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1. Mangrove Facies Drives Resistance and Resilience of Sediment Microbes Exposed to Anthropic Disturbance

Author

Cécile Capdeville, Thomas Pommier, Jonathan Gervaix, François Fromard, Jean-Luc Rols, and Joséphine Leflaive

Subjects
mangrove ecosystem, anthropic disturbance, wastewater discharge, in situ long term monitoring, microbial community, N-cycle, Microbiology, QR1-502
Abstract

Mangrove forests are coastal ecosystems continuously affected by various environmental stresses and organized along constraint gradients perpendicular to the coastline. The aim of this study was to evaluate the resistance and resilience of sediment microbial communities in contrasted vegetation facies, during and after exposure to an anthropic disturbance. Our hypothesis was that microbial communities should be the most stable in the facies where the consequences of the anthropic disturbance are the most similar to those of natural disturbances. To test this, we focused on communities involved in N-cycle. We used an in situ experimental system set up in Mayotte Island where 2 zones dominated by different mangrove trees are daily exposed since 2008 to pretreated domestic wastewater (PW) discharges. These freshwater and nutrients inputs should increase microbial activities and hence the anoxia of sediments. We monitored during 1 year the long-term impact of this disturbance, its short-term impact and the resilience of microbial communities on plots where PW discharges were interrupted. Microorganism densities were estimated by qPCR, the nitrification (NEA) and denitrification (DEA) enzyme activities were evaluated by potential activity measurements and pigment analyses were performed to assess the composition of microbial photosynthetic communities. At long-term PW discharges significantly modified the structure of phototrophic communities and increased the total density of bacteria, the density of denitrifying bacteria and DEA. Similar effects were observed at short-term, notably in the facies dominated by Ceriops tagal. The results showed a partial resilience of microbial communities. This resilience was faster in the facies dominated by Rhizophora mucronata, which is more subjected to tides and sediment anoxia. The higher stability of microbial communities in this facies confirms our hypothesis. Such information should be taken into account in mangrove utilization and conservation policies.

Published
2019
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2. Mangrove Facies Drives Resistance and Resilience of Sediment Microbes Exposed to Anthropic Disturbance

Author

Joséphine Leflaive, Jonathan Gervaix, Jean-Luc Rols, Thomas Pommier, Cécile Capdeville, François Fromard, Laboratoire Ecologie Fonctionnelle et Environnement (LEFE), Institut Ecologie et Environnement (INEE), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Observatoire Midi-Pyrénées (OMP), Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Météo-France -Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Météo-France -Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT), Centre National de la Recherche Scientifique (CNRS), Ecole d'Ingénieurs de Purpan (INPT - EI Purpan), Université Toulouse III - Paul Sabatier (UT3), Laboratoire d'Ecologie Microbienne - UMR 5557 (LEM), Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Ecole Nationale Vétérinaire de Lyon (ENVL)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon, Office National de l'Eau et des Milieux Aquatiques (ONEMA) 2014/03, SIEAM (CNRS) 111098, Laboratoire Ecologie Fonctionnelle et Environnement (ECOLAB), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Observatoire Midi-Pyrénées (OMP), Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées, Centre National de la Recherche Scientifique (CNRS)-Ecole Nationale Vétérinaire de Lyon (ENVL)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique (INRA)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS), UMR 1418 LEM Ecologie Microbienne. Centre de recherche Auvergne-Rhône-Alpes, Institut National de la Recherche Agronomique (INRA), Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), and Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Ecole Nationale Vétérinaire de Lyon (ENVL)

Subjects
surveillance systems, Microbiology (medical), lcsh:QR1-502, in situ long term monitoring, écosystème, Microbiology, lcsh:Microbiology, cycle de l'azote, 03 medical and health sciences, N-cycle, Ceriops tagal, anthropic disturbance, nitrogen cycle, Ecosystem, facteur anthropique, 14. Life underwater, Original Research, anthropogenic factor, 030304 developmental biology, ecosystem, 0303 health sciences, communauté microbienne, Rhizophora mucronata, biology, Resistance (ecology), 030306 microbiology, Ecology, Microbiology and Parasitology, Sediment, Vegetation, 15. Life on land, biology.organism_classification, faune de mangrove, Microbiologie et Parasitologie, mangrove ecosystem, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, Microbial population biology, 13. Climate action, surveillance, wastewater discharge, Environmental science, microbial community, Mangrove
Abstract

Mangrove forests are coastal ecosystems continuously affected by various environmental stresses and organized along constraint gradients perpendicular to the coastline. The aim of this study was to evaluate the resistance and resilience of sediment microbial communities in contrasted vegetation facies, during and after exposure to an anthropic disturbance. Our hypothesis was that microbial communities should be the most stable in the facies where the consequences of the anthropic disturbance are the most similar to those of natural disturbances. To test this, we focused on communities involved in N-cycle. We used an in situ experimental system set up in Mayotte Island where 2 zones dominated by different mangrove trees are daily exposed since 2008 to pretreated domestic wastewater (PW) discharges. These freshwater and nutrients inputs should increase microbial activities and hence the anoxia of sediments. We monitored during 1 year the long-term impact of this disturbance, its short-term impact and the resilience of microbial communities on plots where PW discharges were interrupted. Microorganism densities were estimated by qPCR, the nitrification (NEA) and denitrification (DEA) enzyme activities were evaluated by potential activity measurements and pigment analyses were performed to assess the composition of microbial photosynthetic communities. At long-term PW discharges significantly modified the structure of phototrophic communities and increased the total density of bacteria, the density of denitrifying bacteria and DEA. Similar effects were observed at short-term, notably in the facies dominated by Ceriops tagal. The results showed a partial resilience of microbial communities. This resilience was faster in the facies dominated by Rhizophora mucronata, which is more subjected to tides and sediment anoxia. The higher stability of microbial communities in this facies confirms our hypothesis. Such information should be taken into account in mangrove utilization and conservation policies.

