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Pacwa-Płociniczak M, Kumor A, Bukowczan M, Sinkkonen A, Roslund M, Płociniczak T. The potential of enhanced phytoremediation to clean up multi-contaminated soil - insights from metatranscriptomics. Microbiol Res 2024; 284:127738. [PMID: 38692035 DOI: 10.1016/j.micres.2024.127738] [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: 11/29/2023] [Revised: 03/29/2024] [Accepted: 04/20/2024] [Indexed: 05/03/2024]
Abstract
This study aimed to (i) investigate the potential for enhanced phytoremediation to remove contaminants from soil historically co-contaminated with petroleum hydrocarbons (PHs) and heavy metals (HMs) and (ii) analyze the expression of crucial bacterial genes and whole metatranscriptomics profiles for better understanding of soil processes during applied treatment. Phytoremediation was performed using Zea mays and supported by the Pseudomonas qingdaonensis ZCR6 strain and a natural biofertilizer: meat and bone meal (MBM). In previous investigations, mechanisms supporting plant growth and PH degradation were described in the ZCR6 strain. Here, ZCR6 survived in the soil throughout the experiment, but the efficacy of PH removal from all soils fertilized with MBM reached 32 % regardless of the bacterial inoculation. All experimental groups contained 2 % (w/w) MBM. The toxic effect of this amendment on plants was detected 30 days after germination, irrespective of ZCR6 inoculation. Among the 17 genes tested using the qPCR method, only expression of the acdS gene, encoding 1-aminocyclopropane-1-carboxylic acid deaminase, and the CYP153 gene, encoding cytochrome P450-type alkane hydroxylase, was detected in soils. Metatranscriptomic analysis of soils indicated increased expression of methane particulated ammonia monooxygenase subunit A (pmoA-amoA) by Nitrosomonadales bacteria in all soils enriched with MBM compared to the non-fertilized control. We suggest that the addition of 2 % (w/w) MBM caused the toxic effect on plants via the rapid release of ammonia, and this led to high pmoA-amoA expression. In parallel, due to its wide substrate specificity, enhanced bacterial hydrocarbon removal in MBM-treated soils was observed. The metatranscriptomic results indicate that MBM application should be considered to improve bioremediation of soils polluted with PHs rather than phytoremediation. However, lower concentrations of MBM could be considered for phytoremediation enhancement. From a broader perspective, these results indicated the superior capability of metatranscriptomics to investigate the microbial mechanisms driving various bioremediation techniques.
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Affiliation(s)
- Magdalena Pacwa-Płociniczak
- Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in Katowice, Jagiellońska 28, Katowice 40-032, Poland.
| | - Agata Kumor
- Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in Katowice, Jagiellońska 28, Katowice 40-032, Poland.
| | - Marta Bukowczan
- Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in Katowice, Jagiellońska 28, Katowice 40-032, Poland.
| | - Aki Sinkkonen
- Horticulture Technologies, Natural Resources Institute Finland, Itäinen Pitkäkatu 4A, Turku, Finland.
| | - Marja Roslund
- Horticulture Technologies, Natural Resources Institute Finland, Itäinen Pitkäkatu 4A, Turku, Finland.
| | - Tomasz Płociniczak
- Institute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in Katowice, Jagiellońska 28, Katowice 40-032, Poland.
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Nurminen N, Cerrone D, Lehtonen J, Parajuli A, Roslund M, Lönnrot M, Ilonen J, Toppari J, Veijola R, Knip M, Rajaniemi J, Laitinen OH, Sinkkonen A, Hyöty H. Land Cover of Early-Life Environment Modulates the Risk of Type 1 Diabetes. Diabetes Care 2021; 44:1506-1514. [PMID: 33952607 PMCID: PMC8323192 DOI: 10.2337/dc20-1719] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/09/2020] [Accepted: 03/27/2021] [Indexed: 02/03/2023]
Abstract
OBJECTIVE Environmental microbial exposures have been implicated to protect against immune-mediated diseases such as type 1 diabetes. Our objective was to study the association of land cover around the early-life dwelling with the development of islet autoimmunity and type 1 diabetes to evaluate the role of environmental microbial biodiversity in the pathogenesis. RESEARCH DESIGN AND METHODS Association between land cover types and the future risk of type 1 diabetes was studied by analyzing land cover types classified according to Coordination of Information on the Environment (CORINE) 2012 and 2000 data around the dwelling during the first year of life for 10,681 children genotyped for disease-associated HLA-DQ alleles and monitored from birth in the Type 1 Diabetes Prediction and Prevention (DIPP) study. Land cover was compared between children who developed type 1 diabetes (n = 271) or multiple diabetes-associated islet autoantibodies (n = 384) and children without diabetes who are negative for diabetes autoantibodies. RESULTS Agricultural land cover around the home was inversely associated with diabetes risk (odds ratio 0.37, 95% CI 0.16-0.87, P = 0.02 within a distance of 1,500 m). The association was observed among children with the high-risk HLA genotype and among those living in the southernmost study region. Snow cover on the ground seemed to block the transfer of the microbial community indoors, leading to reduced bacterial richness and diversity indoors, which might explain the regional difference in the association. In survival models, an agricultural environment was associated with a decreased risk of multiple islet autoantibodies (hazard ratio [HR] 1.60, P = 0.008) and a decreased risk of progression from single to multiple autoantibody positivity (HR 2.07, P = 0.001) compared with an urban environment known to have lower environmental microbial diversity. CONCLUSIONS The study suggests that exposure to an agricultural environment (comprising nonirrigated arable land, fruit trees and berry plantations, pastures, natural pastures, land principally occupied by agriculture with significant areas of natural vegetation, and agroforestry areas) early in life is inversely associated with the risk of type 1 diabetes. This association may be mediated by early exposure to environmental microbial diversity.
