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Haavisto V, Landry Z, Pontrelli S. High-throughput profiling of metabolic responses to exogenous nutrients in Synechocystis sp. PCC 6803. mSystems 2024; 9:e0022724. [PMID: 38534128 PMCID: PMC11019784 DOI: 10.1128/msystems.00227-24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2024] [Accepted: 02/27/2024] [Indexed: 03/28/2024] Open
Abstract
Cyanobacteria fix carbon dioxide and release carbon-containing compounds into the wider ecosystem, yet they are sensitive to small metabolites that may impact their growth and physiology. Several cyanobacteria can grow mixotrophically, but we currently lack a molecular understanding of how specific nutrients may alter the compounds they release, limiting our knowledge of how environmental factors might impact primary producers and the ecosystems they support. In this study, we develop a high-throughput phytoplankton culturing platform and identify how the model cyanobacterium Synechocystis sp. PCC 6803 responds to nutrient supplementation. We assess growth responses to 32 nutrients at two concentrations, identifying 15 that are utilized mixotrophically. Seven nutrient sources significantly enhance growth, while 19 elicit negative growth responses at one or both concentrations. High-throughput exometabolomics indicates that oxidative stress limits Synechocystis' growth but may be alleviated by antioxidant metabolites. Furthermore, glucose and valine induce strong changes in metabolite exudation in a possible effort to correct pathway imbalances or maintain intracellular elemental ratios. This study sheds light on the flexibility and limits of cyanobacterial physiology and metabolism, as well as how primary production and trophic food webs may be modulated by exogenous nutrients.IMPORTANCECyanobacteria capture and release carbon compounds to fuel microbial food webs, yet we lack a comprehensive understanding of how external nutrients modify their behavior and what they produce. We developed a high throughput culturing platform to evaluate how the model cyanobacterium Synechocystis sp. PCC 6803 responds to a broad panel of externally supplied nutrients. We found that growth may be enhanced by metabolites that protect against oxidative stress, and growth and exudate profiles are altered by metabolites that interfere with central carbon metabolism and elemental ratios. This work contributes a holistic perspective of the versatile response of Synechocystis to externally supplied nutrients, which may alter carbon flux into the wider ecosystem.
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Affiliation(s)
- Vilhelmiina Haavisto
- Institute of Molecular Systems Biology, Department of Biology, ETH Zürich, Zürich, Switzerland
| | - Zachary Landry
- Department of Civil, Environmental and Geomatic Engineering, Institute of Environmental Engineering, ETH Zürich, Zürich, Switzerland
| | - Sammy Pontrelli
- Institute of Molecular Systems Biology, Department of Biology, ETH Zürich, Zürich, Switzerland
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Sieber G, Drees F, Shah M, Stach TL, Hohrenk-Danzouma L, Bock C, Vosough M, Schumann M, Sures B, Probst AJ, Schmidt TC, Beisser D, Boenigk J. Exploring the efficacy of metabarcoding and non-target screening for detecting treated wastewater. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 903:167457. [PMID: 37777125 DOI: 10.1016/j.scitotenv.2023.167457] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/27/2023] [Revised: 09/25/2023] [Accepted: 09/27/2023] [Indexed: 10/02/2023]
Abstract
Wastewater treatment processes can eliminate many pollutants, yet remainder pollutants contain organic compounds and microorganisms released into ecosystems. These remainder pollutants have the potential to adversely impact downstream ecosystem processes, but their presence is currently not being monitored. This study was set out with the aim of investigating the effectiveness and sensitivity of non-target screening of chemical compounds, 18S V9 rRNA gene, and full-length 16S rRNA gene metabarcoding techniques for detecting treated wastewater in receiving waters. We aimed at assessing the impact of introducing 33 % treated wastewater into a triplicated large-scale mesocosm setup during a 10-day exposure period. Discharge of treated wastewater significantly altered the chemical signature as well as the microeukaryotic and prokaryotic diversity of the mesocosms. Non-target screening, 18S V9 rRNA gene, and full-length 16S rRNA gene metabarcoding detected these changes with significant covariation of the detected pattern between methods. The 18S V9 rRNA gene metabarcoding exhibited superior sensitivity immediately following the introduction of treated wastewater and remained one of the top-performing methods throughout the study. Full-length 16S rRNA gene metabarcoding demonstrated sensitivity only in the initial hour, but became insignificant thereafter. The non-target screening approach was effective throughout the experiment and in contrast to the metabarcoding methods the signal to noise ratio remained similar during the experiment resulting in an increasing relative strength of this method. Based on our findings, we conclude that all methods employed for monitoring environmental disturbances from various sources are suitable. The distinguishing factor of these methods is their ability to detect unknown pollutants and organisms, which sets them apart from previously utilized approaches and allows for a more comprehensive perspective. Given their diverse strengths, particularly in terms of temporal resolution, these methods are best suited as complementary approaches.
