1
|
Newman NS, Abbott CA, Brame JE, Cando-Dumancela C, Fickling NW, Liddicoat C, Robinson JM, Breed MF. Childcare centre soil microbiomes are influenced by substrate type and surrounding vegetation condition. Sci Total Environ 2024; 927:172158. [PMID: 38583619 DOI: 10.1016/j.scitotenv.2024.172158] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Revised: 03/25/2024] [Accepted: 03/31/2024] [Indexed: 04/09/2024]
Abstract
Urban development has profoundly reduced human exposure to biodiverse environments, which is linked to a rise in human disease. The 'biodiversity hypothesis' proposes that contact with diverse microbial communities (microbiota) benefits human health, as exposure to microbial diversity promotes immune training and regulates immune function. Soils and sandpits in urban childcare centres may provide exposure to diverse microbiota that support immunoregulation at a critical developmental stage in a child's life. However, the influence of outdoor substrate (i.e., sand vs. soil) and surrounding vegetation on these environmental microbiota in urban childcare centres remains poorly understood. Here, we used 16S rRNA amplicon sequencing to examine the variation in bacterial communities in sandpits and soils across 22 childcare centres in Adelaide, Australia, plus the impact of plant species richness and habitat condition on these bacterial communities. We show that sandpits had distinct bacterial communities and lower alpha diversity than soils. In addition, we found that plant species richness in the centres' yards and habitat condition surrounding the centres influenced the bacterial communities in soils but not sandpits. These results demonstrate that the diversity and composition of childcare centre sandpit and soil bacterial communities are shaped by substrate type, and that the soils are also shaped by the vegetation within and surrounding the centres. Accordingly, there is potential to modulate the exposure of children to health-associated bacterial communities by managing substrates and vegetation in and around childcare centres.
Collapse
Affiliation(s)
- Natalie S Newman
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | - Catherine A Abbott
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | - Joel E Brame
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | | | - Nicole W Fickling
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | - Craig Liddicoat
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | - Jake M Robinson
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia
| | - Martin F Breed
- College of Science and Engineering, Flinders University, Bedford Park, SA 5042, Australia.
| |
Collapse
|
2
|
Ferreira PFA, Rocha FI, Howe A, Barbosa DR, da Conceição Jesus E, do Amaral Sobrinho NMB, da Silva Coelho I. Chemical attributes, bacterial community, and antibiotic resistance genes are affected by intensive use of soil in agro-ecosystems of the Atlantic Forest, Southeastern Brazil. Environ Geochem Health 2024; 46:123. [PMID: 38483669 DOI: 10.1007/s10653-024-01894-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2023] [Accepted: 01/29/2024] [Indexed: 03/19/2024]
Abstract
Soil is one of the largest reservoirs of microbial diversity in nature. Although soil management is vital for agricultural purposes, intensive practices can have a significant impact on fertility, microbial community, and resistome. Thus, the aim of this study was to evaluate the effects of an intensive soil management system on the chemical attributes, composition and structure of prevalent bacterial communities, and presence and abundance of antimicrobial resistance genes (ARGs). The chemical characterization, bacterial diversity and relative abundance of ARGs were evaluated in soils from areas of intensive vegetable cultivation and forests. Results indicate that levels of nutrients and heavy metals were higher in soil samples from cultivated areas. Similarly, greater enrichment and diversity of bacterial genera was detected in agricultural areas. Of the 18 target ARGs evaluated, seven were detected in studied soils. The oprD gene exhibited the highest abundance among the studied genes and was the only one that showed a significantly different prevalence between areas. The oprD gene was identified only from soil of the cultivated areas. The blaSFO, erm(36), oprD and van genes, in addition to the pH, showed greater correlation with in soil of cultivated areas, which in turn exhibited higher contents of nutrients. Thus, in addition to changes in chemical attributes and in the microbial community of the soil, intensive agricultural cultivation systems cause a modification of its resistome, reinforcing the importance of the study of antimicrobial resistance in a One Health approach.
Collapse
Affiliation(s)
- Paula Fernanda Alves Ferreira
- Departament of Soil, Institute of Agronomy, Federal Rural University of Rio de Janeiro, Seropédica, Rio de Janeiro, 23897-970, Brazil
| | - Fernando Igne Rocha
- Mokichi Okada Research Center, Korin Agriculture and Environment, Ipeúna, São Paulo, Brazil
| | - Adina Howe
- Department of Agricultural and Biosystems Engineering, Iowa State University, Ames, IA, USA
| | - Daniele Rodrigues Barbosa
- Departament of Soil, Institute of Agronomy, Federal Rural University of Rio de Janeiro, Seropédica, Rio de Janeiro, 23897-970, Brazil
| | - Ederson da Conceição Jesus
- Embrapa Agrobiology, Brazilian Agricultural Research Corporation, Seropédica, Rio de Janeiro, 23891-000, Brazil
| | | | - Irene da Silva Coelho
- Department of Veterinary Microbiology and Immunology, Veterinary Institute, Federal Rural University of Rio de Janeiro, Seropédica, Rio de Janeiro, 23897-970, Brazil.
| |
Collapse
|
3
|
Wang M, Sun M, Zhao Y, Shi Y, Sun S, Wang S, Zhou Y, Chen L. Seasonal changes of soil microbiota and its association with environmental factors in coal mining subsidence area. AMB Express 2023; 13:147. [PMID: 38123764 PMCID: PMC10733236 DOI: 10.1186/s13568-023-01653-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2023] [Accepted: 12/05/2023] [Indexed: 12/23/2023] Open
Abstract
BACKGROUND As a special type of wetland, the new wetland in the coal mining subsidence area is highly sensitive to environmental changes. In recent years, more and more attention has been paid to the studies of soil microbial diversity in newly born wetlands in coal mining subsidence areas. However, there are few reports on the seasonal variation of soil microbial diversity and its relationship with soil physical and chemical properties. METHODS In this study, 16S rRNA gene sequencing technology was used to analyze the seasonal changes of soil microbial composition and functional diversity in newly formed wetlands in coal mining subsidence areas, and to determine the seasonal changes of soil nutrient elements and physical and chemical properties in coal mining subsidence areas, so as to analyze the correlation between soil microbial diversity and soil nutrient elements and physical and chemical properties in newly formed wetlands in coal mining subsidence areas. RESULTS A total of 16,050 OTUs were obtained after sample gene noise reduction. Proteobacteria, Acidobacteriota and Bacteroidota were the highest abundance in the coal mining subsidence area of Jining. The two seasons gathered separately, and temperature (Temp), total phosphorus (TP), available phosphorus (AP), total organic carbon (TOC) and dry matter content (DMC) were the key factors for the seasonal change of soil microbial community in the wetland of the coal mining subsidence area of Jining. The contents of Temp, AP and TP were significantly correlated with the abundance of soil microorganisms in summer subsidence area, while the contents of DMC and TOC were significantly correlated with the abundance of soil microorganisms in winter subsidence area. CONCLUSION Soil microbial diversity in coal mining subsidence area was correlated with the seasons. Temp, TP, AP, TOC and DMC were the key factors for the seasonal change of soil microbial community in the wetland of the coal mining subsidence area of Jining.
Collapse
Affiliation(s)
- Meng Wang
- Technology Innovation Center of Restoration and Reclamation in Mining induced Subsidence Land, Shandong Provincial Lunan Geology and Exploration Institute (Shandong Provincial Bureau of Geology and Mineral Resources, Ministry of Natural Resources of China, No.2 Geological Brigade), Jining, 272000, China
| | - Mengyao Sun
- College of Life Sciences, Qufu Normal University, Qufu, Shandong Province, China
| | - Yue Zhao
- College of Life Sciences, Qufu Normal University, Qufu, Shandong Province, China
| | - Yuying Shi
- College of Life Sciences, Qufu Normal University, Qufu, Shandong Province, China
| | - Shuo Sun
- College of Life Sciences, Qufu Normal University, Qufu, Shandong Province, China
| | - Shen Wang
- College of Life Sciences, Qufu Normal University, Qufu, Shandong Province, China
| | - Yiping Zhou
- College of Life Sciences, Qufu Normal University, Qufu, Shandong Province, China
| | - Lei Chen
- College of Life Sciences, Qufu Normal University, Qufu, Shandong Province, China.
| |
Collapse
|
4
|
Tang X, Li Y, Jin R, Yin G, Hou L, Liu M, Ju F, Han P. Community pattern of potential phenanthrene (PHE) degrading bacteria in PHE contaminated soil revealed by 13C-DNA stable isotope probing. Chemosphere 2023; 344:140377. [PMID: 37806323 DOI: 10.1016/j.chemosphere.2023.140377] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Revised: 09/29/2023] [Accepted: 10/05/2023] [Indexed: 10/10/2023]
Abstract
Quantification of polycyclic aromatic hydrocarbons (PAHs) in contaminated soil and identification of potential PAH degraders are essential for comprehending their environmental fate and conducting bioremediation. However, the microbial population responsible for the breakdown of phenanthrene (PHE) in polluted soil environments is frequently disregarded. In this study, via DNA-stable-isotope probing (DNA-SIP), we found that soil microbiota likely plays a crucial part in the PHE degradation. The PHE removal rates were 98% and 99%, in 13C-PHE and 12C-PHE microcosmic incubations, respectively. 13CO2 was produced along with the degradation of 13C-PHE. According to the analysis of 16S rRNA gene, there was a relatively higher presence of unidentified bacteria in the 'heavy' DNA fractions treated with 13C-PHE. Genus of Enterobacteriales, Acidobacteria, Alphaproteobacteria, Paenibacillaceae, Flavobacteriia, Chloroflexi, Cyanobacteria, Caldilineae, Latescibacteria, Armatimonadetes and Blastocatellia were succseesfully labeled during the degradation of 13C-PHE, indicating their capacity of utilizing PHE. Co-occurrence network of 13C-heavy fractions exhibited greater complexity compared with that of 12C-heavy fractions, revealling an enhancement of bacterial interspecies interactions. Collectivley, this study eluidated the soil microbes involed in the PHE degradation and offered fresh perspectives on the community pattern of potential PHE degrading bacteria.
Collapse
Affiliation(s)
- Xiufeng Tang
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographic Sciences, East China Normal University, Shanghai, 200241, China.
| | - Ye Li
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographic Sciences, East China Normal University, Shanghai, 200241, China.
| | - Ruihe Jin
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographic Sciences, East China Normal University, Shanghai, 200241, China.
| | - Guoyu Yin
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographic Sciences, East China Normal University, Shanghai, 200241, China.
| | - Lijun Hou
- State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai, 200241, China.
| | - Min Liu
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographic Sciences, East China Normal University, Shanghai, 200241, China.
| | - Feng Ju
- Key Laboratory of Coastal Environment and Resources of Zhejiang Province, School of Engineering, Westlake University, Hangzhou, 310030, China.
| | - Ping Han
- Key Laboratory of Geographic Information Science (Ministry of Education), School of Geographic Sciences, East China Normal University, Shanghai, 200241, China; State Key Laboratory of Estuarine and Coastal Research, East China Normal University, Shanghai, 200241, China; Institute of Eco-Chongming, East China Normal University, Shanghai, 200062, China.
| |
Collapse
|
5
|
Lagos S, Karpouzas DG. Anthelminthic Veterinary Medicines Interactions with the Soil Microbiota. Chimia (Aarau) 2023; 77:777-782. [PMID: 38047846 DOI: 10.2533/chimia.2023.777] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2023] [Indexed: 12/05/2023] Open
Abstract
Anthelminthics (AHs) are used to control gastrointestinal nematodes (GINs) in productive animals. They are rapidly excreted by animals, ending up in soil through direct deposition of animal dung or application of animal excreta as manures. Most environmental research on AHs has focused on their toxicity to aquatic organisms and soil fauna while their interactions with the soil microbiota, a key component of a functioning soil ecosystem, have been overlooked. In this article, we summarize current knowledge on the interactions of Ahs with the soil (micro) biota, we highlight recent evidence for the toxicity of AHs on soil microorganisms and discuss those results in the frame of the current environmental risk assessment (ERA) of veterinary medicines.
Collapse
Affiliation(s)
- Stathis Lagos
- Dept. Biochemistry and Biotechnology, University of Thessaly, Larissa 41500, Viopolis, Greece
| | - Dimitrios G Karpouzas
- Dept. Biochemistry and Biotechnology, University of Thessaly, Larissa 41500, Viopolis, Greece.
| |
Collapse
|
6
|
Wang Y, Zheng G, Zhao Y, Bo H, Li C, Dong J, Wang Y, Yan S, Zhang F, Liu J. Different bacterial and fungal community patterns in restored habitats in coal-mining subsidence areas. Environ Sci Pollut Res Int 2023; 30:104304-104318. [PMID: 37700132 DOI: 10.1007/s11356-023-29744-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Accepted: 09/03/2023] [Indexed: 09/14/2023]
Abstract
Soil microbiota, which plays a fundamental role in ecosystem functioning, is sensitive to environmental changes. Studying soil microbial ecological patterns can help to understand the consequences of environmental disturbances on soil microbiota and hence ecosystem services. The different habitats with critical environmental gradients generated through the restoration of coal-mining subsidence areas provide an ideal area to explore the response of soil microbiota to environmental changes. Here, based on high-throughput sequencing, we revealed the patterns of soil bacterial and fungal communities in habitats with different land-use types (wetland, farmland, and grassland) and with different restored times which were generated during the ecological restoration of a typical coal-mining subsidence area in Jining City, China. The α-diversity of bacterial was higher in wetland than in farmland and grassland, while that of fungi had no discrepancy among the three habitats. The β-diversity of bacterial community in the grassland was lower than in the farmland, and fungal community was significant different in all three habitats, showing wetland, grassland, and farmland from high to low. The β-diversity of the bacterial community decreased with restoration time while that of the fungal community had no significant change in the longer-restoration-time area. Furthermore, soil electrical conductivity was the most important driver for both bacterial and fungal communities. Based on the taxonomic difference among different habitats, we identified a group of biomarkers for each habitat. The study contributes to understand the microbial patterns during the ecological restoration of coal-mining subsidence areas, which has implications for the efficient ecological restoration of subsidence areas.
