Fungal community structure in disease suppressive soils assessed by 28S LSU gene sequencing.
Natural biological suppression of soil-borne diseases is a function of the activity and composition of soil microbial communities. Soil microbe and phytopathogen interactions can occur prior to crop sowing and/or in the rhizosphere, subsequently influencing both plant growth and productivity. Resear...
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Public Library of Science (PLoS)
2014-01-01
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| Series: | PLoS ONE |
| Online Access: | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0093893&type=printable |
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| author | C Ryan Penton V V S R Gupta James M Tiedje Stephen M Neate Kathy Ophel-Keller Michael Gillings Paul Harvey Amanda Pham David K Roget |
| author_facet | C Ryan Penton V V S R Gupta James M Tiedje Stephen M Neate Kathy Ophel-Keller Michael Gillings Paul Harvey Amanda Pham David K Roget |
| author_sort | C Ryan Penton |
| collection | DOAJ |
| description | Natural biological suppression of soil-borne diseases is a function of the activity and composition of soil microbial communities. Soil microbe and phytopathogen interactions can occur prior to crop sowing and/or in the rhizosphere, subsequently influencing both plant growth and productivity. Research on suppressive microbial communities has concentrated on bacteria although fungi can also influence soil-borne disease. Fungi were analyzed in co-located soils 'suppressive' or 'non-suppressive' for disease caused by Rhizoctonia solani AG 8 at two sites in South Australia using 454 pyrosequencing targeting the fungal 28S LSU rRNA gene. DNA was extracted from a minimum of 125 g of soil per replicate to reduce the micro-scale community variability, and from soil samples taken at sowing and from the rhizosphere at 7 weeks to cover the peak Rhizoctonia infection period. A total of ∼ 994,000 reads were classified into 917 genera covering 54% of the RDP Fungal Classifier database, a high diversity for an alkaline, low organic matter soil. Statistical analyses and community ordinations revealed significant differences in fungal community composition between suppressive and non-suppressive soil and between soil type/location. The majority of differences associated with suppressive soils were attributed to less than 40 genera including a number of endophytic species with plant pathogen suppression potentials and mycoparasites such as Xylaria spp. Non-suppressive soils were dominated by Alternaria, Gibberella and Penicillum. Pyrosequencing generated a detailed description of fungal community structure and identified candidate taxa that may influence pathogen-plant interactions in stable disease suppression. |
| format | Article |
| id | doaj-art-6672074da6a8463893fd2b290dfddd39 |
| institution | DOAJ |
| issn | 1932-6203 |
| language | English |
| publishDate | 2014-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj-art-6672074da6a8463893fd2b290dfddd392025-08-20T03:00:35ZengPublic Library of Science (PLoS)PLoS ONE1932-62032014-01-0194e9389310.1371/journal.pone.0093893Fungal community structure in disease suppressive soils assessed by 28S LSU gene sequencing.C Ryan PentonV V S R GuptaJames M TiedjeStephen M NeateKathy Ophel-KellerMichael GillingsPaul HarveyAmanda PhamDavid K RogetNatural biological suppression of soil-borne diseases is a function of the activity and composition of soil microbial communities. Soil microbe and phytopathogen interactions can occur prior to crop sowing and/or in the rhizosphere, subsequently influencing both plant growth and productivity. Research on suppressive microbial communities has concentrated on bacteria although fungi can also influence soil-borne disease. Fungi were analyzed in co-located soils 'suppressive' or 'non-suppressive' for disease caused by Rhizoctonia solani AG 8 at two sites in South Australia using 454 pyrosequencing targeting the fungal 28S LSU rRNA gene. DNA was extracted from a minimum of 125 g of soil per replicate to reduce the micro-scale community variability, and from soil samples taken at sowing and from the rhizosphere at 7 weeks to cover the peak Rhizoctonia infection period. A total of ∼ 994,000 reads were classified into 917 genera covering 54% of the RDP Fungal Classifier database, a high diversity for an alkaline, low organic matter soil. Statistical analyses and community ordinations revealed significant differences in fungal community composition between suppressive and non-suppressive soil and between soil type/location. The majority of differences associated with suppressive soils were attributed to less than 40 genera including a number of endophytic species with plant pathogen suppression potentials and mycoparasites such as Xylaria spp. Non-suppressive soils were dominated by Alternaria, Gibberella and Penicillum. Pyrosequencing generated a detailed description of fungal community structure and identified candidate taxa that may influence pathogen-plant interactions in stable disease suppression.https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0093893&type=printable |
| spellingShingle | C Ryan Penton V V S R Gupta James M Tiedje Stephen M Neate Kathy Ophel-Keller Michael Gillings Paul Harvey Amanda Pham David K Roget Fungal community structure in disease suppressive soils assessed by 28S LSU gene sequencing. PLoS ONE |
| title | Fungal community structure in disease suppressive soils assessed by 28S LSU gene sequencing. |
| title_full | Fungal community structure in disease suppressive soils assessed by 28S LSU gene sequencing. |
| title_fullStr | Fungal community structure in disease suppressive soils assessed by 28S LSU gene sequencing. |
| title_full_unstemmed | Fungal community structure in disease suppressive soils assessed by 28S LSU gene sequencing. |
| title_short | Fungal community structure in disease suppressive soils assessed by 28S LSU gene sequencing. |
| title_sort | fungal community structure in disease suppressive soils assessed by 28s lsu gene sequencing |
| url | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0093893&type=printable |
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