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Mitra S, Saran RK, Srivastava S, Rensing C. Pesticides in the environment: Degradation routes, pesticide transformation products and ecotoxicological considerations. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 935:173026. [PMID: 38750741 DOI: 10.1016/j.scitotenv.2024.173026] [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: 02/01/2024] [Revised: 04/30/2024] [Accepted: 05/04/2024] [Indexed: 05/26/2024]
Abstract
Among rising environmental concerns, emerging contaminants constitute a variety of different chemicals and biological agents. The composition, residence time in environmental media, chemical interactions, and toxicity of emerging contaminants are not fully known, and hence, their regulation becomes problematic. Some of the important groups of emerging contaminants are pesticides and pesticide transformation products (PTPs), which present a considerable obstacle to maintaining and preserving ecosystem health. This review article aims to thoroughly comprehend the occurrence, fate, and ecotoxicological importance of pesticide transformation products (PTPs). The paper provides an overview of pesticides and PTPs as contaminants of emerging concern and discusses the modes of degradation of pesticides, their properties and associated risks. The degradation of pesticides, however, does not lead to complete destruction but can instead lead to the generation of PTPs. The review discusses the properties and toxicity of PTPs and presents the methods available for their detection. Moreover, the present study examines the existing regulatory framework and suggests the need for the development of new technologies for easy, routine detection of PTPs to regulate them effectively in the environment.
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Affiliation(s)
- Suchitra Mitra
- Indian Institute of Science Education and Research, Kolkata 741245, WB, India
| | - R K Saran
- Department of Microbiology, Maharaja Ganga Singh University, Bikaner, Rajasthan, India
| | - Sudhakar Srivastava
- Plant Stress Biology Laboratory, Institute of Environment and Sustainable Development, Banaras Hindu University, Varanasi 221005, UP, India.
| | - Christopher Rensing
- Institute of Environmental Microbiology, College of Resource and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
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Kaur R, Choudhary D, Bali S, Bandral SS, Singh V, Ahmad MA, Rani N, Singh TG, Chandrasekaran B. Pesticides: An alarming detrimental to health and environment. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 915:170113. [PMID: 38232846 DOI: 10.1016/j.scitotenv.2024.170113] [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: 09/30/2023] [Revised: 01/08/2024] [Accepted: 01/10/2024] [Indexed: 01/19/2024]
Abstract
Pesticides are chemical substances of natural or synthetic origin that are used to eradicate pests and insects. These are indispensable in the agricultural processes for better crop production. Pesticide use aims to promote crop yield and protect the crops from diseases and damage. Pesticides must be handled carefully and disposed of appropriately because they are dangerous to people and other species by default. Environmental pollution occurs when pesticide contamination spreads away from the intended plants. Older pesticides such as lindane and dichlorodiphenyltrichloroethane (DDT) may remain in water and soil for a longer time. These accumulate in various parts of the food chain and cause damage to the ecosystem. Biological techniques in the management of pest control such as importation, augmentation, and conservation, and the accompanying procedures are more efficient, less expensive, and ecologically sound than other ways. This review mainly focuses on the consequences on the targeted and non-targeted organisms including the health and well-being of humans by the use of pesticides and their toxicity. The side effects that occur when a pesticide's LD50 exceeds the accepted limit through oral or skin penetration due to their binding to various receptors such as estrogen receptors, GABA, EGFR, and others. These pesticide classes include carbamates, pyrethroids, organochlorides, organophosphorus, and others. The current study seeks to highlight the urgent requirement for a novel agricultural concept that includes a major reduction in the use of chemical pesticides.
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Affiliation(s)
- Rajwinder Kaur
- Chitkara College of Pharmacy, Chitkara University, Punjab 140401, India.
| | - Diksha Choudhary
- Chitkara College of Pharmacy, Chitkara University, Punjab 140401, India
| | - Samriddhi Bali
- Chitkara College of Pharmacy, Chitkara University, Punjab 140401, India
| | | | - Varinder Singh
- Chitkara College of Pharmacy, Chitkara University, Punjab 140401, India
| | - Md Altamash Ahmad
- Chitkara College of Pharmacy, Chitkara University, Punjab 140401, India
| | - Nidhi Rani
- Chitkara College of Pharmacy, Chitkara University, Punjab 140401, India
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Colautti A, Civilini M, Contin M, Celotti E, Iacumin L. Organic vs. conventional: impact of cultivation treatments on the soil microbiota in the vineyard. Front Microbiol 2023; 14:1242267. [PMID: 37901804 PMCID: PMC10602642 DOI: 10.3389/fmicb.2023.1242267] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2023] [Accepted: 09/27/2023] [Indexed: 10/31/2023] Open
Abstract
The aim of this study was to compare the effects of two vineyard management practices on the soil and its associated microbiota. The experiments were conducted in two adjacent plots, one completely organically managed and the other conventionally managed in terms of phytosanitary treatments but fertilized with organic amendments. The chemical soil analyses were correlated to the prokaryotic and fungal communities, which were studied using the metabarcoding technique. The main difference between the two treatments was a significantly higher amount of Cu in the organic managed vineyard soil, while conventional managed soil presented higher concentration of Na and Mg and was also associated with higher pH values. Despite these differences, no significant diversities were observed on soil biodiversity and microbial composition considering alpha and beta diversity metrics. However, the percentages of some phyla analyzed individually differed significantly between the two managements. Analyzing the metabolisms of these phyla, it was discovered an increment of species correlated to soils with higher organic matter content or land not used for agricultural purposes in the organic treated soil. The findings indicate that, despite the use of copper-based phytosanitary products, there was no degradation and loss of biodiversity in the organic soil microbial population compared to conventional management with the same type of fertilization, and the observed microbial population was more similar to that of natural soils.
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Affiliation(s)
| | | | | | | | - Lucilla Iacumin
- Department of Agricultural, Food, Environmental and Animal Science, University of Udine, Udine, Italy
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Karpouzas DG, Vryzas Z, Martin-Laurent F. Pesticide soil microbial toxicity: setting the scene for a new pesticide risk assessment for soil microorganisms (IUPAC Technical Report). PURE APPL CHEM 2022. [DOI: 10.1515/pac-2022-0201] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Abstract
Pesticides constitute an integral part of modern agriculture. However, there are still concerns about their effects on non-target organisms. To address this the European Commission has imposed a stringent regulatory scheme for new pesticide compounds. Assessment of the aquatic toxicity of pesticides is based on a range of advanced tests. This does not apply to terrestrial ecosystems, where the toxicity of pesticides on soil microorganisms, is based on an outdated and crude test (N mineralization). This regulatory gap is reinforced by the recent methodological and standardization advances in soil microbial ecology. The inclusion of such standardized tools in a revised risk assessment scheme will enable the accurate estimation of the toxicity of pesticides on soil microorganisms and on associated ecosystem services. In this review we (i) summarize recent work in the assessment of the soil microbial toxicity of pesticides and point to ammonia-oxidizing microorganisms (AOM) and arbuscular mycorrhizal fungi (AMF) as most relevant bioindicator groups (ii) identify limitations in the experimental approaches used and propose mitigation solutions, (iii) identify scientific gaps and (iv) propose a new risk assessment procedure to assess the effects of pesticides on soil microorganisms.
