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Eliette AS, Elodie B, Arnaud M, Tiffany R, Aymé S, Pascal P. Idiosyncratic invasion trajectories of human bacterial pathogens facing temperature disturbances in soil microbial communities. Sci Rep 2024; 14:12375. [PMID: 38811807 PMCID: PMC11137084 DOI: 10.1038/s41598-024-63284-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2024] [Accepted: 05/27/2024] [Indexed: 05/31/2024] Open
Abstract
Current knowledge about effects of disturbance on the fate of invaders in complex microbial ecosystems is still in its infancy. In order to investigate this issue, we compared the fate of Klebsiella pneumoniae (Kp) and Listeria monocytogenes (Lm) in soil microcosms. We then used environmental disturbances (freeze-thaw or heat cycles) to compare the fate of both invaders and manipulate soil microbial diversity. Population dynamics of the two pathogens was assessed over 50 days of invasion while microbial diversity was measured at times 0, 20 and 40 days. The outcome of invasion was strain-dependent and the response of the two invaders to disturbance differed. Resistance to Kp invasion was higher under the conditions where resident microbial diversity was the highest while a significant drop of diversity was linked to a higher persistence. In contrast, Lm faced stronger resistance to invasion in heat-treated microcosms where diversity was the lowest. Our results show that diversity is not a universal proxy of resistance to microbial invasion, indicating the need to properly assess other intrinsic properties of the invader, such as its metabolic repertoire, or the array of interactions between the invader and resident communities.
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Affiliation(s)
- Ascensio-Schultz Eliette
- Université de Bourgogne, University Bourgogne Franche-Comté, INRAE, Institut Agro, Agroécologie, 21000, Dijon, France
| | - Barbier Elodie
- Université de Bourgogne, University Bourgogne Franche-Comté, INRAE, Institut Agro, Agroécologie, 21000, Dijon, France
| | - Mounier Arnaud
- Université de Bourgogne, University Bourgogne Franche-Comté, INRAE, Institut Agro, Agroécologie, 21000, Dijon, France
| | - Raynaud Tiffany
- Université de Bourgogne, University Bourgogne Franche-Comté, INRAE, Institut Agro, Agroécologie, 21000, Dijon, France
| | - Spor Aymé
- Université de Bourgogne, University Bourgogne Franche-Comté, INRAE, Institut Agro, Agroécologie, 21000, Dijon, France
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Bardsley CA, Young MJ, Sharma M, Kessler C, Appolon CB, Schneider KR. Growth Media of Escherichia coli Does Not Affect Its Survival in Soil under Static Conditions. J Food Prot 2022; 85:1842-1847. [PMID: 36150096 DOI: 10.4315/jfp-22-082] [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: 03/22/2022] [Accepted: 09/22/2022] [Indexed: 11/11/2022]
Abstract
ABSTRACT Many studies have examined the survival of Escherichia coli and foodborne pathogens in agricultural soils. The results of these studies can be influenced by various growth conditions and growth media used when preparing cultures for an experiment. The objectives of this study were to (i) determine the growth curves of rifampin (R)-resistant E. coli in three types of growth media containing R: tryptic soy agar (TSA-R); tryptic soy broth (TSB-R); and poultry pellet extract (PPE-R) and (ii) evaluate the influence of growth media on the survival of E. coli in agricultural soil. Poultry pellet extract (PPE) was prepared by filter sterilizing a 1:10 suspension of heat-treated poultry pellets in sterile water. Generic E. coli (TVS 353) acclimated to 80 μg/mL of R was grown in TSA-R, TSB-R, and PPE-R at 3.0 to 3.5 log CFU/mL and incubated at 37°C. Growth curves were determined by quantifying E. coli populations at 0, 4, 8, 16, 24, and 32 h. Soil microcosms were inoculated with E. coli (6.0 log CFU/g) previously cultured in one of the three media types and stored at 25°C, and soil samples were quantified for E. coli on days 0, 1, 3, 7, 14, 28, and 42. Growth curves and survival models were generated by using DMFit and GInaFiT, respectively. E. coli growth rates were 0.88, 0.77, and 0.69 log CFU/mL/h in TSA-R, TSB-R, and PPE-R, respectively. E. coli populations in the stationary phase were greater for cultures grown in TSA-R (9.4 log CFU/mL) and TSB-R (9.1 log CFU/mL) compared with PPE-R (7.9 log CFU/mL). The E. coli populations in the soil remained stable up to 3 days before declining. An approximate 2 log CFU/g decline of E. coli in soil was observed for each culture type between days 3 and 7, after which E. coli populations declined more slowly from days 7 to 42. A biphasic shoulder model was used to evaluate E. coli survival in soils on the basis of growth media. Using standardized culture growth preparation may aid in determining the complex interactions of enteric pathogen survival in soils. HIGHLIGHTS
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Affiliation(s)
- Cameron A Bardsley
- Food Science and Human Nutrition Department, University of Florida, Gainesville, Florida, 32611
| | - Mason J Young
- Food Science and Human Nutrition Department, University of Florida, Gainesville, Florida, 32611
| | - Manan Sharma
- U.S. Department of Agriculture, Agricultural Research Service, Northeast Area, Beltsville Agricultural Research Center, Environmental Microbial and Food Safety Laboratory, 10300 Baltimore Avenue, Beltsville, Maryland, 20705
| | - Christina Kessler
