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Servián A, Garimano N, Santini MS. Systematic review and meta-analysis of soil-transmitted helminth infections in South America (2000-2024). Acta Trop 2024; 260:107400. [PMID: 39265755 DOI: 10.1016/j.actatropica.2024.107400] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2024] [Revised: 08/27/2024] [Accepted: 09/09/2024] [Indexed: 09/14/2024]
Abstract
Soil-transmitted helminths (STHs) are parasitic nematodes commonly found in tropical and subtropical regions, where poor sanitation makes them a significant public health concern. This study provides a comprehensive review and meta-analysis of human STH infections across 13 South American countries from 2000 to 2023. It covers these infections' prevalence, distribution, and diagnosis, highlighting the environmental factors influencing transmission pathways. The review identified 134 studies on human STH infections, revealing Brazil as the most researched country. The meta-analysis found prevalence rates of Ascaris lumbricoides, Trichuris trichiura, hookworms, and Strongyloides stercoralis below 20 %, with notable heterogeneity across studies. Most studies used conventional microscopy for diagnosis, pointing out the need for implementing advanced diagnostic tools. Environmental and climatic factors, including temperature annual range, vegetation density, soil types, and properties were significant predictors of STH prevalence. The study calls for more research performing advanced diagnostic methods and broader geographical coverage to address existing data gaps. Furthermore, it emphasizes the need for holistic public health policies integrating biomedical and environmental approaches to ensure effective disease management.
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Affiliation(s)
- Andrea Servián
- Instituto Nacional de Parasitología "Dr. Mario Fatala Chaben"- ANLIS Malbrán, Ciudad Autónoma de Buenos Aires (CABA, 1063), Buenos Aires, Argentina.
| | - Nicolás Garimano
- Instituto Nacional de Parasitología "Dr. Mario Fatala Chaben"- ANLIS Malbrán, Ciudad Autónoma de Buenos Aires (CABA, 1063), Buenos Aires, Argentina
| | - María Soledad Santini
- Instituto Nacional de Parasitología "Dr. Mario Fatala Chaben"- ANLIS Malbrán, Ciudad Autónoma de Buenos Aires (CABA, 1063), Buenos Aires, Argentina; CONICET: CONICET Consejo Nacional de Investigaciones Científicas y Técnicas, Buenos Aires, Argentina
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2
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Liddicoat C, Edwards RA, Roach M, Robinson JM, Wallace KJ, Barnes AD, Brame J, Heintz-Buschart A, Cavagnaro TR, Dinsdale EA, Doane MP, Eisenhauer N, Mitchell G, Rai B, Ramesh SA, Breed MF. Bioenergetic mapping of 'healthy microbiomes' via compound processing potential imprinted in gut and soil metagenomes. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 940:173543. [PMID: 38821286 DOI: 10.1016/j.scitotenv.2024.173543] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 05/24/2024] [Accepted: 05/24/2024] [Indexed: 06/02/2024]
Abstract
Despite mounting evidence of their importance in human health and ecosystem functioning, the definition and measurement of 'healthy microbiomes' remain unclear. More advanced knowledge exists on health associations for compounds used or produced by microbes. Environmental microbiome exposures (especially via soils) also help shape, and may supplement, the functional capacity of human microbiomes. Given the synchronous interaction between microbes, their feedstocks, and micro-environments, with functional genes facilitating chemical transformations, our objective was to examine microbiomes in terms of their capacity to process compounds relevant to human health. Here we integrate functional genomics and biochemistry frameworks to derive new quantitative measures of in silico potential for human gut and environmental soil metagenomes to process a panel of major compound classes (e.g., lipids, carbohydrates) and selected biomolecules (e.g., vitamins, short-chain fatty acids) linked to human health. Metagenome functional potential profile data were translated into a universal compound mapping 'landscape' based on bioenergetic van Krevelen mapping of function-level meta-compounds and corresponding functional relative abundances, reflecting imprinted genetic capacity of microbiomes to metabolize an array of different compounds. We show that measures of 'compound processing potential' associated with human health and disease (examining atherosclerotic cardiovascular disease, colorectal cancer, type 2 diabetes and anxious-depressive behavior case studies), and displayed seemingly predictable shifts along gradients of ecological disturbance in plant-soil ecosystems (three case studies). Ecosystem quality explained 60-92 % of variation in soil metagenome compound processing potential measures in a post-mining restoration case study dataset. With growing knowledge of the varying proficiency of environmental microbiota to process human health associated compounds, we might design environmental interventions or nature prescriptions to modulate our exposures, thereby advancing microbiota-oriented approaches to human health. Compound processing potential offers a simplified, integrative approach for applying metagenomics in ongoing efforts to understand and quantify the role of microbiota in environmental- and human-health.
