description | The diversity and spatial pattern of the bacterial community hosted by the shrub-like reindeer lichen Cladonia arbuscula were investigated by general DNA staining and FISH, coupled with confocal laser scanning microscopy (CLSM). Using an optimized protocol for FISH using cryosections of small lichen fragments, we found about 6 x 10⁷ bacteria g⁻¹ of C. arbuscula. Approximately 86% of acridine orange-stained cells were also stained by the universal FISH probe EUB338. Using group-specific FISH probes, we detected a dominance of Alphaproteobacteria (more than 60% of all bacteria), while the abundance of Actinobacteria and Betaproteobacteria was much lower ( |
| doi_str_mv | 10.1111/j.1574-6941.2008.00546.x |
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Using an optimized protocol for FISH using cryosections of small lichen fragments, we found about 6 x 10⁷ bacteria g⁻¹ of C. arbuscula. Approximately 86% of acridine orange-stained cells were also stained by the universal FISH probe EUB338. Using group-specific FISH probes, we detected a dominance of Alphaproteobacteria (more than 60% of all bacteria), while the abundance of Actinobacteria and Betaproteobacteria was much lower (<10%). Firmicutes were rarely detected, and no Gammaproteobacteria were present. Bacterial cells of different taxonomic groups are embedded in a biofilm-like, continuous layer on the internal surface of the C. arbuscula podetia, mainly occurring in small colonies of a few to a few hundred cells. The other parts of the lichen showed a lower bacterial colonization. α-proteobacterial 16S rRNA genes were amplified using total DNA extracts from C. arbuscula and separated by single-strand conformation polymorphism (SSCP). Sequencing of excised bands revealed the dominance of Acetobacteraceae.</description><identifier>ISSN: 0168-6496</identifier><identifier>EISSN: 1574-6941</identifier><identifier>DOI: 10.1111/j.1574-6941.2008.00546.x</identifier><identifier>PMID: 18631179</identifier><language>eng</language><publisher>Oxford, UK: Oxford, UK : Blackwell Publishing Ltd</publisher><subject>Acetobacteraceae ; Acridine orange ; Actinobacteria ; alpha-Proteobacteria ; Alphaproteobacteria ; Alphaproteobacteria - genetics ; Animal, plant and microbial ecology ; Autosomal dominant inheritance ; Bacteria ; bacterial community ; Biodiversity ; Biofilms ; Biological and medical sciences ; Camptochaete arbuscula ; Cladonia ; Cladonia arbuscula ; Colonization ; Communities ; confocal laser scanning microscopy ; Confocal microscopy ; Conformation ; Deoxyribonucleic acid ; DNA ; DNA probes ; DNA, Bacterial - genetics ; Ecology ; Firmicutes ; fluorescence in situ hybridization ; fluorescent in situ hybridization ; Fundamental and applied biological sciences. Psychology ; Genes, Bacterial ; Genes, rRNA ; Hyphae - cytology ; In Situ Hybridization, Fluorescence ; Lichenes ; Lichens ; Lichens - cytology ; Lichens - microbiology ; Microbial ecology ; Microbiology ; Microscopy, Confocal ; Plant cytology, morphology, systematics, chorology and evolution ; Polymorphism ; Polymorphism, Single-Stranded Conformational ; RNA, Ribosomal, 16S - genetics ; rRNA 16S ; Scanning microscopy ; Species Specificity ; Thallophyta ; Various environments (extraatmospheric space, air, water)</subject><ispartof>FEMS microbiology ecology, 2008-10, Vol.66 (1), p.63-71</ispartof><rights>2008 Federation of European Microbiological Societies 2008</rights><rights>2008 Federation of European Microbiological Societies. Published by Blackwell Publishing Ltd. 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Using an optimized protocol for FISH using cryosections of small lichen fragments, we found about 6 x 10⁷ bacteria g⁻¹ of C. arbuscula. Approximately 86% of acridine orange-stained cells were also stained by the universal FISH probe EUB338. Using group-specific FISH probes, we detected a dominance of Alphaproteobacteria (more than 60% of all bacteria), while the abundance of Actinobacteria and Betaproteobacteria was much lower (<10%). Firmicutes were rarely detected, and no Gammaproteobacteria were present. Bacterial cells of different taxonomic groups are embedded in a biofilm-like, continuous layer on the internal surface of the C. arbuscula podetia, mainly occurring in small colonies of a few to a few hundred cells. The other parts of the lichen showed a lower bacterial colonization. α-proteobacterial 16S rRNA genes were amplified using total DNA extracts from C. arbuscula and separated by single-strand conformation polymorphism (SSCP). Sequencing of excised bands revealed the dominance of Acetobacteraceae.