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Affiliation(s)
- Guido Sieber
- Biodiversity, University of Duisburg-Essen, Universitätsstraße 5, 45141 Essen, Germany; Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany.
| | - Felix Drees
- Instrumental Analytical Chemistry, University of Duisburg-Essen, 45141 Essen, Universitätsstraße 5, Germany
| | - Manan Shah
- Biodiversity, University of Duisburg-Essen, Universitätsstraße 5, 45141 Essen, Germany; Environmental Metagenomics, Research Center One Health Ruhr of the University Alliance Ruhr, Faculty of Chemistry, University of Duisburg-Essen, 45141 Essen, Germany
| | - Tom L Stach
- Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany; Environmental Metagenomics, Research Center One Health Ruhr of the University Alliance Ruhr, Faculty of Chemistry, University of Duisburg-Essen, 45141 Essen, Germany
| | - Lotta Hohrenk-Danzouma
- Instrumental Analytical Chemistry, University of Duisburg-Essen, 45141 Essen, Universitätsstraße 5, Germany
| | - Christina Bock
- Biodiversity, University of Duisburg-Essen, Universitätsstraße 5, 45141 Essen, Germany; Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany
| | - Maryam Vosough
- Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany; Instrumental Analytical Chemistry, University of Duisburg-Essen, 45141 Essen, Universitätsstraße 5, Germany
| | - Mark Schumann
- Aquatic Ecology, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany
| | - Bernd Sures
- Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany; Aquatic Ecology, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany; Research Center One Health Ruhr of the University Alliance Ruhr, University of Duisburg-Essen, 45141 Essen, Universitätsstraße 5, Germany
| | - Alexander J Probst
- Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany; Environmental Metagenomics, Research Center One Health Ruhr of the University Alliance Ruhr, Faculty of Chemistry, University of Duisburg-Essen, 45141 Essen, Germany; Centre for Medical Biotechnology (ZMB), University of Duisburg-Essen, Universitätsstraße 5, 45141 Essen, Germany
| | - Torsten C Schmidt
- Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany; Instrumental Analytical Chemistry, University of Duisburg-Essen, 45141 Essen, Universitätsstraße 5, Germany
| | - Daniela Beisser
- Biodiversity, University of Duisburg-Essen, Universitätsstraße 5, 45141 Essen, Germany; Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany
| | - Jens Boenigk
- Biodiversity, University of Duisburg-Essen, Universitätsstraße 5, 45141 Essen, Germany; Centre for Water and Environmental Research, University of Duisburg-Essen, 45141 Essen, Universitätsstraße. 5, Germany
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Wijewardene L, Schwenker JA, Friedrichsen M, Jensen A, Löbel F, Austen T, Ulrich U, Fohrer N, Bang C, Waschina S, Hölzel CS. Selection of aquatic microbiota exposed to the herbicides flufenacet and metazachlor. Environ Microbiol 2023; 25:2972-2987. [PMID: 37994199 DOI: 10.1111/1462-2920.16535] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2023] [Accepted: 10/24/2023] [Indexed: 11/24/2023]
Abstract
Herbicides are important, ubiquitous environmental contaminants, but little is known about their interaction with bacterial aquatic communities. Here, we sampled a protected natural freshwater habitat and characterised its microbiome in interaction with herbicides. We evolved the freshwater microbiomes in a microcosm assay of exposure (28 days) to flufenacet and metazachlor at environmental concentrations of 0.5, 5 and 50 μg L-1 . Inhibitory effects of herbicides were exemplarily assessed in cultured bacteria from the same pond (Pseudomonas alcaligenes, Paenibacillus amylolyticus and Microbacterium hominis). Findings were compared to long-term concentrations as provided by local authorities. Here, environmental concentrations reached up to 11 μg L-1 (flufenacet) and 76 μg L-1 (metazachlor). Bacteria were inhibited at minimum inhibitory concentrations far above these values; however, concentrations of 50 μg L-1 of flufenacet resulted in measurable growth impairment. While most herbicide-exposed microcosm assays did not differ from controls, Acidobacteria were selected at high environmental concentrations of herbicides. Alpha-diversity (e.g., taxonomic richness on phylum level) was reduced when aquatic microbiomes were exposed to 50 μg metazachlor or flufenacet. One environmental strain of P. alcaligenes showed resistance to high concentrations of flufenacet (50 g L-1 ). In total, this study reveals that ecologic imbalance due to herbicide use significantly impacts aquatic microbiomes.