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Affiliation(s)
- Craig Liddicoat
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia.
| | - Robert A Edwards
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
| | - Michael Roach
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
| | - Jake M Robinson
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
| | - Kiri Joy Wallace
- Environmental Research Institute, University of Waikato, Hamilton, Aotearoa, New Zealand
| | - Andrew D Barnes
- Environmental Research Institute, University of Waikato, Hamilton, Aotearoa, New Zealand
| | - Joel Brame
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
| | - Anna Heintz-Buschart
- Swammerdam Institute for Life Sciences, University of Amsterdam, 1098 XH Amsterdam, the Netherlands
| | - Timothy R Cavagnaro
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
| | - Elizabeth A Dinsdale
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
| | - Michael P Doane
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
| | - Nico Eisenhauer
- German Centre for Integrative Biodiversity Research (iDiv), 04103 Leipzig, Germany; Institute of Biology, Leipzig University, 04103 Leipzig, Germany
| | - Grace Mitchell
- Environmental Research Institute, University of Waikato, Hamilton, Aotearoa, New Zealand; Manaaki Whenua - Landcare Research, Hamilton, Aotearoa, New Zealand
| | - Bibishan Rai
- Environmental Research Institute, University of Waikato, Hamilton, Aotearoa, New Zealand
| | - Sunita A Ramesh
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
| | - Martin F Breed
- College of Science and Engineering, Flinders University, Bedford Park, South Australia, Australia
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3
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Xin Y, Wu Y, Zhang H, Li X, Qu X. Soil depth exerts a stronger impact on microbial communities and the sulfur biological cycle than salinity in salinized soils. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 894:164898. [PMID: 37343848 DOI: 10.1016/j.scitotenv.2023.164898] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2023] [Revised: 06/07/2023] [Accepted: 06/12/2023] [Indexed: 06/23/2023]
Abstract
The distribution of microbial communities along salinity gradients in the surface layer of salinized soils has been widely studied. However, it is unknown whether microbial communities exhibit similar distribution patterns in surface and deep soils. Additionally, the relationship between soil depth, salinity, and sulfur metabolism remains unclear. Herein, bulk soils in the surface (S, 5-10 cm) and deep (D, 20-25 cm) layers from high- and low-salinity soils were analyzed using metagenomic and physicochemical analyses. Soil depth was significantly correlated to the concentration of sulfur compounds in the soil and exerted a stronger effect than salinity. Non-metric multidimensional scaling analysis revealed significant differences in microbial community structure with varying soil depths and salinities. However, soil depth clearly influenced microbial community abundance, homogeneity, and diversity, while salinity had a limited effect on microbial abundance. Archaea and bacteria were enriched in the surface and deep soils, respectively. Gene abundance analysis revealed significant differences in the abundance of sulfur-related genes at different soil depths. The abundance of sulfur oxidation genes was lower in deep soil than in surface soil, whereas the abundance of other sulfur-related genes showed the opposite trend. Redundancy analysis (RDA) showed that environmental factors and sulfur compounds have a significant impact on sulfur metabolism genes, with sulfide significantly affecting low-salinity soils in the surface and deep layers, whereas salinity and sulfane sulfur had a greater correlation with high-salinity soils. Correlation analysis further showed that Euryarchaeota clustered with Bacteroidetes and Balneolaeota, while Proteobacteria clustered with many phyla, such as Acidobacteria. Various sulfur metabolism genes were widely distributed in both clusters. Our results indicate that microorganisms actively participate in the sulfur cycle in saline soils and that soil depth can affect these processes and the structure of microbial communities to a greater extent than soil salinity.
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Affiliation(s)
- Yufeng Xin
- School of Life Sciences, Qufu Normal University, Qufu, China.
| | - Yu Wu
- School of Life Sciences, Qufu Normal University, Qufu, China
| | - Honglin Zhang
- School of Life Sciences, Qufu Normal University, Qufu, China
| | - Xinxin Li
- School of Life Sciences, Qufu Normal University, Qufu, China
| | - Xiaohua Qu
- School of Life Sciences, Qufu Normal University, Qufu, China.