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Affiliation(s)
- Noora Nurminen
- Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland
| | - Damiano Cerrone
- Faculty of Built Environment, Tampere University, Tampere, Finland
| | - Jussi Lehtonen
- Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland
| | - Anirudra Parajuli
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Marja Roslund
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Helsinki, Finland
| | - Maria Lönnrot
- Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland.,Department of Dermatology, Tampere University Hospital, Tampere, Finland
| | - Jorma Ilonen
- Institute of Biomedicine, University of Turku, Turku, Finland.,Clinical Microbiology, Turku University Hospital, Turku, Finland
| | - Jorma Toppari
- Institute of Biomedicine, Centre for Integrative Physiology and Pharmacology, University of Turku, Turku, Finland.,Department of Pediatrics, Turku University Hospital, Turku, Finland
| | - Riitta Veijola
- Department of Pediatrics, University of Oulu and Oulu University Hospital, Oulu, Finland
| | - Mikael Knip
- Pediatric Research Center, Children's Hospital, University of Helsinki and Helsinki University Hospital, Helsinki, Finland.,Research Program for Clinical and Molecular Metabolism, Faculty of Medicine, University of Helsinki, Helsinki, Finland.,Folkhälsan Research Center, Helsinki, Finland.,Department of Pediatrics, Tampere University Hospital, Tampere, Finland
| | - Juho Rajaniemi
- Faculty of Built Environment, Tampere University, Tampere, Finland
| | - Olli H Laitinen
- Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland
| | - Aki Sinkkonen
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Helsinki, Finland.,Natural Resources Institute Finland Luke, Turku, Finland
| | - Heikki Hyöty
- Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland .,Fimlab Laboratories, Pirkanmaa Hospital District, Tampere, Finland
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Nurminen N, Lin J, Grönroos M, Puhakka R, Kramna L, Vari HK, Viskari H, Oikarinen S, Roslund M, Parajuli A, Tyni I, Cinek O, Laitinen O, Hyöty H, Sinkkonen A. Nature-derived microbiota exposure as a novel immunomodulatory approach. Future Microbiol 2018; 13:737-744. [PMID: 29771153 DOI: 10.2217/fmb-2017-0286] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
Abstract
AIM Current attempts to modulate the human microbiota and immune responses are based on probiotics or human-derived bacterial transplants. We investigated microbial modulation by soil and plant-based material. MATERIALS & METHODS We performed a pilot study in which healthy adults were exposed to the varied microbial community of a soil- and plant-based material. RESULTS The method was safe and feasible; exposure was associated with an increase in gut microbial diversity. CONCLUSION If these findings are reproduced in larger studies nature-derived microbial exposure strategies could be further developed for testing their efficacy in the treatment and prevention of immune-mediated diseases.
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Affiliation(s)
- Noora Nurminen
- Department of Virology, Faculty of Medicine & Life Sciences, University of Tampere, Arvo Ylpön katu 34, 33520 Tampere, Finland
| | - Jake Lin
- Department of Virology, Faculty of Medicine & Life Sciences, University of Tampere, Arvo Ylpön katu 34, 33520 Tampere, Finland.,Computational Biology, Faculty of Medicine & Life Sciences, University of Tampere, Arvo Ylpön katu 34, 33520 Tampere, Finland
| | - Mira Grönroos
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Niemenkatu 73, 15140 Lahti, Finland
| | - Riikka Puhakka
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Niemenkatu 73, 15140 Lahti, Finland
| | - Lenka Kramna
- Department of Pediatrics, 2nd Faculty of Medicine, Charles University & University Hospital Motol, V Úvalu 84, Praha 5, 150 06 Prague, Czech Republic
| | - Heli K Vari
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Niemenkatu 73, 15140 Lahti, Finland
| | - Hanna Viskari
- Department of Virology, Faculty of Medicine & Life Sciences, University of Tampere, Arvo Ylpön katu 34, 33520 Tampere, Finland.,Department of Internal Medicine, Tampere University Hospital, Teiskontie 35, 33520 Tampere, Finland
| | - Sami Oikarinen
- Department of Virology, Faculty of Medicine & Life Sciences, University of Tampere, Arvo Ylpön katu 34, 33520 Tampere, Finland
| | - Marja Roslund
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Niemenkatu 73, 15140 Lahti, Finland
| | - Anirudra Parajuli
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Niemenkatu 73, 15140 Lahti, Finland
| | - Iiris Tyni
- Department of Virology, Faculty of Medicine & Life Sciences, University of Tampere, Arvo Ylpön katu 34, 33520 Tampere, Finland
| | - Ondrej Cinek
- Department of Pediatrics, 2nd Faculty of Medicine, Charles University & University Hospital Motol, V Úvalu 84, Praha 5, 150 06 Prague, Czech Republic
| | - Olli Laitinen
- Department of Virology, Faculty of Medicine & Life Sciences, University of Tampere, Arvo Ylpön katu 34, 33520 Tampere, Finland
| | - Heikki Hyöty
- Department of Virology, Faculty of Medicine & Life Sciences, University of Tampere, Arvo Ylpön katu 34, 33520 Tampere, Finland.,Fimlab Laboratories, Pirkanmaa Hospital District, Arvo Ylpön katu 4, 33520 Tampere, Finland
| | - Aki Sinkkonen
- Ecosystems and Environment Research Programme, Faculty of Biological and Environmental Sciences, University of Helsinki, Niemenkatu 73, 15140 Lahti, Finland
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