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Affiliation(s)
- Lishani Wijewardene
- Faculty of Fisheries and Marine Sciences & Technology, Department of Limnology and Water Technology, University of Ruhuna, Matara, Sri Lanka
| | - Julia Anna Schwenker
- Institute of Animal Breeding and Husbandry, Department for Animal Hygiene, Animal Health and Food Hygiene, Kiel University, Kiel, Germany
| | - Meike Friedrichsen
- Institute of Animal Breeding and Husbandry, Department for Animal Hygiene, Animal Health and Food Hygiene, Kiel University, Kiel, Germany
| | - Ailina Jensen
- Institute of Animal Breeding and Husbandry, Department for Animal Hygiene, Animal Health and Food Hygiene, Kiel University, Kiel, Germany
| | - Franziska Löbel
- Institute of Animal Breeding and Husbandry, Department for Animal Hygiene, Animal Health and Food Hygiene, Kiel University, Kiel, Germany
| | - Tabea Austen
- Institute of Animal Breeding and Husbandry, Department for Animal Hygiene, Animal Health and Food Hygiene, Kiel University, Kiel, Germany
| | - Uta Ulrich
- Institute for Natural Resource Conservation, Department of Hydrology and Water Resources Management, Kiel University, Kiel, Germany
| | - Nicola Fohrer
- Institute for Natural Resource Conservation, Department of Hydrology and Water Resources Management, Kiel University, Kiel, Germany
| | - Corinna Bang
- Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany
| | - Silvio Waschina
- Institute for Human Nutrition and Food Science, Department for Nutriinformatics, Kiel University, Kiel, Germany
| | - Christina Susanne Hölzel
- Institute of Animal Breeding and Husbandry, Department for Animal Hygiene, Animal Health and Food Hygiene, Kiel University, Kiel, Germany
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Castro MS, Silva JC, Machado BR, Guimarães PS, Lombardi AT, Martins CDMG, Zanette J. Differential Effects of Atrazine on Chlorophyceae Species and Association with Morphology, Photosynthesis, Chlorophyll Content, and Glutathione-S-Transferase Activity. ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY 2022; 41:1675-1685. [PMID: 35394657 DOI: 10.1002/etc.5339] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2021] [Revised: 11/26/2021] [Accepted: 04/01/2022] [Indexed: 06/14/2023]
Abstract
Atrazine is a herbicide widely used in the control of weeds in crops such as corn, sugar cane, and sorghum. It is often found in aquatic environments, where it can potentially endanger nontarget organisms such as microalgae. The present study evaluated atrazine toxicity to seven different species of Chlorophyceae and the tolerance of the species to the herbicide was related to morphological, photosynthetic, chlorophyll-a content and the activity of the glutathione-S-transferase enzyme (GST). The comparison of median effect concentration (EC50) values for growth inhibition indicates higher toxicity of atrazine for Pseudopediastrum boryanum and Desmodesmus communis, intermediate toxicity for Ankistrodesmus densus, Chlamydomonas puliminiorfes, and Raphidocelis subcapitata, and lower toxicity for Kirchneriella lunaris and Ankistrodesmus falcatus (EC50: 38, 42, 66, 103, 248, 1004, and 1585 µg L-1 atrazine, respectively). Principal component analysis (PCA) with algal characteristics suggested that the atrazine-sensitive algae P. boryanum and D. communis were positively associated with photosynthetic levels and negatively associated with GST activity and chlorophyll-a concentration. The PCA also suggested that the atrazine-tolerant algae A. falcatus and K. lunaris were positively associated with morphological parameters, where the larger the cell size, the more tolerant. Although it is difficult to associate a single characteristic of algae as the key factor determining the tolerance to atrazine, results presented in this work indicate that the cell area, the photosynthetic parameters (mainly saturating irradiance), chlorophyll-a content, and the biotransformation by GST in combination may be potential predictors for the differential tolerance of Chlorophyceae species to the herbicide. Environ Toxicol Chem 2022;41:1675-1685. © 2022 SETAC.
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Affiliation(s)
- Muryllo Santos Castro
- Programa de Pós-Graduação em Biologia de Ambientes Aquáticos Continentais, Instituto de Ciências Biológicas, Universidade Federal do Rio Grande, Rio Grande, RS, Brazil
| | - Jaqueline Carmo Silva
- Programa de Pós-Graduação em Ecologia e Recursos Naturais, Universidade Federal de São Carlos, Rodovia Washington Luís, São Carlos, São Paulo, Brazil
| | - Bruno Roswag Machado
- Programa de Pós-Graduação em Engenharia e Ciência de Alimentos, Universidade Federal do Rio Grande, Rio Grande, RS, Brazil
| | - Pablo Santos Guimarães
- Instituto de Ciências Biológicas, Universidade Federal do Rio Grande, Rio Grande, RS, Brazil
| | - Ana Teresa Lombardi
- Programa de Pós-Graduação em Ecologia e Recursos Naturais, Universidade Federal de São Carlos, Rodovia Washington Luís, São Carlos, São Paulo, Brazil
| | - Camila De Martinez Gaspar Martins
- Programa de Pós-Graduação em Biologia de Ambientes Aquáticos Continentais, Instituto de Ciências Biológicas, Universidade Federal do Rio Grande, Rio Grande, RS, Brazil
| | - Juliano Zanette
- Programa de Pós-Graduação em Biologia de Ambientes Aquáticos Continentais, Instituto de Ciências Biológicas, Universidade Federal do Rio Grande, Rio Grande, RS, Brazil
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