Collapse
Affiliation(s)
- Yijing Wang
- Environment Research Institute, Shandong University, Qingdao, 266237, China
| | - Guodong Zheng
- Technology Innovation Center of Restoration and Reclamation in Mining induced Subsidence Land, Ministry of Natural Resources, Shandong Provincial Lunan Geology and Exploration Institute (Shandong Provincial Bureau of Geology and Mineral Resources No.2 Geological Brigade), Jining, 272000, China.
| | - Yongkang Zhao
- Environment Research Institute, Shandong University, Qingdao, 266237, China
| | - Huaizhi Bo
- Technology Innovation Center of Restoration and Reclamation in Mining induced Subsidence Land, Ministry of Natural Resources, Shandong Provincial Lunan Geology and Exploration Institute (Shandong Provincial Bureau of Geology and Mineral Resources No.2 Geological Brigade), Jining, 272000, China
| | - Changchao Li
- Environment Research Institute, Shandong University, Qingdao, 266237, China
| | - Junyu Dong
- Key Laboratory of Water and Sediment Sciences of Ministry of Education, School of Environment, Beijing Normal University, Beijing, 100875, China
| | - Yan Wang
- Environment Research Institute, Shandong University, Qingdao, 266237, China
| | - Shuwan Yan
- Environment Research Institute, Shandong University, Qingdao, 266237, China
| | - Fanglong Zhang
- Technology Innovation Center of Restoration and Reclamation in Mining induced Subsidence Land, Ministry of Natural Resources, Shandong Provincial Lunan Geology and Exploration Institute (Shandong Provincial Bureau of Geology and Mineral Resources No.2 Geological Brigade), Jining, 272000, China
| | - Jian Liu
- Environment Research Institute, Shandong University, Qingdao, 266237, China
| |
Collapse
|
7
|
Dad FP, Khan WUD, Kirkham MB, Bolan N, Tanveer M. Microplastics: a review of their impacts on different life forms and their removal methods. Environ Sci Pollut Res Int 2023; 30:86632-86655. [PMID: 37438501 DOI: 10.1007/s11356-023-28513-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Accepted: 06/26/2023] [Indexed: 07/14/2023]
Abstract
The pollution of microplastics (MPs) is a worldwide major concern, as they have become a major part of our food chain. MPs enter our ecosystem via different pathways, including anthropogenic activities and improper disposal of plastics. The aim of this article is to review the current scientific literature related to MPs and how they affect different life forms on earth. Briefly, MPs induced negative effects on humans are primarily linked with the oxidative stress and disruption in immunity. MPs not only affect the soil chemical and physical properties such as reduction in soil health and productivity but also impose harmful effects on soil microorganisms. Moreover, MP-induced plant growth reduction results from three complementary mechanisms: (i) reduction in root and shoot growth, (ii) reduction in photosynthesis accompanied by higher reactive oxygen species (ROS) production, and (iii) reduction in nutrient uptake via altered root growth. Given the negative effects of MPs on different life forms, it is important to remove or remediate them. We have discussed different MP removal methods including coagulation, membrane filtration technology, biochar, and biological degradation of MPs in soil and wastewater effluents. The use of ozone as ultrafiltration technique has also been shown as the most promising technique for MP removal. Finally, some future research recommendations are also put forward at the end to further enhance our understanding of the MPs induced negative effects on different life forms. The flowchart shows the interaction of MPs from water contaminated with MPs with different parts of the ecosystem and final interaction with human health.
Collapse
Affiliation(s)
- Fiza Pir Dad
- Sustainable Development Study Centre, Government College University, Lahore, 54000, Pakistan
| | - Waqas-Ud-Din Khan
- Sustainable Development Study Centre, Government College University, Lahore, 54000, Pakistan
- Department of Agriculture, Government College University, Lahore, 54000, Pakistan
| | - M B Kirkham
- Department of Agronomy, Kansas State University, Manhattan, KS, 66506, USA
| | - Nanthi Bolan
- School of Agriculture and Environment, The University of Western Australia, Perth, WA, 6009, Australia
- The UWA Institute of Agriculture, The University of Western Australia, Perth, WA, 6009, Australia
| | - Mohsin Tanveer
- Tasmanian Institute of Agriculture, University of Tasmania, Tasmania, Australia.
| |
Collapse
|
8
|
Zhang W, Zhou X, Ye Q, Cheng X, Zhang S, Yu Z, Wang W. Nonenantioselective environmental behavior of a chiral antiviral pesticide dufulin in aerobic soils. Sci Total Environ 2023; 880:163312. [PMID: 37030363 DOI: 10.1016/j.scitotenv.2023.163312] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Revised: 03/31/2023] [Accepted: 04/01/2023] [Indexed: 05/27/2023]
Abstract
Dufulin is a promising chiral antiviral agent, but little is known about its fate in soils. In this study, the fate of dufulin enantiomers in aerobic soils was investigated using radioisotope tracing techniques. The result of the four-compartment model showed no significant differences in dissipation, generation of bound residues (BR) and mineralization between S-dufulin and R-dufulin during incubation. Dufulin dissipated most quickly in cinnamon soils, followed by fluvo-aquic and black soils and the half-lives of dufulin in these soils obtained by the modified model were 4.92-5.23, 32.39-33.32 and 60.80-61.34 d, respectively. After 120 d incubation, the percentage of radioactivity of BR increased to 18.2-38.4 % in the three soils. Dufulin formed most bound residues in the black soil, least in the cinnamon soil, and BRs rapidly formed in the cinnamon soil during the early culture period. In these three soils, the cumulative mineralization of 14CO2 ranged from 25.0 to 26.7 %, 42.1 to 43.4 % and 33.8 to 34.4 %, respectively, which indicated that the environmental fate of dufulin was primarily influenced by soil characteristics. The study of microbial community structure revealed that the phyla Ascomycota, Proteobacteria and genus Mortierella might be related to the degradation of dufulin. These findings provide a reference for assessing the environmental impact and ecological safety of dufulin application.
Collapse
Affiliation(s)
- Weiwei Zhang
- Institute of Nuclear Agricultural Sciences, Key Laboratory of Nuclear Agricultural Sciences of Ministry of Agriculture of the PRC and Zhejiang Province, Zhejiang University, Hangzhou 310058, China.
| | - Xin Zhou
- Institute of Nuclear Agricultural Sciences, Key Laboratory of Nuclear Agricultural Sciences of Ministry of Agriculture of the PRC and Zhejiang Province, Zhejiang University, Hangzhou 310058, China.
| | - Qingfu Ye
- Institute of Nuclear Agricultural Sciences, Key Laboratory of Nuclear Agricultural Sciences of Ministry of Agriculture of the PRC and Zhejiang Province, Zhejiang University, Hangzhou 310058, China.
| | - Xi Cheng
- Institute of Nuclear Agricultural Sciences, Key Laboratory of Nuclear Agricultural Sciences of Ministry of Agriculture of the PRC and Zhejiang Province, Zhejiang University, Hangzhou 310058, China; State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Key Laboratory for Pesticide Residue Detection of Ministry of Agriculture and Rural Affairs, Institute of Agro-product Safety and Nutrition, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.
| | - Sufen Zhang
- Institute of Nuclear Agricultural Sciences, Key Laboratory of Nuclear Agricultural Sciences of Ministry of Agriculture of the PRC and Zhejiang Province, Zhejiang University, Hangzhou 310058, China.
| | - Zhiyang Yu
- Institute of Nuclear Agricultural Sciences, Key Laboratory of Nuclear Agricultural Sciences of Ministry of Agriculture of the PRC and Zhejiang Province, Zhejiang University, Hangzhou 310058, China.
| | - Wei Wang
- Institute of Nuclear Agricultural Sciences, Key Laboratory of Nuclear Agricultural Sciences of Ministry of Agriculture of the PRC and Zhejiang Province, Zhejiang University, Hangzhou 310058, China.
| |
Collapse
|
9
|
Mandakovic D, Aguado-Norese C, García-Jiménez B, Hodar C, Maldonado JE, Gaete A, Latorre M, Wilkinson MD, Gutiérrez RA, Cavieres LA, Medina J, Cambiazo V, Gonzalez M. Testing the stress gradient hypothesis in soil bacterial communities associated with vegetation belts in the Andean Atacama Desert. Environ Microbiome 2023; 18:24. [PMID: 36978149 PMCID: PMC10052861 DOI: 10.1186/s40793-023-00486-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/15/2022] [Accepted: 03/20/2023] [Indexed: 06/18/2023]
Abstract
BACKGROUND Soil microorganisms are in constant interaction with plants, and these interactions shape the composition of soil bacterial communities by modifying their environment. However, little is known about the relationship between microorganisms and native plants present in extreme environments that are not affected by human intervention. Using high-throughput sequencing in combination with random forest and co-occurrence network analyses, we compared soil bacterial communities inhabiting the rhizosphere surrounding soil (RSS) and the corresponding bulk soil (BS) of 21 native plant species organized into three vegetation belts along the altitudinal gradient (2400-4500 m a.s.l.) of the Talabre-Lejía transect (TLT) in the slopes of the Andes in the Atacama Desert. We assessed how each plant community influenced the taxa, potential functions, and ecological interactions of the soil bacterial communities in this extreme natural ecosystem. We tested the ability of the stress gradient hypothesis, which predicts that positive species interactions become increasingly important as stressful conditions increase, to explain the interactions among members of TLT soil microbial communities. RESULTS Our comparison of RSS and BS compartments along the TLT provided evidence of plant-specific microbial community composition in the RSS and showed that bacterial communities modify their ecological interactions, in particular, their positive:negative connection ratios in the presence of plant roots at each vegetation belt. We also identified the taxa driving the transition of the BS to the RSS, which appear to be indicators of key host-microbial relationships in the rhizosphere of plants in response to different abiotic conditions. Finally, the potential functions of the bacterial communities also diverge between the BS and the RSS compartments, particularly in the extreme and harshest belts of the TLT. CONCLUSIONS In this study, we identified taxa of bacterial communities that establish species-specific relationships with native plants and showed that over a gradient of changing abiotic conditions, these relationships may also be plant community specific. These findings also reveal that the interactions among members of the soil microbial communities do not support the stress gradient hypothesis. However, through the RSS compartment, each plant community appears to moderate the abiotic stress gradient and increase the efficiency of the soil microbial community, suggesting that positive interactions may be context dependent.
Collapse
Affiliation(s)
- Dinka Mandakovic
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Bioinformatic and Gene Expression Laboratory, INTA-Universidad de Chile, Santiago, Chile
- GEMA Center for Genomics, Ecology and Environment, Universidad Mayor, Santiago, Chile
| | - Constanza Aguado-Norese
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Bioinformatic and Gene Expression Laboratory, INTA-Universidad de Chile, Santiago, Chile
| | - Beatriz García-Jiménez
- Center for Plant Biotechnology and Genomics, Universidad Politécnica de Madrid (UPM)/Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)-CSIC, Madrid, Spain
- Present Address: Biome Makers Inc., West Sacramento, CA USA
| | - Christian Hodar
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Bioinformatic and Gene Expression Laboratory, INTA-Universidad de Chile, Santiago, Chile
| | - Jonathan E. Maldonado
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Bioinformatic and Gene Expression Laboratory, INTA-Universidad de Chile, Santiago, Chile
- Departamento de Biología, Facultad de Química y Biología, Universidad de Santiago de Chile, 9170022 Santiago, Chile
| | - Alexis Gaete
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Bioinformatic and Gene Expression Laboratory, INTA-Universidad de Chile, Santiago, Chile
| | - Mauricio Latorre
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Laboratorio de Bioingeniería, Instituto de Ciencias de La Ingeniería, Universidad de O’Higgins, Rancagua, Chile
| | - Mark D. Wilkinson
- Center for Plant Biotechnology and Genomics, Universidad Politécnica de Madrid (UPM)/Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)-CSIC, Madrid, Spain
| | - Rodrigo A. Gutiérrez
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Instituto de Biología Integrativa, Departamento de Genética Molecular y Microbiología, Facultad de Ciencias Biológicas, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - Lohengrin A. Cavieres
- Instituto de Ecología y Biodiversidad (IEB), 4070386 Concepción, Chile
- Departamento de Botánica, Facultad de Ciencias Naturales y Oceanográficas, Universidad de Concepción, 4070386 Concepción, Chile
| | - Joaquín Medina
- Center for Plant Biotechnology and Genomics, Universidad Politécnica de Madrid (UPM)/Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)-CSIC, Madrid, Spain
| | - Verónica Cambiazo
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Bioinformatic and Gene Expression Laboratory, INTA-Universidad de Chile, Santiago, Chile
| | - Mauricio Gonzalez
- Millennium Institute Center for Genome Regulation, Santiago, Chile
- Bioinformatic and Gene Expression Laboratory, INTA-Universidad de Chile, Santiago, Chile
| |
Collapse
|
10
|
Whitton MM, Ren X, Yu SJ, Irving AD, Trotter T, Bajagai YS, Stanley D. Humate application alters microbiota-mineral interactions and assists in pasture dieback recovery. Heliyon 2023; 9:e13327. [PMID: 36755593 DOI: 10.1016/j.heliyon.2023.e13327] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Revised: 01/25/2023] [Accepted: 01/26/2023] [Indexed: 02/01/2023] Open
Abstract
Pasture dieback is a rapidly expanding decaying pasture syndrome that affects millions of hectares of agricultural land in Queensland, Australia, making it useless for the cattle industry and decimating farmers' income and welfare. Since the syndrome was first identified in the early 1990s, farmers and agronomists have tried various methods for pasture recovery, including slashing, burning, ploughing and resowing grass, fertilising, destocking, and overstocking. In most cases, after a minimal initial improvement, the grass reverts to dieback within a few weeks. Here, we present an application of potassium humate, a well-known plant growth stimulator, as a possible long-term recovery option. Humate was applied once at the rate of 12 ml per m2. Humate application did not alter the alpha or beta diversity of soil bacterial communities, nor did it change the mineral profile in the soil. However, humate application altered soil microbiota-mineral temporal interactions and introduced subtle changes in the microbial community that could assist pasture recovery. A single humate application increased paddock plant biomass significantly up to 20 weeks post-application. Eleven months after the single application, the paddock was grazed to the ground by the cattle just before the rainfall season. After pasture regrowth, the humate-treated plots significantly improved root morphometric indicators for both grass and dicots and increased the ratio of grass/weeds by 27.6% compared to the water-treated control. While this treatment will not resolve the dieback syndrome, our results invite more research to optimise the use of humate for maximum economic benefit in paddock use under pasture dieback syndrome conditions.
Collapse
|
11
|
Gou Z, Zheng H, He Z, Su Y, Chen S, Chen H, Chen G, Ma NL, Sun Y. The combined action of biochar and nitrogen-fixing bacteria on microbial and enzymatic activities of soil N cycling. Environ Pollut 2023; 317:120790. [PMID: 36460190 DOI: 10.1016/j.envpol.2022.120790] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2022] [Revised: 11/04/2022] [Accepted: 11/28/2022] [Indexed: 06/17/2023]
Abstract
This study aims to investigate the positive effects of the combined use of Enterobacter cloacae and biochar on improving nitrogen (N) utilization. The greenhouse pots experimental results showed the synergy of biochar and E. cloacae increased soil total N content and plant N uptake by 33.54% and 15.1%, respectively. Soil nitrogenase (NIT) activity increased by 253.02%. Ammonia monooxygenase (AMO) and nitrate reductase (NR) activity associated with nitrification and denitrification decreased by 10.94% and 29.09%, respectively. The relative abundance of N fixing microorganisms like Burkholderia and Bradyrhizobium significantly increased. Sphingomonas and Ottowia, two bacteria involved in the nitrification and denitrification processes, were found to be in lower numbers. The E. cloacae's ability to fix N2 and promote the growth of plants allow the retention of N in soil and make more N available for plant development. Biochar served as a reservoir of N for plants by adsorbing N from the soil and providing a shelter for E. cloacae. Thus, biochar and E. cloacae form a synergy for the management of agricultural N and the mitigation of negative impacts of pollution caused by excessive use of N fertilizer.