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Affiliation(s)
- Dimitrios G. Karpouzas
- Department of Biochemistry and Biotechnology , Laboratory of Plant and Environmental Biotechnology, University of Thessaly , Viopolis 41500 , Larissa , Greece
| | - Zisis Vryzas
- Department of Agricultural Development , Democritus University of Thrace , Orestiada , Greece
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Penagos-Tabares F, Sulyok M, Nagl V, Faas J, Krska R, Khiaosa-Ard R, Zebeli Q. Mixtures of mycotoxins, phytoestrogens and pesticides co-occurring in wet spent brewery grains (BSG) intended for dairy cattle feeding in Austria. Food Addit Contam Part A Chem Anal Control Expo Risk Assess 2022; 39:1855-1877. [PMID: 36129729 DOI: 10.1080/19440049.2022.2121430] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
Abstract
Spent brewery grains (BSG) are the main by-product of beer production and are incorporated in rations of food-delivering animals, mainly dairy cows. Like other agricultural commodities, BSG can be contaminated by a broad spectrum of natural and synthetic undesirable substances, which can be hazardous to animal and human health as well as to the environment. The co-occurrence of mycotoxins, phytoestrogens, other fungal and plant secondary metabolites, along with pesticides, was investigated in 21 BSG samples collected in dairy farms in Austria. For this purpose, a validated multi-metabolite liquid chromatography/electrospray ionisation tandem mass spectrometry (LC/ESI-MS/MS) was employed. Metabolites derived from Fusarium, Aspergillus, Alternaria and pesticide residues, were ubiquitous in the samples. Zearalenone (ZEN), T-2 and HT-2 toxins were the only regulated mycotoxin detected, albeit at concentrations below the European guidance values for animal feeds. Ergot alkaloids, Penicillium-derived metabolites, and phytoestrogens had occurrence rates of 90, 48 and 29%, respectively. Penicillium metabolites presented the highest levels among the fungal compounds, indicating contamination during storage. Aflatoxins (AFs), ochratoxins and deoxynivalenol (DON) were not detected. Out of the 16 detected pesticides, two fungicides, ametoctradin (9.5%) and mandipropamid (14.3%) revealed concentrations exceeding their respective maximum residue level (MRL) (0.01 mg kg-1) for barley in two samples. Although based on European guidance and MRL values the levels of the detected compounds probably do not pose acute risks for cattle, the impact of the long-time exposure to such mixtures of natural and synthetic toxicants on animal health and food safety are unknown and must be elucidated.
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Affiliation(s)
- Felipe Penagos-Tabares
- Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary Medicine, Vienna, Austria
| | - Michael Sulyok
- Department of Agrobiotechnology (IFA-Tulln), Institute of Bioanalytics and Agro-Metabolomics, University of Natural Resources and Life Sciences, Vienna (BOKU), Austria
| | - Veronika Nagl
- DSM Animal Nutrition and Health - BIOMIN Research Center, Tulln an der Donau, Austria
| | - Johannes Faas
- DSM Animal Nutrition and Health - BIOMIN Research Center, Tulln an der Donau, Austria
| | - Rudolf Krska
- Department of Agrobiotechnology (IFA-Tulln), Institute of Bioanalytics and Agro-Metabolomics, University of Natural Resources and Life Sciences, Vienna (BOKU), Austria.,Institute for Global Food Security, School of Biological Sciences, Queens University Belfast, University Road, Belfast, UK
| | - Ratchaneewan Khiaosa-Ard
- Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary Medicine, Vienna, Austria
| | - Qendrim Zebeli
- Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary Medicine, Vienna, Austria.,Department for Farm Animals and Veterinary Public Health, Christian-Doppler-Laboratory for Innovative Gut Health Concepts in Livestock (CDL-LiveGUT), University of Veterinary Medicine, Vienna, Austria
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Sweeney CJ, Bottoms M, Ellis S, Ernst G, Kimmel S, Loutseti S, Schimera A, Carniel LSC, Sharples A, Staab F, Marx MT. Arbuscular Mycorrhizal Fungi and the Need for a Meaningful Regulatory Plant Protection Product Testing Strategy. ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY 2022; 41:1808-1823. [PMID: 35678214 PMCID: PMC9543394 DOI: 10.1002/etc.5400] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Revised: 02/23/2022] [Accepted: 06/02/2022] [Indexed: 06/15/2023]
Abstract
Arbuscular mycorrhizal fungi (AMF) perform key soil ecosystem services and, because of their symbiotic relationship with plant roots, may be exposed to the plant protection products (PPPs) applied to soils and crops. In 2017, the European Food Safety Authority (EFSA) released a scientific opinion addressing the state of the science on risk assessment of PPPs for in-soil organisms, recommending the inclusion of AMF ecotoxicological testing in the PPP regulatory process. However, it is not clear how this can be implemented in a tiered, robust, and ecologically relevant manner. Through a critical review of current literature, we examine the recommendations made within the EFSA report and the methodologies available to integrate AMF into the PPP risk assessment and provide perspective and commentary on their agronomic and ecological relevance. We conclude that considerable research questions remain to be addressed prior to the inclusion of AMF into the in-soil organism risk assessment, many of which stem from the unique challenges associated with including an obligate symbiont within the PPP risk assessment. Finally, we highlight critical knowledge gaps and the further research required to enable development of relevant, reliable, and robust scientific tests alongside pragmatic and scientifically sound guidance to ensure that any future risk-assessment paradigm is adequately protective of the ecosystem services it aims to preserve. Environ Toxicol Chem 2022;41:1808-1823. © 2022 The Authors. Environmental Toxicology and Chemistry published by Wiley Periodicals LLC on behalf of SETAC.
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Affiliation(s)
| | - Melanie Bottoms
- Syngenta, Jealott's Hill International Research Centre BracknellBracknellBerkshireUK
| | - Sian Ellis
- Corteva AgriscienceAbingdonOxfordshireUK
| | | | | | - Stefania Loutseti
- Syngenta, Jealott's Hill International Research Centre BracknellBracknellBerkshireUK
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López-Ballesteros A, Delaney A, Quirke J, Stout JC, Saunders M, Carolan JC, White B, Stanley DA. Assessing availability of European plant protection product data: an example evaluating basic area treated. PeerJ 2022; 10:e13586. [PMID: 35855900 PMCID: PMC9288163 DOI: 10.7717/peerj.13586] [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: 01/21/2022] [Accepted: 05/23/2022] [Indexed: 01/17/2023] Open
Abstract
Besides the benefits of plant protection products (PPPs) for agricultural production, there is an increasing acknowledgement of the associated potential environmental risks. Here, we examine the feasibility of summarizing the extent of PPP usage at the country level, using Ireland as a case study, as well as at the European level. We used the area over which PPPs are applied (basic area) as an example variable that is relevant to initially assess the geographic extent of environmental risk. In Irish agricultural systems, which are primarily grass-based, herbicides fluroxypyr and glyphosate are the most widely applied active substances (ASs) in terms of basic area, followed by the fungicides chlorothalonil and prothioconazole that are closely associated with arable crops. Although all EU countries are subject to Regulation (EC) No 1185/2009, which sets the obligation of PPP usage data reporting at the national level, we only found usable data that met our criteria for Estonia, Germany, Finland, and Spain (4 of 30 countries reviewed). Overall, the most widely applied fungicide and herbicide in terms of basic area were prothioconazole (20%, 7% and 5% of national cultivated areas of Germany, Estonia and Ireland) and glyphosate (11%, 8% and 5% of national cultivated areas of Spain, Estonia and Ireland) respectively, although evaluations using application frequency may result in the observation of different trends. Several recommendations are proposed to tackle current data gaps and deficiencies in accessibility and usability of pesticide usage data across the EU in order to better inform environmental risk assessment and promote evidence-based policymaking.
