Metagenome tracking biogeographic agroecology: Phytobiota of tomatoes from Virginia, Maryland, North Carolina and California

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dc.contributor.authorOttesen, Andrea R.en
dc.contributor.authorRamachandran, Padminien
dc.contributor.authorReed, E.en
dc.contributor.authorGu, G.en
dc.contributor.authorGorham, S.en
dc.contributor.authorDucharme, D.en
dc.contributor.authorNewell, M.en
dc.contributor.authorRideout, Steven L.en
dc.contributor.authorTurini, T.en
dc.contributor.authorHill, T.en
dc.contributor.authorStrain, E.en
dc.contributor.authorBrown, E.en
dc.contributor.departmentVirginia Agricultural Experiment Stationen
dc.coverage.countryUnited Statesen
dc.coverage.stateVirginiaen
dc.coverage.stateMarylanden
dc.coverage.stateNorth Carolinaen
dc.coverage.stateCaliforniaen
dc.date.accessioned2019-04-01T13:54:52Zen
dc.date.available2019-04-01T13:54:52Zen
dc.date.issued2018–12-05en
dc.description.abstractDescribing baseline microbiota associated with agricultural commodities in the field is an important step towards improving our understanding of a wide range of important objectives from plant pathology and horticultural sustainability, to food safety. Environmental pressures on plants (wind, dust, drought, water, temperature) vary by geography and characterizing the impact of these variable pressures on phyllosphere microbiota will contribute to improved stewardship of fresh produce for both plant and human health. A higher resolution understanding of the incidence of human pathogens on food plants and co-occurring phytobiota using metagenomic approaches (metagenome tracking) may contribute to improved source attribution and risk assessment in cases where human pathogens become introduced to agro-ecologies. Between 1990 and 2007, as many as 1990 culture-confirmed Salmonella illnesses were linked to tomatoes from as many as 12 multistate outbreaks (Bell et al., 2012; Bell et al., 2015; Bennett et al., 2014; CDC, 2004; CDC, 2007; Greene et al., 2005a; Gruszynski et al., 2014). When possible, source attribution for these incidents revealed a biogeographic trend, most events were associated with eastern growing regions. To improve our understanding of potential biogeographically linked trends in contamination of tomatoes by Salmonella, we profiled microbiota from the surfaces of tomatoes from Virginia, Maryland, North Carolina and California. Bacterial profiles from California tomatoes were completely different than those of Maryland, Virginia and North Carolina (which were highly similar to each other). A statistically significant enrichment of Firmicutes taxa was observed in California phytobiota compared to the three eastern states. Rhizobiaceae, Sphingobacteriaceae and Xanthobacteraceae were the most abundant bacterial families associated with tomatoes grown in eastern states. These baseline metagenomic profiles of phyllosphere microbiota may contribute to improved understanding of how certain ecologies provide supportive resources for human pathogens on plants and how components of certain agro-ecologies may play a role in the introduction of human pathogens to plants.en
dc.description.notesWe would like to acknowledge the work of Dr. Rebecca Bell, Dr. Jie Zheng, Dr. Sarah Allard, Erik Burrows, Charles Wang, Alex Enurah, Dr. Marc Allard, Dr. Steven Musser and all other agricultural scientists at the Virginia Tech Agricultural Research and Extension Center in Painter, VA who supported the “Team Tomato” research initiatives.en
dc.format.mimetypeapplication/pdfen
dc.identifier.doihttps://doi.org/10.1016/j.fm.2018.12.001en
dc.identifier.issn0740-0020en
dc.identifier.pmid30621868en
dc.identifier.urihttp://hdl.handle.net/10919/88788en
dc.identifier.volume79en
dc.language.isoenen
dc.publisherAcademic Pressen
dc.rightsCreative Commons Attribution-NonCommercial-NoDerivatives 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/en
dc.subjectAgroecologyen
dc.subjectBiogeographyen
dc.subjectCaliforniaen
dc.subjectEastern U.S.en
dc.subjectGenometrakren
dc.subjectMarylanden
dc.subjectMetagenome-trackingen
dc.subjectMetagenometrakren
dc.subjectNorth Carolinaen
dc.subjectPhyllosphereen
dc.subjectPhytobiotaen
dc.subjectSalmonellaen
dc.subjectTomatoesen
dc.subjectVirginiaen
dc.subjectWestern U.S.en
dc.titleMetagenome tracking biogeographic agroecology: Phytobiota of tomatoes from Virginia, Maryland, North Carolina and Californiaen
dc.title.serialFood Microbiologyen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten

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