Collapse
Affiliation(s)
- Zechang Gou
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, College of Life Sciences, Jilin Agricultural University, Changchun, 130118, China
| | - Haoyu Zheng
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, College of Life Sciences, Jilin Agricultural University, Changchun, 130118, China
| | - Ziqi He
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, College of Life Sciences, Jilin Agricultural University, Changchun, 130118, China
| | - Yingjie Su
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, College of Life Sciences, Jilin Agricultural University, Changchun, 130118, China
| | - Siji Chen
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, College of Life Sciences, Jilin Agricultural University, Changchun, 130118, China
| | - Huan Chen
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, College of Life Sciences, Jilin Agricultural University, Changchun, 130118, China
| | - Guang Chen
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, College of Life Sciences, Jilin Agricultural University, Changchun, 130118, China
| | - Nyuk Ling Ma
- Faculty of Science and Marine Environment, University Malaysia Terengganu, 21030 Kuala Nerus, Terengganu, Malaysia
| | - Yang Sun
- Key Laboratory of Straw Comprehensive Utilization and Black Soil Conservation, Ministry of Education, College of Life Sciences, Jilin Agricultural University, Changchun, 130118, China.
| |
Collapse
|
12
|
Pérez-Reverón R, Álvarez-Méndez SJ, González-Sálamo J, Socas-Hernández C, Díaz-Peña FJ, Hernández-Sánchez C, Hernández-Borges J. Nanoplastics in the soil environment: Analytical methods, occurrence, fate and ecological implications. Environ Pollut 2023; 317:120788. [PMID: 36481462 DOI: 10.1016/j.envpol.2022.120788] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2022] [Revised: 11/19/2022] [Accepted: 11/28/2022] [Indexed: 06/17/2023]
Abstract
Soils play a very important role in ecosystems sustainability, either natural or agricultural ones, serving as an essential support for living organisms of different kinds. However, in the current context of extremely high plastic pollution, soils are highly threatened. Plastics can change the chemical and physical properties of the soils and may also affect the biota. Of particular importance is the fact that plastics can be fragmented into microplastics and, to a final extent into nanoplastics. Due to their extremely low size and high surface area, nanoplastics may even have a higher impact in soil ecosystems. Their transport through the edaphic environment is regulated by the physicochemical properties of the soil and plastic particles themselves, anthropic activities and biota interactions. Their degradation in soils is associated with a series of mechanical, photo-, thermo-, and bio-mediated transformations eventually conducive to their mineralisation. Their tiny size is precisely the main setback when it comes to sampling soils and subsequent processes for their identification and quantification, albeit pyrolysis coupled with gas chromatography-mass spectrometry and other spectroscopic techniques have proven to be useful for their analysis. Another issue as a consequence of their minuscule size lies in their uptake by plants roots and their ingestion by soil dwelling fauna, producing morphological deformations, damage to organs and physiological malfunctions, as well as the risks associated to their entrance in the food chain, although current conclusions are not always consistent and show the same pattern of effects. Thus, given the omnipresence and seriousness of the plastic menace, this review article pretends to provide a general overview of the most recent data available regarding nanoplastics determination, occurrence, fate and effects in soils, with special emphasis on their ecological implications.
Collapse
Affiliation(s)
- Raquel Pérez-Reverón
- Departamento de Biología Animal, Edafología y Geología, Facultad de Ciencias, Universidad de La Laguna (ULL). Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain
| | - Sergio J Álvarez-Méndez
- Departamento de Biología Animal, Edafología y Geología, Facultad de Ciencias, Universidad de La Laguna (ULL). Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain; Instituto Universitario de Bio-Orgánica Antonio González, Universidad de La Laguna (ULL), Avda. Astrofísico Francisco Sánchez, s/n, 38206 La Laguna, Tenerife, Spain; Departamento de Química, Unidad Departamental de Química Analítica, Facultad de Ciencias, Universidad de La Laguna (ULL). Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain
| | - Javier González-Sálamo
- Departamento de Química, Unidad Departamental de Química Analítica, Facultad de Ciencias, Universidad de La Laguna (ULL). Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain; Instituto Universitario de Enfermedades Tropicales y Salud Pública de Canarias, Universidad de La Laguna (ULL), Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain; Department of Chemistry, Sapienza University of Rome, P.le Aldo Moro, 5, 00185, Rome, Italy
| | - Cristina Socas-Hernández
- Departamento de Química, Unidad Departamental de Química Analítica, Facultad de Ciencias, Universidad de La Laguna (ULL). Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain; Foundation for the Promotion of Health and Biomedical Research in the Valencian Region, FISABIO-Public Health, Avenida Catalunya, 21, 46020, Valencia, Spain
| | - Francisco J Díaz-Peña
- Departamento de Biología Animal, Edafología y Geología, Facultad de Ciencias, Universidad de La Laguna (ULL). Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain
| | - Cintia Hernández-Sánchez
- Instituto Universitario de Enfermedades Tropicales y Salud Pública de Canarias, Universidad de La Laguna (ULL), Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain; Departamento de Obstetricia y Ginecología, Pediatría, Medicina Preventiva y Salud Pública, Toxicología, Medicina Forense y Legal y Parasitología, Área de Medicina Preventiva y Salud Pública, Escuela Politécnica Superior de Ingeniería, Sección de Náutica, Máquinas y Radioelectrónica Naval, Universidad de La Laguna (ULL), Vía Auxiliar Paso Alto 2, 38001, Santa Cruz de Tenerife, Spain
| | - Javier Hernández-Borges
- Departamento de Química, Unidad Departamental de Química Analítica, Facultad de Ciencias, Universidad de La Laguna (ULL). Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain; Instituto Universitario de Enfermedades Tropicales y Salud Pública de Canarias, Universidad de La Laguna (ULL), Avda. Astrofísico Fco. Sánchez, s/n, 38206, San Cristóbal de La Laguna, Spain.
| |
Collapse
|
13
|
Shahid M, Khan MS. Ecotoxicological implications of residual pesticides to beneficial soil bacteria: A review. Pestic Biochem Physiol 2022; 188:105272. [PMID: 36464377 DOI: 10.1016/j.pestbp.2022.105272] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Revised: 10/02/2022] [Accepted: 10/23/2022] [Indexed: 06/17/2023]
Abstract
Optimization of crop production in recent times has become essential to fulfil food demands of constantly increasing human populations worldwide. To address this formidable challenge, application of agro-chemicals including synthetic pesticides in intensive farm practices has increased alarmingly. The excessive and indiscriminate application of pesticides to foster food production however, leads to its exorbitant deposition in soils. After accumulation in soils beyond threshold limits, pesticides harmfully affect the abundance, diversity and composition and functions of rhizosphere microbiome. Also, the cost of pesticides and emergence of resistance among insect-pests against pesticides are other reasons that require attention. Due to this, loss in soil nutrient pool cause a substantive reduction in agricultural production which warrant the search for newer environmentally friendly technology for sustainable crop production. Rhizosphere microbes, in this context, play vital roles in detoxifying the polluted environment making soil amenable for cultivation through detoxification of pollutants, rhizoremediation, bioremediation, pesticide degradation, and stress alleviation, leading to yield optimization. The response of soil microorganisms to range of chemical pesticides is variable ranging from unfavourable to the death of beneficial microbes. At cellular and biochemical levels, pesticides destruct the morphology, ultrastructure, viability/cellular permeability, and many biochemical reactions including protein profiles of soil bacteria. Several classes of pesticides also disturb the molecular interaction between crops and their symbionts impeding the overall useful biological processes. The harmful impact of pesticides on soil microbes, however, is poorly researched. In this review, the recent findings related with potential effects of synthetic pesticides on a range of soil microbiota is highlighted. Emphasis is given to find and suggest strategies to minimize the chemical pesticides usage in the real field conditions to preserve the viability of soil beneficial bacteria and soil quality for safe and sustainable crop production even in pesticide contaminated soils.
Collapse
Affiliation(s)
- Mohammad Shahid
- Department of Agricultural Microbiology, Faculty of Agricultural Sciences, Aligarh Muslim University, Aligarh 202002, Uttar Pradesh, India.
| | - Mohammad Saghir Khan
- Department of Agricultural Microbiology, Faculty of Agricultural Sciences, Aligarh Muslim University, Aligarh 202002, Uttar Pradesh, India
| |
Collapse
|
14
|
Tan S, Narayanan M, Thu Huong DT, Ito N, Unpaprom Y, Pugazhendhi A, Lan Chi NT, Liu J. A perspective on the interaction between biochar and soil microbes: A way to regain soil eminence. Environ Res 2022; 214:113832. [PMID: 35810814 DOI: 10.1016/j.envres.2022.113832] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2022] [Revised: 07/01/2022] [Accepted: 07/03/2022] [Indexed: 06/15/2023]
Abstract
Soil ecosystem imparts a fundamental role in the growth and survival of the living creatures. The interaction between living and non-living constituents of the environment is important for the regulation of life in the ecosystem. Biochar is a carbon rich product present in the soil that is responsible for various applications in diversified fields. In this review, we focused on the collaboration between the soil, biochar and microbial community present in the soil and consequences of it in the ecosystem. Herein, it primarily discusses on the different approaches of the production and characterization of biochar. Furthermore, this review also discusses about the optimistic interaction of biochar with soil microbes and their role in plant growth. Eventually, it reveals the various physio-chemical properties of biochar, including its specific surface area, porous nature, ion exchange capacity, and pH, which aid in the modification of the soil environment. Furthermore, it elaborately discloses the impact of the biochar addition in the soil focusing mainly on its interaction with microbial communities such as bacteria and fungi. The physicochemical properties of biochar significantly interact with microbes and improve the beneficial microbes growth and increase soil nutrients, which resulting reasonable plant growth. The main focus remains on the role of biochar-soil microbiota in remediation of pollutants, soil amendment and inhibition of pathogenicity among plants by promoting resistance potential. It highlights the fact that adding biochar to soil modulates the soil microbial community by increasing soil fertility, paving the way for its use in farming, and pollutant removal.
Collapse
Affiliation(s)
- Shimeng Tan
- College of Biological Science and Technology, Central South University of Forestry and Technology, Changsha, 410004, China; College of Forestry, Central South University of Forestry and Technology, Changsha, 410004, China
| | - Mathiyazhagan Narayanan
- Division of Research and Innovation, Department of Biotechnology, Saveetha School of Engineering, Saveetha Institute of Medical and Technical Science, Chennai, 602 105, Tamil Nadu, India
| | - Dinh Thi Thu Huong
- School of Engineering and Technology, Van Lang University, Ho Chi Minh City, Viet Nam
| | - Nobutaka Ito
- School of Renewable Energy, Maejo University, Chiang Mai, Thailand
| | - Yuwalee Unpaprom
- Program in Biotechnology, Faculty of Science, Maejo University, Chiangmai, Thailand
| | - Arivalagan Pugazhendhi
- Emerging Materials for Energy and Environmental Applications Research Group, School of Engineering and Technology, Van Lang University, Ho Chi Minh City, Viet Nam.
| | - Nguyen Thuy Lan Chi
- School of Engineering and Technology, Van Lang University, Ho Chi Minh City, Viet Nam.
| | - Junang Liu
- College of Biological Science and Technology, Central South University of Forestry and Technology, Changsha, 410004, China; College of Forestry, Central South University of Forestry and Technology, Changsha, 410004, China.
| |
Collapse
|
15
|
Gopal M, Gupta A, Arunachalam V, Maheswarappa HP, Thomas GV, Jacob PM. Autochthonous nutrient recycling driven by soil microbiota could be sustaining high coconut productivity in Lakshadweep Islands sans external fertilizer application. World J Microbiol Biotechnol 2022; 38:213. [PMID: 36053362 DOI: 10.1007/s11274-022-03373-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2022] [Accepted: 07/29/2022] [Indexed: 10/14/2022]
Abstract
The soils of Lakshadweep Islands are formed as a result of the fragmentation of coral limestone, that is carbonate-rich, with neutral pH, but poor in plant nutrients. Coconut palm (Cocos nucifera L.) is the main crop cultivated, supporting the life and livelihood of the islanders. No external fertilizer application or major plant protection measures are adopted for their cultivation as the Islands were declared to go organic decades back. Yet, Lakshadweep has one of the highest productivity of coconut compared with other coconut growing areas in India. Therefore, a question arises: how is such a high coconut productivity sustained? We try to answer by estimating in three main islands (i) the nutrients added to the soil via the litter generated by coconut palms and (ii) the role of soil microbiota, including arbuscular mycorrhizae, for the high productivity. Our results indicated that, besides adding a substantial quantum of organic carbon, twice the needed amount of nitrogen, extra 20% phosphorus to the already P-rich soils, 43-45% of potassium required by palms could be easily met by the total coconut biomass residues returned to the soil. Principal Component Analysis showed that soil organic carbon %, potassium, and organic carbon added via the palm litter and AM spore load scored >± 0.95 in PC1, whereas, available K in the soil, bacteria, actinomycetes, phosphate solubilizers and fluorescent pseudomonads scored above >± 0.95 in PC2. Based on our analysis, we suggest that the autochthonous nutrients added via the coconut biomass residues, recycled by the soil microbial communities, could be one of the main reasons for sustaining a high productivity of the coconut palms in Lakshadweep Islands, in the absence of any external fertilizer application, mimicking a semi-closed-loop forest ecosystem.
Collapse
|
16
|
Bonanomi G, Idbella M, Abd-ElGawad AM, Motti R, Ippolito F, Santorufo L, Adamo P, Agrelli D, De Marco A, Maisto G, Zotti M. Impact of prescribed burning, mowing and abandonment on a Mediterranean grassland: A 5-year multi-kingdom comparison. Sci Total Environ 2022; 834:155442. [PMID: 35469869 DOI: 10.1016/j.scitotenv.2022.155442] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2021] [Revised: 03/20/2022] [Accepted: 04/18/2022] [Indexed: 06/14/2023]
Abstract
Mediterranean grasslands are semi-natural, fire-prone, species-rich ecosystems that have been maintained for centuries through a combination of fire, grazing, and mowing. Over the past half century, however, grasslands have faced numerous threats, including the abandonment of traditional agro-pastoral practices. Our hypothesis was that mowing and prescribed burning are management practices potentially effective in counteracting the reduction of plant diversity triggered by land abandonment. However, the long-term effects of such management practices on plant communities and soil microbiota in Mediterranean grassland remain poorly studied. Here, we conducted a 5-year field experiment comparing prescribed fire, vegetation mowing, and abandonment in a fire-prone Mediterranean grassland in southern Italy in order to evaluate the capability of such management strategies to counteract the detrimental impacts of land abandonment on plant diversity and the associated increase of wildfire. We combined vegetation analysis and soil chemical characterization and several microbiota analyses, including microbial biomass and respiration, arthropod community, and high-throughput sequencing of bacterial and eukaryotic rRNA gene markers. Burning and mowing significantly increased plant species richness and diversity compared to abandonment plots, reducing the abundance of perennial tall grasses in favour of short-lived species. Standing litter followed the same trend, being 3.8-fold greater and largely composed of grass remains in the abandoned compared to burnt and mowed plots. In the soil, prescribed burning caused significant increase in pH, a reduction in organic carbon, total N, and cation exchange capacity. Diversity and taxonomic composition of bacterial and fungal microbiota was affected by burning and mowing treatments. Abandonment caused shifts of microbiota towards a fungal-dominated system, composed of late successional fungi of the Basidiomycota. Fast-growing and putative fungal pathogens were more abundant under burnt and mowed treatments. Soil arthropods were influenced by vegetation and microbiota changes, being strongly reduced in mowed plots. Our study demonstrated that grassland abandonment promotes the spread of tall grasses, reducing plant diversity and increasing the risk of wildfire, while prescribed burning and mowing are effective in counteracting such negative effects.