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Affiliation(s)
- Ana López-Ballesteros
- Department of Agricultural and Forest Systems and the Environment, Agrifood Research and Technology Centre of Aragon (CITA), Zaragoza, Spain,School of Agriculture and Food Science, University College Dublin, Dublin, Ireland
| | - Aoife Delaney
- School of Agriculture and Food Science, University College Dublin, Dublin, Ireland,National Parks and Wildlife Service, Department of Arts, Heritage and the Gaeltacht, Dublin, Ireland
| | - James Quirke
- Department of Agriculture, Food and the Marine, Backweston, Kildare, Ireland
| | - Jane C. Stout
- Department of Botany, School of Natural Sciences, Trinity College Dublin, Dublin, Ireland
| | - Matthew Saunders
- Department of Botany, School of Natural Sciences, Trinity College Dublin, Dublin, Ireland
| | - James C. Carolan
- Department of Biology, Maynooth University, Maynooth, Kildare, Ireland
| | - Blánaid White
- School of Chemical Sciences, DCU Water Institute, Dublin City University, Dublin, Ireland
| | - Dara A. Stanley
- School of Agriculture and Food Science, University College Dublin, Dublin, Ireland
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Zhao Q, Bai J, Jia J, Zhang G, Wang J, Gao Y. The Effects of Drainage on the Soil Fungal Community in Freshwater Wetlands. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.837747] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Wetland drainage has been intensively implemented globally, and it has exerted significant effects on wetland ecosystems. The effects of wetland drainage on the soil fungal community remain to be clarified. Soil samples were collected at depths of 0–5 and 5–10 cm in freshwater Phragmites australis wetlands to investigate changes in the fungal community before and after drainage (termed FW and DFW, respectively) using high-throughput sequencing of the fungal-specific internal transcribed spacer 1 (ITS1) gene region. No significant differences in the α diversity of the soil fungal community were found in 0–10 cm soils between FW and DFW (p > 0.05), except for the abundance-based coverage estimator (ACE) and Chao1 indices in 5–10 cm soils. Significantly higher values of ACE and Chao1 in 5–10 cm soils in FW than in DFW indicated that wetland drainage may reduce fungal community richness in 5–10 cm soils. Ascomycota, Sordariomycetes, and Cephalothecaceae were the dominant fungal phylum, class, and family, respectively, in 0–5 and 5–10 cm soils of both FW and DFW, representing as high as 76.17, 58.22, and 45.21% of the fungal community in 5–10 FW soils, respectively. Saprotrophic fungi predominated in both FW and DFW. Drainage altered both the fungal community structure and some edaphic factors. Mantel tests and Spearman correlation analyses implied that edaphic factors [i.e., soil organic matter (SOM), electronic conductivity (EC), pH, and clay] also affected soil fungal community structure. Overall, wetland drainage altered the community structure of the fungal community in the freshwater wetlands.
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Abubakar AY, Ibrahim MM, Zhang C, Tayyab M, Fallah N, Yang Z, Pang Z, Zhang H. Filtered mud improves sugarcane growth and modifies the functional abundance and structure of soil microbial populations. PeerJ 2022; 10:e12753. [PMID: 35111397 PMCID: PMC8771795 DOI: 10.7717/peerj.12753] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Accepted: 12/15/2021] [Indexed: 01/07/2023] Open
Abstract
BACKGROUND Exploring high-quality organic amendments has been a focus of sustainable agriculture. Filtered mud (FM), a sugar factory waste derived from sugarcane stems, could be an alternative organic amendment for sugarcane production. However, the effects of its application proportions on soil fertility, nutrient cycling, structure of soil bacterial and fungal communities, and the growth of sugarcane in clay-loam soils remain unexplored. METHODS Three application proportions of FM: (FM1-(FM: Soil at 1:4), FM2-(FM: Soil at 2:3), and FM3-(FM: Soil at 3:2)) were evaluated on sugarcane growth and soil nutrient cycling. High throughput sequencing was also employed to explore soil microbial dynamics. RESULTS We observed that FM generally increased the soil's nutritional properties while improving NO3 - retention compared to the control, resulting in increased growth parameters of sugarcane. Specifically, FM1 increased the concentration of NH4 +-N, the N fraction preferably taken up by sugarcane, which was associated with an increase in the plant height, and more improved growth properties, among other treatments. An increase in the proportion of FM also increased the activity of soil nutrient cycling enzymes; urease, phosphatase, and β-glucosidase. High throughput sequencing revealed that FM reduced the diversity of soil bacteria while having insignificant effects on fungal diversity. Although increasing FM rates reduced the relative abundance of the phyla Proteobacteria, its class members, the Gammaproteobacteria and Betaproteobacteria containing some N-cycling related genera, were stimulated. Also, FM stimulated the abundance of beneficial and lignocellulose degrading organisms. These included the bacterial phyla Actinobacteria, Bacteroidetes, Acidobacteria, Chloroflexi, and the fungal phylum Ascomycota. The distribution of the soil microbial community under FM rates was regulated by the changes in soil pH and the availability of soil nutrients. Since FM1 showed more promise in improving the growth properties of sugarcane, it could be more economical and sustainable for sugarcane production in clay-loam soils.
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Affiliation(s)
- Ahmad Yusuf Abubakar
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Bioresources Development Centre, National Biotechnology Development Agency, Kano, Nigeria
| | - Muhammed Mustapha Ibrahim
- College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Department of Soil Science, University of Agriculture Makurdi, Benue, Nigeria
| | - Caifang Zhang
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Muhammad Tayyab
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Nyumah Fallah
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Ziqi Yang
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Ziqin Pang
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
| | - Hua Zhang
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China,Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, Fujian, China
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Gschwend F, Hartmann M, Mayerhofer J, Hug AS, Enkerli J, Gubler A, Meuli RG, Frey B, Widmer F. Site and land-use associations of soil bacteria and fungi define core and indicative taxa. FEMS Microbiol Ecol 2022; 97:fiab165. [PMID: 34940884 PMCID: PMC8752248 DOI: 10.1093/femsec/fiab165] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2021] [Accepted: 12/21/2021] [Indexed: 11/13/2022] Open
Abstract
Soil microbial diversity has major influences on ecosystem functions and services. However, due to its complexity and uneven distribution of abundant and rare taxa, quantification of soil microbial diversity remains challenging and thereby impeding its integration into long-term monitoring programs. Using metabarcoding, we analyzed soil bacterial and fungal communities at 30 long-term soil monitoring sites from the three land-use types arable land, permanent grassland, and forest with a yearly sampling between snowmelt and first fertilization over five years. Unlike soil microbial biomass and alpha-diversity, microbial community compositions and structures were site- and land-use-specific with CAP reclassification success rates of 100%. The temporally stable site core communities included 38.5% of bacterial and 33.1% of fungal OTUs covering 95.9% and 93.2% of relative abundances. We characterized bacterial and fungal core communities and their land-use associations at the family-level. In general, fungal families revealed stronger land-use associations as compared to bacteria. This is likely due to a stronger vegetation effect on fungal core taxa, while bacterial core taxa were stronger related to soil properties. The assessment of core communities can be used to form cultivation-independent reference lists of microbial taxa, which may facilitate the development of microbial indicators for soil quality and the use of soil microbiota for long-term soil biomonitoring.