- Food Science and Human Nutrition Department, Citrus Research and Education Center, Institute of Food and Agriculture Sciences, University of Florida, Lake Alfred, Florida 33850, USA
| | - Charles B Appolon
- Food Science and Human Nutrition Department, University of Florida, Gainesville, Florida, 32611
| | - Keith R Schneider
- Food Science and Human Nutrition Department, University of Florida, Gainesville, Florida, 32611
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Transmission of Escherichia coli from Manure to Root Zones of Field-Grown Lettuce and Leek Plants. Microorganisms 2021; 9:microorganisms9112289. [PMID: 34835415 PMCID: PMC8622635 DOI: 10.3390/microorganisms9112289] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2021] [Revised: 10/26/2021] [Accepted: 11/01/2021] [Indexed: 11/25/2022] Open
Abstract
Pathogenic Escherichia coli strains are responsible for food-borne disease outbreaks upon consumption of fresh vegetables and fruits. The aim of this study was to establish the transmission route of E. coli strain 0611, as proxy for human pathogenic E. coli, via manure, soil and plant root zones to the above-soil plant compartments. The ecological behavior of the introduced strain was established by making use of a combination of cultivation-based and molecular targeted and untargeted approaches. Strain 0611 CFUs and specific molecular targets were detected in the root zones of lettuce and leek plants, even up to 272 days after planting in the case of leek plants. However, no strain 0611 colonies were detected in leek leaves, and only in one occasion a single colony was found in lettuce leaves. Therefore, it was concluded that transmission of E. coli via manure is not the principal contamination route to the edible parts of both plant species grown under field conditions in this study. Strain 0611 was shown to accumulate in root zones of both species and metagenomic reads of this strain were retrieved from the lettuce rhizosphere soil metagenome library at a level of Log 4.11 CFU per g dry soil.
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Han Z, Huang G, Liao J, Li J, Lyu G, Ma J. Disentangling survival of Escherichia coli O157:H7 in soils: From a subpopulation perspective. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 749:141649. [PMID: 32829282 DOI: 10.1016/j.scitotenv.2020.141649] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/22/2020] [Revised: 06/28/2020] [Accepted: 08/10/2020] [Indexed: 06/11/2023]
Abstract
Soil physicochemical properties and microbial community have been proved to be correlated to survival behaviors of Shiga toxin-producing Escherichia coli O157:H7, but the roles of biotic and abiotic factors in the different stages of inactivation process remain unclear. Here, fruit producing soils were collected, and soils physicochemical properties, bacterial and fungal community structure were characterized. Survival experiments were performed by inoculating E. coli O157:H7 in soils. Double Weibull survival model was found to better fit the experimental data, and two subpopulations with different capability on resistance to stress were identified. The sensitive subpopulation with smaller δ (time needed for first decimal reduction) (i.e., δ1) died off faster compared to the more resistant subpopulation with greater δ (i.e., δ2). Partial Mantel test revealed that ttd (time needed to reach detection limit) was jointly influenced by physical factors, chemical factors, and bacterial composition (P < 0.05); δ1 was shaped by physical factors (P < 0.01) and additional bacterial composition (P < 0.05); and δ2 was strongly steered by bacterial community (P < 0.001). Bacterial co-occurrence network analysis revealed that samples with lower δ2 were coupled with higher network complexity and closer taxa relationship (e.g. higher average (weighted) degree, higher network diameter, higher graph density, and lower modularity), and vice versa. Taken together, the sensitive subpopulation had difficulty in adapting to coarse particles conditions, while resistant subpopulation might eventually succumb to the robust biodiversity. This study provides novel insights into the E. coli O157:H7 survival mechanism through subpopulation perspective and sheds light on the reduction of edaphic colonization by pathogens via agricultural management strategy.
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Affiliation(s)
- Ziming Han
- Key Laboratory of Ground Water Resource and Environment, Ministry of Education, Jilin University, Changchun 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, Jilin University, Changchun 130021, China; State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Guannan Huang
- Key Laboratory of Ground Water Resource and Environment, Ministry of Education, Jilin University, Changchun 130021, China
| | - Jiafen Liao
- Key Laboratory of Ground Water Resource and Environment, Ministry of Education, Jilin University, Changchun 130021, China
| | - Jiahang Li
- Key Laboratory of Ground Water Resource and Environment, Ministry of Education, Jilin University, Changchun 130021, China
| | - Guangze Lyu
- Key Laboratory of Ground Water Resource and Environment, Ministry of Education, Jilin University, Changchun 130021, China
| | - Jincai Ma
- Key Laboratory of Ground Water Resource and Environment, Ministry of Education, Jilin University, Changchun 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, Jilin University, Changchun 130021, China.