Collapse
Affiliation(s)
- Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy; Task Force on Microbiome Studies, University of Naples Federico II, Naples, Italy; Cicerale Research Center, Cicerale 84053, Campania region, Italy
| | - Mohamed Idbella
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy; Laboratory of Biosciences, Faculty of Sciences and Techniques, Hassan II University, Casablanca, Morocco; Cicerale Research Center, Cicerale 84053, Campania region, Italy.
| | - Ahmed M Abd-ElGawad
- Plant Production Department, College of Food & Agriculture Sciences, King Saud University, P.O. Box 2460, Riyadh 11451, Saudi Arabia; Department of Botany, Faculty of Sciences, Mansoura University, Mansoura, Egypt
| | - Riccardo Motti
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy
| | - Francesca Ippolito
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy
| | - Lucia Santorufo
- Department of Biology, University of Naples Federico II, Complesso Universitario di Monte S. Angelo, via Cinthia ed. 7, 80126 Naples, Italy
| | - Paola Adamo
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy
| | - Diana Agrelli
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy
| | - Anna De Marco
- Department of Pharmacy, University of Naples Federico II, Via Montesano 49, 80131 Naples, Italy; Task Force on Microbiome Studies, University of Naples Federico II, Naples, Italy
| | - Giulia Maisto
- Department of Biology, University of Naples Federico II, Complesso Universitario di Monte S. Angelo, via Cinthia ed. 7, 80126 Naples, Italy; Task Force on Microbiome Studies, University of Naples Federico II, Naples, Italy
| | - Maurizio Zotti
- Department of Agricultural Sciences, University of Naples Federico II, Via Università 100, 80055 Portici, Italy
| |
Collapse
|
17
|
Ishida JK, Bini AP, Creste S, Van Sluys MA. Towards defining the core Saccharum microbiome: input from five genotypes. BMC Microbiol 2022; 22:193. [PMID: 35941528 PMCID: PMC9358853 DOI: 10.1186/s12866-022-02598-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2021] [Accepted: 07/11/2022] [Indexed: 12/19/2022] Open
Abstract
Background Plant microbiome and its manipulation inaugurate a new era for plant biotechnology with the potential to benefit sustainable crop production. Here, we used the large-scale 16S rDNA sequencing analysis to unravel the dynamic, structure, and composition of exophytic and endophytic microbial communities in two hybrid commercial cultivars of sugarcane (R570 and SP80–3280), two cultivated genotypes (Saccharum officinarum and Saccharum barberi) and one wild species (Saccharum spontaneum). Results Our analysis identified 1372 amplicon sequence variants (ASVs). The microbial communities’ profiles are grouped by two, root and bulk soils and stem and leave when these four components are compared. However, PCoA-based data supports that endophytes and epiphytes communities form distinct groups, revealing an active host-derived mechanism to select the resident microbiota. A strong genotype-influence on the assembly of microbial communities in Saccharum ssp. is documented. A total of 220 ASVs persisted across plant cultivars and species. The ubiquitous bacteria are two potential beneficial bacteria, Acinetobacter ssp., and Serratia symbiotica. Conclusions The results presented support the existence of common and cultivar-specific ASVs in two commercial hybrids, two cultivated canes and one species of Saccharum across tissues (leaves, stems, and roots). Also, evidence is provided that under the experimental conditions described here, each genotype bears its microbial community with little impact from the soil conditions, except in the root system. It remains to be demonstrated which aspect, genotype, environment or both, has the most significant impact on the microbial selection in sugarcane fields. Supplementary Information The online version contains supplementary material available at 10.1186/s12866-022-02598-8.
Collapse
Affiliation(s)
- Juliane K Ishida
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, Rua do Matão 277, Cidade Universitária, São Paulo, SP, 05508-090, Brazil.,Present address: Departamento de Botânica, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Av. Pres. Antônio Carlos, 6627 - Pampulha, Belo Horizonte, MG, 31270-901, Brazil
| | - Andressa P Bini
- Centro de Cana, IAC-Apta, Ribeirão Preto, Av. Pádua Dias n11, CEP 13418-900, Piracicaba, São Paulo, Brazil
| | - Silvana Creste
- Centro de Cana, IAC-Apta, Ribeirão Preto, Av. Pádua Dias n11, CEP 13418-900, Piracicaba, São Paulo, Brazil
| | - Marie-Anne Van Sluys
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, Rua do Matão 277, Cidade Universitária, São Paulo, SP, 05508-090, Brazil.
| |
Collapse
|
18
|
Mapelli F, Vergani L, Terzaghi E, Zecchin S, Raspa G, Marasco R, Rolli E, Zanardini E, Morosini C, Anelli S, Nastasio P, Sale VM, Armiraglio S, Di Guardo A, Borin S. Pollution and edaphic factors shape bacterial community structure and functionality in historically contaminated soils. Microbiol Res 2022; 263:127144. [PMID: 35908425 DOI: 10.1016/j.micres.2022.127144] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2021] [Revised: 03/15/2022] [Accepted: 07/22/2022] [Indexed: 11/16/2022]
Abstract
Studies about biodegradation potential in soils often refer to artificially contaminated and simplified systems, overlooking the complexity associated with contaminated sites in a real context. This work aims to provide a holistic view on microbiome assembly and functional diversity in the model site SIN Brescia-Caffaro (Italy), characterized by historical and uneven contamination by organic and inorganic compounds. Here, physical and chemical analyses and microbiota characterization were applied on one-hundred-twenty-seven soil samples to unravel the environmental factors driving bacterial community assembly and biodegradation potential in three former agricultural fields. Chemical analyses showed a patchy distribution of metals, metalloids and polychlorinated biphenyls (PCB) and allowed soil categorization according to depth and area of collections. Likewise, the bacterial community structure, described by molecular fingerprinting and 16S rRNA gene analyses, was significantly different according to collection site and depth. Pollutant concentrations (i.e., hexachloro-biphenyls, arsenic and mercury), nitrogen content and parameters related to soil texture were identified as main drivers of microbiota assembly, being significantly correlated to bacterial community composition. Moreover, bacteria putatively involved in the aerobic degradation of PCBs were enriched over the total bacterial community in topsoils, where the highest activity was recorded using fluorescein hydrolysis as proxy. Metataxonomic analyses revealed the presence of bacteria having metabolic pathways related to PCB degradation and tolerance to heavy metals and metalloids in the topsoil samples collected in all areas. Overall, the provided dissection of soil microbiota structure and its degradation potential in the SIN Brescia-Caffaro can contribute to target specific areas for rhizoremediation implementation. Metagenomics studies could be implemented in the future to understand if specific degradative pathways are present in historically polluted sites characterized by the co-occurrence of multiple classes of contaminants.
Collapse
Affiliation(s)
- Francesca Mapelli
- Department of Food, Environmental and Nutritional Sciences, University of Milan, Via Celoria 2, Milan, Italy
| | - Lorenzo Vergani
- Department of Food, Environmental and Nutritional Sciences, University of Milan, Via Celoria 2, Milan, Italy
| | - Elisa Terzaghi
- Department of Science and High Technology, University of Insubria, Via Valleggio 11, Como, Italy
| | - Sarah Zecchin
- Department of Food, Environmental and Nutritional Sciences, University of Milan, Via Celoria 2, Milan, Italy
| | - Giuseppe Raspa
- Department of Chemical Engineering Materials and Environment, Sapienza University of Rome, Via Eudossiana 18, Rome, Italy
| | - Ramona Marasco
- Biological and Environmental Sciences and Engineering Division (BESE), King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia
| | - Eleonora Rolli
- Department of Food, Environmental and Nutritional Sciences, University of Milan, Via Celoria 2, Milan, Italy
| | - Elisabetta Zanardini
- Department of Science and High Technology, University of Insubria, Via Valleggio 11, Como, Italy
| | - Cristiana Morosini
- Department of Science and High Technology, University of Insubria, Via Valleggio 11, Como, Italy
| | - Simone Anelli
- Ente Regionale per i Servizi all'Agricoltura e alle Foreste, Via Pola 12, Milan, Italy
| | - Paolo Nastasio
- Ente Regionale per i Servizi all'Agricoltura e alle Foreste, Via Pola 12, Milan, Italy
| | - Vanna Maria Sale
- Ente Regionale per i Servizi all'Agricoltura e alle Foreste, Via Pola 12, Milan, Italy
| | - Stefano Armiraglio
- Municipality of Brescia - Museum of Natural Sciences, Via Ozanam 4, Brescia, Italy
| | - Antonio Di Guardo
- Department of Science and High Technology, University of Insubria, Via Valleggio 11, Como, Italy
| | - Sara Borin
- Department of Food, Environmental and Nutritional Sciences, University of Milan, Via Celoria 2, Milan, Italy.
| |
Collapse
|
19
|
Zhai W, Zhang L, Liu H, Zhang C, Liu D, Wang P, Zhou Z. Enantioselective degradation of prothioconazole in soil and the impacts on the enzymes and microbial community. Sci Total Environ 2022; 824:153658. [PMID: 35151744 DOI: 10.1016/j.scitotenv.2022.153658] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2021] [Revised: 01/29/2022] [Accepted: 01/30/2022] [Indexed: 06/14/2023]
Abstract
In this work, the stereoselective degradation of prothioconazole in five soils was investigated and the metabolite prothioconazole-desthio was determined. The effects of prothioconazole on soil enzymes activities and microbial community were also studied. The dissipation of prothioconazole fitted with a first-order kinetic equation with half-lives ranging from 3.45 to 9.90 days. In addition, R-prothioconazole degraded preferentially than S-prothioconazole in all soils with EF values >0.5. Prothioconazole-desthio formed rapidly with preference in R-enantiomer, and the concentration kept at a considerable level even at the end of the incubation, indicating it was relatively persistent in soil. Prothioconazole and its metabolite inhibited the activity of dehydrogenase, catalase and urease in soils, and could affect the diversity of the soil microbiota as well. Redundancy analysis (RDA) and Spearman analysis showed the abundance of Proteobacteria, Fusobacteria, Firmicutes, Thaumarchaeota, Saccharibacteria, Chloroflexi, Chlorobi, Actinobacteria and Nitrospirae might be related to the enantioselective degradation. The work was helpful for understanding the environmental behavior of the fungicide prothioconazole and its primary metabolite on an enantiomeric level.
Collapse
Affiliation(s)
- Wangjing Zhai
- Department of Applied Chemistry, China Agricultural University, Beijing 100193, PR China
| | - Linlin Zhang
- Department of Applied Chemistry, China Agricultural University, Beijing 100193, PR China
| | - Hui Liu
- Department of Applied Chemistry, China Agricultural University, Beijing 100193, PR China
| | - Chuntao Zhang
- Department of Applied Chemistry, China Agricultural University, Beijing 100193, PR China
| | - Donghui Liu
- Department of Applied Chemistry, China Agricultural University, Beijing 100193, PR China
| | - Peng Wang
- Department of Applied Chemistry, China Agricultural University, Beijing 100193, PR China
| | - Zhiqiang Zhou
- Department of Applied Chemistry, China Agricultural University, Beijing 100193, PR China.
| |
Collapse
|
20
|
Liddicoat C, Krauss SL, Bissett A, Borrett RJ, Ducki LC, Peddle SD, Bullock P, Dobrowolski MP, Grigg A, Tibbett M, Breed MF. Next generation restoration metrics: Using soil eDNA bacterial community data to measure trajectories towards rehabilitation targets. J Environ Manage 2022; 310:114748. [PMID: 35192978 DOI: 10.1016/j.jenvman.2022.114748] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2021] [Revised: 01/28/2022] [Accepted: 02/15/2022] [Indexed: 06/14/2023]
Abstract
In post-mining rehabilitation, successful mine closure planning requires specific, measurable, achievable, relevant and time-bound (SMART) completion criteria, such as returning ecological communities to match a target level of similarity to reference sites. Soil microbiota are fundamentally linked to the restoration of degraded ecosystems, helping to underpin ecological functions and plant communities. High-throughput sequencing of soil eDNA to characterise these communities offers promise to help monitor and predict ecological progress towards reference states. Here we demonstrate a novel methodology for monitoring and evaluating ecological restoration using three long-term (>25 year) case study post-mining rehabilitation soil eDNA-based bacterial community datasets. Specifically, we developed rehabilitation trajectory assessments based on similarity to reference data from restoration chronosequence datasets. Recognising that numerous alternative options for microbiota data processing have potential to influence these assessments, we comprehensively examined the influence of standard versus compositional data analyses, different ecological distance measures, sequence grouping approaches, eliminating rare taxa, and the potential for excessive spatial autocorrelation to impact on results. Our approach reduces the complexity of information that often overwhelms ecologically-relevant patterns in microbiota studies, and enables prediction of recovery time, with explicit inclusion of uncertainty in assessments. We offer a step change in the development of quantitative microbiota-based SMART metrics for measuring rehabilitation success. Our approach may also have wider applications where restorative processes facilitate the shift of microbiota towards reference states.
Collapse
Affiliation(s)
- Craig Liddicoat
- College of Science and Engineering, Flinders University, Adelaide, Australia; School of Public Health, The University of Adelaide, Adelaide, Australia.
| | - Siegfried L Krauss
- Kings Park Science, Western Australia Department of Biodiversity Conservation and Attractions, Perth, Australia; School of Biological Sciences, University of Western Australia, Perth, Australia
| | | | - Ryan J Borrett
- College of Science, Health, Engineering and Education, Murdoch University, Perth, Australia
| | - Luisa C Ducki
- College of Science and Engineering, Flinders University, Adelaide, Australia; College of Science, Health, Engineering and Education, Murdoch University, Perth, Australia
| | - Shawn D Peddle
- College of Science and Engineering, Flinders University, Adelaide, Australia
| | | | - Mark P Dobrowolski
- School of Biological Sciences, University of Western Australia, Perth, Australia; Iluka Resources Limited, Perth, Australia; Harry Butler Institute, Murdoch University, Perth, Australia
| | | | - Mark Tibbett
- School of Biological Sciences, University of Western Australia, Perth, Australia; Department of Sustainable Land Management & Soil Research Centre, School of Agriculture, Policy and Development, University of Reading, Berkshire, United Kingdom
| | - Martin F Breed
- College of Science and Engineering, Flinders University, Adelaide, Australia
| |
Collapse
|
21
|
Dong K, Yu Z, Kerfahi D, Lee SS, Li N, Yang T, Adams JM. Soil microbial co-occurrence networks become less connected with soil development in a high Arctic glacier foreland succession. Sci Total Environ 2022; 813:152565. [PMID: 34953844 DOI: 10.1016/j.scitotenv.2021.152565] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2021] [Revised: 11/30/2021] [Accepted: 12/16/2021] [Indexed: 06/14/2023]
Abstract
Classically, ecologists have considered that biota becomes more integrated and interdependent with ecosystem development in primary successional environments. However, recent work on soil microbial communities suggests that there may in fact be no change in network integration over successional time series. Here, we performed a test of this principle by identifying network-level topological features of the soil microbial co-occurrence networks in the primary successional foreland environment of the retreating high-Arctic glacier of Midtre Lovénbreen, Svalbard. Soil was sampled at sites along the foreland of inferred ages 10-90 years since deglaciation. DNA was extracted and amplicon sequenced for 16 s rRNA genes for bacteria and ITS1 region for fungi. Despite the chronologically-related soil pH decline and organic C/N accumulation, analysis on network-level topological features showed network integration did not change with inferred chronological ages, whereas network integration declined with decreasing pH and increasing total organic carbon (TOC) - both factors that can be viewed as an indicator of soil development. We also found that bacteria played a greater role in the network structure than fungi, with all keystone species in the microbial co-occurrence network being bacteria species. Both number and relative abundance of the keystone species were significantly higher when soil pH increased or TOC decreased. It appears that in the more extreme and less productive conditions of early primary succession, integration between members of soil biota into consortia may play a greater role in niche adaptation and survival. Our finding also emphasizes that ecosystem development is not simply a product of time but is influenced by locally heterogeneous factors.