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4
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Al-Awwal N, Anderson SH, El-Dweik M, Udawatta RP, Yang J, Zaid F. Effects of conservation buffer systems on adsorption of fluorescent-labeled Escherichia coli. JOURNAL OF ENVIRONMENTAL QUALITY 2023; 52:303-314. [PMID: 36382799 DOI: 10.1002/jeq2.20436] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2022] [Accepted: 11/04/2022] [Indexed: 06/16/2023]
Abstract
The magnitude of bacterial transport through runoff into surface water or infiltration into groundwater is influenced by the adsorption processes in soil. The objective of this study was to evaluate fluorescent-labeled Escherichia coli (E. coli) adsorption by soil under agroforestry buffer (AB), grass buffer (GB), and row crop (RC) management. Adsorption experiments were conducted by inoculating three masses (0.5, 1, and 10 g) of each treatment (AB, GB, and RC) with E. coli O157:H7-GFP with concentration ranges of 105 -108 colony-forming units (cfu) ml-1 . Adsorption data were evaluated using Langmuir, Freundlich, and Temkin adsorption isotherm models. The Freundlich isotherm model described the observed data well for all treatments using the 10-g soil mass, with the R2 values closer to unity in all treatments. The Freundlich Kf parameter, an indicator of adsorption capacity, was higher for the AB treatment (9.93 cfu ml-1 ) compared with the GB and RC treatments (2.32 and 1.27 cfu ml-1 , respectively). The multiple pairwise comparisons test (Tukey test) of the Freundlich 1/nf parameter demonstrated a significant difference (p < .05) between the AB treatment and the RC and GB treatments. Similarly, the Kf values were significantly (p = .05) higher for the 10-g mass under the same test conditions, but no significant differences were observed in the 0.5- and 1-g masses. This study demonstrated that AB has a higher E. coli adsorption capacity and the potential for mitigating the effects of E. coli O157:H7 transport to surface or groundwater through the soil ecosystem.
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Affiliation(s)
- Nasruddeen Al-Awwal
- School of Natural Resources, Univ. of Missouri-Columbia, 302 Anheuser-Busch Natural Resources Building, Columbia, MO, USA
- Dep. of Agriculture and Environmental Sciences and Cooperative Research Program, Lincoln Univ., Jefferson City, MO, USA
| | - Stephen H Anderson
- School of Natural Resources, Univ. of Missouri-Columbia, 302 Anheuser-Busch Natural Resources Building, Columbia, MO, USA
| | - Majed El-Dweik
- Dep. of Agriculture and Environmental Sciences and Cooperative Research Program, Lincoln Univ., Jefferson City, MO, USA
| | - Ranjith P Udawatta
- School of Natural Resources, Univ. of Missouri-Columbia, 302 Anheuser-Busch Natural Resources Building, Columbia, MO, USA
- The Center for Agroforestry, Univ. of Missouri-Columbia, 203 Anheuser-Busch Natural Resources Building, Columbia, MO, USA
| | - John Yang
- Dep. of Agriculture and Environmental Sciences and Cooperative Research Program, Lincoln Univ., Jefferson City, MO, USA
| | - Faraj Zaid
- Dep. of Chemical Engineering, Sirte Univ., Sirte, Libya
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5
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Abstract
The concept of one health highlights that human health is not isolated but connected to the health of animals, plants and environments. In this Review, we demonstrate that soils are a cornerstone of one health and serve as a source and reservoir of pathogens, beneficial microorganisms and the overall microbial diversity in a wide range of organisms and ecosystems. We list more than 40 soil microbiome functions that either directly or indirectly contribute to soil, plant, animal and human health. We identify microorganisms that are shared between different one health compartments and show that soil, plant and human microbiomes are perhaps more interconnected than previously thought. Our Review further evaluates soil microbial contributions to one health in the light of dysbiosis and global change and demonstrates that microbial diversity is generally positively associated with one health. Finally, we present future challenges in one health research and formulate recommendations for practice and evaluation.
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Affiliation(s)
- Samiran Banerjee
- Department of Microbiological Sciences, North Dakota State University, Fargo, ND, USA.
| | - Marcel G A van der Heijden
- Plant-Soil Interactions Group, Agroscope, Zurich, Switzerland. .,Department of Plant and Microbial Biology, University of Zurich, Zurich, Switzerland.