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Baker CA, Lee S, De J, Jeong KC, Schneider KR. Survival of Escherichia coli O157 in autoclaved and natural sandy soil mesocosms. PLoS One 2020; 15:e0234562. [PMID: 32525952 PMCID: PMC7289397 DOI: 10.1371/journal.pone.0234562] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2020] [Accepted: 05/28/2020] [Indexed: 01/14/2023] Open
Abstract
While the soil microbiome may influence pathogen survival, determining the major contributors that reduce pathogen survival is inconclusive. This research was performed to determine the survival of E. coli O157 in autoclaved and natural (unautoclaved) sandy soils. Soils were inoculated with three different E. coli O157 strains (stx1+/stx2+, stx1-/stx2-, and stx1-/stx2+), and enumerated until extinction at 30°C. There was a significant difference in the survival of E. coli O157 based on soil treatment (autoclaved versus natural) at 30°C on days 1 (P = 0.00022), 3, (P = 2.53e-14), 7 (P = 5.59e-16), 14 (P = 1.072e-12), 30 (P = 7.18e-9), and 56 (P = 0.00029), with greater survival in autoclaved soils. The time to extinction (two consecutive negative enrichments) for all three strains was 169 and 84 days for autoclaved and natural soils, respectively. A separate E. coli O157 trial supplemented with 16S rRNA gene sequencing of the soil microbiome was performed at 15°C and 30°C on days 0, 7, 14, and 28 for each soil treatment. Greater species richness (Chao1, P = 2.2e-16) and diversity (Shannon, P = 2.2e-16) was observed in natural soils in comparison with autoclaved soils. Weighted UniFrac (beta-diversity) showed a clear distinction between soil treatments (P = 0.001). The greatest reduction of E. coli O157 was observed in natural soils at 30°C, and several bacterial taxa positively correlated (relative abundance) with time (day 0 to 28) in these soils (P < 0.05), suggesting that the presence of those bacteria might cause the reduction of E. coli O157. Taken together, a clear distinction in E. coli O157 survival, was observed between autoclaved and natural soils along with corresponding differences in microbial diversity in soil treatments. This research provides further insights into the bacterial taxa that may influence E. coli O157 in soils.
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Affiliation(s)
- Christopher A. Baker
- Department of Food Science and Human Nutrition, University of Florida, Gainesville, FL, United States of America
| | - Shinyoung Lee
- Department of Animal Sciences, Emerging Pathogens Institute, University of Florida, Gainesville, FL, United States of America
| | - Jaysankar De
- Department of Food Science and Human Nutrition, University of Florida, Gainesville, FL, United States of America
| | - Kwangcheol C. Jeong
- Department of Animal Sciences, Emerging Pathogens Institute, University of Florida, Gainesville, FL, United States of America
| | - Keith R. Schneider
- Department of Food Science and Human Nutrition, University of Florida, Gainesville, FL, United States of America
- * E-mail:
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Gu L, Wu JY, Hua ZL, Chu KJ. The response of nitrogen cycling and bacterial communities to E. coli invasion in aquatic environments with submerged vegetation. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2020; 261:110204. [PMID: 32148275 DOI: 10.1016/j.jenvman.2020.110204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2019] [Revised: 01/20/2020] [Accepted: 01/26/2020] [Indexed: 06/10/2023]
Abstract
The effects of exogenous Escherichia coli on nitrogen cycling (N-cycling) in freshwater remains unclear. Thus, seven ecosystems, six with submerged plants-Potamogeton crispus (PC) and Myriophyllum aquaticum (MA)-and one with no plants were set up. Habitats were assessed before and after E. coli addition (107 colony-forming units/mL). E. coli colonization of freshwater ecosystems had significant effects on bacterial community structure in plant surface biofilms and surface sediments (ANOVA, P < 0.05). It reduced the relative abundance of nitrosification bacteria (-70.94 ± 26.17%) and nitrifiers (-47.86 ± 23.68%) in biofilms which lead to significant reduction of ammoxidation in water (P < 0.05). The N-cycling intensity from PC systems was affected more strongly by E. coli than were MA systems. Furthermore, the coupling coefficient of exogenous E. coli to indigenous N-cycling bacteria in sediments (6.061, average connectivity degree) was significantly weaker than that in biofilms (9.852). Additionally, at the genus level, E. coli were most-closely associated with N-cycling bacteria such as Prosthecobacter, Hydrogenophaga, and Bacillus in sediments and biofilms according to co-occurrence bacterial network (Spearman). E. coli directly changed their abundance, so that the variability of species composition of N-cycling bacterial taxa was triggered, as well. Overall, exogenous E. coli repressed ammoxidation, but promoted ammonification and denitrification. Our results provided new insights into how pathogens influence the nitrogen cycle in freshwater ecosystems.