Collapse
Affiliation(s)
- Ke Dong
- Life Science Major, Kyonggi University, Suwon, South Korea
| | - Zhi Yu
- College of Biotechnology and Bioengineering, Sungkyunkwan University, Suwon, South Korea
| | - Dorsaf Kerfahi
- School of Natural Sciences, Department of Biological Sciences, Keimyung University, Daegu, South Korea
| | - Sang-Seob Lee
- College of Biotechnology and Bioengineering, Sungkyunkwan University, Suwon, South Korea
| | - Nan Li
- Key laboratory of Ministry of Education for Environment Change and Resources Use in Beibu Gulf, Nanning Normal University, Nanning, China
| | - Teng Yang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China; University of Chinese Academy of Sciences, Beijing, China
| | - Jonathan M Adams
- School of Geographic and Oceanographic Sciences, Nanjing University, Nanjing, China.
| |
Collapse
|
22
|
Ao L, Zhao M, Li X, Sun G. Different Urban Forest Tree Species Affect the Assembly of the Soil Bacterial and Fungal Community. Microb Ecol 2022; 83:447-458. [PMID: 34031701 DOI: 10.1007/s00248-021-01754-3] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Accepted: 04/11/2021] [Indexed: 06/12/2023]
Abstract
The selection of tree species used for the afforestation of urban forests is very important for maintaining the urban ecosystem, while soil microbe is one of the driving factors of material cycling in the urban forest ecosystem and for health of forests. In this study, the characteristics of surface soil bacterial and fungal community structure in four urban forests (primarily composed of Fraxinus mandshurica (Fm), Quercus mongolica (Qm), Pinus sylvestris var. mongolica (Ps), and Pinus tabulaeformis var. Mukdensis (Pt) as the main dominant tree species, respectively) were investigated by high-throughput sequencing. Our results showed that the alpha diversity of the soil microbial community in the Fm urban forest was the highest, while the lowest was in the Ps urban forest. In the bacterial community, Proteobacteria was the most predominant phylum in soils from Fm, Ps, and Pt urban forests. The most relatively abundant phylum of the Qm urban forest soil was Acidobacteria. The relative abundances of the bacterial communities at the genus level in the soil of four urban forests were significantly different. The soil bacterial communities in Ps and Pt urban forests were more similar, and Qm and Fm were also more similar. In the fungal community, Basidiomycota was the most predominant phylum in soils from Qm, Ps, and Pt urban forests. The phylum with the greatest relative abundance in the Fm urban forest soil was Ascomycota. There were differences in the fungal community between Qm, Fm, Ps, and Pt urban forests. Soil microbial community composition was affected by environmental factors: soil bacterial and fungal community compositions were significantly related to soil electrical conductivity (EC), alkali hydrolysable nitrogen (AHN), total nitrogen (TN), and total phosphorus (TP). In conclusion, the soil microbial community structure was related to both forest's tree species and soil properties.
Collapse
Affiliation(s)
- Lun Ao
- Key Laboratory of Saline-Alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Science, Northeast Forestry University, Harbin, Heilongjiang, 150040, China
| | - Meichun Zhao
- Key Laboratory of Saline-Alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Science, Northeast Forestry University, Harbin, Heilongjiang, 150040, China
| | - Xin Li
- College of Resources and Environment, Northeast Agricultural University, Harbin, 150030, China.
- School of Forestry, Northeast Forestry University, Harbin, Heilongjiang, 150040, China.
| | - Guangyu Sun
- Key Laboratory of Saline-Alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Science, Northeast Forestry University, Harbin, Heilongjiang, 150040, China.
| |
Collapse
|
23
|
Wang G, Wang L, Ma F. Effects of earthworms and arbuscular mycorrhizal fungi on improvement of fertility and microbial communities of soils heavily polluted by cadmium. Chemosphere 2022; 286:131567. [PMID: 34343920 DOI: 10.1016/j.chemosphere.2021.131567] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2021] [Revised: 07/10/2021] [Accepted: 07/14/2021] [Indexed: 06/13/2023]
Abstract
Soil bacterial community (SBC) and fertility are pivotal for the evaluation of phytoremediation performance. Although affected by earthworms (E) and arbuscular mycorrhizal fungi (AMF), little is known about the impacts of the E-AMF interaction on the variation of SBC and fertility in cadmium (Cd)-spiked soil. We elucidated these impacts in rhizosphere soil of Solanum nigrum L. Loss of nutrient availability, and SBC diversity was observed in Cd-polluted soil. AMF increased available phosphorous (AP), whereas E increased available potassium (AK). In soils with 60 and 120 mg/kg Cd, the contents of AK, AP, and soil organic matter (SOM) increased by 7.0-19.7%, 23.7-25.5%, and 11.5-17.4%, respectively; and the residual Cd after remediation decreased by 7.9-8.5% in soils treated with EAM compared to untreated soil. EAM-treated soil had higher alpha diversity estimators compared to uninoculated soil. The predominant bacterial phyla were Proteobacteria and Bacteroidetes, accounting for 72.5-84.0%. Redundancy analysis showed that total carbon (TC), SOM, pH, and C/N ratio were key factors determining SBC at the phylum level, explaining 26.9, 24.1, 15.1, and 14.8% of the total variance, respectively. These results suggested that EAM affected SBC composition by altering SOM, TC, and C/N ratio. The E-AMF cooperation ameliorates soil nutrients, SBC diversity, and composition, facilitating phytoextraction processes.
Collapse
Affiliation(s)
- Gen Wang
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China
| | - Li Wang
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China.
| | - Fang Ma
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China
| |
Collapse
|
24
|
Wang Y, Lu G, Yu H, Du X, He Q, Yao S, Zhao L, Huang C, Wen X, Deng Y. Meadow degradation increases spatial turnover rates of the fungal community through both niche selection and dispersal limitation. Sci Total Environ 2021; 798:149362. [PMID: 34375268 DOI: 10.1016/j.scitotenv.2021.149362] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2021] [Revised: 07/08/2021] [Accepted: 07/27/2021] [Indexed: 06/13/2023]
Abstract
The alpine meadow ecosystem, as the main ecosystem of the Qinghai-Tibet Plateau, has been heavily degraded over the past several decades due to overgrazing and climate change. Although soil microorganisms play key roles in the stability and succession of grassland ecosystems, their response to grassland degradation has not been investigated at spatial scale. Here, we systematically analyzed the spatial turnover rates of soil prokaryotic and fungal communities in degraded and undegraded meadows through distance-decay relationship (DDR) and species area relationship (SAR), as well as the community assembly mechanisms behind them. Although the composition and structure of both fungal and prokaryotic communities showed significant changes between undegraded and degraded meadows, steeper spatial turnover rates were only observed in fungi (Degraded Alpine Meadow β = 0.0142, Undegraded Alpine Meadow β = 0.0077, P < 0.05). Mantel tests indicated that edaphic variables and vegetation factors showed significant correlations to the β diversity of fungal community only in degraded meadow, suggesting soil and vegetation heterogeneity both contributed to the variation of fungal community in that system. Correspondingly, a novel phylogenetic null model analysis demonstrated that environmental selection was enhanced in the fungal community assembly process during meadow degradation. Interestingly, dispersal limitation was also enhanced for the fungal community in the degraded meadow, and its relative contribution to other assembly process (i.e. selection and drift) showed a significant linear increase with spatial distance, suggesting that dispersal limitation played a greater role as distance increased. Our findings indicated the spatial scaling of the fungal community is altered during meadow degradation by both niche selection and dispersal limitation. This study provides a new perspective for the assessment of soil microbial responses to vegetation changes in alpine areas.
Collapse
Affiliation(s)
- Yingcheng Wang
- Collage of Agriculture and Animal Husbandry, Qinghai University, Xining 810016, China; CAS Key Laboratory for Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences (CAS), Beijing 100085, China
| | - Guangxin Lu
- Collage of Agriculture and Animal Husbandry, Qinghai University, Xining 810016, China
| | - Hao Yu
- CAS Key Laboratory for Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences (CAS), Beijing 100085, China; College of Environmental Science and Engineering, Liaoning Technical University, Fuxin 123000, China
| | - Xiongfeng Du
- CAS Key Laboratory for Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences (CAS), Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100190, China
| | - Qing He
- CAS Key Laboratory for Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences (CAS), Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100190, China
| | - Shiting Yao
- Collage of Agriculture and Animal Husbandry, Qinghai University, Xining 810016, China
| | - Lirong Zhao
- Collage of Agriculture and Animal Husbandry, Qinghai University, Xining 810016, China
| | - Caixia Huang
- Collage of Agriculture and Animal Husbandry, Qinghai University, Xining 810016, China
| | - Xiaocheng Wen
- Collage of Agriculture and Animal Husbandry, Qinghai University, Xining 810016, China
| | - Ye Deng
- CAS Key Laboratory for Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences (CAS), Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100190, China.
| |
Collapse
|
25
|
Khalid M, Du B, Tan H, Liu X, Su L, Ali M, Liu C, Sun N, Hui N. Phosphorus elevation erodes ectomycorrhizal community diversity and induces divergence of saprophytic community composition between vegetation types. Sci Total Environ 2021; 793:148502. [PMID: 34166904 DOI: 10.1016/j.scitotenv.2021.148502] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Revised: 06/13/2021] [Accepted: 06/13/2021] [Indexed: 06/13/2023]
Abstract
Phosphorus (P) is a critical macronutrient that is essential for many life-sustaining processes. Despite decades of work on plant performance under P deficiency and the importance of microbes in ecosystem processes, little is known about how bacterial and fungal flora respond to P gradients and determine the vegetation health. In current study, we examined soil edaphic conditions and microbial communities in 39 untouched natural forests representing phosphorous deficient (Pp) and phosphorus rich (Pr) soils (due to naturally occurring phosphate rocks) in Yunnan Province, China. We also considered the effect of plant functional types by including the dominant tree species. Bacterial and fungal diversity was greater across the Pp sites compared with Pr sites. The relative abundance of Actinobacteria and Gemmatimonadetes was higher across Pp sites, while Chlamydiae and Verrucomicrobia showed the opposite pattern, with greater relative abundance across the Pr sites. Bacterial taxa that were observed in low P soils were more likely having oligotrophic life history strategies. Interestingly, ectomycorrhizal (ECM) fungal diversity was promoted in the Pp sites, indicating that the decreasing soil P concentration and the increasing host P demand foster stimulated the ECM species for hyphal soil exploration. Moreover, the high P level caused saprophytic fungi (SAP) to diverge, causing its enrichment only under Q. variabilis compared to low P soil, where there is no difference in relative abundance of SAP between the two tree species. This likely resulted in an enhanced decomposition process by SAP and elevation of soil properties (Carbon and Nitrogen) under Q. variabilis across the Pr sites. Taken together, our findings highlight the highly diverse microbiome in low P soils. The higher soil P caused shifts of fungal functional guilds, which likely influence tree growth and health (ECM), along with divergence of ecosystem services between tree functional types.
Collapse
Affiliation(s)
- Muhammad Khalid
- Key Laboratory of Urban Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Baoming Du
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Haoxin Tan
- Key Laboratory of Urban Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Xinxin Liu
- Key Laboratory of Urban Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Lantian Su
- Key Laboratory of Urban Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Mehran Ali
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Chunjiang Liu
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Ningxiao Sun
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Nan Hui
- Key Laboratory of Urban Agriculture, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd, Shanghai 200240, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., Shanghai 200240, China.
| |
Collapse
|
26
|
Han L, Fang K, Liu Y, Fang J, Wang F, Wang X. Earthworms accelerated the degradation of the highly toxic acetochlor S-enantiomer by stimulating soil microbiota in repeatedly treated soils. J Hazard Mater 2021; 420:126669. [PMID: 34329120 DOI: 10.1016/j.jhazmat.2021.126669] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2021] [Revised: 07/05/2021] [Accepted: 07/14/2021] [Indexed: 06/13/2023]
Abstract
This study investigated the effects of earthworms on the enantioselective degradation of chloroacetamide herbicide acetochlor with soil microorganisms in repeatedly treated soils. The S-enantiomer degraded more slowly and exerted stronger inhibition on soil microbial functions than the R-enantiomer in single soil system. A synergistic effect was observed between soil microorganisms and earthworms that accelerated the degradation of both the enantiomers, particularly the highly toxic S-enantiomer, which resulted in the preferential degradation of S-enantiomer in soil-earthworm system. Earthworms stimulated five potential indigenous degraders (i.e. Lysobacter, Kaistobacter, Flavobacterium, Arenimonas, and Aquicell), induced two new potential degraders (i.e. Aeromonas and Algoriphagus), and also significantly strengthened the correlations among these seven dominant potential degraders and other microorganisms. Notably, the relative abundances of Flavobacterium and Aeromonas in soil treated with earthworms for S-enantiomer were higher than those for R-enantiomer. Furthermore, earthworms significantly stimulated overall soil microbial activity and improved three microbial metabolic pathways, and xenobiotics biodegradation and metabolism, signal transduction, cell motility, particularly for the S-enantiomer treatment with earthworms, which alleviated the strong inhibition of S-enantiomer on microbial community functions. This study confirmed that earthworms accelerated the degradation of the highly toxic acetochlor S-enantiomer in soil, providing a potential approach in chloroacetamide herbicide-polluted soil remediation.
Collapse
Affiliation(s)
- Lingxi Han
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Kuan Fang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Yalei Liu
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Jianwei Fang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Fenglong Wang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China
| | - Xiuguo Wang
- Tobacco Research Institute of Chinese Academy of Agricultural Sciences (CAAS), Qingdao 266101, PR China.
| |
Collapse
|
27
|
Li X, Li X, Li Y, Dai X, Zhang Q, Zhang M, Zhang Z, Tao Y, Chen W, Zhang M, Zhou X, Yang S, Ma Y, Zhran M, Zou X. Improved immobilization of soil cadmium by regulating soil characteristics and microbial community through reductive soil disinfestation. Sci Total Environ 2021; 778:146222. [PMID: 33714838 DOI: 10.1016/j.scitotenv.2021.146222] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2020] [Revised: 02/25/2021] [Accepted: 02/26/2021] [Indexed: 06/12/2023]
Abstract
Cadmium (Cd) contamination arising from industrialization has attracted increasing attention in recent years. Reductive soil disinfestation (RSD) as an effective agricultural practice has been widely applied for soil sterilization. However, there is little research regarding RSD affecting Cd immobilization. Here, five treatments, namely untreated soil (CK), flooding-treated soil (FL), RSD with 2% ethyl alcohol (EA), 2% sugarcane bagasse (SB), and 2% bean dregs (BD) were designed to detect their performance for Cd immobilization in contaminated soils, and the change of soil properties and microbial communities were monitored. The results revealed that pH significantly increased in FL and RSD-treated soils, but was negatively correlated with the exchangeable fraction of Cd (EX-Cd), while Oxidation-Reduction Potential (Eh) significantly decreased in FL and RSD-treated soils, and was positively correlated with EX-Cd. BD treatment might contribute to the increase of CaCO3 as shown by X-Ray Diffractomer analysis and strongly decreased the EX-Cd in the soil, but increased the relative abundances of Firmicutes, Planctomycetes, Acidobacteria, and Gemmatimonadetes, which may promote Fe (III) reduction or induce resistance to Cd. Bacterial communities at the phylum and genus levels were closely related to Cd fraction. The FL and RSD treatments moderately altered bacterial specific functions, including iron respiration, which may contribute to remediation of Cd-polluted soil by Fe (III) reduction. Field experiments were conducted to confirm that BD treatment resulted in a significant increase in pH whereas the content of total available Cd was reduced in soils. Compared to the control, concentration of total available Cd of red amaranth, sweet potato, towel gourd, and cowpeas were reduced by approximately 46%, 74%, 72%, and 76% in a BD-treated field, respectively. Our study highlights the potential of RSD as an effective method for Cd immobilization in contaminated soils by improving soil characteristics and altering the composition of the microbial community.
