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Structure and variation of root-associated microbiomes of potato grown in alfisol
Root-associated fungi and bacteria play a pivotal role in the plant–soil ecosystem by influencing both plant growth and immunity. The aim of this study was to unravel the biodiversity of the bacterial and fungal rhizosphere (RS) and rhizoplane (RP) microbiota of Zhukovskij rannij potato ( Solanum tu...
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Published in: | World journal of microbiology & biotechnology 2019-12, Vol.35 (12), p.181-16, Article 181 |
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creator | Mardanova, Ayslu Lutfullin, Marat Hadieva, Guzel Akosah, Yaw Pudova, Daria Kabanov, Daniil Shagimardanova, Elena Vankov, Petr Vologin, Semyon Gogoleva, Natalia Stasevski, Zenon Sharipova, Margarita |
description | Root-associated fungi and bacteria play a pivotal role in the plant–soil ecosystem by influencing both plant growth and immunity. The aim of this study was to unravel the biodiversity of the bacterial and fungal rhizosphere (RS) and rhizoplane (RP) microbiota of Zhukovskij rannij potato (
Solanum tuberosum
L.) cultivar growing in the Alfisol of Tatarstan, Russia. To assess the structure and diversity of microbial communities, we employed the 16S rRNA and internal transcribed spacer gene library technique. Overall, sequence analysis showed the presence of 3982 bacterial and 188 fungal operational taxonomic units (OTUs) in the RP, and 6018 bacterial and 320 fungal OTUs for in the RS. Comparison between microbial community structures in the RS and RP showed significant differences between these compartments. Biodiversity was higher in the RS than in the RP. Although members of
Proteobacteria
(RS—59.1 ± 4.9%; RP—54.5 ± 9.2%),
Bacteroidetes
(RS—23.19 ± 10.2%; RP—34.52 ± 10.4%) and
Actinobacteria
(RS—11.55 ± 4.9%; RP—7.7 ± 5.1%) were the three most dominant phyla, accounting for 94–98% of all bacterial taxa in both compartments, notable variations were observed in the primary dominance of classes and genera in RS and RP samples. In addition, our results demonstrated that the potato rhizoplane was significantly enriched with the genera
Flavobacterium
,
Pseudomonas
,
Acinetobacter
and other potentially beneficial bacteria. The fungal community was predominantly inhabited by members of the
Ascomycota
phylum (RS—81.4 ± 8.1%; RP—81.7 ± 5.7%), among which the genera
Fusarium
(RS—10.34 ± 3.41%; RP—9.96 ± 4.79%),
Monographella
(RS—7.66 ± 4.43%; RP—9.91 ± 5.87%),
Verticillium
(RS—4.6 ± 1.43%; RP—8.27 ± 3.63%) and
Chaetomium
(RS—4.95 ± 2.07%; RP—8.33 ± 4.93%) were particularly abundant. Interestingly, potato rhizoplane was significantly enriched with potentially useful fungal genera, such as
Mortierella
and
Metacordiceps.
A comparative analysis revealed that the abundance of
Fusarium
(a cosmopolitan plant pathogen) varied significantly depending on rotation variants, indicating a possible control of phytopathogenic fungi via management-induced shifts through crop rotational methods. Analysis of the core microbiome of bacterial and fungal community structure showed that the formation of bacterial microbiota in the rhizosphere and rhizoplane is dependent on the host plant. |
doi_str_mv | 10.1007/s11274-019-2761-3 |
format | article |
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Solanum tuberosum
L.) cultivar growing in the Alfisol of Tatarstan, Russia. To assess the structure and diversity of microbial communities, we employed the 16S rRNA and internal transcribed spacer gene library technique. Overall, sequence analysis showed the presence of 3982 bacterial and 188 fungal operational taxonomic units (OTUs) in the RP, and 6018 bacterial and 320 fungal OTUs for in the RS. Comparison between microbial community structures in the RS and RP showed significant differences between these compartments. Biodiversity was higher in the RS than in the RP. Although members of
Proteobacteria
(RS—59.1 ± 4.9%; RP—54.5 ± 9.2%),
Bacteroidetes
(RS—23.19 ± 10.2%; RP—34.52 ± 10.4%) and
Actinobacteria
(RS—11.55 ± 4.9%; RP—7.7 ± 5.1%) were the three most dominant phyla, accounting for 94–98% of all bacterial taxa in both compartments, notable variations were observed in the primary dominance of classes and genera in RS and RP samples. In addition, our results demonstrated that the potato rhizoplane was significantly enriched with the genera
Flavobacterium
,
Pseudomonas
,
Acinetobacter
and other potentially beneficial bacteria. The fungal community was predominantly inhabited by members of the
Ascomycota
phylum (RS—81.4 ± 8.1%; RP—81.7 ± 5.7%), among which the genera
Fusarium
(RS—10.34 ± 3.41%; RP—9.96 ± 4.79%),
Monographella
(RS—7.66 ± 4.43%; RP—9.91 ± 5.87%),
Verticillium
(RS—4.6 ± 1.43%; RP—8.27 ± 3.63%) and
Chaetomium
(RS—4.95 ± 2.07%; RP—8.33 ± 4.93%) were particularly abundant. Interestingly, potato rhizoplane was significantly enriched with potentially useful fungal genera, such as
Mortierella
and
Metacordiceps.