</description><subject>Acetobacteraceae</subject><subject>Acridine orange</subject><subject>Actinobacteria</subject><subject>alpha-Proteobacteria</subject><subject>Alphaproteobacteria</subject><subject>Alphaproteobacteria - genetics</subject><subject>Animal, plant and microbial ecology</subject><subject>Autosomal dominant inheritance</subject><subject>Bacteria</subject><subject>bacterial community</subject><subject>Biodiversity</subject><subject>Biofilms</subject><subject>Biological and medical sciences</subject><subject>Camptochaete arbuscula</subject><subject>Cladonia</subject><subject>Cladonia arbuscula</subject><subject>Colonization</subject><subject>Communities</subject><subject>confocal laser scanning microscopy</subject><subject>Confocal microscopy</subject><subject>Conformation</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA probes</subject><subject>DNA, Bacterial - genetics</subject><subject>Ecology</subject><subject>Firmicutes</subject><subject>fluorescence in situ hybridization</subject><subject>fluorescent in situ hybridization</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genes, Bacterial</subject><subject>Genes, rRNA</subject><subject>Hyphae - cytology</subject><subject>In Situ Hybridization, Fluorescence</subject><subject>Lichenes</subject><subject>Lichens</subject><subject>Lichens - cytology</subject><subject>Lichens - microbiology</subject><subject>Microbial ecology</subject><subject>Microbiology</subject><subject>Microscopy, Confocal</subject><subject>Plant cytology, morphology, systematics, chorology and evolution</subject><subject>Polymorphism</subject><subject>Polymorphism, Single-Stranded Conformational</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>rRNA 16S</subject><subject>Scanning microscopy</subject><subject>Species Specificity</subject><subject>Thallophyta</subject><subject>Various environments (extraatmospheric space, air, water)</subject><issn>0168-6496</issn><issn>1574-6941</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2008</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNqFksFu1DAQhiMEokvhFcASglvCOLGdROJSrVqoVMQBerYmjs165cSLndDuS_DMON1tkUAIX2zJ3z__ePxnGaFQ0LTebQvKa5aLltGiBGgKAM5EcfsoWz1cPM5WQEWTC9aKk-xZjFsAyisGT7MT2oiK0rpdZT8vRxLtNBMc0e2jjcQbMm006VBNOlh0RPlhmEc77QnG6JXFSffkxk6bOy5oO_ZaB-Ks2uiRrB32frRIMHRzVLPDhPzQ6CLZBd37wY44Kr3YnLndBnfBT9rfuz3PnpiE6hfH_TS7vjj_uv6YX33-cLk-u8oVL5nIK1Ma0LWpKyN0aRjvuWK0azpqANPLyk7wXkOLvKuN0kqptukYA8aQNUlRnWZvD3WT_fdZx0kONirtHI7az1GKVtC2Eu1_wTR9xjhfwNd_gFs_hzTUxFQgOKMMIFEvj9TcDbqXu2AHDHt5_yEJeHMEMCp0JqRh2fjAlSBaAMES9_7A3Vin97_rgFwCIrdyyYFccrC02Mi7gMhbeXH-KR2SvDrI_bz7hzj_S5xUrw4qg17it5Aau_5SAq2WYNUltNUv4AHIIw</recordid><startdate>200810</startdate><enddate>200810</enddate><creator>Cardinale, Massimiliano</creator><creator>Vieira de Castro, João Jr</creator><creator>Müller, Henry</creator><creator>Berg, Gabriele</creator><creator>Grube, Martin</creator><general>Oxford, UK : Blackwell Publishing Ltd</general><general>Blackwell Publishing Ltd</general><general>Blackwell</general><general>Oxford University Press</general><scope>FBQ</scope><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>3V.</scope><scope>7QL</scope><scope>7QP</scope><scope>7QR</scope><scope>7SN</scope><scope>7T7</scope><scope>7TK</scope><scope>7TM</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PATMY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>200810</creationdate><title>In situ analysis of the bacterial community associated with the reindeer lichen Cladonia arbuscula reveals predominance of Alphaproteobacteria</title><author>Cardinale, Massimiliano ; Vieira de Castro, João Jr ; Müller, Henry ; Berg, Gabriele ; Grube, Martin</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c5246-3f2f0e7f73f6e2f45d5c41b8b1f0a3112b65de09a5b7fceccc98b44044a486e23</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2008</creationdate><topic>Acetobacteraceae</topic><topic>Acridine orange</topic><topic>Actinobacteria</topic><topic>alpha-Proteobacteria</topic><topic>Alphaproteobacteria</topic><topic>Alphaproteobacteria - genetics</topic><topic>Animal, plant and microbial ecology</topic><topic>Autosomal dominant inheritance</topic><topic>Bacteria</topic><topic>bacterial community</topic><topic>Biodiversity</topic><topic>Biofilms</topic><topic>Biological and medical sciences</topic><topic>Camptochaete arbuscula</topic><topic>Cladonia</topic><topic>Cladonia arbuscula</topic><topic>Colonization</topic><topic>Communities</topic><topic>confocal laser scanning microscopy</topic><topic>Confocal microscopy</topic><topic>Conformation</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA probes</topic><topic>DNA, Bacterial - genetics</topic><topic>Ecology</topic><topic>Firmicutes</topic><topic>fluorescence in situ hybridization</topic><topic>fluorescent in situ hybridization</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Genes, Bacterial</topic><topic>Genes, rRNA</topic><topic>Hyphae - cytology</topic><topic>In Situ Hybridization, Fluorescence</topic><topic>Lichenes</topic><topic>Lichens</topic><topic>Lichens - cytology</topic><topic>Lichens - microbiology</topic><topic>Microbial ecology</topic><topic>Microbiology</topic><topic>Microscopy, Confocal</topic><topic>Plant cytology, morphology, systematics, chorology and evolution</topic><topic>Polymorphism</topic><topic>Polymorphism, Single-Stranded