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6
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Su Y, Zi H, Wei X, Hu B, Deng X, Chen Y, Jiang Y. Application of Manure Rather Than Plant-Origin Organic Fertilizers Alters the Fungal Community in Continuous Cropping Tobacco Soil. Front Microbiol 2022; 13:818956. [PMID: 35516429 PMCID: PMC9063659 DOI: 10.3389/fmicb.2022.818956] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2021] [Accepted: 03/15/2022] [Indexed: 11/13/2022] Open
Abstract
Continuous cropping leads to the development of serious fungal diseases in tobacco plants and depleted yield of tobacco (Nicotiana tabacum), which can be mitigated by organic fertilization. Yet, we know little about how organic fertilizers affect the fungal community of continuous cropping tobacco soil. In this study, we investigated the soil fungal community after 11 years of tobacco planting with chemical fertilization (CF) or chemical fertilization combined with organic fertilizers obtained from plant or animal origin, including oil cake (CFO), straw (CFS), and farmyard fertilizer (CFM). The predominant phyla of Ascomycota (70%) and Mortierellomycota (15%) were identified in all the treatments. A significantly higher proportion of Pyrenochaetopsis and lower relative abundance of Sordariomycetes were observed in the CFM group compared to the controls. Compared to CF and non-fertilized control (CK), CFO and CFS led to higher species richness (P < 0.05), while CFM led to a less uniform fungal community, indicated by lower Shannon and higher Simpson diversity indices (P < 0.05). Pearson's correlation and redundancy analysis suggested that fertilizations primarily influenced the fungal community by altering the soil nutrient conditions, among which soil organic carbon and total phosphorus significantly correlated with the fungal diversity and community composition (P < 0.05). Notably, FUNGuild annotation suggested that while other treatments showed no significant effect on the fungal trophic modes, CFM strongly increased the abundance of saprotrophic fungi by more than 30% (P < 0.05), thus preventing the prevalence of potential pathotypes and symbionts. The results suggest that the type of organic fertilizers is essential to the long-term effects of organic application on the fungal community, and the animal-origin manure seems to be a better choice than plant-origin materials in continuous cropping tobacco fields.
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Affiliation(s)
- Yan Su
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, China
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, China
| | - Haiyun Zi
- College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
| | - Xiaomeng Wei
- Key Laboratory of Agro-Ecological Processes in Subtropical Region and Changsha Research Station for Agricultural and Environmental Monitoring, Institute of Subtropical Agriculture, Chinese Academy of Sciences, Changsha, China
| | - Binbin Hu
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, China
| | - Xiaopeng Deng
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, China
| | - Yi Chen
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, China
| | - Yonglei Jiang
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, China
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7
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Nabhan GP, Daugherty E, Hartung T. Health Benefits of the Diverse Volatile Oils in Native Plants of Ancient Ironwood-Giant Cactus Forests of the Sonoran Desert: An Adaptation to Climate Change? INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2022; 19:3250. [PMID: 35328938 PMCID: PMC8950382 DOI: 10.3390/ijerph19063250] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Revised: 03/01/2022] [Accepted: 03/05/2022] [Indexed: 11/16/2022]
Abstract
We document the species richness and volatile oil diversity in Sonoran Desert plants found in the Arizona Uplands subdivision of this binational USA/Mexico region. Using floristics, we determined that more than 60 species of 178 native plants in the ancient ironwood-giant cactus forests emit fragrant biogenic volatile organic compounds (BVOCs), especially with the onset of summer monsoons. From these desert species, more than 115 volatile oils have been identified from one biogeographic region. For the 5 BVOCs most commonly associated with "forest bathing" practices in Asian temperate forests, at least 15 Sonoran Desert plant species emit them in Arizona Uplands vegetation. We document the potential health benefits attributed to each of 13 BVOCs in isolation, but we also hypothesize that the entire "suite" of BVOCs emitted from a diversity of desert plants during the monsoons may function synergistically to generate additional health benefits. Regular exposure to these BVOC health benefits may become more important to prevent or mitigate diseases of oxidative stress and other climate maladies in a hotter, drier world.
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Affiliation(s)
| | - Eric Daugherty
- Southwest Center, University of Arizona, Tucson, AZ 85721, USA;
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8
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Baruch Z, Liddicoat C, Cando-Dumancela C, Laws M, Morelli H, Weinstein P, Young JM, Breed MF. Increased plant species richness associates with greater soil bacterial diversity in urban green spaces. ENVIRONMENTAL RESEARCH 2021; 196:110425. [PMID: 33157108 DOI: 10.1016/j.envres.2020.110425] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2020] [Revised: 10/29/2020] [Accepted: 10/31/2020] [Indexed: 06/11/2023]
Abstract
The vegetation and soil microbiome within urban green spaces is increasingly managed to help conserve biodiversity and improve human health concurrently. However, the effects of green space management on urban soil ecosystems is poorly understood, despite their importance. Across 40 urban green spaces in metropolitan Adelaide, South Australia, we show that soil bacterial communities are strongly affected by urban green space type (incl. sport fields, community gardens, parklands and revegetated areas), and that plant species richness is positively associated with soil bacterial diversity. Importantly, these microbiome trends were not affected by geographic proximity of sample sites. Our results provide early evidence that urban green space management can have predictable effects on the soil microbiome, at least from a diversity perspective, which could prove important to inform policy development if urban green spaces are to be managed to optimise population health benefits.