Collapse
Affiliation(s)
- Xin Li
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Xuefeng Li
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Yueyue Li
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Xiongze Dai
- Hunan Agricultural University, Changsha 410000, China
| | - Qingzhuang Zhang
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Mi Zhang
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Zhuqing Zhang
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Yu Tao
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Wenchao Chen
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Mingxing Zhang
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Xiangyu Zhou
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Sha Yang
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China
| | - Yanqing Ma
- Department of Agriculture and Rural Affairs of Hunan Province, Changsha 410000, China
| | - Mostafa Zhran
- Soil and Water Research Department, Nuclear Research Center, Atomic Energy Authority, Abou-Zaabl 13759, Egypt
| | - Xuexiao Zou
- Institute of Vegetable Research, Hunan Academy of Agricultural Science, Changsha 410000, China; Hunan Agricultural University, Changsha 410000, China.
| |
Collapse
|
28
|
Bakina LG, Chugunova MV, Polyak YM, Mayachkina NV, Gerasimov AO. Bioaugmentation: possible scenarios due to application of bacterial preparations for remediation of oil-contaminated soil. Environ Geochem Health 2021; 43:2347-2356. [PMID: 33113031 DOI: 10.1007/s10653-020-00755-4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2020] [Accepted: 10/13/2020] [Indexed: 06/11/2023]
Abstract
Although bioaugmentation is known as effective and environmentally friendly method increasing removal of hydrocarbons from oil-contaminated soil, it sometimes fails in soil restoration and disturbs the ecological state of soil. We studied possible scenarios of the introduction of oil-degrading bacteria into oil-contaminated podzolic soil assessing the environmental safety of different bacterial preparations in a long-term field experiment. Integral indicators characterizing the state of biocenosis included biological activity of soil and aboveground biomass of grasses. It has been established that bacterial preparations can have both positive and negative effects on the ecological state of soil and oil biodegradation. Of the five bacterial preparations studied, one had a pronounced positive effect on soil biological activity and oil mineralization processes. Two preparations did not accelerate oil biodegradation and were characterized by a weaker positive effect or even a lack of influence. Two more bacterial preparations had a significant negative impact on soil biological properties. These preparations slowed oil mineralization in soil. Both positive and negative effects of bacterial preparations were observed only during the first two years after their application. All preparations were not effective during the latter stages of long-term remediation processes. The results indicate that successful application of bioaugmentation for the restoration of oil-contaminated soil requires testing of environmental safety of bacterial preparations in a long-term field experiments prior to any treatment processes.
Collapse
Affiliation(s)
- Lyudmila G Bakina
- Institution of Russian Academy of Sciences, Saint-Petersburg Scientific Research Centre for Ecological Safety RAS, Korpusnaya Str. 18, Saint-Petersburg, Russia, 197110
| | - Marina V Chugunova
- Institution of Russian Academy of Sciences, Saint-Petersburg Scientific Research Centre for Ecological Safety RAS, Korpusnaya Str. 18, Saint-Petersburg, Russia, 197110
| | - Yulia M Polyak
- Institution of Russian Academy of Sciences, Saint-Petersburg Scientific Research Centre for Ecological Safety RAS, Korpusnaya Str. 18, Saint-Petersburg, Russia, 197110.
| | - Natalya V Mayachkina
- Institution of Russian Academy of Sciences, Saint-Petersburg Scientific Research Centre for Ecological Safety RAS, Korpusnaya Str. 18, Saint-Petersburg, Russia, 197110
| | - Alexander O Gerasimov
- Institution of Russian Academy of Sciences, Saint-Petersburg Scientific Research Centre for Ecological Safety RAS, Korpusnaya Str. 18, Saint-Petersburg, Russia, 197110
| |
Collapse
|
29
|
Cheng Y, Song W, Tian H, Zhang K, Li B, Du Z, Zhang W, Wang J, Wang J, Zhu L. The effects of high-density polyethylene and polypropylene microplastics on the soil and earthworm Metaphire guillelmi gut microbiota. Chemosphere 2021; 267:129219. [PMID: 33321277 DOI: 10.1016/j.chemosphere.2020.129219] [Citation(s) in RCA: 48] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2020] [Revised: 12/03/2020] [Accepted: 12/03/2020] [Indexed: 05/23/2023]
Abstract
As an emerging pollutant in terrestrial ecosystem, studies on the effects of microplastics on the gut microbiota of terrestrial organisms are relatively little even though gut microbiota is closely related to host health, metabolism and immunity as well as soil decomposition processes. In this study, earthworms Metaphire guillelmi were exposed to soil amended with 0.25% (w/w) high-density polyethylene (HDPE, 25 μm) or polypropylene (PP, 13 μm) microplastics for 28 d. The ingestion of HDPE and PP microplastics by M. guillelmi was clearly demonstrated by Nile Red fluorescence staining method. There were significant differences for the microbiota between the M. guillelmi gut and the surrounding soil, which may result from the influence of specific conditions in the gut habitat. HDPE and PP microplastics exposure did not induce gut microbiota dysbiosis in M. guillelmi. However, PP microplastics exposure significantly reduced bacterial diversity and altered bacterial community structure in the soil. Specifically, the relative abundance of Aeromonadaceae and Pseudomonadaceae significantly increased while the relative abundance of Nitrososphaeraceae and two unidentified families affiliated with Proteobacteria significantly decreased. This study broadens our understanding of the ecotoxicity of microplastics on the soil and gut microbiota of terrestrial organisms.
Collapse
Affiliation(s)
- Yali Cheng
- Key Laboratory of Agricultural Environment in Universities of Shandong, National Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Taian, 271018, China.
| | - Wenhui Song
- Key Laboratory of Agricultural Environment in Universities of Shandong, National Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Taian, 271018, China.
| | - Huimei Tian
- College of Forestry, Shandong Agricultural University, Taian, 271018, China.
| | - Kaihua Zhang
- Key Laboratory of Agricultural Environment in Universities of Shandong, National Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Taian, 271018, China.
| | - Bing Li
- Key Laboratory of Agricultural Environment in Universities of Shandong, National Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Taian, 271018, China.
| | - Zhongkun Du
- Key Laboratory of Agricultural Environment in Universities of Shandong, National Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Taian, 271018, China.
| | - Wen Zhang
- Shandong Provincial Key Laboratory of Applied Microbiology, Ecology Institute, Qilu University of Technology (Shandong Academy of Sciences), Jinan, 250103, China.
| | - Jinhua Wang
- Key Laboratory of Agricultural Environment in Universities of Shandong, National Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Taian, 271018, China.
| | - Jun Wang
- Key Laboratory of Agricultural Environment in Universities of Shandong, National Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Taian, 271018, China.
| | - Lusheng Zhu
- Key Laboratory of Agricultural Environment in Universities of Shandong, National Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources, College of Resources and Environment, Shandong Agricultural University, Taian, 271018, China.
| |
Collapse
|
30
|
Wang M, Chen S, Chen L, Wang D. Microbial mechanisms responsible for the variation of soil Cd availability under different pe+pH environments. Ecotoxicol Environ Saf 2020; 206:111057. [PMID: 32905911 DOI: 10.1016/j.ecoenv.2020.111057] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Revised: 07/18/2020] [Accepted: 07/20/2020] [Indexed: 06/11/2023]
Abstract
The objective of this study was to explore potential microbial mechanisms associated with how water management may alter soil Cd availability under changing pe + pH environments. Four water regimes, aerobic [70% MWHC] + dissolved oxygen, aerobic, continuous flooding, and continuous flooding + N2, were applied to Cd-contaminated soil. The results show that the anoxic treatments were effective in decreasing soil pe + pH and in turn decreased Cd availability and increased soil S and Fe availability relative to those of the aerobic treatments. The decreased pe + pH enriched some anaerobic microorganisms such as those in the families Anaerolineaceae and Geobacteraceae. Conversely, other families, such as Gemmatimonadaceae and Sphingomonadaceae, appeared to be sensitive biomarkers that responded to aerobic treatments. Bacterial community structure and network interactions were altered to strengthen bacterial responses to different pe + pH environments as indicated by phylogenetic molecular ecological network (pMEN) analysis. The majority of predicted functional categories, such as metabolism, cell motility, and membrane transport, were affected by different irrigation regimes as indicated by a functional gene profile analysis. The categories were related to important traits that facilitated acclimation of bacteria to their local environment with altered soil pe + pH. Structural equation models revealed that soil pe + pH contributed significantly to soil enzyme activities and differences in bacterial community and function, and consequently, was responsible for the variation of soil Cd availability and iron or sulfur reduction.
Collapse
Affiliation(s)
- Meng Wang
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs / Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, PR China
| | - Shibao Chen
- Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture and Rural Affairs / Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, PR China.
| | - Li Chen
- Institute of Plant Protection and Environmental Protection, Beijing Academy of Agriculture and Forestry Science, Beijing, 100097, PR China
| | - Duo Wang
- College of Energy, Xiamen University, Xiamen, Fujian, 361102, PR China
| |
Collapse
|
31
|
Timková I, Lachká M, Kisková J, Maliničová L, Nosáľová L, Pristaš P, Sedláková-Kaduková J. High frequency of antibiotic tolerance in deep subsurface heterotrophic cultivable bacteria from the Rozália Gold Mine, Slovakia. Environ Sci Pollut Res Int 2020; 27:44036-44044. [PMID: 32754882 DOI: 10.1007/s11356-020-10347-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Accepted: 07/31/2020] [Indexed: 05/11/2023]
Abstract
The Rozália Mine, with its long mining history, could represent an environmental threat connected with metal contamination and associated antibiotic tolerance. Metal and antibiotic tolerance profiles of heterotrophic, cultivable bacteria isolated from the Rozália Gold Mine in Hodruša-Hámre, Slovakia, and the surrounding area were analysed. Subsurface samples were collected from different mine levels or an ore storage dump. As expected, heterotrophic cultivable bacteria showed high minimum inhibitory concentrations for metals (up to 1000 mg/l for zinc and nickel, 2000 mg/l for lead and 500 mg/l for copper). Surprisingly, very high minimum inhibitory concentrations of selected antibiotics were observed, e.g. > 10,000 μg/ml for ampicillin, up to 4800 μg/ml for kanamycin, 800 μg/ml for chloramphenicol and 50 μg/ml for tetracycline. Correlation analysis revealed a linkage between increased tolerance to the antibiotics ampicillin and chloramphenicol and metal tolerance to nickel and copper. A correlation was also observed between tetracycline-kanamycin tolerance and zinc-lead tolerance. Our data indicate that high levels of antibiotic tolerance occur in deep subsurface microbiota, which is probably connected with the increased level of metal concentrations in the mine environment.
Collapse
Affiliation(s)
- Ivana Timková
- Department of Microbiology, Institute of Biology and Ecology, Faculty of Science, Pavol Jozef Šafárik University, Šrobárova 2, 04154, Košice, Slovakia.
| | - Miroslava Lachká
- Department of Microbiology, Institute of Biology and Ecology, Faculty of Science, Pavol Jozef Šafárik University, Šrobárova 2, 04154, Košice, Slovakia
| | - Jana Kisková
- Department of Microbiology, Institute of Biology and Ecology, Faculty of Science, Pavol Jozef Šafárik University, Šrobárova 2, 04154, Košice, Slovakia
| | - Lenka Maliničová
- Department of Microbiology, Institute of Biology and Ecology, Faculty of Science, Pavol Jozef Šafárik University, Šrobárova 2, 04154, Košice, Slovakia
| | - Lea Nosáľová
- Department of Microbiology, Institute of Biology and Ecology, Faculty of Science, Pavol Jozef Šafárik University, Šrobárova 2, 04154, Košice, Slovakia
| | - Peter Pristaš
- Department of Microbiology, Institute of Biology and Ecology, Faculty of Science, Pavol Jozef Šafárik University, Šrobárova 2, 04154, Košice, Slovakia
| | - Jana Sedláková-Kaduková
- Department of Microbiology, Institute of Biology and Ecology, Faculty of Science, Pavol Jozef Šafárik University, Šrobárova 2, 04154, Košice, Slovakia
| |
Collapse
|
32
|
Li Q, You P, Hu Q, Leng B, Wang J, Chen J, Wan S, Wang B, Yuan C, Zhou R, Ouyang K. Effects of co-contamination of heavy metals and total petroleum hydrocarbons on soil bacterial community and function network reconstitution. Ecotoxicol Environ Saf 2020; 204:111083. [PMID: 32791359 DOI: 10.1016/j.ecoenv.2020.111083] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/26/2019] [Revised: 06/07/2020] [Accepted: 07/25/2020] [Indexed: 05/25/2023]
Abstract
Due to the accumulation of heavy metals in soil ecosystems, the response of soil microorganisms to the disturbance of heavy metals were widely studied. However, little was known about the interactions among microorganisms in heavy metals and total petroleum hydrocarbons (TPH) co-contaminated soils. In the present study, the microbiota shifts of 2 different contamination types of heavy metal-TPH polluted soils were investigated. NGS sequencing approach was adopted to illustrate the microbial community structure and to predict community function. Networks were established to reveal the interactions between microbes and environmental pollutants. Results showed that the alpha diversity and OTUs number of soil microbiota were reduced under heavy metals and TPH pollutants. TPH was the major pollutant in HT1 group, in which Proteobacteria phylum increased significantly, including Arenimonas genus, Sphingomonadaceae family and Burkholderiaceae family. Moreover, the function structures based on the KEGG database of HT1 group was enriched in the benzene matter metabolism and bacterial motoricity in microbiota. In contrast, severe Cr-Pb-TPH co-pollutants in HT2 increased the abundance of Firmicutes. In details, the relative abundance of Streptococcus genus and Bacilli class raised sharply. The DNA replication functions in microbiota were enriched under severely contaminated soil as a result of high concentrations of heavy metals and TPH pollutants' damage to bacteria. Furthermore, according to the correlation analysis between microbes and the pollutants, Streptococcus, Neisseria, Aeromonas, Porphyromonas and Acinetobacter were suggested as the bioremediation bacteria for Cr and Pb polluted soils, while Syntrophaceae spp. and Immundisolibacter were suggested as the bioremediation bacteria for TPH polluted soil. The study took a survey on the microbiota shifts of the heavy metals and TPH polluted soils, and the microbe's biomarkers provided new insights for the candidate strains of biodegradation, while further researches are required to verify the biodegradation mechanism of these biomarkers.