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Affiliation(s)
- Li Gu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, China; National Engineering Research Center of Water Resources Efficient Utilization and Engineering Safety, Hohai University, Nanjing 210098, China
| | - Jian-Yi Wu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, China; National Engineering Research Center of Water Resources Efficient Utilization and Engineering Safety, Hohai University, Nanjing 210098, China.
| | - Zu-Lin Hua
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, China; National Engineering Research Center of Water Resources Efficient Utilization and Engineering Safety, Hohai University, Nanjing 210098, China.
| | - Ke-Jian Chu
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lake of Ministry of Education, College of Environment, Hohai University, Nanjing 210098, China
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Alegbeleye OO, Singleton I, Sant'Ana AS. Sources and contamination routes of microbial pathogens to fresh produce during field cultivation: A review. Food Microbiol 2018; 73:177-208. [PMID: 29526204 PMCID: PMC7127387 DOI: 10.1016/j.fm.2018.01.003] [Citation(s) in RCA: 257] [Impact Index Per Article: 42.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2017] [Revised: 12/31/2017] [Accepted: 01/02/2018] [Indexed: 12/17/2022]
Abstract
Foodborne illness resulting from the consumption of contaminated fresh produce is a common phenomenon and has severe effects on human health together with severe economic and social impacts. The implications of foodborne diseases associated with fresh produce have urged research into the numerous ways and mechanisms through which pathogens may gain access to produce, thereby compromising microbiological safety. This review provides a background on the various sources and pathways through which pathogenic bacteria contaminate fresh produce; the survival and proliferation of pathogens on fresh produce while growing and potential methods to reduce microbial contamination before harvest. Some of the established bacterial contamination sources include contaminated manure, irrigation water, soil, livestock/ wildlife, and numerous factors influence the incidence, fate, transport, survival and proliferation of pathogens in the wide variety of sources where they are found. Once pathogenic bacteria have been introduced into the growing environment, they can colonize and persist on fresh produce using a variety of mechanisms. Overall, microbiological hazards are significant; therefore, ways to reduce sources of contamination and a deeper understanding of pathogen survival and growth on fresh produce in the field are required to reduce risk to human health and the associated economic consequences.
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Affiliation(s)
| | - Ian Singleton
- School of Applied Sciences, Sighthill Campus, Edinburgh Napier University, Edinburgh, UK
| | - Anderson S Sant'Ana
- Department of Food Science, Faculty of Food Engineering, University of Campinas, Campinas, São Paulo, Brazil.
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Abstract
ABSTRACT
Advancements in agriculture and food processing techniques have been instrumental in the development of modern human societies. Vast improvements in agronomic practices, handling, and processing have allowed us to produce and preserve mass quantities of food. Yet despite all these innovations and potentially as a consequence of these mass production practices, more and more outbreaks of human pathogens linked to raw and processed foods are identified every year. It is evident that our increased capacity for microbial detection has contributed to the greater number of outbreaks detected. However, our understanding of how these events originate and what agronomic, packaging, and environmental factors influence the survival, persistence, and proliferation of human pathogens remains of scientific debate. This review seeks to identify those past and current challenges to the safety of fresh produce and focuses on production practices and how those impact produce safety. It reflects on 20 years of research, industry guidelines, and federal standards and how they have evolved to our current understanding of fresh produce safety. This document is not intended to summarize and describe all fruit and vegetable farming practices across the United States and the rest of the world. We understand the significant differences in production practices that exist across regions. This review highlights those general farming practices that significantly impact past and current food safety issues. It focuses on current and future research needs and on preharvest food safety control measures in fresh-produce safety that could provide insight into the mechanisms of pathogen contamination, survival, and inactivation under field and packinghouse conditions.
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Khalsa SDS, Brown PH. Grower Analysis of Organic Matter Amendments in California Orchards. JOURNAL OF ENVIRONMENTAL QUALITY 2017; 46:649-658. [PMID: 28724089 DOI: 10.2134/jeq2016.11.0456] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Organic matter amendments supply crop nutrients and enhance soil health, yet information specific to orchards is lacking. A survey was conducted to analyze use of these materials by California almond [ (Mill.) D.A. Webb] growers. Significant differences were observed for benefits, concerns, and accessibility to manure and green waste sources and between users and nonusers. Use patterns were significantly influenced by heavy and light users, farm size, and geographic region. Enhanced soil biology was the main benefit attributed to organic matter amendments by both users and nonusers. Nonusers showed greater concern for food safety compared to users, and all growers reported greater concern for food safety from manure. The greatest adoption of organic matter amendments occurred on small farms (≤170 ha) located in the north San Joaquin Valley in California. Greater accessibility to manure correlated with presence of dairy farms. Poorer accessibility ratings by nonusers suggest access is a barrier to adoption, as opposed to nonusers having an undesirable view of the practice. Common management included applying organic matter amendments during tree dormancy from manure sources in composted forms with no-till. Heavy users on small farms exhibited the greatest year-to-year consistency and were more flexible with selection of sources and diverse in application methods. Large farms (>170 ha) were less likely to use organic matter amendments every year and less likely to apply them on all their farm area. This study identifies a number of strategies to fill knowledge gaps, increase practice awareness, and overcome barriers to adoption.