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Affiliation(s)
- Zdravko Baruch
- School of Biological Sciences, University of Adelaide, Adelaide, SA, 5005, Australia
| | - Craig Liddicoat
- School of Public Health, University of Adelaide, Adelaide, SA, 5005, Australia; College of Science and Engineering, Flinders University, Adelaide, SA, 5042 Australia
| | | | - Mark Laws
- School of Biological Sciences, University of Adelaide, Adelaide, SA, 5005, Australia
| | - Hamish Morelli
- School of Biological Sciences, University of Adelaide, Adelaide, SA, 5005, Australia
| | - Philip Weinstein
- School of Biological Sciences, University of Adelaide, Adelaide, SA, 5005, Australia; School of Public Health, University of Adelaide, Adelaide, SA, 5005, Australia
| | - Jennifer M Young
- College of Science and Engineering, Flinders University, Adelaide, SA, 5042 Australia
| | - Martin F Breed
- College of Science and Engineering, Flinders University, Adelaide, SA, 5042 Australia.
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9
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Pearson AL, Pechal J, Lin Z, Benbow ME, Schmidt C, Mavoa S. Associations detected between measures of neighborhood environmental conditions and human microbiome diversity. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 745:141029. [PMID: 32721621 DOI: 10.1016/j.scitotenv.2020.141029] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Revised: 07/14/2020] [Accepted: 07/15/2020] [Indexed: 06/11/2023]
Abstract
While emerging research suggests urban green space revegetation increases soil microbiota diversity and native plant species affect skin microbiome diversity, there is still a paucity of knowledge on relationships between neighborhood environmental conditions and the human microbiome. This study leveraged data on human microbiome samples (nose, mouth, rectum) taken at autopsy at the Wayne County Medical Examiner's Office (2014-2015). We evaluated relationships between the microbiome and five measures of environmental conditions (NDVI standard deviation, NDVI mean, percent trees, percent grassland and soil type) near the home of 126 decedents. For the rectum microbiome, NDVI sd had negative, significant associations with diversity (ASVs β = -0.20, p = 0.045; Faith PD β = -0.22, p = 0.026). In contrast, while insignificant, there were consistent, positive associations between diversity and NDVI sd for the mouth microbiome (ASVs β = 0.09, p = 0.337, Faith PD β = 0.14, p = 0.149, Shannon diversity β = 0.14, p = 0.159, Heip's evenness β = 0.11, p = 0.259) and a significant association for the nose microbiome (eigenvalues 3 β = 0.18, p = 0.057). We found consistent, significant, negative associations between percent grassland and diversity of the nose microbiome (ASVs β = -0.25, p = 0.008, Faith PD β = -0.25, p = 0.009, Shannon diversity β = -0.17, p = 0.062). For the mouth microbiome, we found a small effect of percent trees on diversity (eigenvalues 1 β = -0.08, p = 0.053). Clay loam soil was negatively (eigenvalues 2 β = -0.47, p = 0.053) and positively associated (eigenvalues 3 β = 0.65, p = 0.008) with rectum microbiome diversity, compared to loam soil. There was no potential indicator taxon among NDVI quartiles. These findings may be relevant for urban planning and management of urban outdoor spaces in ways that may support healthy human microbiomes. Still, future research is needed to link variation in NDVI, vegetation, plant and/or soil microbe diversity and to confirm or negate our findings that environmental conditions may have contrasting influence on the microbiome of the rectum versus the nose and mouth and that grasslands affect the nose microbiome.
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Affiliation(s)
- Amber L Pearson
- Michigan State University, Department of Geography, Environment & Spatial Sciences, East Lansing, MI 48824, USA; University of Otago, Department of Public Health, Wellington 6242, New Zealand.