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Affiliation(s)
- Florian Gschwend
- Molecular Ecology, Agroscope, Reckenholzstrasse 191, CH-8046 Zürich, Switzerland
| | - Martin Hartmann
- Sustainable Agroecosystems, Institute of Agricultural Sciences, Department of Environmental Systems Science, ETH Zürich, Universitätstrasse 2, CH-8092 Zürich, Switzerland
| | - Johanna Mayerhofer
- Molecular Ecology, Agroscope, Reckenholzstrasse 191, CH-8046 Zürich, Switzerland
| | - Anna-Sofia Hug
- Swiss Soil Monitoring Network NABO, Reckenholzstrasse 191, CH-8046 Zürich, Switzerland
| | - Jürg Enkerli
- Molecular Ecology, Agroscope, Reckenholzstrasse 191, CH-8046 Zürich, Switzerland
| | - Andreas Gubler
- Swiss Soil Monitoring Network NABO, Reckenholzstrasse 191, CH-8046 Zürich, Switzerland
| | - Reto G Meuli
- Swiss Soil Monitoring Network NABO, Reckenholzstrasse 191, CH-8046 Zürich, Switzerland
| | - Beat Frey
- Rhizosphere Processes Group, Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, CH-8903 Birmensdorf, Switzerland
| | - Franco Widmer
- Molecular Ecology, Agroscope, Reckenholzstrasse 191, CH-8046 Zürich, Switzerland
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11
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Aspects, problems and utilization of Arbuscular Mycorrhizal (AM) Application as Bio-fertilizer in sustainable Agriculture. CURRENT RESEARCH IN MICROBIAL SCIENCES 2022; 3:100107. [PMID: 35169758 PMCID: PMC8829076 DOI: 10.1016/j.crmicr.2022.100107] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Revised: 10/11/2021] [Accepted: 01/21/2022] [Indexed: 11/23/2022] Open
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12
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Hossain MF, Billah M, Ali MR, Parvez MSA, Zaoti ZF, Hasan SZ, Hasan MF, Dutta AK, Khalekuzzaman M, Islam MA, Sikdar B. Molecular identification and biological control of Ralstonia solanacearum from wilt of papaya by natural compounds and Bacillus subtilis: An integrated experimental and computational study. Saudi J Biol Sci 2021; 28:6972-6986. [PMID: 34866997 PMCID: PMC8626333 DOI: 10.1016/j.sjbs.2021.07.069] [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: 06/06/2021] [Revised: 07/05/2021] [Accepted: 07/26/2021] [Indexed: 11/19/2022] Open
Abstract
Ralstonia solanacearum is a harmful pathogen that causes severe wilt disease in several vegetables. In the present study, we identified R. solanacearum from wilt of papaya by 16S rRNA PCR amplification. Virulence ability of R. solanacearum was determined by amplification of approximately 1500 bp clear band of hrpB gene. Further, in-vitro seed germination assay showed that R. solanacearum reduced the germination rate up to 26.21%, 34% and 33.63% of cucumber, bottle guard and pumpkin seeds, respectively whereas shoot and root growth were also significantly decreased. Moreover, growth inhibition of R. solanacearum was recorded using antibacterial compound from medicinal plant and antagonistic B. subtilis. Petroleum ether root extract of Rauvolfia serpentina showed highest 22 ± 0.04 mm diameter of zone of inhibition where methanolic extract of Cymbopogon citratus and ethanolic extract of Lantana camara exhibited 20 ± 0.06 mm and 20 ± 0.01 mm zone of inhibition against R. solanacearum, respectively. In addition, bioactive compounds of B. subtilis inhibited R. solanacearum growth by generating 17 ± 0.09 mm zone of inhibition. To unveil the inhibition mechanism, we adopted chemical-protein interaction network and molecular docking approaches where we found that, rutin from C. citratus interacts with citrate (Si)-synthase and dihydrolipoyl dehydrogenase of R. solanacearum with binding affinity of -9.7 kcal/mol and -9.5 kcal/mol while quercetin from B. subtillis interacts with the essential protein F0F1 ATP synthase subunit alpha of the R. solancearum with binding affinity of -6.9 kcal/mol and inhibit the growth of R. solanacearum. Our study will give shed light on the development of eco-friendly biological control of wilt disease of papaya.
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Affiliation(s)
- Md. Firose Hossain
- Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
- Corresponding authors at: Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh (B. Sikdar).
| | - Mutasim Billah
- Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Md Roushan Ali
- Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Md. Sorwer Alam Parvez
- Department of Genetic Engineering and Biotechnology, Shahjalal University of Science and Technology, Sylhet 3114, Bangladesh
| | - Zannati Ferdous Zaoti
- Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - S.M. Zia Hasan
- Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Md. Faruk Hasan
- Department of Microbiology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Amit Kumar Dutta
- Department of Microbiology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Md. Khalekuzzaman
- Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Md. Asadul Islam
- Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Biswanath Sikdar
- Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
- Department of Microbiology, University of Rajshahi, Rajshahi 6205, Bangladesh
- Corresponding authors at: Professor Joarder DNA & Chromosome Research Lab, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh (B. Sikdar).
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13
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Yan T, Xue J, Zhou Z, Wu Y. Impacts of biochar-based fertilization on soil arbuscular mycorrhizal fungal community structure in a karst mountainous area. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:66420-66434. [PMID: 34333744 DOI: 10.1007/s11356-021-15499-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2021] [Accepted: 07/14/2021] [Indexed: 06/13/2023]
Abstract
The application of biochar-based fertilizer can improve soil properties in part by stimulating microbial activity and growth. Karst ecosystems, which make up large areas of Southwest China, are prone to degradation. Understanding the response of arbuscular mycorrhizal fungal (AMF) community structure to biochar-based fertilizer application is of great significance to karst soil restoration. A field experiment was conducted in a typical karst soil (calcareous sandy loam) in Southwest China. A high-throughput sequencing approach was used to investigate the effect of biochar-based fertilization on AMF community structure in the karst soil. With the control (CK), compost with NPK fertilizer (MF), biochar (B), a lower amount of biochar with compost and NPK fertilizer (B1MF), biochar with compost and NPK fertilizer (BMF), and a higher amount of biochar with compost and NPK fertilizer (B4MF), the field trials were set up for 24 months. Soil amendments increased soil nutrient content and AMF diversity. The composition and structure of the AMF community varied among the treatments. AMF community composition was significantly impacted by soil chemical properties such as TC (total carbon), TN (total nitrogen), TP (total phosphorus), and AP (available phosphorus). Furthermore, network analysis showed that biochar-based fertilization increased the scale and complexity of the microbial co-occurrence network. Biochar-based fertilization enabled more keystone species (such as order Diversisporales and Glomerales) in the soil AMF network to participate in soil carbon resource management and soil nutrient cycling, indicating that biochar-based fertilizer is beneficial for the restoration of degraded karst soils.
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Affiliation(s)
- Taotao Yan
- College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China
| | - Jianhui Xue
- College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China.
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China.
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, 210014, China.
| | - Zhidong Zhou
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China
- Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing, 210014, China
| | - Yongbo Wu
- College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China
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14
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Durán P, Tortella G, Sadowsky MJ, Viscardi S, Barra PJ, Mora MDLL. Engineering Multigenerational Host-Modulated Microbiota against Soilborne Pathogens in Response to Global Climate Change. BIOLOGY 2021; 10:865. [PMID: 34571742 PMCID: PMC8472835 DOI: 10.3390/biology10090865] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Revised: 08/26/2021] [Accepted: 08/27/2021] [Indexed: 11/17/2022]
Abstract
Crop migration caused by climatic events has favored the emergence of new soilborne diseases, resulting in the colonization of new niches (emerging infectious diseases, EIDs). Soilborne pathogens are extremely persistent in the environment. This is in large part due to their ability to reside in the soil for a long time, even without a host plant, using survival several strategies. In this regard, disease-suppressive soils, characterized by a low disease incidence due to the presence of antagonist microorganisms, can be an excellent opportunity for the study mechanisms of soil-induced immunity, which can be applied in the development of a new generation of bioinoculants. Therefore, here we review the main effects of climate change on crops and pathogens, as well as the potential use of soil-suppressive microbiota as a natural source of biocontrol agents. Based on results of previous studies, we also propose a strategy for the optimization of microbiota assemblages, selected using a host-mediated approach. This process involves an increase in and prevalence of specific taxa during the transition from a conducive to a suppressive soil. This strategy could be used as a model to engineer microbiota assemblages for pathogen suppression, as well as for the reduction of abiotic stresses created due to global climate change.
