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Kaminsky LM, Esker PD, Bell TH. Abiotic conditions outweigh microbial origin during bacterial assembly in soils. Environ Microbiol 2020; 23:358-371. [PMID: 33185966 DOI: 10.1111/1462-2920.15322] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Revised: 10/29/2020] [Accepted: 11/09/2020] [Indexed: 11/30/2022]
Abstract
Understanding the processes guiding microbial community assembly in soils is essential for predicting microbiome structure and function following soil disturbance events like agricultural soil fumigation. However, assembly outcomes are complex and variable, being affected by both selective abiotic forces and by the history of colonizing microorganisms. To untangle the interactions between these factors, we conducted a controlled microcosm study tracking bacterial assembly in cleared soils over 7 weeks. We used mesh bags to connect five unsterilized source soils, differing in land use history (forested, agricultural, or fallow), with four sterile recipient soil treatments, differing in abiotic conditions (no soil additives, salt addition, urea addition, or mixed salt/urea addition). We found that 59%-96% of bacterial colonizers after 1 week were Firmicutes, but by 7 weeks Actinobacteria and Bacteroidetes were also dominant. Salt and nitrogen additions reshaped bacterial assembly by constraining alpha diversity by up to half and biomass accumulation by up to an order of magnitude. Within-treatment dispersion was significantly lower for salt and nutrient addition microcosms, suggesting deterministic selective pressures. In contrast, source soil origin had little impact on assembly trajectories. These results suggest that abiotic conditions can overshadow microbial source history in shaping community assembly outcomes.
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Affiliation(s)
- Laura M Kaminsky
- Department of Plant Pathology and Environmental Microbiology, The Pennsylvania State University, University Park, PA, USA
| | - Paul D Esker
- Department of Plant Pathology and Environmental Microbiology, The Pennsylvania State University, University Park, PA, USA.,Graduate Faculty in International Agriculture and Development, The Pennsylvania State University, University Park, PA, USA
| | - Terrence H Bell
- Department of Plant Pathology and Environmental Microbiology, The Pennsylvania State University, University Park, PA, USA.,Intercollege Graduate Degree Program in Ecology, The Pennsylvania State University, University Park, PA, USA
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Huang B, Li J, Wang Q, Guo M, Yan D, Fang W, Ren Z, Wang Q, Ouyang C, Li Y, Cao A. Effect of soil fumigants on degradation of abamectin and their combination synergistic effect to root-knot nematode. PLoS One 2018; 13:e0188245. [PMID: 29889848 PMCID: PMC5995350 DOI: 10.1371/journal.pone.0188245] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2017] [Accepted: 11/05/2017] [Indexed: 11/19/2022] Open
Abstract
BACKGROUND Root-knot nematode (Meloidogyne spp., RKN) causes a disease that significantly reduces the yield of greenhouse cucumber crops year after year. Chemical control based on a single pesticide is now unreliable mainly due to pest resistance. Fumigant and non-fumigant pesticide combinations can potentially result in effective and economic RKN control. RESULTS Combining the insecticide abamectin (ABM) with fumigants dazomet (DZ) or chloropicrin (CP) significantly extended the half-life of ABM by an average of about 1.68 and 1.56 times respectively in laboratory trials, and by an average of about 2.02 and 1.69 times respectively in greenhouse trials. Laboratory experiments indicated that all the low rate ABM combination treatments controlled RKN through a synergistic effect. ABM diffused into the nematode epidermis more rapidly when ABM was combined with DZ and CP, giving effective nematode control and an increase cucumber total yield, compared to the use of these products alone. ABM combined with CP or DZ produced significantly higher total cucumber yield than when these products were used alone. CONCLUSIONS A low concentration of ABM combined with DZ in preference to CP would be an economic and practical way to control nematode and soilborne fungi in a greenhouse producing cucumbers.