| | - Jennifer Pechal
- Michigan State University, Department of Entomology, East Lansing, MI 48824, USA
| | - Zihan Lin
- Michigan State University, Department of Geography, Environment & Spatial Sciences, East Lansing, MI 48824, USA
| | - M Eric Benbow
- Michigan State University, Department of Entomology, East Lansing, MI 48824, USA; Michigan Department of Osteopathic Medical Specialties, Michigan State University, East Lansing, MI 48824, USA; Ecology, Evolutionary Biology and Behavior Program, Michigan State University, East Lansing, MI 48824, USA
| | - Carl Schmidt
- Wayne County Medical Examiner's Office, Detroit, MI 48207, USA; University of Michigan, Department of Pathology, Ann Arbor, MI 48109, USA
| | - Suzanne Mavoa
- University of Melbourne, Melbourne School of Population and Global Health, Melbourne, VIC 3010, Australia
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10
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Baruch Z, Liddicoat C, Laws M, Kiri Marker L, Morelli H, Yan D, Young JM, Breed MF. Characterising the soil fungal microbiome in metropolitan green spaces across a vegetation biodiversity gradient. FUNGAL ECOL 2020. [DOI: 10.1016/j.funeco.2020.100939] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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11
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Nabhan GP, Orlando L, Smith Monti L, Aronson J. Hands-On Ecological Restoration as a Nature-Based Health Intervention: Reciprocal Restoration for People and Ecosystems. ECOPSYCHOLOGY 2020. [DOI: 10.1089/eco.2020.0003] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Gary P. Nabhan
- Desert Laboratory at Tumamoc Hill, University of Arizona, Tucson, Arizona, USA
- Southwest Center, University of Arizona, Tucson, Arizona, USA
| | - Laura Orlando
- Boston University School of Public Health, Boston, Massachusetts, USA
- EcoHealth Network, Missouri Botanical Garden, St. Louis, Missouri, USA
| | - Laura Smith Monti
- Zuckerman School of Public Health, University of Arizona, Tucson, Arizona, USA
- Borderlands Restoration Network, Patagonia, Arizona, USA
| | - James Aronson
- EcoHealth Network, Missouri Botanical Garden, St. Louis, Missouri, USA
- Center for Conservation and Sustainable Development, Missouri Botanical Garden, St. Louis, Missouri, USA
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12
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Li P, Zhang Y, Meng Q, Liu Y, Tuyiringire D, Chen Z, Liang S. Effects of trichloroethylene stress on the microbiological characteristics of Mollisol. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 184:109595. [PMID: 31470249 DOI: 10.1016/j.ecoenv.2019.109595] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2019] [Revised: 08/17/2019] [Accepted: 08/20/2019] [Indexed: 06/10/2023]
Abstract
Trichloroethylene (TCE), one of 129 kinds of priority pollutants, is the most common halogenated organic pollutant in the environment. To explore the changes in soil physicochemical properties and biological activities then clarify the effects of these factors on bacterial, fungal and actinomycetes communities in Mollisol under TCE stress is the significance of our research. The results indicated that when TCE concentration was greater than 10 mg kg-1, soil quality declined and soil decomposition of organic matter and cycling of mineral nutrients were inhibited through an effect on soil microbial biomass. Operational taxonomic units (OTUs) richness of the bacteria in Mollisol was altered by TCE contamination. The SChao1 and HShannon indices of bacterial communities in Mollisol decreased when 40 mg kg-1 TCE was applied. Meanwhile, the OTU richness of fungi in Mollisol was altered by TCE contamination. The HShannon indices of the fungal communities in Mollisol were inhibited by higher TCE concentrations (20 and 40 mg kg-1 TCE). TCE altered the content of some bacteria, fungi and actinomycetes involved in soil carbon and nitrogen cycling and metabolism, such as Acidobacteria, Proteobacteria, Planctomycetes, Chytridiomycota, Streptomycetales, Pseudonocardiales, Propionibacteriales and Rhizobiales, and thus influenced nutrient cycling and the process of energy metabolism in Mollisol. In addition, redundancy analysis (RDA) results indicated that physicochemical properties and biological activities under TCE contamination significantly affected soil microbial community composition thus confirming that TCE interfered with the carbon and nitrogen cycling and metabolism of soil microorganisms. The results of this study are of great importance for revealing the effects of TCE stress on the microbiological characteristics of Mollisol, and also provide more useful information for determining the potential ecological risk of organic pollutants in Mollisol.
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Affiliation(s)
- Pengfei Li
- College of Resources and Environment, Northeast Agricultural University, Harbin, 150030, China.
| | - Ying Zhang
- College of Resources and Environment, Northeast Agricultural University, Harbin, 150030, China.
