Assessing the environmental biosafety of phage-based biocontrol applications

Biological Control - Tập 187 - Trang 105375 - 2023
Kiandro J. Fortuna1, Márton Szoboszlay2, Dominique Holtappels1, Rob Lavigne1, Christoph C. Tebbe2, Jeroen Wagemans1
1Department of Biosystems, KU Leuven, Leuven, Belgium
2Thünen Institute of Biodiversity, Braunschweig, Germany

Tài liệu tham khảo

Ashfield-Crook, 2018, Assessment of the detrimental impact of polyvalent streptophages intended to be used as biological control agents on beneficial soil Streptoflora, Curr. Microbiol., 75, 1589, 10.1007/s00284-018-1565-2 Balogh, 2018, Relative level of bacteriophage multiplication in vitro or in phyllosphere may not predict in planta efficacy for controlling bacterial leaf spot on tomato caused by Xanthomonas Perforans, Front. Microbiol., 9, 2176, 10.3389/fmicb.2018.02176 Bass, 2015, The global status of insect resistance to neonicotinoid insecticides, Pestic. Biochem. Physiol., 121, 78, 10.1016/j.pestbp.2015.04.004 Bellou, 2015, Interaction of human adenoviruses and coliphages with kaolinite and bentonite, Sci. Total Environ., 517, 86, 10.1016/j.scitotenv.2015.02.036 Beule, Lukas, Karlovsky, Petr, 2020. “Improved normalization of species count data in ecology by scaling with ranked subsampling (SRS): application to microbial communities.” PeerJ 8 (August). 10.7717/peerj.9593. Bi, 2022, Deposition Kinetics of Bacteriophage MS2 on microcystis aeruginosa and kaolin surface, Colloids Surf. B Biointerfaces, 220, 10.1016/j.colsurfb.2022.112875 Bolyen, 2019, Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2, Nat. Biotechnol., 37, 852, 10.1038/s41587-019-0209-9 Born, 2015, Protection of Erwinia Amylovora bacteriophage Y2 from UV-Induced Damage by Natural Compounds, Bacteriophage, 5, e1074330, 10.1080/21597081.2015.1074330 Brown, 2022, Ecological and functional roles of bacteriophages in contrasting environments: marine, terrestrial and human gut, Curr. Opin. Microbiol., 70, 10.1016/j.mib.2022.102229 Bruce, 2017, Prospects for plant defence activators and biocontrol in IPM – concepts and lessons learnt so far, Crop Prot., 97, 128, 10.1016/j.cropro.2016.10.003 Buttimer, 2017, Bacteriophages and bacterial plant diseases, Front. Microbiol., 8, 34 Callahan, 2016, DADA2: high-resolution sample inference from illumina amplicon data, Nat. Methods, 13, 581, 10.1038/nmeth.3869 Chapman, 2014, Is the regulatory regime for the registration of plant protection products in the EU potentially compromising food security?, Food Energy Secur., 3, 1, 10.1002/fes3.45 Commission, 2009, Low Risk Plant Protection Products, European Commission. Dorsch, 2012, Community-Specific PH response of denitrification: experiments with cells extracted from organic soils, FEMS Microbiol. Ecol., 79, 530, 10.1111/j.1574-6941.2011.01233.x Hassan, Ahmad Y., Lin, Janet T., Ricker, Nicole, Anany, Hany 2021. “The age of phage: friend or foe in the new dawn of therapeutic and biocontrol applications?” Pharmaceuticals (Basel, Switzerland) 14 (3). 10.3390/ph14030199. Holtappels, 2021, The future of phage biocontrol in integrated plant protection for sustainable crop production, Curr. Opin. Biotechnol., 68, 60, 10.1016/j.copbio.2020.08.016 Holtappels, 2022, Isolation, characterization and genome analysis of an orphan phage FoX4 of the New Foxquatrovirus Genus, BMC Microbiol., 22, 304, 10.1186/s12866-022-02719-3 Holtappels, 2022, The potential of bacteriophages to control Xanthomonas Campestris Pv. Campestris at different stages of disease development, J. Microbial. Biotechnol., 15, 1762, 10.1111/1751-7915.14004 Inagro. 2011. “IWT - Beheersing Bacteriële Pathogeen Opkweek Kolen-Prei.” 2011. http://leden.inagro.be/Wie-is-Inagro/Projecten/project/13960. Iriarte, 2007, Factors affecting survival of bacteriophage on tomato leaf surfaces, Appl. Environ. Microbiol., 73, 1704, 10.1128/AEM.02118-06 Jelušić, 2021, Changes in the Winter Oilseed Rape Microbiome Affected by Xanthomonas Campestris Pv. Campestris and Biocontrol Potential of the Indigenous Bacillus and Pseudomonas Isolates, Biol. Control, 160, 10.1016/j.biocontrol.2021.104695 Jones, 2007, Bacteriophages for plant disease control, Annu. Rev. Phytopathol., 45, 245, 10.1146/annurev.phyto.45.062806.094411 Katz, 2018, Heteroaggregation of an enveloped bacteriophage with colloidal sediments and effect on virus viability, Sci. Total Environ., 637–638, 104, 10.1016/j.scitotenv.2018.04.425 Koskella, 2014, Bacteria-phage coevolution as a driver of ecological and evolutionary processes in microbial communities, FEMS Microbiol. Rev., 38, 10.1111/1574-6976.12072 Koskella, 2022, Understanding the impacts of bacteriophage viruses: from laboratory evolution to natural ecosystems, Annual Review of Virology, 9, 57, 10.1146/annurev-virology-091919-075914 Lindahl, 1995, Evaluation of methods for extraction of bacteria from soil, FEMS Microbiol. Ecol., 16, 135, 10.1111/j.1574-6941.1995.tb00277.x MeteoBelgie. 