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Park Y, Pachepsky Y, Shelton D, Jeong J, Whelan G. Survival of Manure-borne and Fecal Coliforms in Soil: Temperature Dependence as Affected by Site-Specific Factors. JOURNAL OF ENVIRONMENTAL QUALITY 2016; 45:949-957. [PMID: 27136162 DOI: 10.2134/jeq2015.08.0427] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Understanding pathogenic and indicator bacteria survival in soils is essential for assessing the potential of microbial contamination of water and produce. The objective of this work was to evaluate the effects of soil properties, animal source, experimental conditions, and the application method on temperature dependencies of manure-borne generic , O157:H7, and fecal coliforms survival in soils. A literature search yielded 151 survival datasets from 70 publications. Either one-stage or two-stage kinetics was observed in the survival datasets. We used duration and rate of the logarithm of concentration change as parameters of the first stage in the two-stage kinetics data. The second stage of the two-stage kinetics and the one-stage kinetics were simulated with the model to find the dependence of the inactivation rate on temperature. Classification and regression trees and linear regressions were applied to parameterize the kinetics. Presence or absence of two-stage kinetics was controlled by temperature, soil texture, soil water content, and for fine-textured soils by setting experiments in the field or in the laboratory. The duration of the first stage was predominantly affected by soil water content and temperature. In the model dependencies of inactivation rates on temperature, parameter estimates were significantly affected by the laboratory versus field conditions and by the application method, whereas inactivation rates at 20°C were significantly affected by all survival and management factors. Results of this work can provide estimates of coliform survival parameters for models of microbial water quality.
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Crossland WL, Callaway TR, Tedeschi LO. Shiga Toxin-Producing E. coli and Ruminant Diets. Food Saf (Tokyo) 2015. [DOI: 10.1016/b978-0-12-800245-2.00010-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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Vogeleer P, Tremblay YDN, Mafu AA, Jacques M, Harel J. Life on the outside: role of biofilms in environmental persistence of Shiga-toxin producing Escherichia coli. Front Microbiol 2014; 5:317. [PMID: 25071733 PMCID: PMC4076661 DOI: 10.3389/fmicb.2014.00317] [Citation(s) in RCA: 64] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2014] [Accepted: 06/10/2014] [Indexed: 11/13/2022] Open
Abstract
Escherichia coli is a heterogeneous species that can be part of the normal flora of humans but also include strains of medical importance. Among pathogenic members, Shiga-toxin producing E. coli (STEC) are some of the more prominent pathogenic E. coli within the public sphere. STEC disease outbreaks are typically associated with contaminated beef, contaminated drinking water, and contaminated fresh produce. These water- and food-borne pathogens usually colonize cattle asymptomatically; cows will shed STEC in their feces and the subsequent fecal contamination of the environment and processing plants is a major concern for food and public safety. This is especially important because STEC can survive for prolonged periods of time outside its host in environments such as water, produce, and farm soil. Biofilms are hypothesized to be important for survival in the environment especially on produce, in rivers, and in processing plants. Several factors involved in biofilm formation such as curli, cellulose, poly-N-acetyl glucosamine, and colanic acid are involved in plant colonization and adherence to different surfaces often found in meat processing plants. In food processing plants, contamination of beef carcasses occurs at different stages of processing and this is often caused by the formation of STEC biofilms on the surface of several pieces of equipment associated with slaughtering and processing. Biofilms protect bacteria against several challenges, including biocides used in industrial processes. STEC biofilms are less sensitive than planktonic cells to several chemical sanitizers such as quaternary ammonium compounds, peroxyacetic acid, and chlorine compounds. Increased resistance to sanitizers by STEC growing in a biofilm is likely to be a source of contamination in the processing plant. This review focuses on the role of biofilm formation by STEC as a means of persistence outside their animal host and factors associated with biofilm formation.