| | - Qingjuan Meng
- College of Resources and Environment, Northeast Agricultural University, Harbin, 150030, China
| | - Ying Liu
- College of Resources and Environment, Northeast Agricultural University, Harbin, 150030, China
| | - Diogene Tuyiringire
- College of Resources and Environment, Northeast Agricultural University, Harbin, 150030, China
| | - Zhaobo Chen
- College of Environment and Resources, Dalian Minzu University, 18 Liaohe West Road, Dalian, 116600, China
| | - Shichao Liang
- College of Resources and Environment, Northeast Agricultural University, Harbin, 150030, China
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Liddicoat C, Weinstein P, Bissett A, Gellie NJC, Mills JG, Waycott M, Breed MF. Can bacterial indicators of a grassy woodland restoration inform ecosystem assessment and microbiota-mediated human health? ENVIRONMENT INTERNATIONAL 2019; 129:105-117. [PMID: 31125730 DOI: 10.1016/j.envint.2019.05.011] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2018] [Revised: 05/05/2019] [Accepted: 05/06/2019] [Indexed: 05/21/2023]
Abstract
Understanding how microbial communities change with environmental degradation and restoration may offer new insights into the understudied ecology that connects humans, microbiota, and the natural world. Immunomodulatory microbial diversity and 'Old Friends' are thought to be supplemented from biodiverse natural environments, yet deficient in anthropogenically disturbed or degraded environments. However, few studies have compared the microbiomes of natural vs. human-altered environments and there is little knowledge of which microbial taxa are representative of ecological restoration-i.e. the assisted recovery of degraded ecosystems typically towards a more natural, biodiverse state. Here we use novel bootstrap-style resampling of site-level soil bacterial 16S rRNA gene environmental DNA data to identify genus-level indicators of restoration from a 10-year grassy eucalypt woodland restoration chronosequence at Mt Bold, South Australia. We found two key indicator groups emerged: 'opportunistic taxa' that decreased in relative abundance with restoration and more stable and specialist, 'niche-adapted taxa' that increased. We validated these results, finding seven of the top ten opportunists and eight of the top ten niche-adapted taxa displayed consistent differential abundance patterns between human-altered vs. natural samples elsewhere across Australia. Extending this, we propose a two-dimensional mapping for ecosystem condition based on the proportions of these divergent indicator groups. We also show that restoring a more biodiverse ecosystem at Mt Bold has increased the potentially immune-boosting environmental microbial diversity. Furthermore, environmental opportunists including the pathogen-containing genera Bacillus, Clostridium, Enterobacter, Legionella and Pseudomonas associated with disturbed ecosystems. Our approach is generalizable with potential to inform DNA-based methods for ecosystem assessment and help target environmental interventions that may promote microbiota-mediated human health gains.
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Affiliation(s)
- Craig Liddicoat
- School of Biological Sciences and the Environment Institute, The University of Adelaide, SA 5005, Australia.
| | - Philip Weinstein
- School of Biological Sciences and the Environment Institute, The University of Adelaide, SA 5005, Australia.
| | - Andrew Bissett
- CSIRO Oceans and Atmosphere, Hobart, TAS, 7000, Australia.
| | - Nicholas J C Gellie
- School of Biological Sciences and the Environment Institute, The University of Adelaide, SA 5005, Australia.
| | - Jacob G Mills
- School of Biological Sciences and the Environment Institute, The University of Adelaide, SA 5005, Australia.
| | - Michelle Waycott
- School of Biological Sciences and the Environment Institute, The University of Adelaide, SA 5005, Australia.
| | - Martin F Breed
- School of Biological Sciences and the Environment Institute, The University of Adelaide, SA 5005, Australia.
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Mills JG, Brookes JD, Gellie NJC, Liddicoat C, Lowe AJ, Sydnor HR, Thomas T, Weinstein P, Weyrich LS, Breed MF. Relating Urban Biodiversity to Human Health With the 'Holobiont' Concept. Front Microbiol 2019; 10:550. [PMID: 30972043 PMCID: PMC6444116 DOI: 10.3389/fmicb.2019.00550] [Citation(s) in RCA: 43] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2018] [Accepted: 03/04/2019] [Indexed: 12/15/2022] Open
Abstract
A relatively unaccounted ecosystem service from biodiversity is the benefit to human health via symbiotic microbiota from our environment. This benefit occurs because humans evolved alongside microbes and have been constantly exposed to diverse microbiota. Plants and animals, including humans, are organised as a host with symbiotic microbiota, whose collective genome and life history form a single holobiont. As such, there are interdependencies between biodiversity, holobionts, and public health which lead us to argue that human health outcomes could be improved by increasing contact with biodiversity in an urban context. We propose that humans, like all holobionts, likely require a diverse microbial habitat to appropriate resources for living healthy, long lives. We discuss how industrial urbanisation likely disrupts the symbiosis between microbiota and their hosts, leading to negative health outcomes. The industrialised urban habitat is low in macro and microbial biodiversity and discourages contact with beneficial environmental microbiota. These habitat factors, alongside diet, antibiotics, and others, are associated with the epidemic of non-communicable diseases in these societies. We suggest that restoration of urban microbial biodiversity and micro-ecological processes through microbiome rewilding can benefit holobiont health and aid in treating the urban non-communicable disease epidemic. Further, we identify research gaps and some solutions to economic and strategic hurdles in applying microbiome rewilding into daily urban life.