Conformational</topic><topic>RNA, Ribosomal, 16S - genetics</topic><topic>rRNA 16S</topic><topic>Scanning microscopy</topic><topic>Species Specificity</topic><topic>Thallophyta</topic><topic>Various environments (extraatmospheric space, air, water)</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Cardinale, Massimiliano</creatorcontrib><creatorcontrib>Vieira de Castro, João Jr</creatorcontrib><creatorcontrib>Müller, Henry</creatorcontrib><creatorcontrib>Berg, Gabriele</creatorcontrib><creatorcontrib>Grube, Martin</creatorcontrib><collection>AGRIS</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Ecology Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Technology Research Database</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 One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>Agricultural & Environmental Science Collection</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</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>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Environmental Science Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>Environmental Science Collection</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>FEMS microbiology ecology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Cardinale, Massimiliano</au><au>Vieira de Castro, João Jr</au><au>Müller, Henry</au><au>Berg, Gabriele</au><au>Grube, Martin</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>In situ analysis of the bacterial community associated with the reindeer lichen Cladonia arbuscula reveals predominance of Alphaproteobacteria</atitle><jtitle>FEMS microbiology ecology</jtitle><addtitle>FEMS Microbiol Ecol</addtitle><date>2008-10</date><risdate>2008</risdate><volume>66</volume><issue>1</issue><spage>63</spage><epage>71</epage><pages>63-71</pages><issn>0168-6496</issn><eissn>1574-6941</eissn><abstract>The diversity and spatial pattern of the bacterial community hosted by the shrub-like reindeer lichen Cladonia arbuscula were investigated by general DNA staining and FISH, coupled with confocal laser scanning microscopy (CLSM). Using an optimized protocol for FISH using cryosections of small lichen fragments, we found about 6 x 10⁷ bacteria g⁻¹ of C. arbuscula. Approximately 86% of acridine orange-stained cells were also stained by the universal FISH probe EUB338. Using group-specific FISH probes, we detected a dominance of Alphaproteobacteria (more than 60% of all bacteria), while the abundance of Actinobacteria and Betaproteobacteria was much lower (<10%). Firmicutes were rarely detected, and no Gammaproteobacteria were present. Bacterial cells of different taxonomic groups are embedded in a biofilm-like, continuous layer on the internal surface of the C. arbuscula podetia, mainly occurring in small colonies of a few to a few hundred cells. The other parts of the lichen showed a lower bacterial colonization. α-proteobacterial 16S rRNA genes were amplified using total DNA extracts from C. arbuscula and separated by single-strand conformation polymorphism (SSCP). Sequencing of excised bands revealed the dominance of Acetobacteraceae.</abstract><cop>Oxford, UK</cop><pub>Oxford, UK : Blackwell Publishing Ltd</pub><pmid>18631179</pmid><doi>10.1111/j.1574-6941.2008.00546.x</doi><tpages>9</tpages><oa>free_for_read</oa></addata></record> |
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| issn | 0168-6496 1574-6941 |
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| source | MEDLINE; Wiley Online Library Journals Frontfile Complete; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Oxford Journals Open Access Collection |
| subjects | Acetobacteraceae Acridine orange Actinobacteria alpha-Proteobacteria Alphaproteobacteria Alphaproteobacteria - genetics Animal, plant and microbial ecology Autosomal dominant inheritance Bacteria bacterial community Biodiversity Biofilms Biological and medical sciences Camptochaete arbuscula Cladonia Cladonia arbuscula Colonization Communities confocal laser scanning microscopy Confocal microscopy Conformation Deoxyribonucleic acid DNA DNA probes DNA, Bacterial - genetics Ecology Firmicutes fluorescence in situ hybridization fluorescent in situ hybridization Fundamental and applied biological sciences. Psychology Genes, Bacterial Genes, rRNA Hyphae - cytology In Situ Hybridization, Fluorescence Lichenes Lichens Lichens - cytology Lichens - microbiology Microbial ecology Microbiology Microscopy, Confocal Plant cytology, morphology, systematics, chorology and evolution Polymorphism Polymorphism, Single-Stranded Conformational RNA, Ribosomal, 16S - genetics rRNA 16S Scanning microscopy Species Specificity Thallophyta Various environments (extraatmospheric space, air, water) |
| title | In situ analysis of the bacterial community associated with the reindeer lichen Cladonia arbuscula reveals predominance of Alphaproteobacteria |
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