A comparative analysis revealed that the abundance of
Fusarium
(a cosmopolitan plant pathogen) varied significantly depending on rotation variants, indicating a possible control of phytopathogenic fungi via management-induced shifts through crop rotational methods. Analysis of the core microbiome of bacterial and fungal community structure showed that the formation of bacterial microbiota in the rhizosphere and rhizoplane is dependent on the host plant.</description><identifier>ISSN: 0959-3993</identifier><identifier>EISSN: 1573-0972</identifier><identifier>DOI: 10.1007/s11274-019-2761-3</identifier><identifier>PMID: 31728652</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Applied Microbiology ; Bacteria ; Bacteria - classification ; Bacteria - genetics ; Biochemistry ; Biodiversity ; Biomedical and Life Sciences ; Biotechnology ; Communities ; Community structure ; Comparative analysis ; Compartments ; Crop rotation ; Cultivars ; Environmental Engineering/Biotechnology ; Fungi ; Fungi - classification ; Fungi - genetics ; Fusarium ; Genera ; Host plants ; Life Sciences ; Microbial activity ; Microbiology ; Microbiomes ; Microbiota ; Microbiota - genetics ; Microbiota - physiology ; Microorganisms ; Original Paper ; Phylogeny ; Phytopathogenic fungi ; Plant Development ; Plant growth ; Plant Roots - microbiology ; Potatoes ; Probiotics ; Rhizoplane ; Rhizosphere ; RNA, Ribosomal, 16S - genetics ; rRNA 16S ; Russia ; Soil - chemistry ; Soil Microbiology ; Solanum tuberosum - growth & development ; Solanum tuberosum - microbiology ; Vegetables</subject><ispartof>World journal of microbiology & biotechnology, 2019-12, Vol.35 (12), p.181-16, Article 181</ispartof><rights>Springer Nature B.V. 2019</rights><rights>World Journal of Microbiology and Biotechnology is a copyright of Springer, (2019). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c409t-3f3211094f0ab22fe96282c3ed21a54d05d6857c978bcf0b075f295aa87006d13</citedby><cites>FETCH-LOGICAL-c409t-3f3211094f0ab22fe96282c3ed21a54d05d6857c978bcf0b075f295aa87006d13</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.proquest.com/docview/2315334686/fulltextPDF?pq-origsite=primo$$EPDF$$P50$$Gproquest$$H</linktopdf><linktohtml>$$Uhttps://www.proquest.com/docview/2315334686?pq-origsite=primo$$EHTML$$P50$$Gproquest$$H</linktohtml><link.rule.ids>314,780,784,11688,27924,27925,36060,36061,44363,74895</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31728652$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Mardanova, Ayslu</creatorcontrib><creatorcontrib>Lutfullin, Marat</creatorcontrib><creatorcontrib>Hadieva, Guzel</creatorcontrib><creatorcontrib>Akosah, Yaw</creatorcontrib><creatorcontrib>Pudova, Daria</creatorcontrib><creatorcontrib>Kabanov, Daniil</creatorcontrib><creatorcontrib>Shagimardanova, Elena</creatorcontrib><creatorcontrib>Vankov, Petr</creatorcontrib><creatorcontrib>Vologin, Semyon</creatorcontrib><creatorcontrib>Gogoleva, Natalia</creatorcontrib><creatorcontrib>Stasevski, Zenon</creatorcontrib><creatorcontrib>Sharipova, Margarita</creatorcontrib><title>Structure and variation of root-associated microbiomes of potato grown in alfisol</title><title>World journal of microbiology & biotechnology</title><addtitle>World J Microbiol Biotechnol</addtitle><addtitle>World J Microbiol Biotechnol</addtitle><description>Root-associated fungi and bacteria play a pivotal role in the plant–soil ecosystem by influencing both plant growth and immunity. The aim of this study was to unravel the biodiversity of the bacterial and fungal rhizosphere (RS) and rhizoplane (RP) microbiota of Zhukovskij rannij potato (
Solanum tuberosum
