Characterization of the Soil Bacterial Community from Selected Boxwood Gardens across the United States
In a recent study, we observed a rapid decline of the boxwood blight pathogen <i>Calonectria pseudonaviculata</i> (<i>Cps</i>) soil population in all surveyed gardens across the United States, and we speculated that these garden soils might be suppressive to <i>Cps</...
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| Format: | Article |
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MDPI AG
2022-07-01
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| Series: | Microorganisms |
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| Online Access: | https://www.mdpi.com/2076-2607/10/8/1514 |
| _version_ | 1797443364680892416 |
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| author | Xiaoping Li Ping Kong Margery Daughtrey Kathleen Kosta Scott Schirmer Matthew Howle Michael Likins Chuanxue Hong |
| author_facet | Xiaoping Li Ping Kong Margery Daughtrey Kathleen Kosta Scott Schirmer Matthew Howle Michael Likins Chuanxue Hong |
| author_sort | Xiaoping Li |
| collection | DOAJ |
| description | In a recent study, we observed a rapid decline of the boxwood blight pathogen <i>Calonectria pseudonaviculata</i> (<i>Cps</i>) soil population in all surveyed gardens across the United States, and we speculated that these garden soils might be suppressive to <i>Cps</i>. This study aimed to characterize the soil bacterial community in these boxwood gardens. Soil samples were taken from one garden in California, Illinois, South Carolina, and Virginia and two in New York in early summer and late fall of 2017 and 2018. Soil DNA was extracted and its 16S rRNA amplicons were sequenced using the Nanopore MinION<sup>®</sup> platform. These garden soils were consistently dominated by <i>Rhizobiales</i> and <i>Burkholderiales</i>, regardless of garden location and sampling time. These two orders contain many species or strains capable of pathogen suppression and plant fitness improvement. Overall, 66 bacterial taxa were identified in this study that are known to have strains with biological control activity (BCA) against plant pathogens. Among the most abundant were <i>Pseudomonas</i> spp. and <i>Bacillus</i> spp., which may have contributed to the <i>Cps</i> decline in these garden soils. This study highlights the importance of soil microorganisms in plant health and provides a new perspective on garden disease management using the soil microbiome. |
| first_indexed | 2024-03-09T12:54:54Z |
| format | Article |
| id | doaj.art-6c0afc4b94ae402dbd389fc630470599 |
| institution | Directory Open Access Journal |
| issn | 2076-2607 |
| language | English |
| last_indexed | 2024-03-09T12:54:54Z |
| publishDate | 2022-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Microorganisms |
| spelling | doaj.art-6c0afc4b94ae402dbd389fc6304705992023-11-30T22:01:25ZengMDPI AGMicroorganisms2076-26072022-07-01108151410.3390/microorganisms10081514Characterization of the Soil Bacterial Community from Selected Boxwood Gardens across the United StatesXiaoping Li0Ping Kong1Margery Daughtrey2Kathleen Kosta3Scott Schirmer4Matthew Howle5Michael Likins6Chuanxue Hong7Hampton Roads Agricultural Research and Extension Center, Virginia Tech, Virginia Beach, VA 23455, USAHampton Roads Agricultural Research and Extension Center, Virginia Tech, Virginia Beach, VA 23455, USALong Island Horticultural Research and Extension Center, Cornell University, Riverhead, NY 11901, USACalifornia Department of Food and Agriculture, Sacramento, CA 95814, USABureau of Environmental Programs, Illinois Department of Agriculture, Dekalb, IL 60115, USADepartment of Plant Industry, Clemson University, Florence, SC 29506, USAChesterfield Cooperative Extension, Chesterfield County, VA 23832, USAHampton Roads Agricultural Research and Extension Center, Virginia Tech, Virginia Beach, VA 23455, USAIn a recent study, we observed a rapid decline of the boxwood blight pathogen <i>Calonectria pseudonaviculata</i> (<i>Cps</i>) soil population in all surveyed gardens across the United States, and we speculated that these garden soils might be suppressive to <i>Cps</i>. This study aimed to characterize the soil bacterial community in these boxwood gardens. Soil samples were taken from one garden in California, Illinois, South Carolina, and Virginia and two in New York in early summer and late fall of 2017 and 2018. Soil DNA was extracted and its 16S rRNA amplicons were sequenced using the Nanopore MinION<sup>®</sup> platform. These garden soils were consistently dominated by <i>Rhizobiales</i> and <i>Burkholderiales</i>, regardless of garden location and sampling time. These two orders contain many species or strains capable of pathogen suppression and plant fitness improvement. Overall, 66 bacterial taxa were identified in this study that are known to have strains with biological control activity (BCA) against plant pathogens. Among the most abundant were <i>Pseudomonas</i> spp. and <i>Bacillus</i> spp., which may have contributed to the <i>Cps</i> decline in these garden soils. This study highlights the importance of soil microorganisms in plant health and provides a new perspective on garden disease management using the soil microbiome.https://www.mdpi.com/2076-2607/10/8/1514disease suppressive soilsoil bacterial communityurban gardenboxwoodbiological control agentsNanopore MinION sequencing |
| spellingShingle | Xiaoping Li Ping Kong Margery Daughtrey Kathleen Kosta Scott Schirmer Matthew Howle Michael Likins Chuanxue Hong Characterization of the Soil Bacterial Community from Selected Boxwood Gardens across the United States Microorganisms disease suppressive soil soil bacterial community urban garden boxwood biological control agents Nanopore MinION sequencing |
| title | Characterization of the Soil Bacterial Community from Selected Boxwood Gardens across the United States |
| title_full | Characterization of the Soil Bacterial Community from Selected Boxwood Gardens across the United States |
| title_fullStr | Characterization of the Soil Bacterial Community from Selected Boxwood Gardens across the United States |
| title_full_unstemmed | Characterization of the Soil Bacterial Community from Selected Boxwood Gardens across the United States |
| title_short | Characterization of the Soil Bacterial Community from Selected Boxwood Gardens across the United States |
| title_sort | characterization of the soil bacterial community from selected boxwood gardens across the united states |
| topic | disease suppressive soil soil bacterial community urban garden boxwood biological control agents Nanopore MinION sequencing |
| url | https://www.mdpi.com/2076-2607/10/8/1514 |
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