2019. “Analyse van Het Jaar 2018.” 2019. https://www.meteobelgie.be/klimatologie/104-jaar-2018/2210-jaa-2018. Miller, 2022, Antimicrobial use and resistance in plant agriculture: a one health perspective, Agriculture-Basel, 12 Morella, 2018, The impact of bacteriophages on phyllosphere bacterial abundance and composition, Mol. Ecol., 27, 2025, 10.1111/mec.14542 Nga, Nguyen Thi Thu, Tran Ngoc Tran, Dominique Holtappels, Nguyen Le Kim Ngan, Nguyen Phuoc Hao, Marta Vallino, Doan Thi Kieu Tien, et al. 2021. “Phage Biocontrol of Bacterial Leaf Blight Disease on Welsh Onion Caused by Xanthomonas Axonopodis Pv. Allii.” Antibiotics-Basel 10 (5). 10.3390/antibiotics10050517. Passera, 2019, Not just a pathogen? Description of a plant-beneficial pseudomonas syringae strain, Front. Microbiol., 10, 1409, 10.3389/fmicb.2019.01409 Price, 2015, Azole fungicides – understanding resistance mechanisms in agricultural fungal pathogens, Pest Manag. Sci., 71, 1054, 10.1002/ps.4029 Pritchard, 2012, Alignment-free design of highly discriminatory diagnostic primer sets for Escherichia Coli O104:H4 Outbreak Strains, PLoS One, 7, 10.1371/journal.pone.0034498 Pruesse, 2007, SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB, Nucleic Acids Res., 35, 7188, 10.1093/nar/gkm864 Rice, 2000, EMBOSS: The European molecular biology open software suite, Trends in Genetics : TIG, 16, 276, 10.1016/S0168-9525(00)02024-2 Robeson, 2021, RESCRIPt: reproducible sequence taxonomy reference database management, PLoS Comput. Biol., 17, 10.1371/journal.pcbi.1009581 Roser, Max, Hannah Ritchie, Esteban Ortiz-Ospina, and Lucas Rodés-Guirao. 2013. “World Population Growth.” Our World in Data. 2013. https://ourworldindata.org/world-population-growth#citation. Rozen, 2000, Primer3 on the WWW for General Users and for Biologist Programmers, Methods in Molecular Biology (clifton N.J.), 132, 365 Saccá, 2017, Ecosystem Services Provided By Soil Microorganisms, 9 Stefani, 2021, Bacteriophage-mediated control of phytopathogenic xanthomonads: a promising green solution for the future, Microorganisms, 9, 10.3390/microorganisms9051056 Sundin, 2018, “Antibiotic Resistance in Plant-Pathogenic Bacteria”. Edited by SE Leach, JE and Lindow. Annual Review of Phytopathology, Annu. Rev. Phytopathol., 56, 161, 10.1146/annurev-phyto-080417-045946 Sykes, 1978, Interactions of actinophage and clays, Microbiology, 108, 97 Szoboszlay, 2019, Contrasting microbial community responses to salinization and straw amendment in a semiarid bare soil and its wheat rhizosphere, Sci. Rep., 9, 9795, 10.1038/s41598-019-46070-6 Taylor, 2010, Microbial protein in soil: influence of extraction method and C Amendment on Extraction and Recovery, Microb. Ecol., 59, 390, 10.1007/s00248-009-9593-x United Nations. 2022. “World Population to Reach 8 Billion This Year, as Growth Rate Slows,” 2022. https://news.un.org/en/story/2022/07/1122272. Vicente, 2013, Xanthomonas Campestris Pv. Campestris (cause of black rot of crucifers) in the genomic era is still a worldwide threat to Brassica Crops, Mol. Plant Pathol, 14, 2, 10.1111/j.1364-3703.2012.00833.x Wade, 2002, Unculturable bacteria - the uncharacterized organisms that cause oral infections, J. R. Soc. Med., 95, 81 Wagemans, 2022, Going viral: virus-based biological control agents for plant protection, Annu. Rev. Phytopathol., 60, 21, 10.1146/annurev-phyto-021621-114208 Walters, 2016, Improved Bacterial 16S RRNA Gene (V4 and V4–5) and Fungal Internal Transcribed Spacer Marker Gene Primers for Microbial Community Surveys, Msystems, 1, 10.1128/mSystems.00009-15 Wang, Xiaofang, Zhong Wei, Keming Yang, Jianing Wang, Alexandre Jousset, Yangchun Xu, Qirong Shen, and Ville-Petri Friman. 2019. “Phage combination therapies for bacterial wilt disease in tomato.” Nat. Biotechno. 37 (12): 1513+. 10.1038/s41587-019-0328-3. Weitz, 2012, Ocean viruses and their effects on microbial communities and biogeochemical cycles, F1000 Biology Reports, 4 You, 2022, Next-generation sequencing results vary between cultured and uncultured microbes, Curr. Microbiol., 79, 187, 10.1007/s00284-022-02865-x Zikankuba, 2019, Pesticide regulations and their malpractice implications on food and environment safety, Cogent Food & Agriculture, 5, 10.1080/23311932.2019.1601544