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Li X, Tseng HT, Hemmings G, Omolehin O, Taylor C, Taylor A, Kong P, Daughtrey M, Gouker F, Hong C. Characterization of Boxwood Shoot Bacterial Communities and Potential Impact from Fungicide Treatments. Microbiol Spectr 2023; 11:e0416322. [PMID: 36853063 PMCID: PMC10100737 DOI: 10.1128/spectrum.04163-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2022] [Accepted: 02/10/2023] [Indexed: 03/01/2023] Open
Abstract
Phyllosphere bacterial communities play important roles in plant fitness and growth. The objective of this study was to characterize the epiphytic and endophytic bacterial communities of boxwood shoots and determine how they may respond to commonly used fungicides. In early summer and early fall, shoot samples were collected immediately before and 1, 7, and 14 days after three fungicides containing chlorothalonil and/or propiconazole were applied to the canopy. Total genomic DNA from shoot surface washings and surface-sterilized shoot tissues was used as the template for 16S rRNA metabarcoding, and the amplicons were sequenced on a Nanopore MinION sequencer to characterize the epiphytic and endophytic communities. The bacterial communities were phylogenetically more diverse on the boxwood shoot surface than in the internal tissue, although the two communities shared 12.7% of the total 1,649 identified genera. The most abundant epiphytes were Methylobacterium and Pantoea, while Stenotrophomonas and Brevundimonas were the dominant endophytes. Fungicide treatments had strong impacts on epiphytic bacterial community structure and composition. Analysis of compositions of microbiomes with bias correction (ANCOM-BC) and analysis of variance (ANOVA)-like differential expression (ALDEx2) together identified 312 and 1,362 epiphytes changed in abundance due to fungicide treatments in early summer and early fall, respectively, and over 50% of these epiphytes were negatively impacted by fungicide. The two chlorothalonil-based contact fungicides demonstrated more marked effects than the propiconazole-based systemic fungicide. These results are foundational for exploring and utilizing the full potential of the microbiome and fungicide applications and developing a systems approach to boxwood health and production. IMPORTANCE Agrochemicals are important tools for safeguarding plants from invasive pathogens, insects, mites, and weeds. How they may affect the plant microbiome, a critical component of crop health and production, was poorly understood. Here, we used boxwood, an iconic low-maintenance landscape plant, to characterize shoot epiphytic and endophytic bacterial communities and their responses to contact and systemic fungicides. This study expanded our understanding of the above-ground microbiome in ornamental plants and is foundational for utilizing the full benefits of the microbiome in concert with different fungicide chemistries to improve boxwood health. This study also sets an example for a more thorough evaluation of these and other agrochemicals for their effects on boxwood microbiomes during production and offers an expanded systems approach that could be used with other crops for enhanced integrated pest management.
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Affiliation(s)
- Xiaoping Li
- Hampton Roads Agriculture Research and Extension Center, Virginia Tech, Virginia Beach, Virginia, USA
| | - Hsien Tzer Tseng
- North Carolina Department of Agriculture and Consumer Services, Plant Industry Division, Raleigh, North Carolina, USA
| | - Ginger Hemmings
- North Carolina Department of Agriculture and Consumer Services, Plant Industry Division, Dobson, North Carolina, USA
| | - Olanike Omolehin
- Hampton Roads Agriculture Research and Extension Center, Virginia Tech, Virginia Beach, Virginia, USA
| | - Chad Taylor
- North Carolina Department of Agriculture and Consumer Services, Plant Industry Division, Boone, North Carolina, USA
| | - Amanda Taylor
- North Carolina University Cooperative Extension, Morganton, North Carolina, USA
| | - Ping Kong
- Hampton Roads Agriculture Research and Extension Center, Virginia Tech, Virginia Beach, Virginia, USA
| | - Margery Daughtrey
- Long Island Horticultural Research and Extension Center, Cornell University, Riverhead, New York, USA
| | - Fred Gouker
- USDA-ARS, U.S. National Arboretum, Floral and Nursery Plants Research Unit, Beltsville, Maryland, USA
| | - Chuanxue Hong
- Hampton Roads Agriculture Research and Extension Center, Virginia Tech, Virginia Beach, Virginia, USA