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Affiliation(s)
- Paola Durán
- Scientific and Technological Bioresource Nucleus, Universidad de La Frontera, Temuco 4811230, Chile; (P.J.B.); (M.d.l.L.M.)
- Biocontrol Research Laboratory, Universidad de La Frontera, Temuco 4811230, Chile
| | - Gonzalo Tortella
- Centro de Excelencia en Investigación Biotecnológica Aplicada al Medio Ambiente (CIBAMA-BIOREN), Facultad de Ingeniería y Ciencias, Universidad de La Frontera, Temuco 4811230, Chile;
| | - Michael J. Sadowsky
- BioTechnology Institute, University of Minnesota, Minneapolis, MN 55108, USA;
| | - Sharon Viscardi
- Núcleo de Investigación en Producción Alimentaria, Facultad de Recursos Naturales, Universidad Católica de Temuco, P.O. Box 15-D, Temuco 4813302, Chile;
| | - Patricio Javier Barra
- Scientific and Technological Bioresource Nucleus, Universidad de La Frontera, Temuco 4811230, Chile; (P.J.B.); (M.d.l.L.M.)
- Biocontrol Research Laboratory, Universidad de La Frontera, Temuco 4811230, Chile
| | - Maria de la Luz Mora
- Scientific and Technological Bioresource Nucleus, Universidad de La Frontera, Temuco 4811230, Chile; (P.J.B.); (M.d.l.L.M.)
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15
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Gschwend F, Hartmann M, Hug AS, Enkerli J, Gubler A, Frey B, Meuli RG, Widmer F. Long-term stability of soil bacterial and fungal community structures revealed in their abundant and rare fractions. Mol Ecol 2021; 30:4305-4320. [PMID: 34160856 PMCID: PMC8456938 DOI: 10.1111/mec.16036] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2020] [Revised: 06/09/2021] [Accepted: 06/17/2021] [Indexed: 02/06/2023]
Abstract
Despite the importance of soil microorganisms for ecosystem services, long‐term surveys of their communities are largely missing. Using metabarcoding, we assessed temporal dynamics of soil bacterial and fungal communities in three land‐use types, i.e., arable land, permanent grassland, and forest, over five years. Soil microbial communities remained relatively stable and differences over time were smaller than those among sites. Temporal variability was highest in arable soils. Indications for consistent shifts in community structure over five years were only detected at one site for bacteria and at two sites for fungi, which provided further support for long‐term stability of soil microbial communities. A sliding window analysis was applied to assess the effect of OTU abundance on community structures. Partial communities with decreasing OTU abundances revealed a gradually decreasing structural similarity with entire communities. This contrasted with the steep decline of OTU abundances, as subsets of rare OTUs (<0.01%) revealed correlations of up to 0.97 and 0.81 with the entire bacterial and fungal communities. Finally, 23.4% of bacterial and 19.8% of fungal OTUs were identified as scarce, i.e., neither belonging to site‐cores nor correlating to environmental factors, while 67.3% of bacterial and 64.9% of fungal OTUs were identified as rare but not scarce. Our results demonstrate high stability of soil microbial communities in their abundant and rare fractions over five years. This provides a step towards defining site‐specific normal operating ranges of soil microbial communities, which is a prerequisite for detecting community shifts that may occur due to changing environmental conditions or anthropogenic activities.
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Affiliation(s)
| | - Martin Hartmann
- Sustainable Agroecosystems, Institute of Agricultural Sciences, Department of Environmental Systems Science, ETH Zürich, Zürich, Switzerland
| | - Anna-Sofia Hug
- Swiss Soil Monitoring Network NABO, Agroscope, Zürich, Switzerland
| | - Jürg Enkerli
- Molecular Ecology, Agroscope, Zürich, Switzerland
| | - Andreas Gubler
- Swiss Soil Monitoring Network NABO, Agroscope, Zürich, Switzerland
| | - Beat Frey
- Rhizosphere Processes Group, Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Birmensdorf, Switzerland
| | - Reto G Meuli
- Swiss Soil Monitoring Network NABO, Agroscope, Zürich, Switzerland
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16
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Rodriguez-Morelos VH, Calonne-Salmon M, Bremhorst V, Garcés-Ruiz M, Declerck S. Fungicides With Contrasting Mode of Action Differentially Affect Hyphal Healing Mechanism in Gigaspora sp. and Rhizophagus irregularis. FRONTIERS IN PLANT SCIENCE 2021; 12:642094. [PMID: 33777077 PMCID: PMC7989550 DOI: 10.3389/fpls.2021.642094] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/15/2020] [Accepted: 02/18/2021] [Indexed: 06/12/2023]
Abstract
Fungicides are widely used in conventional agriculture to control fungal diseases, but may also affect non-target microorganisms such as arbuscular mycorrhizal (AM) fungi. These root symbionts develop extended mycelial networks within the soil via mechanisms such as anastomosis that indistinctly concerns intact and damaged hyphae, the latter being named hyphal healing mechanism (HHM). The HHM differs between Glomeraceae and Gigasporaceae. However, the effects of fungicides on this mechanism in unknown. Here, the impact of azoxystrobin, pencycuron, flutolanil, and fenpropimorph at 0.02 and 2 mg L-1 were tested in vitro on the HHM of Gigaspora sp. MUCL 52331 and Rhizophagus irregularis MUCL 41833, and repair events visualized carefully under a dissecting bright-field light microscope. Azoxystrobin was the more detrimental for both AM fungi at 2 mg L-1, while fenpropimorph impacted only R. irregularis (stimulating at low and inhibiting at high concentration). Conversely, flutolanil and pencycuron did not impact any of the two AM fungi. The mechanisms involved remains to be elucidated, but perturbation in the still-to-be firmly demonstrated spitzenkörper or in sterols content as well as a process of hormesis are possible avenues that deserve to be explored in view of a rationale management of chemicals to control fungal pathogens without harming the beneficial AM fungi.
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Affiliation(s)
| | - Maryline Calonne-Salmon
- Laboratory of Mycology, Earth and Life Institute, Université catholique de Louvain, Louvain-la-Neuve, Belgium
| | - Vincent Bremhorst
- Louvain Institute of Data Analysis and Modeling in Economics and Statistics, Statistical Methodology and Computing Service, Université catholique de Louvain, Louvain-la-Neuve, Belgium
| | - Mónica Garcés-Ruiz
- Laboratory of Mycology, Earth and Life Institute, Université catholique de Louvain, Louvain-la-Neuve, Belgium
| | - Stéphane Declerck
- Laboratory of Mycology, Earth and Life Institute, Université catholique de Louvain, Louvain-la-Neuve, Belgium
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17
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Aldrich-Wolfe L, Black KL, Hartmann EDL, Shivega WG, Schmaltz LC, McGlynn RD, Johnson PG, Asheim Keller RJ, Vink SN. Taxonomic shifts in arbuscular mycorrhizal fungal communities with shade and soil nitrogen across conventionally managed and organic coffee agroecosystems. MYCORRHIZA 2020; 30:513-527. [PMID: 32500441 DOI: 10.1007/s00572-020-00967-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2020] [Accepted: 05/20/2020] [Indexed: 06/11/2023]
Abstract
The composition of arbuscular mycorrhizal fungal (AMF) communities should reflect not only responses to host and soil environments, but also differences in functional roles and costs vs. benefits among arbuscular mycorrhizal fungi. The coffee agroecosystem allows exploration of the effects of both light and soil fertility on AMF communities, because of the variation in shade and soil nutrients farmers generate through field management. We used high-throughput ITS2 sequencing to characterize the AMF communities of coffee roots in 25 fields in Costa Rica that ranged from organic management with high shade and no chemical fertilizers to conventionally managed fields with minimal shade and high N fertilization, and examined relationships between AMF communities and soil and shade parameters with partial correlations, NMDS, PERMANOVA, and partial least squares analysis. Gigasporaceae and Acaulosporaceae dominated coffee AMF communities in terms of relative abundance and richness, respectively. Gigasporaceae richness was greatest in conventionally managed fields, while Glomeraceae richness was greatest in organic fields. While total AMF richness and root colonization did not differ between organic and conventionally managed fields, AMF community composition did; these differences were correlated with soil nitrate and shade. OTUs differing in relative abundance between conventionally managed and organic fields segregated into four groups: Gigasporaceae associated with high light and nitrate availability, Acaulosporaceae with high light and low nitrate availability, Acaulosporaceae and a single relative of Rhizophagus fasciculatus with shade and low nitrate availability, and Claroideoglomus/Glomus with conventionally managed fields but uncorrelated with shade and soil variables. The association of closely related taxa with similar shade and light availabilities is consistent with phylogenetic trait conservatism in AM fungi.