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Affiliation(s)
- Philippe Vogeleer
- Groupe de Recherche sur les Maladies Infectieuses du Porc, Département de Pathologie et Microbiologie, Faculté de Médecine Vétérinaire, Centre de Recherche d'Infectiologie Porcine et Avicole, Université de Montréal St-Hyacinthe, QC, Canada
| | - Yannick D N Tremblay
- Groupe de Recherche sur les Maladies Infectieuses du Porc, Département de Pathologie et Microbiologie, Faculté de Médecine Vétérinaire, Centre de Recherche d'Infectiologie Porcine et Avicole, Université de Montréal St-Hyacinthe, QC, Canada
| | - Akier A Mafu
- Food Research and Development Centre, Agriculture and Agri-Food Canada St-Hyacinthe, QC, Canada
| | - Mario Jacques
- Groupe de Recherche sur les Maladies Infectieuses du Porc, Département de Pathologie et Microbiologie, Faculté de Médecine Vétérinaire, Centre de Recherche d'Infectiologie Porcine et Avicole, Université de Montréal St-Hyacinthe, QC, Canada
| | - Josée Harel
- Groupe de Recherche sur les Maladies Infectieuses du Porc, Département de Pathologie et Microbiologie, Faculté de Médecine Vétérinaire, Centre de Recherche d'Infectiologie Porcine et Avicole, Université de Montréal St-Hyacinthe, QC, Canada
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van Overbeek LS, van Doorn J, Wichers JH, van Amerongen A, van Roermund HJW, Willemsen PTJ. The arable ecosystem as battleground for emergence of new human pathogens. Front Microbiol 2014; 5:104. [PMID: 24688484 PMCID: PMC3960585 DOI: 10.3389/fmicb.2014.00104] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2013] [Accepted: 02/27/2014] [Indexed: 01/10/2023] Open
Abstract
Disease incidences related to Escherichia coli and Salmonella enterica infections by consumption of (fresh) vegetables, sprouts, and occasionally fruits made clear that these pathogens are not only transmitted to humans via the "classical" routes of meat, eggs, and dairy products, but also can be transmitted to humans via plants or products derived from plants. Nowadays, it is of major concern that these human pathogens, especially the ones belonging to the taxonomical family of Enterobacteriaceae, become adapted to environmental habitats without losing their virulence to humans. Adaptation to the plant environment would lead to longer persistence in plants, increasing their chances on transmission to humans via consumption of plant-derived food. One of the mechanisms of adaptation to the plant environment in human pathogens, proposed in this paper, is horizontal transfer of genes from different microbial communities present in the arable ecosystem, like the ones originating from soil, animal digestive track systems (manure), water and plants themselves. Genes that would confer better adaptation to the phytosphere might be genes involved in plant colonization, stress resistance and nutrient acquisition and utilization. Because human pathogenic enterics often were prone to genetic exchanges via phages and conjugative plasmids, it was postulated that these genetic elements may be hold key responsible for horizontal gene transfers between human pathogens and indigenous microbes in agroproduction systems. In analogy to zoonosis, we coin the term phytonosis for a human pathogen that is transmitted via plants and not exclusively via animals.
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Affiliation(s)
- Leonard S van Overbeek
- Plant Research International, Wageningen University and Research Centre Wageningen, Netherlands
| | - Joop van Doorn
- Applied Plant Research, Wageningen University and Research Centre Lisse, Netherlands
| | - Jan H Wichers
- Food and Biobased Research, Wageningen University and Research Centre Wageningen, Netherlands
| | - Aart van Amerongen
- Food and Biobased Research, Wageningen University and Research Centre Wageningen, Netherlands
| | - Herman J W van Roermund
- Central Veterinary Institute, Wageningen University and Research Centre Lelystad, Netherlands
| | - Peter T J Willemsen
- Central Veterinary Institute, Wageningen University and Research Centre Lelystad, Netherlands
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Harris LJ, Berry ED, Blessington T, Erickson M, Jay-Russell M, Jiang X, Killinger K, Michel FC, Millner P, Schneider K, Sharma M, Suslow TV, Wang L, Worobo RW. A framework for developing research protocols for evaluation of microbial hazards and controls during production that pertain to the application of untreated soil amendments of animal origin on land used to grow produce that may be consumed raw. J Food Prot 2013; 76:1062-84. [PMID: 23726206 DOI: 10.4315/0362-028x.jfp-13-007] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Application of manure or soil amendments of animal origin (untreated soil amendments; UTSAs) to agricultural land has been a long-standing practice to maintain or improve soil quality through addition of organic matter, nitrogen, and phosphorus. Much smaller quantities of these types of UTSAs are applied to land used for food crops than to land used for animal grain and forage. UTSAs can harbor zoonotic enteric pathogens that may survive for extended periods after application. Additional studies are needed to enhance our understanding of preharvest microbial food safety hazards and control measures pertaining to the application of UTSAs especially for land used to grow produce that may be consumed raw. This document is intended to provide an approach to study design and a framework for defining the scope and type of data required. This document also provides a tool for evaluating the strength of existing data and thus can aid the produce industry and regulatory authorities in identifying additional research needs. Ultimately, this framework provides a means by which researchers can increase consistency among and between studies and facilitates direct comparison of hazards and efficacy of controls applied to different regions, conditions, and practices.