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Wu PH, Chang HX, Shen YM. Effects of synthetic and environmentally friendly fungicides on powdery mildew management and the phyllosphere microbiome of cucumber. PLoS One 2023; 18:e0282809. [PMID: 36888572 PMCID: PMC9994715 DOI: 10.1371/journal.pone.0282809] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2022] [Accepted: 02/23/2023] [Indexed: 03/09/2023] Open
Abstract
Modern agricultural practices rely on synthetic fungicides to control plant disease, but the application of these fungicides has raised concerns regarding human and environmental health for many years. As a substitute, environmentally friendly fungicides have been increasingly introduced as alternatives to synthetic fungicides. However, the impact of these environmentally friendly fungicides on plant microbiomes has received limited attention. In this study, we used amplicon sequencing to compare the bacterial and fungal microbiomes in the leaves of powdery mildew-infected cucumber after the application of two environmentally friendly fungicides (neutralized phosphorous acid (NPA) and sulfur) and one synthetic fungicide (tebuconazole). The phyllosphere α-diversity of both the bacterial and fungal microbiomes showed no significant differences among the three fungicides. For phyllosphere β-diversity, the bacterial composition exhibited no significant differences among the three fungicides, but fungal composition was altered by the synthetic fungicide tebuconazole. While all three fungicides significantly reduced disease severity and the incidence of powdery mildew, NPA and sulfur had minimal impacts on the phyllosphere fungal microbiome relative to the untreated control. Tebuconazole altered the phyllosphere fungal microbiome by reducing the abundance of fungal OTUs such as Dothideomycetes and Sordariomycetes, which included potentially beneficial endophytic fungi. These results indicated that treatments with the environmentally friendly fungicides NPA and sulfur have fewer impacts on the phyllosphere fungal microbiome while maintaining the same control efficacy as the synthetic fungicide tebuconazole.
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Affiliation(s)
- Ping-Hu Wu
- Department of Plant Pathology and Microbiology, National Taiwan University, Taipei City, Taiwan
| | - Hao-Xun Chang
- Department of Plant Pathology and Microbiology, National Taiwan University, Taipei City, Taiwan
| | - Yuan-Min Shen
- Master Program for Plant Medicine, National Taiwan University, Taipei City, Taiwan
- * E-mail:
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Muyshondt B, Wuyts K, Van Mensel A, Smets W, Lebeer S, Aleixo C, Alós Ortí M, Casanelles-Abella J, Chiron F, Giacomo P, Laanisto L, Moretti M, Niinemets Ü, Pinho P, Tryjanowski P, Woszczyło P, Samson R. Phyllosphere bacterial communities in urban green areas throughout Europe relate to urban intensity. FEMS Microbiol Ecol 2022; 98:6695091. [PMID: 36085374 DOI: 10.1093/femsec/fiac106] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2022] [Revised: 08/25/2022] [Accepted: 09/07/2022] [Indexed: 12/14/2022] Open
Abstract
The phyllosphere harbours a diverse and specific bacterial community, which influences plant health and ecosystem functioning. In this study, we investigated the impact of urban green areas connectivity and size on the composition and diversity of phyllosphere bacterial communities. Hereto, we evaluated the diversity and composition of phyllosphere bacterial communities of 233 Platanus x acerifolia and Acer pseudoplatanus trees in 77 urban green areas throughout 6 European cities. The community composition and diversity significantly differed between cities but only to a limited extent between tree species. We could show that urban intensity correlated significantly with the community composition of phyllosphere bacteria. In particular, a significant correlation was found between the relative abundances for 29 out of the 50 most abundant families and the urban intensity: the abundances of classic phyllosphere families, such as Acetobacteraceae, Planctomycetes, and Beijerinkiaceae, decreased with urban intensity (i.e. more abundant in areas with more green, lower air pollution, and lower temperature), while those related to human activities, such as Enterobacteriaceae and Bacillaceae, increased with urban intensity. The results of this study suggest that phyllosphere bacterial communities in European cities are associated with urban intensity and that effect is mediated by several combined stress factors.