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Affiliation(s)
- Laura Aldrich-Wolfe
- Department of Biological Sciences, North Dakota State University, Fargo, ND, USA.
| | - Katie L Black
- Biology Department, Concordia College, Moorhead, MN, USA
| | | | - W Gaya Shivega
- Biology Department, Concordia College, Moorhead, MN, USA
| | | | | | | | | | - Stefanie N Vink
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, the Netherlands
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18
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Gamalero E, Bona E, Novello G, Boatti L, Mignone F, Massa N, Cesaro P, Berta G, Lingua G. Discovering the bacteriome of Vitis vinifera cv. Pinot Noir in a conventionally managed vineyard. Sci Rep 2020; 10:6453. [PMID: 32296119 PMCID: PMC7160115 DOI: 10.1038/s41598-020-63154-w] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Accepted: 03/16/2020] [Indexed: 01/22/2023] Open
Abstract
The structure of the bacteriome associated with grapevine roots can affect plant development, health and grape quality. We previously investigated the bacterial biodiversity of the Vitis vinifera cv. Pinot Noir rhizosphere in a vineyard subjected to integrated pest management. The aim of this work is to characterize the bacteriome of V. vinifera cv. Pinot Noir in a conventionally managed vineyard using a metabarcoding approach. Comparisons between the microbial community structure in bulk soil and rhizosphere (variable space) were performed and shifts of bacteriome according to two sampling times (variable time) were characterized. Bacterial biodiversity was higher at the second than at the first sampling and did not differ according to the variable space. Actinobacteria was the dominant class, with Gaiella as the most represented genus in all the samples. Among Proteobacteria, the most represented classes were Alpha, Beta and Gamma-Proteobacteria, with higher abundance at the second than at the first sampling time. Bradyrhizobium was the most frequent genus among Alpha-Proteobacteria, while Burkholderia was the predominant Beta-Proteobacteria. Among Firmicutes, the frequency of Staphylococcus was higher than 60% in bulk soil and rhizosphere. Finally, the sampling time can be considered as one of the drivers responsible for the bacteriome variations assessed.
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Affiliation(s)
- Elisa Gamalero
- Università del Piemonte Orientale, Dipartimento di Scienze e Innovazione Tecnologica, Viale T. Michel 11, Alessandria, 15121, Italy
| | - Elisa Bona
- Università del Piemonte Orientale, Dipartimento di Scienze e Innovazione Tecnologica, Piazza San Eusebio 5, 13100, Vercelli, Italy
| | - Giorgia Novello
- Università del Piemonte Orientale, Dipartimento di Scienze e Innovazione Tecnologica, Viale T. Michel 11, Alessandria, 15121, Italy
| | - Lara Boatti
- SmartSeq s.r.l., spin-off of the Università del Piemonte Orientale, Viale T. Michel 11, Alessandria, 15121, Italy
| | - Flavio Mignone
- Università del Piemonte Orientale, Dipartimento di Scienze e Innovazione Tecnologica, Viale T. Michel 11, Alessandria, 15121, Italy.,SmartSeq s.r.l., spin-off of the Università del Piemonte Orientale, Viale T. Michel 11, Alessandria, 15121, Italy
| | - Nadia Massa
- Università del Piemonte Orientale, Dipartimento di Scienze e Innovazione Tecnologica, Viale T. Michel 11, Alessandria, 15121, Italy
| | - Patrizia Cesaro
- Università del Piemonte Orientale, Dipartimento di Scienze e Innovazione Tecnologica, Viale T. Michel 11, Alessandria, 15121, Italy.
| | - Graziella Berta
- Università del Piemonte Orientale, Dipartimento di Scienze e Innovazione Tecnologica, Viale T. Michel 11, Alessandria, 15121, Italy
| | - Guido Lingua
- Università del Piemonte Orientale, Dipartimento di Scienze e Innovazione Tecnologica, Viale T. Michel 11, Alessandria, 15121, Italy
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19
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Li Z. A new pseudo-partition coefficient based on a weather-adjusted multicomponent model for mushroom uptake of pesticides from soil. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 256:113372. [PMID: 31672361 DOI: 10.1016/j.envpol.2019.113372] [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: 04/12/2019] [Revised: 09/28/2019] [Accepted: 10/09/2019] [Indexed: 06/10/2023]
Abstract
In this study, a weather-based multicomponent model was developed based on the unique biostructures and metabolic processes of mushrooms to evaluate their uptake of pesticides from soils, and the effects of temperature and relative humidity on the bioaccumulation of pesticides in mushrooms was comprehensively quantified. Additionally, a new pseudo-partition coefficient between mushrooms and soils was introduced to assess the impacts of different physiochemical properties on the pesticide uptake process. The results indicate that, in general, the pseudo-partition coefficient increases as the relative humidity increases for both the air and soil according to Fick's law of gas diffusion and the spatial competition of molecules, respectively. Meanwhile, the effect of temperature on the pesticide bioaccumulation process is more complex. For most pesticides (e.g., atrazine), the pseudo-partition coefficient that was computed from the transpiration component had a maximum value at a specific temperature due to the temperature dependency of the transpiration and biodegradation processes. For some pesticides (e.g., ethoprophos), the pseudo-partition coefficient of the air-deposition component had a maximum value at a certain temperature that was caused by the ratio of the soil-air internal transfer energy and degradation activation energy of the pesticide. It was also concluded that for relatively low-volatility pesticides, transpiration dominated the bioaccumulation process; this was mainly determined from the pesticide water solubility. For nonbiodegradable pesticides (e.g., lindane), the computed coefficient values were relatively low due to their insolubility in water, which inhibits bioaccumulation in mushrooms and is one of the main reasons for their long-term persistence in soils.
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Affiliation(s)
- Zijian Li
- School of Public Health (Shenzhen), Sun Yat-sen University, Guangdong 510275, China.