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Affiliation(s)
- Linda J Harris
- Western Center for Food Safety, University of California, One Shields Avenue, Davis, California 95616, USA.
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15
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Gu G, Cevallos-Cevallos JM, Vallad GE, van Bruggen AHC. Organically managed soils reduce internal colonization of tomato plants by Salmonella enterica serovar Typhimurium. PHYTOPATHOLOGY 2013; 103:381-388. [PMID: 23506364 DOI: 10.1094/phyto-04-12-0072-fi] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
A two-phase experiment was conducted twice to investigate the effects of soil management on movement of Salmonella enterica Typhimurium in tomato plants. In the first phase, individual leaflets of 84 tomato plants grown in conventional or organic soils were dip inoculated two to four times before fruiting with either of two Salmonella Typhimurium strains (10(9) CFU/ml; 0.025% [vol/vol] Silwet L-77). Inoculated and adjacent leaflets were tested for Salmonella spp. densities for 30 days after each inoculation. Endophytic bacterial communities were characterized by polymerase chain reaction denaturing gradient gel electrophoresis before and after inoculation. Fruit and seed were examined for Salmonella spp. incidence. In phase 2, extracted seed were planted in conventional soil, and contamination of leaves and fruit of the second generation was checked. More Salmonella spp. survived in inoculated leaves on plants grown in conventional than in organic soil. The soil management effect on Salmonella spp. survival was confirmed for tomato plants grown in two additional pairs of soils. Endophytic bacterial diversities of tomato plants grown in conventional soils were significantly lower than those in organic soils. All contaminated fruit (1%) were from tomato plants grown in conventional soil. Approximately 5% of the seed from infested fruit were internally contaminated. No Salmonella sp. was detected in plants grown from contaminated seed.
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Affiliation(s)
- Ganyu Gu
- Department of Plant Pathology, University of Florida, Gainseville, FL, USA
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16
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Amin MGM, Forslund A, Bui XT, Juhler RK, Petersen SO, Lægdsmand M. Persistence and leaching potential of microorganisms and mineral N in animal manure applied to intact soil columns. Appl Environ Microbiol 2013; 79:535-42. [PMID: 23124240 PMCID: PMC3553777 DOI: 10.1128/aem.02506-12] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2012] [Accepted: 10/30/2012] [Indexed: 11/20/2022] Open
Abstract
Pathogens may reach agricultural soils through application of animal manure and thereby pose a risk of contaminating crops as well as surface and groundwater. Treatment and handling of manure for improved nutrient and odor management may also influence the amount and fate of manure-borne pathogens in the soil. A study was conducted to investigate the leaching potentials of a phage (Salmonella enterica serovar Typhimurium bacteriophage 28B) and two bacteria, Escherichia coli and Enterococcus species, in a liquid fraction of raw pig slurry obtained by solid-liquid separation of this slurry and in this liquid fraction after ozonation, when applied to intact soil columns by subsurface injection. We also compared leaching potentials of surface-applied and subsurface-injected raw slurry. The columns were exposed to irrigation events (3.5-h period at 10 mm h(-1)) after 1, 2, 3, and 4 weeks of incubation with collection of leachate. By the end of incubation, the distribution and survival of microorganisms in the soil of each treatment and in nonirrigated columns with injected raw slurry or liquid fraction were determined. E. coli in the leachates was quantified by both plate counts and quantitative PCR (qPCR) to assess the proportions of culturable and nonculturable (viable and nonviable) cells. Solid-liquid separation of slurry increased the redistribution in soil of contaminants in the liquid fraction compared to raw slurry, and the percent recovery of E. coli and Enterococcus species was higher for the liquid fraction than for raw slurry after the four leaching events. The liquid fraction also resulted in more leaching of all contaminants except Enterococcus species than did raw slurry. Ozonation reduced E. coli leaching only. Injection enhanced the leaching potential of the microorganisms investigated compared to surface application, probably because of a better survival with subsurface injection and a shorter leaching path.