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Affiliation(s)
- Jacob G Mills
- School of Biological Sciences, The Environment Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Justin D Brookes
- School of Biological Sciences, The Environment Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Nicholas J C Gellie
- School of Biological Sciences, The Environment Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Craig Liddicoat
- School of Biological Sciences, The Environment Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Andrew J Lowe
- School of Biological Sciences, The Environment Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Harrison R Sydnor
- School of Biological Sciences, The Environment Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Torsten Thomas
- Centre for Marine Bio-Innovation (CMB), School of Biological, Earth and Environmental Sciences, The University of New South Wales, Sydney, NSW, Australia
| | - Philip Weinstein
- School of Biological Sciences, The Environment Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Laura S Weyrich
- Australian Centre for Ancient DNA, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia
| | - Martin F Breed
- School of Biological Sciences, The Environment Institute, The University of Adelaide, Adelaide, SA, Australia
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15
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Lopez S, Goux X, Echevarria G, Calusinska M, Morel JL, Benizri E. Community diversity and potential functions of rhizosphere-associated bacteria of nickel hyperaccumulators found in Albania. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 654:237-249. [PMID: 30445325 DOI: 10.1016/j.scitotenv.2018.11.056] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2018] [Revised: 10/25/2018] [Accepted: 11/04/2018] [Indexed: 06/09/2023]
Abstract
Ultramafic (i.e. serpentine) soils are widespread in the Balkans and particularly in Albania. They account for a large part of plant endemism in that region and host several hyperaccumulator species, which are characterized by leaf nickel concentrations frequently above 1%. This rich nickel hyperaccumulating flora could serve as candidate to be used in phytoextraction and agromining. Despite recent interest in metal hyperaccumulating plants and agromining, very few studies have investigated the bacterial diversity and the influence of environmental factors on microbial gene profiles in the rhizosphere of hyperaccumulator plants growing on ultramafic soils. Because rhizospheric bacteria could be crucial to the success of phytoremediation, we studied a total of 48 nickel-hyperaccumulating plants which were sampled from four species that are widespread in Albania: Noccaea ochroleuca, Odontarrhena smolikana, O. rigida and O. chalcidica. All samples were taken from the ultramafic regions of Librazhd and Pogradec in eastern Albania in October 2015. Our study shows that Proteobacteria, Actinobacteria and Acidobacteria dominated the soil bacterial communities. Of these three phyla, only Proteobacteria was relatively abundant. This study underlines the influence of soil Cation Exchange Capacity on the bacterial community's diversity and structure. Based on the predicted metagenomes, the genes belonging to amino acid, lipid and carbohydrate metabolisms were identified as major gene families. Our study sheds some light on our understanding of how bacterial communities are structured within and affect the rhizosphere of hyperaccumulator plants from ultramafic soils in Albania.
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Affiliation(s)
- Séverine Lopez
- Université de Lorraine, INRA, Laboratoire Sols et Environnement, 54000 Nancy, France
| | - Xavier Goux
- Environmental Research and Innovation (ERIN) Department, Luxembourg Institute of Science and Technology (LIST), 4422 Belvaux, Luxembourg
| | - Guillaume Echevarria
- Université de Lorraine, INRA, Laboratoire Sols et Environnement, 54000 Nancy, France
| | - Magdalena Calusinska
- Environmental Research and Innovation (ERIN) Department, Luxembourg Institute of Science and Technology (LIST), 4422 Belvaux, Luxembourg
| | - Jean Louis Morel
- Université de Lorraine, INRA, Laboratoire Sols et Environnement, 54000 Nancy, France
| | - Emile Benizri
- Université de Lorraine, INRA, Laboratoire Sols et Environnement, 54000 Nancy, France.
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Flies EJ, Skelly C, Lovell R, Breed MF, Phillips D, Weinstein P. Cities, biodiversity and health: we need healthy urban microbiome initiatives. ACTA ACUST UNITED AC 2018. [DOI: 10.1080/23748834.2018.1546641] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Emily J. Flies
- School of Natural Sciences, University of Tasmania, Hobart, Australia
| | - Chris Skelly
- Public Health Dorset, Dorset County Council, Dorchester, UK
| | - Rebecca Lovell
- European Centre for Environment and Human Health, University of Exeter Medical School, Truro, UK
| | - Martin F. Breed
- School of Biological Sciences and the Environment Institute, University of Adelaide, Adelaide, Australia
| | - David Phillips
- Public Health Dorset, Dorset County Council, Dorchester, UK
| | - Philip Weinstein
- School of Biological Sciences and the Environment Institute, University of Adelaide, Adelaide, Australia
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