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Affiliation(s)
- Bin Huang
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Jun Li
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Qian Wang
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Meixia Guo
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Dongdong Yan
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Wensheng Fang
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Zongjie Ren
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Qiuxia Wang
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Canbin Ouyang
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Yuan Li
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Aocheng Cao
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
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Singh S, Gupta R, Kumari M, Sharma S. Nontarget effects of chemical pesticides and biological pesticide on rhizospheric microbial community structure and function in Vigna radiata. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2015; 22:11290-11300. [PMID: 25801369 DOI: 10.1007/s11356-015-4341-x] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/23/2014] [Accepted: 03/09/2015] [Indexed: 06/04/2023]
Abstract
Intensive agriculture has resulted in an indiscriminate use of pesticides, which demands in-depth analysis of their impact on indigenous rhizospheric microbial community structure and function. Hence, the objective of the present work was to study the impact of two chemical pesticides (chlorpyrifos and cypermethrin) and one biological pesticide (azadirachtin) at two dosages on the microbial community structure using cultivation-dependent approach and on rhizospheric bacterial communities involved in nitrogen cycle in Vigna radiata rhizosphere through cultivation-independent technique of real-time PCR. Cultivation-dependent study highlighted the adverse effects of both chemical pesticide and biopesticide on rhizospheric bacterial and fungal communities at different plant growth stages. Also, an adverse effect on number of genes and transcripts of nifH (nitrogen fixation); amoA (nitrification); and narG, nirK, and nirS (denitrification) was observed. The results from the present study highlighted two points, firstly that nontarget effects of pesticides are significantly detrimental to soil microflora, and despite being of biological origin, azadirachtin exerted negative impact on rhizospheric microbial community of V. radiata behaving similar to chemical pesticides. Hence, such nontarget effects of chemical pesticide and biopesticide in plants' rhizosphere, which bring out the larger picture in terms of their ecotoxicological effect, demand a proper risk assessment before application of pesticides as agricultural amendments.
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Affiliation(s)
- Sunil Singh
- Department of Biochemical Engineering and Biotechnology, Indian Institute of Technology Delhi, Hauz Khas, New Delhi, 110016, India
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Xie H, Yan D, Mao L, Wang Q, Li Y, Ouyang C, Guo M, Cao A. Evaluation of methyl bromide alternatives efficacy against soil-borne pathogens, nematodes and soil microbial community. PLoS One 2015; 10:e0117980. [PMID: 25723395 PMCID: PMC4344248 DOI: 10.1371/journal.pone.0117980] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2014] [Accepted: 01/04/2015] [Indexed: 11/19/2022] Open
Abstract
Methyl bromide (MB) and other alternatives were evaluated for suppression of Fusarium spp., Phytophthora spp., and Meloidogyne spp. and their influence on soil microbial communities. Both Fusarium spp. and Phytophthora spp. were significantly reduced by the MB (30.74 mg kg-1), methyl iodide (MI: 45.58 mg kg-1), metham sodium (MS: 53.92 mg kg-1) treatments. MS exhibited comparable effectiveness to MB in controlling Meloidogyne spp. and total nematodes, followed by MI at the tested rate. By contrast, sulfuryl fluoride (SF: 33.04 mg kg-1) and chloroform (CF: 23.68 mg kg-1) showed low efficacy in controlling Fusarium spp., Phytophthora spp., and Meloidogyne spp. MB, MI and MS significantly lowered the abundance of different microbial populations and microbial biomass in soil, whereas SF and CF had limited influence on them compared with the control. Diversity indices in Biolog studies decreased in response to fumigation, but no significant difference was found among treatments in PLFA studies. Principal component and cluster analyses of Biolog and PLFA data sets revealed that MB and MI treatments greatly influenced the soil microbial community functional and structural diversity compared with SF treatment. These results suggest that fumigants with high effectiveness in suppressing soil-borne disease could significantly influence soil microbial community.
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Affiliation(s)
- Hongwei Xie
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Dongdong Yan
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Liangang Mao
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Qiuxia Wang
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Yuan Li
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Canbin Ouyang
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Meixia Guo
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
| | - Aocheng Cao
- Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Beijing, China
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Liu J, Sun J, Qiu J, Liu X, Xiang M. Integrated management of root-knot nematodes on tomato in glasshouse production using nematicides and a biocontrol agent, and their effect on soil microbial communities. NEMATOLOGY 2014. [DOI: 10.1163/15685411-00002778] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Nematicides are the main method for managing root-knot nematodes but they are not environmentally benign. Biological control is one alternative that has a lower or no environmental impact. This study was conducted to evaluate the efficacy of two nematicides (Fosthiazate and Dazomet), a biocontrol agent (Purpureocillium lilacinum(=Paecilomyces lilacinus) YES-2), their combination on controlling root-knot nematodes on tomato plants and their effects on the rhizosphere microbial community in long-term glasshouse experiments. The gall index and numbers of second-stage juveniles (J2) were significantly reduced by the individual treatments of Fosthiazate, Dazomet orP. lilacinumYES-2.Purpureocillium lilacinumYES-2 combined with a half dose of Fosthiazate showed the most efficient control as indicated by gall index and number of J2 compared with the control treatment in glasshouse experiments conducted over a 5-year period (2007-2011). The bacterial and fungal biodiversity in soil measured using Biolog ECO MicroPlates and denaturing gradient gel electrophoresis (DGGE) fingerprint was higher in the treatments ofP. lilacinumYES-2 alone or its combination with chemicals than in the treatments of Dazomet or Fosthiazate (in 2011 only). This study suggested a synergistic effect on the control of root-knot nematode byP. lilacinumYES-2 combined with Fosthiazate, and the contribution of these two treatments to the microbial communities in the soil.