Published
2019

3. Predicting the responses of soil nitrite-oxidizers to multi-factorial global change: a trait-based approach

Author

Jinyun Tang, Nicholas J. Bouskill, Bruce A. Hungate, Christopher B. Field, Xavier Le Roux, Maria Tourna, Audrey Niboyet, Paul Dijkstra, Franck Poly, Laure Barthes, Akihiko Terada, Thomas Pommier, Catherine Lerondelle, Ecologie microbienne ( EM ), Centre National de la Recherche Scientifique ( CNRS ) -Ecole Nationale Vétérinaire de Lyon ( ENVL ) -Université Claude Bernard Lyon 1 ( UCBL ), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique ( INRA ) -VetAgro Sup ( VAS ), Lawrence Berkeley National Laboratory [Berkeley] ( LBNL ), Ecologie Systématique et Evolution ( ESE ), Université Paris-Sud - Paris 11 ( UP11 ) -AgroParisTech-Centre National de la Recherche Scientifique ( CNRS ), Northern Arizona University [Flagstaff], Stanford University [Stanford], Technical University of Denmark [Lyngby] ( DTU ), Laboratoire d'Ecologie Microbienne - UMR 5557 (LEM), Centre National de la Recherche Scientifique (CNRS)-Ecole Nationale Vétérinaire de Lyon (ENVL)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique (INRA)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS), Lawrence Berkeley National Laboratory [Berkeley] (LBNL), Ecologie Systématique et Evolution (ESE), Université Paris-Sud - Paris 11 (UP11)-AgroParisTech-Centre National de la Recherche Scientifique (CNRS), Technical University of Denmark [Lyngby] (DTU), Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Ecole Nationale Vétérinaire de Lyon (ENVL), Stanford University, and INRA, CNRS, EC2CO program, US Department of Energy, US NSF DEB-0092642/0145324, Packard Foundation, Morgan Family Foundation

Subjects
concentration elevee en co2, 0301 basic medicine, WATER TREATMENT PLANTS, Environmental change, Biodiversity, lcsh:QR1-502, bacterial functional trait, elevated CO2, nitrifier, nitrogen fertilisation, trait-based modeling, NITROSPIRA, [ SDV.MP.BAC ] Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, lcsh:Microbiology, bacterial functional traits, Soil functions, nitrifiers, SDG 15 - Life on Land, Original Research, 2. Zero hunger, Abiotic component, Ecology, Microbiology and Parasitology, 04 agricultural and veterinary sciences, Microbiologie et Parasitologie, Trait-based modelling, fertilisation azotée, GRASSLAND RESPONSES, bactérie nitrifiante, global change and microbial response, COMMUNITY STRUCTURE, AMMONIA-OXIDIZERS, Microbiology (medical), MICROBIOLOGY, Biogeochemical cycle, Environmental Science and Management, [ SDV.SA.SDS ] Life Sciences [q-bio]/Agricultural sciences/Soil study, [SDV.BID]Life Sciences [q-bio]/Biodiversity, [SDV.SA.SDS]Life Sciences [q-bio]/Agricultural sciences/Soil study, Biology, Microbiology, 03 medical and health sciences, bacterial community composition, Ecosystem, NITRIFYING BACTERIA, modélisation, NITROBACTER, [ SDV.BID ] Life Sciences [q-bio]/Biodiversity, [ SDE.BE ] Environmental Sciences/Biodiversity and Ecology, Biogeochemistry, Global change, 15. Life on land, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, 030104 developmental biology, 13. Climate action, Soil Sciences, 040103 agronomy & agriculture, 0401 agriculture, forestry, and fisheries, sense organs, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, MICROBIAL DIVERSITY, BIOGEOGRAPHY
Abstract

© 2016 Le Roux, Bouskill, Niboyet, Barthes, Dijkstra, Field, Hungate, Lerondelle, Pommier, Tang, Terada, Tourna and Poly. Soil microbial diversity is huge and a few grams of soil contain more bacterial taxa than there are bird species on Earth. This high diversity often makes predicting the responses of soil bacteria to environmental change intractable and restricts our capacity to predict the responses of soil functions to global change. Here, using a long-term field experiment in a California grassland, we studied the main and interactive effects of three global change factors (increased atmospheric CO2concentration, precipitation and nitrogen addition, and all their factorial combinations, based on global change scenarios for central California) on the potential activity, abundance and dominant taxa of soil nitrite-oxidizing bacteria (NOB). Using a trait-based model, we then tested whether categorizing NOB into a few functional groups unified by physiological traits enables understanding and predicting how soil NOB respond to global environmental change. Contrasted responses to global change treatments were observed between three main NOB functional types. In particular, putatively mixotrophic Nitrobacter, rare under most treatments, became dominant under the 'High CO2+Nitrogen+Precipitation' treatment. The mechanistic trait-based model, which simulated ecological niches of NOB types consistent with previous ecophysiological reports, helped predicting the observed effects of global change on NOB and elucidating the underlying biotic and abiotic controls. Our results are a starting point for representing the overwhelming diversity of soil bacteria by a few functional types that can be incorporated into models of terrestrial ecosystems and biogeochemical processes.

Published
2016

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