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17
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Gu G, Luo Z, Cevallos-Cevallos JM, Adams P, Vellidis G, Wright A, van Bruggen AHC. Factors affecting the occurrence of Escherichia coli O157 contamination in irrigation ponds on produce farms in the Suwannee River Watershed. Can J Microbiol 2012; 59:175-82. [PMID: 23540335 DOI: 10.1139/cjm-2012-0599] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Outbreaks of enteritis caused by Escherichia coli O157 associated with fresh produce have resulted in questions about the safety of irrigation water; however, associated risks have not been systematically evaluated. In this study, the occurrence and distribution of the human pathogen E. coli O157 from vegetable irrigation ponds within the Suwannee River Watershed in Georgia were investigated, and the relationship to environmental factors was analyzed. Surface and subsurface water samples were collected monthly from 10 vegetable irrigation ponds from March 2011 to February 2012. Escherichia coli O157 was isolated from enriched filtrates on CHROMagar and sorbitol MacConkey agar media and confirmed by an agglutination test. Presence of virulence genes stx1, stx2 , and eae was tested by polymerase chain reaction. In addition, 27 environmental variables of the sampled ponds were measured. Denaturing gradient gel electrophoresis was conducted for the analysis of bacterial communities in the water samples. Biserial correlation coefficients were calculated to evaluate the log10 colony-forming unit per millilitre correlations between the environmental factors and the occurrence of E. coli O157. Stepwise and canonical discriminant analyses were used to determine the factors that were associated with the presence and absence of E. coli O157 in water samples. All 10 ponds were positive for E. coli O157 some of the time, mainly in summer and fall of 2011. The temporal distribution of this bacterium differed among the 10 ponds. Temperature, rainfall, populations of fecal coliform, and culturable bacteria were positively correlated with the occurrence of E. coli O157 (P < 0.05), while the total nitrogen concentration, oxidation-reduction potential, and dissolved oxygen concentration were negatively correlated with the occurrence of this pathogen (P < 0.05). Temperature and rainfall were the most important factors contributing to the discrimination between samples with and without E. coli O157, followed by bacterial diversity and culturable bacteria population density. Bacterial numbers and diversity, including fecal coliforms and E. coli O157, increased after rainfall (and possibly runoff from pond margins) in periods with relatively high temperatures, suggesting that prevention of runoff may be important to minimize the risk of enteric pathogens in irrigation ponds.
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Affiliation(s)
- Ganyu Gu
- Emerging Pathogens Institute and Department of Plant Pathology, University of Florida, Gainesville, FL 32611, USA.
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18
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Fluorescent proteins in microbial biotechnology—new proteins and new applications. Biotechnol Lett 2011; 34:175-86. [DOI: 10.1007/s10529-011-0767-5] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2011] [Accepted: 09/29/2011] [Indexed: 10/17/2022]
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Ongeng D, Muyanja C, Ryckeboer J, Springael D, Geeraerd A. Kinetic model-based prediction of the persistence ofSalmonella entericaserovar Typhimurium under tropical agricultural field conditions. J Appl Microbiol 2011; 110:995-1006. [DOI: 10.1111/j.1365-2672.2011.04958.x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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20
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Ongeng D, Muyanja C, Geeraerd AH, Springael D, Ryckeboer J. Survival of Escherichia coli O157:H7 and Salmonella enterica serovar Typhimurium in manure and manure-amended soil under tropical climatic conditions in Sub-Saharan Africa. J Appl Microbiol 2011; 110:1007-22. [PMID: 21276146 DOI: 10.1111/j.1365-2672.2011.04956.x] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
AIMS To establish the fate of Escherichia coli O157:H7 and Salmonella Typhimurium in manure and manure-amended agricultural soils under tropical conditions in Sub-Saharan Africa. METHODS AND RESULTS Survival of nonvirulent E. coli O157:H7 and Salm. Typhimurium at 4 and 7 log CFU g(-1) in manure and manure-amended soil maintained at ≥80% r.h. or exposed to exclusive field or screen house conditions was determined in the Central Agro-Ecological Zone of Uganda. Maintaining the matrices at high moisture level promoted the persistence of high-density inocula and enhanced the decline of low-density inocula in the screen house, but moisture condition did not affect survival in the field. The large majority of the survival kinetics displayed complex patterns corresponding to the Double Weibull model. The two enteric bacteria survived longer in manure-amended soil than in manure. The 7 log CFU g(-1) E. coli O157:H7 and Salm. Typhimurium survived for 49-84 and 63-98 days, while at 4 log CFU g(-1) , persistence was 21-28 and 35-42 days, respectively. CONCLUSIONS Under tropical conditions, E. coli O157:H7 and Salm. Typhimurium persisted for 4 and 6 weeks at low inoculum density and for 12 and 14 weeks at high inoculum density, respectively. SIGNIFICANCE AND IMPACT OF THE STUDY Persistence in the tropics was (i) mostly shorter than previously observed in temperate regions thus suggesting that biophysical conditions in the tropics might be more detrimental to enteric bacteria than in temperate environments; (ii) inconsistent with published data isothermally determined previously hence indicating the irrelevance of single point isothermal data to estimate survival under dynamic temperature conditions.
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Affiliation(s)
- D Ongeng
- Department of Food Science and Post Harvest Technology, Faculty of Agriculture and Environment, Gulu University, Gulu, Uganda Division of Soil and Water Management, Department of Earth and Environmental Sciences, Faculty of Bioscience Engineering, Katholieke Universiteit Leuven, Leuven, Belgium Department of Food Science and Technology, Makerere University, Kampala, Uganda Division of Mechatronics, Biostatistics and Sensors (MeBioS), Department of Biosystems (BIOSYST), Faculty of Bioscience Engineering, Katholieke Universiteit Leuven, Leuven, Belgium
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