Collapse
Affiliation(s)
- Qian Li
- Hunan Research Institute for Nonferrous Metals, Changsha, China.
| | - Ping You
- Hunan Research Institute for Nonferrous Metals, Changsha, China
| | - Qi Hu
- NEOMICS Institute, Shenzhen, China
| | | | | | - Jiali Chen
- Hunan Research Institute for Nonferrous Metals, Changsha, China
| | - Si Wan
- Hunan Research Institute for Nonferrous Metals, Changsha, China; Kunming University of Science and Technology, Kunming, China
| | - Bing Wang
- Hunan Research Institute for Nonferrous Metals, Changsha, China; Kunming University of Science and Technology, Kunming, China
| | - Cuiyu Yuan
- Hunan Research Institute for Nonferrous Metals, Changsha, China
| | - Rui Zhou
- Hunan Research Institute for Nonferrous Metals, Changsha, China
| | - Kun Ouyang
- Hunan Research Institute for Nonferrous Metals, Changsha, China.
| |
Collapse
|
33
|
Xu R, Li B, Xiao E, Young LY, Sun X, Kong T, Dong Y, Wang Q, Yang Z, Chen L, Sun W. Uncovering microbial responses to sharp geochemical gradients in a terrace contaminated by acid mine drainage. Environ Pollut 2020; 261:114226. [PMID: 32113110 DOI: 10.1016/j.envpol.2020.114226] [Citation(s) in RCA: 61] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2019] [Revised: 01/23/2020] [Accepted: 02/16/2020] [Indexed: 05/09/2023]
Abstract
Acid mine drainage (AMD) is harmful to the environment and human health. Microorganisms-mineral interactions are responsible for AMD generation but can also remediate AMD contamination. Understanding the microbial response to AMD irrigation will reveal microbial survival strategies and provide approaches for AMD remediation. A terrace with sharp geochemical gradients caused by AMD flooding were selected to study the microbial response to changes in environmental parameters related to AMD contamination. AMD intrusion reduced soil microbial community diversity and further changed phylogenetic clustering patterns along the terrace gradient. We observed several genera seldom reported in AMD-related environments (i.e., Corynebacterium, Ochrobactrum, Natronomonas), suggesting flexible survival strategies such as nitrogen fixation, despite the poor nutritional environment. A co-occurrence network of heavily-contaminated fields was densely connected. The phyla Proteobacteria, Acidobacteria, Chloroflexi, and Euryarchaeota were all highly interconnected members, which may affect the formation of AMD. Detailed microbial response to different soil characterizations were highlighted by random forest model. Results revealed the top three parameters influencing the microbial diversity and interactions were pH, Fe(III), and sulfate. Various acidophilic Fe- and S-metabolizing bacteria were enriched in the lower fields, which were heavily contaminated by AMD, and more neutrophiles prevailed in the less-contaminated upper fields. Many indicator species in the lower fields were identified, including Desulfosporosinus, Thermogymnomonas, Corynebacterium, Shewanella, Acidiphilium, Ochrobactrum, Leptospirillum, and Allobaculum, representing acid-tolerant bacteria community in relevant environment. The detection of one known sulfate-reducing bacteria (i.e., Desulfosporosinus) suggested that biotic sulfate reduction may occur in acidic samples, which offers multiple advantages to AMD contamination treatment. Collectively, results suggested that the geochemical gradients substantially altered the soil microbiota and enriched the relevant microorganisms adapted to the different conditions. These findings provide mechanistic insights into the effects of contamination on the soil microbiota and establish a basis for in situ AMD bioremediation strategies.
Collapse
Affiliation(s)
- Rui Xu
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, Guangzhou, 510650, China; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou, 510650, China
| | - Baoqin Li
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, Guangzhou, 510650, China; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou, 510650, China
| | - Enzong Xiao
- Innovation Center and Key Laboratory of Waters Safety & Protection in the Pearl River Delta, Ministry of Education, Guangzhou University, Guangzhou, 510006, China
| | - Lily Y Young
- Department of Environmental Sciences, Rutgers University, New Brunswick, 08540, USA
| | - Xiaoxu Sun
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, Guangzhou, 510650, China; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou, 510650, China
| | - Tianle Kong
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, Guangzhou, 510650, China; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou, 510650, China
| | - Yiran Dong
- School of Environmental Studies, China University of Geosciences (Wuhan), Wuhan, 430074, China
| | - Qi Wang
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, Guangzhou, 510650, China; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou, 510650, China
| | - Zhaohui Yang
- College of Environmental Science and Engineering, Hunan University, Changsha, 410082, China
| | - Lei Chen
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, Guangzhou, 510650, China; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou, 510650, China
| | - Weimin Sun
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Guangdong Institute of Eco-Environmental Science & Technology, Guangzhou, 510650, China; National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou, 510650, China.
| |
Collapse
|
34
|
Eissenberger K, Drissner D, Walsh F, Weiss A, Schmidt H. Plant variety and soil type influence Escherichia coli O104:H4 strain C227/11ϕcu adherence to and internalization into the roots of lettuce plants. Food Microbiol 2020; 86:103316. [PMID: 31703882 DOI: 10.1016/j.fm.2019.103316] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2019] [Revised: 07/19/2019] [Accepted: 08/31/2019] [Indexed: 12/17/2022]
Abstract
Human disease outbreaks caused by pathogenic Escherichia coli are increasingly associated with the consumption of contaminated fresh produce. Internalization of enteroaggregative/enterohemorrhagic E. coli (EAEC/EHEC) strains into plant tissues may present a serious threat to public health. In the current study, the ability of the fluorescing Shiga toxin-negative E. coli O104:H4 strain C227/11ϕcu/pKEC2 to adhere to and to internalize into the roots of Lactuca sativa and Valerianella locusta grown in diluvial sand (DS) and alluvial loam (AL) was investigated. In parallel, the soil microbiota was analyzed by partial 16S rRNA gene sequencing. The experiments were performed in a safety level 3 greenhouse to simulate agricultural practice. The adherence of C227/11ϕcu/pKEC2 to the roots of both plant varieties was increased by at least a factor three after incubation in DS compared to AL. Compared to V. locusta, internalization into the roots of L. sativa was increased 12-fold in DS and 108-fold in AL. This demonstrates that the plant variety had an impact on the internalization ability, whereas for a given plant variety the soil type also affected bacterial internalization. In addition, microbiota analysis detected the inoculated strain and showed large differences in the bacterial composition between the soil types.
Collapse
Affiliation(s)
- Kristina Eissenberger
- Institute of Food Science and Biotechnology, Department of Food Microbiology and Hygiene, University of Hohenheim, Stuttgart, Germany
| | - David Drissner
- Microbiology of Plant Foods, Agroscope, Waedenswil, Switzerland; Swiss Federal Institute for Forest, Snow, and Landscape Research WSL, Birmensdorf, Switzerland; Department of Life Sciences, Albstadt-Sigmaringen University, Sigmaringen, Germany
| | - Fiona Walsh
- Department of Biology, Maynooth University, Maynooth, Ireland
| | - Agnes Weiss
- Institute of Food Science and Biotechnology, Department of Food Microbiology and Hygiene, University of Hohenheim, Stuttgart, Germany
| | - Herbert Schmidt
- Institute of Food Science and Biotechnology, Department of Food Microbiology and Hygiene, University of Hohenheim, Stuttgart, Germany.
| |
Collapse
|
35
|
Khudur LS, Shahsavari E, Webster GT, Nugegoda D, Ball AS. The impact of lead co-contamination on ecotoxicity and the bacterial community during the bioremediation of total petroleum hydrocarbon-contaminated soils. Environ Pollut 2019; 253:939-948. [PMID: 31351302 DOI: 10.1016/j.envpol.2019.07.107] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/28/2019] [Revised: 07/19/2019] [Accepted: 07/20/2019] [Indexed: 06/10/2023]
Abstract
The continued increase in the global demand for oil, which reached 4,488 Mtoe in 2018, leads to large quantities of petroleum products entering the environment posing serious risks to natural ecosystems if left untreated. In this study, we evaluated the impact of co-contamination with lead on the efficacy of two bioremediation processes, natural attenuation and biostimulation of Total Petroleum Hydrocarbons (TPH) as well as the associated toxicity and the changes in the microbial community in contaminated soils. The biostimulated treatment resulted in 96% and 84% reduction in TPH concentration in a single and a co-contamination scenario, respectively, over 28 weeks of a mesocosm study. This reduction was significantly more in comparison to natural attenuation in a single and a co-contamination scenario, which was 56% and 59% respectively. In contrast, a significantly greater reduction in the associated toxicity of in soils undergoing natural attenuation was evident compared with soils undergoing biostimulation despite the lower TPH degradation when bioassays were applied. The earthworm toxicity test showed a decrease of 72% in the naturally attenuated toxicity versus only 62% in the biostimulated treatment of a single contamination scenario. In a co-contamination scenario, toxicity decreased only 30% and 8% after natural attenuation and biostimulation treatments, respectively. 16s rDNA sequence analysis was used to assess the impact of both the co-contamination and the bioremediation treatment. NGS data revealed major bacterial domination by Nocardioides spp., which reached 40% in week 20 of the natural attenuation treatment. In the biostimulated soil samples, more than 50% of the bacterial community was dominated by Alcanivorax spp. in week 12. The presence of Pb in the natural attenuation treatment resulted in an increased abundance of a few Pb-resistant genera such as Sphingopyxis spp. and Thermomonas spp in addition to Nocardioides spp. In contrast, Pb co-contamination completely shifted the bacterial pattern in the stimulated treatment with Pseudomonas spp. comprising approximately 45% of the bacterial profile in week 12. This study confirms the effectiveness of biostimulation over natural attenuation in remediating TPH and TPH-Pb contaminated soils. In addition, the presence of co-contaminants (e.g. Pb) results in serious impacts on the efficacy of bioremediation of TPH in contaminated soils, which must be considered prior to designing any bioremediation strategy.
Collapse
Affiliation(s)
- Leadin S Khudur
- Centre for Environmental Sustainability and Remediation, School of Science, RMIT University, Bundoora, VIC, 3083, Australia.
| | - Esmaeil Shahsavari
- Centre for Environmental Sustainability and Remediation, School of Science, RMIT University, Bundoora, VIC, 3083, Australia
| | - Grant T Webster
- Centre for Environmental Sustainability and Remediation, School of Science, RMIT University, Bundoora, VIC, 3083, Australia
| | - Dayanthi Nugegoda
- Centre for Environmental Sustainability and Remediation, School of Science, RMIT University, Bundoora, VIC, 3083, Australia
| | - Andrew S Ball
- Centre for Environmental Sustainability and Remediation, School of Science, RMIT University, Bundoora, VIC, 3083, Australia
| |
Collapse
|
36
|
Li L, Wang S, Li X, Li T, He X, Tao Y. Effects of Pseudomonas chenduensis and biochar on cadmium availability and microbial community in the paddy soil. Sci Total Environ 2018; 640-641:1034-1043. [PMID: 30021270 DOI: 10.1016/j.scitotenv.2018.05.287] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2018] [Revised: 05/23/2018] [Accepted: 05/23/2018] [Indexed: 06/08/2023]
Abstract
The cadmium contamination in the paddy soil results in serious environmental pollutions. In situ soil remediation based on the applications of additives such as functional microorganisms and biochars has gradually attained more attentions. However, how these exogenous additives affect the local microbial communities is less discussed. In this study, a heavy metal resistant bacterium (Pseudomonas chenduensis, strain MBR) and biochar derived from oil palm fibers were separately added into the simulated Cd-contaminated paddy soil to investigate the roles of these additives in the soil remediation and regulating local microbial community. The results showed that compared with control, the addition of the strain MBR and biochar reduced the exchangeable/acid soluble cadmium fraction by 30% and 18%, respectively. Moreover, higher microbial diversity, more deterministic effects and less variation in microbial community were observed in the treatments supplemented with the strain MBR and biochar, and the increase of the deterministic effects on microbial interactions was demonstrated by network analysis further. Additionally, the abundance of the strain MBR in the paddy soil decreased as time passed, which maximally decreased the disturbance for the local micro-ecological niche and ensured ecological security. These results showed that two additives supplementation, in particular Pseudomonas chenduensis, can significantly decrease cadmium availability, contributing to the reduction of the disturbance on soil microbial community and maintaining microbial stability under cadmium pressure. It highlights a new criterion referred to micro-ecology for the evaluation of the roles of additives in local soil remediation.
Collapse
Affiliation(s)
- Lingjuan Li
- Key Laboratory of Environmental and Applied Microbiology, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China; Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China
| | - Shoutong Wang
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences & Ministry of Water Resource, Chengdu, 610041, China
| | - Xiangzhen Li
- Key Laboratory of Environmental and Applied Microbiology, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China; Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China
| | - Tiezhu Li
- Key Laboratory of Environmental and Applied Microbiology, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China; Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China
| | - Xiaohong He
- Key Laboratory of Environmental and Applied Microbiology, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China; Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China
| | - Yong Tao
- Key Laboratory of Environmental and Applied Microbiology, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China; Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, China.
| |
Collapse
|
37
|
Kumar U, Berliner J, Adak T, Rath PC, Dey A, Pokhare SS, Jambhulkar NN, Panneerselvam P, Kumar A, Mohapatra SD. Non-target effect of continuous application of chlorpyrifos on soil microbes, nematodes and its persistence under sub-humid tropical rice-rice cropping system. Ecotoxicol Environ Saf 2017; 135:225-235. [PMID: 27744192 DOI: 10.1016/j.ecoenv.2016.10.003] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2016] [Revised: 09/02/2016] [Accepted: 10/04/2016] [Indexed: 06/06/2023]
Abstract
Application of pesticide in agricultural fields is "unnecessary evil" for non-target microflora and fauna. Hence, to identify the safer pesticide molecules against non-target microbes, a long-term pesticide experiment was initiated at National Rice Research Institute, Cuttack, India. In the present study, the effect of continuous application of chlorpyrifos (0.5kgha-1) in rice fields on non-target groups of soil microbes and nematodes was studied for seven seasons (four wet and three dry seasons) during 2009-2013. Treatments were arranged in a randomized complete block design with four replications of chlorpyrifos-treated (0.5kg a.i. ha-1) (CT) and untreated control (UT) plots. During seven seasons of experimentation, regular application of chlorpyrifos had no significant effect on population of heterotrophic aerobic, anaerobic, oligotrophic and copiotrophic bacteria in CT compared to UT, whereas, population of asymbiotic aerobic nitrogen fixer, nitrifiers, denitrifiers, gram positive and spore-forming bacteria were significantly reduced by nearly 0.25-2 fold in CT than UT. However, comparatively less deviation in population of actinomycetes, fungi, phosphate solubilizing and sulfur oxidizing bacteria were observed in CT than UT. Significant interactions were found between effects of chlorpyrifos with time in population dynamics of microbes. In plant parasitic nematode species, Meloidogyne graminicola (RRKN) and Hirschmanniella spp. (RRN), were significantly lower (p<0.01) in CT compared to UT after first year onwards. The overall observation of five years data indicated that the RRKN population showed a decreasing trend (R2=0.644) whereas RRN showed increasing trend (R2=0.932) in CT. The drastic chlorpyrifos dissipation was noticed after 15 days of application from the initial residue of 0.25mgkg-1 soil, which indicated that chlorpyrifos residue in rice field soil was not persistent and its half-life was found to be 4.02 days. Overall, the present findings revealed that non-target effect of repetitive application of chloropyrifos (0.5kgha-1) on soil microbes and nematodes was found less under rice-rice cropping system.