L.) cultivar growing in the Alfisol of Tatarstan, Russia. To assess the structure and diversity of microbial communities, we employed the 16S rRNA and internal transcribed spacer gene library technique. Overall, sequence analysis showed the presence of 3982 bacterial and 188 fungal operational taxonomic units (OTUs) in the RP, and 6018 bacterial and 320 fungal OTUs for in the RS. Comparison between microbial community structures in the RS and RP showed significant differences between these compartments. Biodiversity was higher in the RS than in the RP. Although members of
Proteobacteria
(RS—59.1 ± 4.9%; RP—54.5 ± 9.2%),
Bacteroidetes
(RS—23.19 ± 10.2%; RP—34.52 ± 10.4%) and
Actinobacteria
(RS—11.55 ± 4.9%; RP—7.7 ± 5.1%) were the three most dominant phyla, accounting for 94–98% of all bacterial taxa in both compartments, notable variations were observed in the primary dominance of classes and genera in RS and RP samples. In addition, our results demonstrated that the potato rhizoplane was significantly enriched with the genera
Flavobacterium
,
Pseudomonas
,
Acinetobacter
and other potentially beneficial bacteria. The fungal community was predominantly inhabited by members of the
Ascomycota
phylum (RS—81.4 ± 8.1%; RP—81.7 ± 5.7%), among which the genera
Fusarium
(RS—10.34 ± 3.41%; RP—9.96 ± 4.79%),
Monographella
(RS—7.66 ± 4.43%; RP—9.91 ± 5.87%),
Verticillium
(RS—4.6 ± 1.43%; RP—8.27 ± 3.63%) and
Chaetomium
(RS—4.95 ± 2.07%; RP—8.33 ± 4.93%) were particularly abundant. Interestingly, potato rhizoplane was significantly enriched with potentially useful fungal genera, such as
Mortierella
and
Metacordiceps.
A comparative analysis revealed that the abundance of
Fusarium
(a cosmopolitan plant pathogen) varied significantly depending on rotation variants, indicating a possible control of phytopathogenic fungi via management-induced shifts through crop rotational methods. Analysis of the core microbiome of bacterial and fungal community structure showed that the formation of bacterial microbiota in the rhizosphere and rhizoplane is dependent on the host plant.</description><subject>Applied Microbiology</subject><subject>Bacteria</subject><subject>Bacteria - classification</subject><subject>Bacteria - genetics</subject><subject>Biochemistry</subject><subject>Biodiversity</subject><subject>Biomedical and Life Sciences</subject><subject>Biotechnology</subject><subject>Communities</subject><subject>Community structure</subject><subject>Comparative analysis</subject><subject>Compartments</subject><subject>Crop rotation</subject><subject>Cultivars</subject><subject>Environmental Engineering/Biotechnology</subject><subject>Fungi</subject><subject>Fungi - classification</subject><subject>Fungi - genetics</subject><subject>Fusarium</subject><subject>Genera</subject><subject>Host plants</subject><subject>Life Sciences</subject><subject>Microbial activity</subject><subject>Microbiology</subject><subject>Microbiomes</subject><subject>Microbiota</subject><subject>Microbiota - genetics</subject><subject>Microbiota - physiology</subject><subject>Microorganisms</subject><subject>Original Paper</subject><subject>Phylogeny</subject><subject>Phytopathogenic fungi</subject><subject>Plant Development</subject><subject>Plant growth</subject><subject>Plant Roots - microbiology</subject><subject>Potatoes</subject><subject>Probiotics</subject><subject>Rhizoplane</subject><subject>Rhizosphere</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>rRNA 16S</subject><subject>Russia</subject><subject>Soil - chemistry</subject><subject>Soil Microbiology</subject><subject>Solanum tuberosum - growth & development</subject><subject>Solanum tuberosum - microbiology</subject><subject>Vegetables</subject><issn>0959-3993</issn><issn>1573-0972</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>M0C</sourceid><recordid>eNp1kM1KxDAURoMozjj6AG6k4MZN9CZpmmYp4h8MiKjrkKbJ0KFtxqRVfHszzqgguArknu_LzUHomMA5ARAXkRAqcgxEYioKgtkOmhIuGAYp6C6aguQSMynZBB3EuARIKcn20YQRQcuC0yl6fBrCaIYx2Ez3dfamQ6OHxveZd1nwfsA6Rm_Sna2zrjHBV43vbFyPV37Qg88Wwb_3WdNnunVN9O0h2nO6jfZoe87Qy83189Udnj_c3l9dzrHJQQ6YOUYJAZk70BWlzsqCltQwW1OieV4Dr4uSCyNFWRkHFQjuqORalwKgqAmbobNN7yr419HGQXVNNLZtdW_9GBVlhIOkZZ4n9PQPuvRj6NN2XxRjeVEWiSIbKv0yxmCdWoWm0-FDEVBr32rjWyXfau1bsZQ52TaPVWfrn8S34ATQDRDTqF_Y8Pv0_62fhcWJ8A</recordid><startdate>20191201</startdate><enddate>20191201</enddate><creator>Mardanova, Ayslu</creator><creator>Lutfullin, Marat</creator><creator>Hadieva, Guzel</creator><creator>Akosah, Yaw</creator><creator>Pudova, Daria</creator><creator>Kabanov, Daniil</creator><creator>Shagimardanova, Elena</creator><creator>Vankov, Petr</creator><creator>Vologin, Semyon</creator><creator>Gogoleva, Natalia</creator><creator>Stasevski, Zenon</creator><creator>Sharipova, Margarita</creator><general>Springer Netherlands</general><general>Springer Nature B.V</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>3V.</scope><scope>7QL</scope><scope>7T7</scope><scope>7TB</scope><scope>7TK</scope><scope>7U5</scope><scope>7U9</scope><scope>7WY</scope><scope>7WZ</scope><scope>7X7</scope><scope>7XB</scope><scope>87Z</scope><scope>88A</scope><scope>88E</scope><scope>88I</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8FL</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BEZIV</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FRNLG</scope><scope>FYUFA</scope><scope>F~G</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K60</scope><scope>K6~</scope><scope>K9.</scope><scope>L.-</scope><scope>L7M</scope><scope>LK8</scope><scope>M0C</scope><scope>M0S</scope><scope>M1P</scope><scope>M2P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQBIZ</scope><scope>PQBZA</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>Q9U</scope><scope>7X8</scope></search><sort><creationdate>20191201</creationdate><title>Structure and variation of root-associated microbiomes of potato grown in alfisol</title><author>Mardanova, Ayslu ; Lutfullin, Marat ; Hadieva, Guzel ; Akosah, Yaw ; Pudova, Daria ; Kabanov, Daniil ; Shagimardanova, Elena ; Vankov, Petr ; Vologin, Semyon ; Gogoleva, Natalia ; Stasevski, Zenon ; Sharipova, Margarita</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c409t-3f3211094f0ab22fe96282c3ed21a54d05d6857c978bcf0b075f295aa87006d13</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Applied Microbiology</topic><topic>Bacteria</topic><topic>Bacteria - classification</topic><topic>Bacteria - genetics</topic><topic>Biochemistry</topic><topic>Biodiversity</topic><topic>Biomedical and Life Sciences</topic><topic>Biotechnology</topic><topic>Communities</topic><topic>Community structure</topic><topic>Comparative analysis</topic><topic>Compartments</topic><topic>Crop rotation</topic><topic>Cultivars</topic><topic>Environmental Engineering/Biotechnology</topic><topic>Fungi</topic><topic>Fungi - classification</topic><topic>Fungi - genetics</topic><topic>Fusarium</topic><topic>Genera</topic><topic>Host plants</topic><topic>Life Sciences</topic><topic>Microbial activity</topic><topic>Microbiology</topic><topic>Microbiomes</topic><topic>Microbiota</topic><topic>Microbiota - genetics</topic><topic>Microbiota - physiology</topic><topic>Microorganisms</topic><topic>Original Paper</topic><topic>Phylogeny</topic><topic>Phytopathogenic fungi</topic><topic>Plant Development</topic><topic>Plant growth</topic><topic>Plant Roots - microbiology</topic><topic>Potatoes</topic><topic>Probiotics</topic><topic>Rhizoplane</topic><topic>Rhizosphere</topic><topic>RNA, Ribosomal, 16S - genetics</topic><topic>rRNA 16S</topic><topic>Russia</topic><topic>Soil - chemistry</topic><topic>Soil Microbiology</topic><topic>Solanum tuberosum - growth & development</topic><topic>Solanum tuberosum - microbiology</topic><topic>Vegetables</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Mardanova, Ayslu</creatorcontrib><creatorcontrib>Lutfullin, Marat</creatorcontrib><creatorcontrib>Hadieva, Guzel</creatorcontrib><creatorcontrib>Akosah, Yaw</creatorcontrib><creatorcontrib>Pudova, Daria</creatorcontrib><creatorcontrib>Kabanov, Daniil</creatorcontrib><creatorcontrib>Shagimardanova, Elena</creatorcontrib><creatorcontrib>Vankov, Petr</creatorcontrib><creatorcontrib>Vologin, Semyon</creatorcontrib><creatorcontrib>Gogoleva, Natalia</creatorcontrib><creatorcontrib>Stasevski, Zenon</creatorcontrib><creatorcontrib>Sharipova, Margarita</creatorcontrib><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>Bacteriology Abstracts (Microbiology B)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Mechanical & Transportation Engineering Abstracts</collection><collection>Neurosciences Abstracts</collection><collection>Solid State and Superconductivity Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>ABI/INFORM Collection</collection><collection>ABI/INFORM Global (PDF only)</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>ABI/INFORM Collection</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Science Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</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>ABI/INFORM Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni)</collection><collection>ProQuest Central</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>ProQuest Business Premium Collection</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central</collection><collection>Engineering Research Database</collection><collection>Business Premium Collection (Alumni)</collection><collection>Health Research Premium Collection</collection><collection>ABI/INFORM Global (Corporate)</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Business Collection (Alumni Edition)</collection><collection>ProQuest Business Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ABI/INFORM Professional Advanced</collection><collection>Advanced Technologies Database with Aerospace</collection><collection>ProQuest Biological Science Collection</collection><collection>ABI/INFORM Global</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>PML(ProQuest Medical Library)</collection><collection>ProQuest Science Journals</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Business</collection><collection>ProQuest One Business (Alumni)</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><jtitle>World journal of microbiology & biotechnology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Mardanova, Ayslu</au><au>Lutfullin, Marat</au><au>Hadieva, Guzel</au><au>Akosah, Yaw</au><au>Pudova, Daria</au><au>Kabanov, Daniil</au><au>Shagimardanova, Elena</au><au>Vankov, Petr</au><au>Vologin, Semyon</au><au>Gogoleva, Natalia</au><au>Stasevski, Zenon</au><au>Sharipova, Margarita</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Structure and variation of root-associated microbiomes of potato grown in alfisol</atitle><jtitle>World journal of microbiology & biotechnology</jtitle><stitle>World J Microbiol Biotechnol</stitle><addtitle>World J Microbiol Biotechnol</addtitle><date>2019-12-01</date><risdate>2019</risdate><volume>35</volume><issue>12</issue><spage>181</spage><epage>16</epage><pages>181-16</pages><artnum>181</artnum><issn>0959-3993</issn><eissn>1573-0972</eissn><abstract>Root-associated fungi and bacteria play a pivotal role in the plant–soil ecosystem by influencing both plant growth and immunity. The aim of this study was to unravel the biodiversity of the bacterial and fungal rhizosphere (RS) and rhizoplane (RP) microbiota of Zhukovskij rannij potato (
Solanum tuberosum
L.) cultivar growing in the Alfisol of Tatarstan, Russia. To assess the structure and diversity of microbial communities, we employed the 16S rRNA and internal transcribed spacer gene library technique. Overall, sequence analysis showed the presence of 3982 bacterial and 188 fungal operational taxonomic units (OTUs) in the RP, and 6018 bacterial and 320 fungal OTUs for in the RS. Comparison between microbial community structures in the RS and RP showed significant differences between these compartments. Biodiversity was higher in the RS than in the RP. Although members of