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Affiliation(s)
- Jianbin Liu
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, No. 3, 1st Beichen West Road, Chaoyang District, Beijing 100101, P.R. China
| | - Jingzu Sun
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, No. 3, 1st Beichen West Road, Chaoyang District, Beijing 100101, P.R. China
| | - Jiyan Qiu
- Institute of Plant and Environment Protection, Beijing Academy of Agricultural and Forestry Sciences, No. 9, Shuguanghuayuan Middle Road, Haidian District, Beijing 100097, P.R. China
| | - Xingzhong Liu
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, No. 3, 1st Beichen West Road, Chaoyang District, Beijing 100101, P.R. China
| | - Meichun Xiang
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, No. 3, 1st Beichen West Road, Chaoyang District, Beijing 100101, P.R. China
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Erickson M, Habteselassie M, Liao J, Webb C, Mantripragada V, Davey L, Doyle M. Examination of factors for use as potential predictors of human enteric pathogen survival in soil. J Appl Microbiol 2013; 116:335-49. [DOI: 10.1111/jam.12373] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2013] [Revised: 10/04/2013] [Accepted: 10/21/2013] [Indexed: 11/29/2022]
Affiliation(s)
- M.C. Erickson
- Department of Food Science and Technology; Center for Food Safety; Griffin GA USA
| | - M.Y. Habteselassie
- Department of Food Science and Technology; Center for Food Safety; Griffin GA USA
- Department of Crops and Soil Science; University of Georgia; Griffin GA USA
| | - J. Liao
- Department of Food Science and Technology; Center for Food Safety; Griffin GA USA
| | - C.C. Webb
- Department of Food Science and Technology; Center for Food Safety; Griffin GA USA
| | - V. Mantripragada
- Department of Crops and Soil Science; University of Georgia; Griffin GA USA
| | - L.E. Davey
- Department of Food Science and Technology; Center for Food Safety; Griffin GA USA
| | - M.P. Doyle
- Department of Food Science and Technology; Center for Food Safety; Griffin GA USA
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Yan D, Wang Q, Mao L, Li W, Xie H, Guo M, Cao A. Quantification of the effects of various soil fumigation treatments on nitrogen mineralization and nitrification in laboratory incubation and field studies. CHEMOSPHERE 2013; 90:1210-1215. [PMID: 23062947 DOI: 10.1016/j.chemosphere.2012.09.041] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2012] [Revised: 08/31/2012] [Accepted: 09/12/2012] [Indexed: 06/01/2023]
Abstract
Better quantification of nitrogen mineralization and nitrification after fumigation would indicate if any adjustment is needed in fertilizer application. The effects of chloropicrin (Pic), 1,3-dichloropropene (1,3-D), dimethyl disulfide (DMDS) and metham sodium (MS) fumigation on soil nitrogen dynamics were evaluated in lab incubation and field studies. Although some differences were observed in NH(4)(+)-N and NO(3)(-)-N concentrations in lab incubation and field experiments, both studies led to the same conclusions: (1) Soil fumigation was shown to increase soil mineral nitrogen only during the first 2 weeks after fumigation (WAF). In particular, Pic significantly increased soil mineral nitrogen in both studies at 1 WAF. However, for all fumigant treatments the observed effect was temporary; the soil mineral content of treated samples recovered to the general level observed in the untreated control. (2) All the fumigation treatments depressed nitrification temporarily, although the treatments exhibited significant differences in the duration of nitrification inhibition. In both studies, for a limited period of time, Pic showed a stronger inhibitory effect on nitrification compared to other fumigant treatments. An S-shaped function was fitted to the concentrations of NO(3)(-)-N in lab incubation samples. The times of maximum nitrification (t(max)) in DMDS and MS treatments were 0.97 week and 1.03 week, which is similar to the untreated control (t(max)=1.02 week). While Pic has the longest effect on nitrifying bacteria, nitrification appears to restart at a later time (t(max)=14.37 week).
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Affiliation(s)
- Dongdong Yan
- Department of Pesticides, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, People's Republic of China
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