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20
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Mallet C, Romdhane S, Loiseau C, Béguet J, Martin-Laurent F, Calvayrac C, Barthelmebs L. Impact of Leptospermone, a Natural β-Triketone Herbicide, on the Fungal Composition and Diversity of Two Arable Soils. Front Microbiol 2019; 10:1024. [PMID: 31134038 PMCID: PMC6524154 DOI: 10.3389/fmicb.2019.01024] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Accepted: 04/24/2019] [Indexed: 01/10/2023] Open
Abstract
Impact of leptospermone, a β-triketone bioherbicide, was investigated on the fungal community which supports important soil ecological functions such as decomposition of organic matter and nutrients recycling. This study was done in a microcosm experiment using two French soils, Perpignan (P) and Saint-Jean-de-Fos (SJF), differing in their physicochemical properties and history treatment with synthetic β-triketones. Soil microcosms were treated with leptospermone at recommended dose and incubated under controlled conditions for 45 days. Untreated microcosms were used as control. Illumina MiSeq sequencing of the internal transcribed spacer region of the fungal rRNA revealed significant changes in fungal community structure and diversity in both soils. Xylariales, Hypocreales, Pleosporales and Capnodiales (Ascomycota phyla) fungi and those belonging to Sebacinales, Cantharellales, Agaricales, Polyporales, Filobasidiales and Tremellales orders (Basidiomycota phyla) were well represented in treated soil microcosms compared to control. Nevertheless, while for the treated SJF a complete recovery of the fungal community was observed at the end of the experiment, this was not the case for the P treated soil, although no more bioherbicide remained. Indeed, the relative abundance of most of the saprophytic fungi were lower in treated soil compared to control microcosms whereas fungi from parasitic fungi included in Spizellomycetales and Pezizales orders increased. To the best of our knowledge, this is the only study assessing the effect of the bioherbicide leptospermone on the composition and diversity of the fungal community in soil. This study showed that leptospermone has an impact on α- and β-diversity of the fungal community. It underlines the possible interest of microbial endpoints for environmental risk assessment of biopesticide.
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Affiliation(s)
- Clarisse Mallet
- Laboratoire Microorganismes : Génome et Environnement, CNRS, Université Clermont Auvergne, Clermont-Ferrand, France
| | - Sana Romdhane
- AgroSup Dijon, INRA UMR1347 Agroécologie, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
- Biocapteurs-Analyses-Environnement, Université de Perpignan Via Domitia, Perpignan, France
| | - Camille Loiseau
- Laboratoire Microorganismes : Génome et Environnement, CNRS, Université Clermont Auvergne, Clermont-Ferrand, France
| | - Jérémie Béguet
- AgroSup Dijon, INRA UMR1347 Agroécologie, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
| | - Fabrice Martin-Laurent
- AgroSup Dijon, INRA UMR1347 Agroécologie, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
| | - Christophe Calvayrac
- Biocapteurs-Analyses-Environnement, Université de Perpignan Via Domitia, Perpignan, France
- Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, Banyuls-sur-Mer, France
| | - Lise Barthelmebs
- Biocapteurs-Analyses-Environnement, Université de Perpignan Via Domitia, Perpignan, France
- Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, Banyuls-sur-Mer, France
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21
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Hage‐Ahmed K, Rosner K, Steinkellner S. Arbuscular mycorrhizal fungi and their response to pesticides. PEST MANAGEMENT SCIENCE 2019; 75:583-590. [PMID: 30255557 PMCID: PMC6587947 DOI: 10.1002/ps.5220] [Citation(s) in RCA: 33] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2018] [Revised: 09/19/2018] [Accepted: 09/19/2018] [Indexed: 05/19/2023]
Abstract
Arbuscular mycorrhizal fungi (AMF) form symbioses with the majority of plant species and can provide multiple benefits to the host plant. In agro-ecosystems, the abundance and community structure of AMF are affected by agricultural management practices. This review describes and discusses current knowledge on the effects of inorganic and organic chemical pesticides on AMF in the conflicting area between agricultural use and environmental concerns. Variable effects have been reported following chemical pesticide use, ranging from neutral to positive and negative. Moreover, a species-specific reaction has been documented. The reported effects of pesticides on arbuscular mycorrhizal symbiosis are very diverse, and even when the same substance is investigated, the results are often contradictory. These effects depend on many parameters, such as the active substance, the mode of action, the mode of application and the dosage. In the field, determinants such as the physico-chemical behavior of the active substances, the soil type and other soil microorganisms contribute to the fate of pesticides and thus the amount of active substances to which AMF are exposed. This review highlights that the fate of AMF following pesticide use needs to be addressed in a broader agro-ecosystem context. © 2018 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
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Affiliation(s)
- Karin Hage‐Ahmed
- Division of Plant Protection, Department of Crop SciencesUniversity of Natural Resources and Life Sciences ViennaTullnAustria
| | - Kathrin Rosner
- Division of Plant Protection, Department of Crop SciencesUniversity of Natural Resources and Life Sciences ViennaTullnAustria
| | - Siegrid Steinkellner
- Division of Plant Protection, Department of Crop SciencesUniversity of Natural Resources and Life Sciences ViennaTullnAustria
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NUNES HELIABB, GOTO BRUNOT, COIMBRA JOÃOLUIZ, OLIVEIRA JAMILES, TAVARES DÉRICAG, ROCHA MARCELOS, SILVA FABIANEL, SOARES ANACRISTINAF. Is arbuscular mycorrhizal fungal species community affected by cotton growth management systems in the Brazilian Cerrado? AN ACAD BRAS CIENC 2019; 91:e20180695. [DOI: 10.1590/0001-3765201920180695] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2018] [Accepted: 07/25/2019] [Indexed: 11/22/2022] Open
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23
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de Faria DBG, Montalvão MF, Chagas TQ, Araújo APC, Souza JMD, Mendes BO, Rodrigues ASL, Malafaia G. Behavioral changes in Japanese quails exposed to predicted environmentally relevant abamectin concentrations. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 636:1553-1564. [PMID: 29913616 DOI: 10.1016/j.scitotenv.2018.04.293] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Revised: 04/21/2018] [Accepted: 04/22/2018] [Indexed: 06/08/2023]
Abstract
Abamectin (ABA) toxicity in fish, amphibian and mammals was already proven, but its effect on birds is almost unknown. Thus, the aim of our study is to assess the impact of exposure to water with ABA for 40 days at predicted environmentally relevant concentrations on the behavior of female Japanese quails (Coturnix coturnix japonica). The three following experimental groups (n = 10 each) were set: "control", quails exposed to drinking water, without ABA, "EC1x" and "EC1000x" (0.31 mg a.i./L and 310.0 a.i./L, respectively; via commercial formulation Kraft® 36EC). The open field test showed anxiolytic response in birds exposed to ABA. These birds did not show locomotor changes or aggressive behavior in the aggressiveness test. Quails exposed to the pesticide did not react to the introduction of an object in the experimental box during the object recognition test, and it suggested perception deficit due to ABA. Moreover, these birds did not recognize the cat (Felix catus) and the vocalization of a hawk (Rupornis magnirostris) as potential predatory threats. These responses also suggest anti-predatory behavior deficit due to the pesticide. Thus, our study is pioneer in showing that water with ABA, at tested concentrations, influences the behavior of C. coturnix japonica, as well as in highlighting the potential impacts of this pesticide on this group of birds.
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Affiliation(s)
- Denise Braga Gomes de Faria
- Post-Graduation Program in Conservation of Cerrado Natural Resources, Goiano Federal Institute of Education, Sciences and Technology - Urutaí Campus, GO, Brazil
| | - Mateus Flores Montalvão
- Post-Graduation Program in Conservation of Cerrado Natural Resources, Goiano Federal Institute of Education, Sciences and Technology - Urutaí Campus, GO, Brazil
| | - Thales Quintão Chagas
- Post-Graduation Program in Conservation of Cerrado Natural Resources, Goiano Federal Institute of Education, Sciences and Technology - Urutaí Campus, GO, Brazil
| | - A P C Araújo
- Post-Graduation Program in Conservation of Cerrado Natural Resources, Goiano Federal Institute of Education, Sciences and Technology - Urutaí Campus, GO, Brazil
| | - J M de Souza
- Post-Graduation Program in Conservation of Cerrado Natural Resources, Goiano Federal Institute of Education, Sciences and Technology - Urutaí Campus, GO, Brazil
| | - B O Mendes
- Post-Graduation Program in Conservation of Cerrado Natural Resources, Goiano Federal Institute of Education, Sciences and Technology - Urutaí Campus, GO, Brazil
| | - A S L Rodrigues
- Post-Graduation Program in Conservation of Cerrado Natural Resources, Goiano Federal Institute of Education, Sciences and Technology - Urutaí Campus, GO, Brazil
| | - Guilherme Malafaia
- Post-Graduation Program in Conservation of Cerrado Natural Resources, Goiano Federal Institute of Education, Sciences and Technology - Urutaí Campus, GO, Brazil.