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Affiliation(s)
- Babette Muyshondt
- Environmental Ecology and Applied Microbiology (ENdEMIC), Department of Bioscience Engineering, University of Antwerp, 2000, Antwerp, Belgium
| | - Karen Wuyts
- Environmental Ecology and Applied Microbiology (ENdEMIC), Department of Bioscience Engineering, University of Antwerp, 2000, Antwerp, Belgium
| | - Anskje Van Mensel
- Environmental Ecology and Applied Microbiology (ENdEMIC), Department of Bioscience Engineering, University of Antwerp, 2000, Antwerp, Belgium
| | - Wenke Smets
- Environmental Ecology and Applied Microbiology (ENdEMIC), Department of Bioscience Engineering, University of Antwerp, 2000, Antwerp, Belgium
| | - Sarah Lebeer
- Environmental Ecology and Applied Microbiology (ENdEMIC), Department of Bioscience Engineering, University of Antwerp, 2000, Antwerp, Belgium
| | - Cristiana Aleixo
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências da Universidade de Lisboa, 3810-135, Lisbon, Portugal
| | - Marta Alós Ortí
- Chair of Biodiversity and Nature Tourism, Estonian University of Life Sciences, 51005, Tartu, Estonia
| | - Joan Casanelles-Abella
- Biodiversity and Conservation Biology, Swiss Federal Research Institute WSL, CH-8903, Birmensdorf, Switzerland.,Landscape Ecology, Institute of Terrestrial Ecosystems, ETH Zurich, CH-8092, Zurich, Switzerland
| | - François Chiron
- CNRS, AgroParisTech, Ecologie Systématique Evolution, Université Paris-Saclay, 91405 Orsay, France
| | - Puglielli Giacomo
- Chair of Biodiversity and Nature Tourism, Estonian University of Life Sciences, 51005, Tartu, Estonia
| | - Lauri Laanisto
- Chair of Biodiversity and Nature Tourism, Estonian University of Life Sciences, 51005, Tartu, Estonia
| | - Marco Moretti
- Biodiversity and Conservation Biology, Swiss Federal Research Institute WSL, CH-8903, Birmensdorf, Switzerland
| | - Ülo Niinemets
- Chair of Crop Science and Plant Biology, Estonian University of Life Sciences, 51006, Tartu, Estonia
| | - Pedro Pinho
- Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências da Universidade de Lisboa, 3810-135, Lisbon, Portugal
| | - Piotr Tryjanowski
- Department of Zoology, Poznan University of Life Sciences, 60-637, Poland
| | - Patrycja Woszczyło
- Department of Zoology, Poznan University of Life Sciences, 60-637, Poland
| | - Roeland Samson
- Environmental Ecology and Applied Microbiology (ENdEMIC), Department of Bioscience Engineering, University of Antwerp, 2000, Antwerp, Belgium
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Leveau JH. A brief from the leaf: latest research to inform our understanding of the phyllosphere microbiome. Curr Opin Microbiol 2019; 49:41-49. [PMID: 31707206 DOI: 10.1016/j.mib.2019.10.002] [Citation(s) in RCA: 55] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2019] [Revised: 10/03/2019] [Accepted: 10/04/2019] [Indexed: 01/05/2023]
Abstract
The plant leaf surface, or phyllosphere, represents a unique and challenging microbial biome with a diverse and dynamic community of commensal, parasitic, and mutualistic agents of microscopic proportions. This mini-review offers a digest of recently published research dedicated to the study of phyllosphere microbiota, framed in the context of processes and outcomes of microbial community assembly, structure, and (inter)activity in the phyllosphere, with particular focus on the contributions of environment, plant, and microbe, and on the potential benefits of interrogating those contributions at finer resolutions.
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Affiliation(s)
- Johan Hj Leveau
- Department of Plant Pathology, University of California, Davis, CA 95616, USA.
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