Collapse
Affiliation(s)
- Upendra Kumar
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India.
| | - J Berliner
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India
| | - Totan Adak
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India
| | - Prakash C Rath
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India
| | - Avro Dey
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India
| | - Somnath S Pokhare
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India
| | | | - P Panneerselvam
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India
| | - Anjani Kumar
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India
| | | |
Collapse
|
38
|
Rothenberg SE, Anders M, Ajami NJ, Petrosino JF, Balogh E. Water management impacts rice methylmercury and the soil microbiome. Sci Total Environ 2016; 572:608-617. [PMID: 27450246 PMCID: PMC5099098 DOI: 10.1016/j.scitotenv.2016.07.017] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2016] [Revised: 07/03/2016] [Accepted: 07/03/2016] [Indexed: 05/24/2023]
Abstract
Rice farmers are pressured to grow rice using less water. The impacts of water-saving rice cultivation methods on rice methylmercury concentrations are uncertain. Rice (Oryza sativa L. cv. Nipponbare) was cultivated in fields using four water management treatments, including flooded (no dry-downs), alternating wetting and drying (AWD) (with one or three dry-downs), and furrow-irrigated fields (nine dry-downs) (n=16 fields). Anoxic bulk soil was collected from rice roots during the rice maturation phase, and rice grain was harvested after fields were dried. Total mercury and methylmercury concentrations were determined in soil and polished rice samples, and the soil microbiome was analyzed using 16S (v4) rRNA gene profiling. Soil total mercury did not differ between fields. However, compared to continuously flooded fields, soil and rice methylmercury concentrations averaged 51% and 38% lower in the AWD fields, respectively, and 95% and 96% lower in the furrow-irrigated fields, respectively. Compared to flooded fields, grain yield was reduced on average by <1% in the AWD fields and 34% in the furrow-irrigated fields. Additionally, using 16S (v4) rRNA gene profiling, the relative abundance of genera (i.e., highest resolution via this method) known to contain mercury methylators averaged 2.9-fold higher in flooded and AWD fields compared to furrow-irrigated fields. These results reinforce the benefits of AWD in reducing rice methylmercury concentrations with minimal changes in rice production yields. In the furrow-irrigated fields, a lower relative abundance of genera known to contain mercury methylators suggests an association between lower concentrations of soil and rice methylmercury and specific soil microbiomes.
Collapse
Affiliation(s)
- Sarah E Rothenberg
- Department of Environmental Health Sciences, University of South Carolina, Columbia, SC, USA.
| | - Merle Anders
- Department of Crop, Soil and Environmental Sciences, University of Arkansas Rice Research & Extension Center, Stuttgart, AR, USA.
| | - Nadim J Ajami
- The Alkek Center for Metagenomics and Microbiome Research, Department of Molecular Virology and Microbiology, Baylor College of Medicine, Houston, TX, USA.
| | - Joseph F Petrosino
- The Alkek Center for Metagenomics and Microbiome Research, Department of Molecular Virology and Microbiology, Baylor College of Medicine, Houston, TX, USA.
| | - Erika Balogh
- Department of Biological Sciences, University of South Carolina, Columbia, SC, USA.
| |
Collapse
|
39
|
Gondim-Porto C, Platero L, Nadal I, Navarro-García F. Fate of classical faecal bacterial markers and ampicillin-resistant bacteria in agricultural soils under Mediterranean climate after urban sludge amendment. Sci Total Environ 2016; 565:200-210. [PMID: 27173838 DOI: 10.1016/j.scitotenv.2016.04.160] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2016] [Revised: 04/22/2016] [Accepted: 04/22/2016] [Indexed: 06/05/2023]
Abstract
The use of sewage sludge or biosolids as agricultural amendments may pose environmental and human health risks related to pathogen or antibiotic-resistant microorganism transmission from soils to vegetables or to water through runoff. Since the survival of those microorganisms in amended soils has been poorly studied under Mediterranean climatic conditions, we followed the variation of soil fecal bacterial markers and ampicillin-resistant bacteria for two years with samplings every four months in a split block design with three replica in a crop soil where two different types of biosolids (aerobically or anaerobically digested) at three doses (low, 40; intermediate, 80; and high, 160Mg·ha(-1)) were applied. Low amounts of biosolids produced similar decay rates of coliform populations than in control soil (-0.19 and -0.27log10CFUs·g(-1)drysoilmonth(-1) versus -0.22) while in the case of intermediate and high doses were close to zero and their populations remained 24months later in the range of 4-5log10CFUs·g(-1)ds. Enterococci populations decayed at different rates when using aerobic than anaerobic biosolids although high doses had higher rates than control (-0.09 and -0.13log10CFUs·g(-1)dsmonth(-1) for aerobic and anaerobic, respectively, vs -0.07). At the end of the experiment, counts in high aerobic and low and intermediate anaerobic plots were 1 log10 higher than in control (4.21, 4.03, 4.2 and 3.11log10CFUs·g(-1) ds, respectively). Biosolid application increased the number of Clostridium spores in all plots at least 1 log10 with respect to control with a different dynamic of decay for low and intermediate doses of aerobic and anaerobic sludge. Ampicillin-resistant bacteria increased in amended soils 4months after amendment and remained at least 1 log10 higher 24months later, especially in aerobic and low and intermediate anaerobic plots due to small rates of decay (in the range of -0.001 to -0.008log10CFUs·g(-1)dsmonth(-1) vs -0.016 for control). Aerobic plots had relative populations of ampicillin-resistant bacteria higher than anaerobic plots with different positive trends. Dose (22%) and time (13%) explained most of the variation of the bacterial populations. Dynamics of fecal markers did not correlate with ampicillin-resistant bacteria thus making necessary to evaluate specifically this trait to avoid possible risks for human and environmental health.
Collapse
Affiliation(s)
- Clarissa Gondim-Porto
- Dpt. Microbiología II, Facultad de Farmacia, Univ. Complutense de Madrid, Madrid, Spain
| | - Leticia Platero
- Dpt. Microbiología II, Facultad de Farmacia, Univ. Complutense de Madrid, Madrid, Spain
| | - Ignacio Nadal
- Dpt. Microbiología II, Facultad de Farmacia, Univ. Complutense de Madrid, Madrid, Spain
| | | |
Collapse
|
40
|
Ławniczak Ł, Syguda A, Borkowski A, Cyplik P, Marcinkowska K, Wolko Ł, Praczyk T, Chrzanowski Ł, Pernak J. Influence of oligomeric herbicidal ionic liquids with MCPA and Dicamba anions on the community structure of autochthonic bacteria present in agricultural soil. Sci Total Environ 2016; 563-564:247-55. [PMID: 27135587 DOI: 10.1016/j.scitotenv.2016.04.109] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2015] [Revised: 04/10/2016] [Accepted: 04/16/2016] [Indexed: 05/23/2023]
Abstract
The aim of this study was to evaluate the impact of selected herbicidal ionic liquids (HILs), which exhibit high efficacy in terms of weed control and low toxicity, but may be persistent due to limited biodegradability, on the community structure of autochthonic bacteria present in agricultural soil. Four different oligomeric HILs (with two types of cations and different ratio of herbicidal anions) were synthesized and characterized by employing (1)H and (13)C NMR. The results of biodegradation assay indicated that none of the tested HILs could be classified as readily biodegradable (biodegradation rate ranged from 0 to 7%). The conducted field studies confirmed that the herbicidal efficacy of the HILs was higher compared to the reference herbicide mixture by 10 to 30%, depending on the dose and weed species. After termination of field studies, the soil treated with the tested HILs was subjected to next generation sequencing in order to investigate the potential changes in the bacterial community structure. Proteobacteria was the dominant phylum in all studied samples. Treatment with the studied HILs resulted in an increase of Actinobacteria compared to the reference herbicidal mixture. Differenced among the studied HILs were generally associated with a significantly higher abundance of Bacteroidetes in case of 1-HIL-Dicamba 1/3 and Firmicutes in case of 2-HIL-Dicamba 1/3.
Collapse
Affiliation(s)
- Ł Ławniczak
- Department of Chemical Technology, Poznan University of Technology, 60-965 Poznan, Poland.
| | - A Syguda
- Department of Chemical Technology, Poznan University of Technology, 60-965 Poznan, Poland.
| | - A Borkowski
- Faculty of Geology, University of Warsaw, 02-089 Warsaw, Poland.
| | - P Cyplik
- Department of Biotechnology and Food Microbiology, University of Life Sciences in Poznan, 60-627 Poznan, Poland.
| | - K Marcinkowska
- Institute of Plant Protection - National Research Institute, Poznan 60-318, Poland.
| | - Ł Wolko
- Department of Biochemistry and Biotechnology, Poznań University of Life Sciences in Poznan, 60-632 Poznan, Poland.
| | - T Praczyk
- Institute of Plant Protection - National Research Institute, Poznan 60-318, Poland.
| | - Ł Chrzanowski
- Department of Chemical Technology, Poznan University of Technology, 60-965 Poznan, Poland.
| | - J Pernak
- Department of Chemical Technology, Poznan University of Technology, 60-965 Poznan, Poland.
| |
Collapse
|
41
|
Becerra-Castro C, Lopes AR, Vaz-Moreira I, Silva EF, Manaia CM, Nunes OC. Wastewater reuse in irrigation: a microbiological perspective on implications in soil fertility and human and environmental health. Environ Int 2015; 75:117-35. [PMID: 25461421 DOI: 10.1016/j.envint.2014.11.001] [Citation(s) in RCA: 162] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2014] [Revised: 11/04/2014] [Accepted: 11/04/2014] [Indexed: 05/25/2023]
Abstract
The reuse of treated wastewater, in particular for irrigation, is an increasingly common practice, encouraged by governments and official entities worldwide. Irrigation with wastewater may have implications at two different levels: alter the physicochemical and microbiological properties of the soil and/or introduce and contribute to the accumulation of chemical and biological contaminants in soil. The first may affect soil productivity and fertility; the second may pose serious risks to the human and environmental health. The sustainable wastewater reuse in agriculture should prevent both types of effects, requiring a holistic and integrated risk assessment. In this article we critically review possible effects of irrigation with treated wastewater, with special emphasis on soil microbiota. The maintenance of a rich and diversified autochthonous soil microbiota and the use of treated wastewater with minimal levels of potential soil contaminants are proposed as sine qua non conditions to achieve a sustainable wastewater reuse for irrigation.
Collapse
Affiliation(s)
- Cristina Becerra-Castro
- CBQF - Centro de Biotecnologia e Química Fina - Laboratório Associado, Escola Superior de Biotecnologia, Universidade Católica Portuguesa/Porto, Rua Arquiteto Lobão Vital, 4202-401 Porto, Portugal; LEPABE, Laboratório de Engenharia de Processos, Ambiente, Biotecnologia e Energia, Faculdade de Engenharia, Universidade do Porto, Rua Dr. Roberto Frias, 4200-465 Porto, Portugal
| | - Ana Rita Lopes
- CBQF - Centro de Biotecnologia e Química Fina - Laboratório Associado, Escola Superior de Biotecnologia, Universidade Católica Portuguesa/Porto, Rua Arquiteto Lobão Vital, 4202-401 Porto, Portugal; LEPABE, Laboratório de Engenharia de Processos, Ambiente, Biotecnologia e Energia, Faculdade de Engenharia, Universidade do Porto, Rua Dr. Roberto Frias, 4200-465 Porto, Portugal
| | - Ivone Vaz-Moreira
- CBQF - Centro de Biotecnologia e Química Fina - Laboratório Associado, Escola Superior de Biotecnologia, Universidade Católica Portuguesa/Porto, Rua Arquiteto Lobão Vital, 4202-401 Porto, Portugal; LEPABE, Laboratório de Engenharia de Processos, Ambiente, Biotecnologia e Energia, Faculdade de Engenharia, Universidade do Porto, Rua Dr. Roberto Frias, 4200-465 Porto, Portugal
| | - Elisabete F Silva
- Escola Superior de Tecnologia e Gestão, Instituto Politécnico de Viseu, Campus Politécnico de Repeses, 3504-510 Viseu, Portugal
| | - Célia M Manaia
- CBQF - Centro de Biotecnologia e Química Fina - Laboratório Associado, Escola Superior de Biotecnologia, Universidade Católica Portuguesa/Porto, Rua Arquiteto Lobão Vital, 4202-401 Porto, Portugal.
| | - Olga C Nunes
- LEPABE, Laboratório de Engenharia de Processos, Ambiente, Biotecnologia e Energia, Faculdade de Engenharia, Universidade do Porto, Rua Dr. Roberto Frias, 4200-465 Porto, Portugal.
| |
Collapse
|
42
|
Lazzaro L, Giuliani C, Fabiani A, Agnelli AE, Pastorelli R, Lagomarsino A, Benesperi R, Calamassi R, Foggi B. Soil and plant changing after invasion: the case of Acacia dealbata in a Mediterranean ecosystem. Sci Total Environ 2014; 497-498:491-498. [PMID: 25151267 DOI: 10.1016/j.scitotenv.2014.08.014] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2014] [Revised: 08/06/2014] [Accepted: 08/06/2014] [Indexed: 05/28/2023]
Abstract
Acacia dealbata Link (Fabaceae) is one of the most invasive species in the Mediterranean ecosystems of Europe, Africa and America, where it has been proved to exert strong effects on soil and plant communities. In Italy A. dealbata has been largely used for ornamental and forestry purpose and is nowadays spreading in several areas. The present study was addressed to evaluate the impacts on soil chemical properties, soil microbial communities and understory plant communities and to assess the relationships among these compartments after the invasion of A. dealbata in a typical Mediterranean shrubland. Towards these aims, a soil and vegetation sampling was performed in Elba Island where A. dealbata is invading the sclerophyllous native vegetation. Three levels of invasion status were differentiated according to the gradient from invaded, to transitional and non-invaded vegetation. Quantitative and qualitative alterations of soil chemical properties and microbial communities (i.e. bacterial and fungal communities) and above-ground understory plant communities were found. In particular, the invaded soils had lower pH values than both the non-invaded and transitional ones. High differences were detected for both the total N and the inorganic fraction (NH4(+) and NO3(-)) contents, which showed the ranking: invaded>transitional>non-invaded soils. TOC and C/N ratio showed respectively higher and lower values in invaded than in non-invaded soils. Total plant covers, species richness and diversity in both the non-invaded and transitional subplots were higher than those in the invaded ones. The contribution of the nitrophilous species was significantly different among the three invasion statuses, with a strong increase going from native to transitional and invaded subplots. All these data confirm that A. dealbata modifies several compartments of the invaded ecosystems, from soil chemical properties to soil and plant microbial communities determining strong changes in the local ecosystem processes.
Collapse
Affiliation(s)
- Lorenzo Lazzaro
- Department of Biology, University of Florence, via G. La Pira 4, I-50121 Florence, Italy.
| | - Claudia Giuliani
- Department of Biology, University of Florence, via G. La Pira 4, I-50121 Florence, Italy.
| | - Arturo Fabiani
- Consiglio per la Ricerca e sperimentazione in Agricoltura, Centro di ricerca per l'Agrobiologia e la Pedologia, CRA-ABP, Piazza D'Azeglio 30, 50121 Florence, Italy.
| | - Alessandro Elio Agnelli
- Consiglio per la Ricerca e sperimentazione in Agricoltura, Centro di ricerca per l'Agrobiologia e la Pedologia, CRA-ABP, Piazza D'Azeglio 30, 50121 Florence, Italy.
| | - Roberta Pastorelli
- Consiglio per la Ricerca e sperimentazione in Agricoltura, Centro di ricerca per l'Agrobiologia e la Pedologia, CRA-ABP, Piazza D'Azeglio 30, 50121 Florence, Italy.
| | - Alessandra Lagomarsino
- Consiglio per la Ricerca e sperimentazione in Agricoltura, Centro di ricerca per l'Agrobiologia e la Pedologia, CRA-ABP, Piazza D'Azeglio 30, 50121 Florence, Italy.
| | - Renato Benesperi
- Department of Biology, University of Florence, via G. La Pira 4, I-50121 Florence, Italy.
| | - Roberto Calamassi
- Department of Biology, University of Florence, via G. La Pira 4, I-50121 Florence, Italy.
| | - Bruno Foggi
- Department of Biology, University of Florence, via G. La Pira 4, I-50121 Florence, Italy.
| |
Collapse
|