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Mallmann GC, Sousa JP, Sundh I, Pieper S, Arena M, da Cruz SP, Klauberg-Filho O. Placing arbuscular mycorrhizal fungi on the risk assessment test battery of plant protection products (PPPs). ECOTOXICOLOGY (LONDON, ENGLAND) 2018; 27:809-818. [PMID: 29802487 DOI: 10.1007/s10646-018-1946-0] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 04/27/2018] [Indexed: 06/08/2023]
Abstract
Arbuscular mycorrhizal fungi (AMF) are mutualistic symbionts considered a key group in soil systems involved in the provision of several ecosystem services. Recently they have been listed by EFSA as organisms to be included in the test battery for the risk assessment of plant protection product (PPPs). This study aimed to contribute to improve the ISO Protocol (ISO 10832: 2009) by assessing the feasibility of using other AMF species under different test conditions. Overall, results showed that AMF species Gigaspora albida and Rhizophagus clarus (selected out of five AMF species) are suitable to be used in spore germination tests using the ISO protocol (14 days incubation with sand or artificial soil as substrate) to test PPPs. However, several modifications to the protocol were made in order to accommodate the use of the tested isolates, namely the incubation temperature (28 °C instead of 24 °C) and the change of reference substance (boric acid instead of cadmium nitrate). The need for these changes, plus the results obtained with the three fungicides tested (chlorothalonil, mancozeb and metalaxyl-M) and comparisons made with literature on the relevance of the origin of AMF isolates in dictating the adequate test conditions, emphasize the importance of adjusting test conditions (AMF species/isolates and test temperature) when assessing effects for prospective risk assessment targeting different climatic zones. So, further studies should be conducted with different AMF species and isolates from different climatic regions, in order to better define which species/isolate and test conditions should be used to assess effects of a particular PPP targeting a given climatic zone.
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Affiliation(s)
| | - José Paulo Sousa
- Centre for Functional Ecology, Department of Life Sciences, University of Coimbra, Coimbra, Portugal
| | - Ingvar Sundh
- Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Silvia Pieper
- Federal Environment Agency, UBA, Dessau-Roßlau, Germany
| | | | - Sonia Purin da Cruz
- Universidade Federal de Santa Catarina, UFSC Curitibanos, Curitibanos, Brazil
| | - Osmar Klauberg-Filho
- Soil Science Department, Universidade do Estado de Santa Catarina, CAV, Lages, Brazil.
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Manjunath M, Kumar U, Yadava RB, Rai AB, Singh B. Influence of organic and inorganic sources of nutrients on the functional diversity of microbial communities in the vegetable cropping system of the Indo-Gangetic plains. C R Biol 2018; 341:349-357. [DOI: 10.1016/j.crvi.2018.05.002] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2018] [Revised: 05/03/2018] [Accepted: 05/11/2018] [Indexed: 11/26/2022]
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Shao H, Zhang Y. Non-target effects on soil microbial parameters of the synthetic pesticide carbendazim with the biopesticides cantharidin and norcantharidin. Sci Rep 2017; 7:5521. [PMID: 28717209 PMCID: PMC5514074 DOI: 10.1038/s41598-017-05923-8] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2017] [Accepted: 06/06/2017] [Indexed: 12/29/2022] Open
Abstract
Considering the fact that biopesticides are increasingly used to replace synthetic pesticides in pest control, it is necessary to assess their ecotoxicity and especially their non-target effects on soil microorganisms, which is largely unknown. In this study, the effects of the synthetic pesticide carbendazim and the biopesticides (cantharidin and norcantharidin) on soil microbial parameters in a silt loam soil were evaluated. By using commercial formulations at the recommended and higher rates, both cantharidin and norcantharidin induced adverse effects on soil invertase, phosphatase activities and fungal gene structure, but these changes were transient. After about two weeks, the harmful effects owing to the application of pesticides phased out and eventually became comparable with non-treated samples. The degradation of cantharidin and norcantharidin was rapid and can be completed within a few days in the soil. None of the three pesticides caused significant shifts in urease activity. This study provides a comprehensive assessment of the soil microbial toxicity of these biopesticides for reasonable and efficient usage.
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Affiliation(s)
- Hainan Shao
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Yalin Zhang
- Key Laboratory of Plant Protection Resources and Pest Management, Ministry of Education, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, 712100, China.
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Kaur S, Kumar V, Chawla M, Cavallo L, Poater A, Upadhyay N. Pesticides Curbing Soil Fertility: Effect of Complexation of Free Metal Ions. Front Chem 2017; 5:43. [PMID: 28725644 PMCID: PMC5495828 DOI: 10.3389/fchem.2017.00043] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Accepted: 06/12/2017] [Indexed: 12/19/2022] Open
Abstract
Researchers have suggested that the reason behind infertility is pernicious effect of broad spectrum pesticides on non target, beneficial microorganism of soil. Here, studying the chelating effect of selective organophosphate and carbamate pesticides with essential metal ions, at all possible combinations of three different pH (4 ± 0.05, 7 ± 0.05 and 9 ± 0.05) and three different temperatures (15 ± 0.5°C, 30 ± 0.5°C and 45 ± 0.5°C), shows very fast rate of reaction which further increases with increase of pH and temperature. Carbonyl oxygen of carbamate and phosphate oxygen of organophosphate were found to be common ligating sites among all the complexes. Formed metal complexes were found to be highly stable and water insoluble on interaction with essential metal ions in solvent medium as well as over silica. Density functional theory (DFT) calculations not only reinforced the experimental observations, but, after a wide computational conformational analysis, unraveled the nature of the high stable undesired species that consist of pesticides complexed by metal ions from the soil. All in all, apart from the direct toxicity of pesticides, the indirect effect by means of complexation of free metal ions impoverishes the soil.
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Affiliation(s)
- Sukhmanpreet Kaur
- Department of Chemistry, Lovely Professional UniversityJalandhar, India
| | - Vijay Kumar
- Department of Chemistry, Lovely Professional UniversityJalandhar, India
- Regional Ayurveda Research Institute for Drug DevelopmentGwalior, India
| | - Mohit Chawla
- Kaust Catalysis Center, Physical Sciences and Engineering, King Abdullah University of Science and TechnologyThuwal, Saudi Arabia
| | - Luigi Cavallo
- Kaust Catalysis Center, Physical Sciences and Engineering, King Abdullah University of Science and TechnologyThuwal, Saudi Arabia
| | - Albert Poater
- Kaust Catalysis Center, Physical Sciences and Engineering, King Abdullah University of Science and TechnologyThuwal, Saudi Arabia
- Departament de Química, Facultat de Ciències, Institut de Química Computacional i Catàlisi, Universitat de GironaGirona, Spain
| | - Niraj Upadhyay
- Department of Chemistry, Lovely Professional UniversityJalandhar, India
- Department of Chemistry, Dr. Harisingh Gour VishwavidyalayaSagar, India
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