Proteobacteria
(RS—59.1 ± 4.9%; RP—54.5 ± 9.2%),
Bacteroidetes
(RS—23.19 ± 10.2%; RP—34.52 ± 10.4%) and
Actinobacteria
(RS—11.55 ± 4.9%; RP—7.7 ± 5.1%) were the three most dominant phyla, accounting for 94–98% of all bacterial taxa in both compartments, notable variations were observed in the primary dominance of classes and genera in RS and RP samples. In addition, our results demonstrated that the potato rhizoplane was significantly enriched with the genera
Flavobacterium
,
Pseudomonas
,
Acinetobacter
and other potentially beneficial bacteria. The fungal community was predominantly inhabited by members of the
Ascomycota
phylum (RS—81.4 ± 8.1%; RP—81.7 ± 5.7%), among which the genera
Fusarium
(RS—10.34 ± 3.41%; RP—9.96 ± 4.79%),
Monographella
(RS—7.66 ± 4.43%; RP—9.91 ± 5.87%),
Verticillium
(RS—4.6 ± 1.43%; RP—8.27 ± 3.63%) and
Chaetomium
(RS—4.95 ± 2.07%; RP—8.33 ± 4.93%) were particularly abundant. Interestingly, potato rhizoplane was significantly enriched with potentially useful fungal genera, such as
Mortierella
and
Metacordiceps.
A comparative analysis revealed that the abundance of
Fusarium
(a cosmopolitan plant pathogen) varied significantly depending on rotation variants, indicating a possible control of phytopathogenic fungi via management-induced shifts through crop rotational methods. Analysis of the core microbiome of bacterial and fungal community structure showed that the formation of bacterial microbiota in the rhizosphere and rhizoplane is dependent on the host plant.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><pmid>31728652</pmid><doi>10.1007/s11274-019-2761-3</doi><tpages>16</tpages></addata></record> |
fulltext | fulltext |
identifier | ISSN: 0959-3993 |
ispartof | World journal of microbiology & biotechnology, 2019-12, Vol.35 (12), p.181-16, Article 181 |
issn | 0959-3993 1573-0972 |
language | eng |
recordid | cdi_proquest_miscellaneous_2315092844 |
source | ABI/INFORM Global; Springer Link |
subjects | Applied Microbiology Bacteria Bacteria - classification Bacteria - genetics Biochemistry Biodiversity Biomedical and Life Sciences Biotechnology Communities Community structure Comparative analysis Compartments Crop rotation Cultivars Environmental Engineering/Biotechnology Fungi Fungi - classification Fungi - genetics Fusarium Genera Host plants Life Sciences Microbial activity Microbiology Microbiomes Microbiota Microbiota - genetics Microbiota - physiology Microorganisms Original Paper Phylogeny Phytopathogenic fungi Plant Development Plant growth Plant Roots - microbiology Potatoes Probiotics Rhizoplane Rhizosphere RNA, Ribosomal, 16S - genetics rRNA 16S Russia Soil - chemistry Soil Microbiology Solanum tuberosum - growth & development Solanum tuberosum - microbiology Vegetables |
title | Structure and variation of root-associated microbiomes of potato grown in alfisol |
url | http://sfxeu10.hosted.exlibrisgroup.com/loughborough?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2024-12-24T19%3A50%3A34IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Structure%20and%20variation%20of%20root-associated%20microbiomes%20of%20potato%20grown%20in%20alfisol&rft.jtitle=World%20journal%20of%20microbiology%20&%20biotechnology&rft.au=Mardanova,%20Ayslu&rft.date=2019-12-01&rft.volume=35&rft.issue=12&rft.spage=181&rft.epage=16&rft.pages=181-16&rft.artnum=181&rft.issn=0959-3993&rft.eissn=1573-0972&rft_id=info:doi/10.1007/s11274-019-2761-3&rft_dat=%3Cproquest_cross%3E2315334686%3C/proquest_cross%3E%3Cgrp_id%3Ecdi_FETCH-LOGICAL-c409t-3f3211094f0ab22fe96282c3ed21a54d05d6857c978bcf0b075f295aa87006d13%3C/grp_id%3E%3Coa%3E%3C/oa%3E%3Curl%3E%3C/url%3E&rft_id=info:oai/&rft_pqid=2315334686&rft_id=info:pmid/31728652&rfr_iscdi=true |