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Radouani F, Sanchez-Cid C, Silbande A, Laure A, Ruiz-Valencia A, Robert F, Vogel TM, Salvin P. Evolution and interaction of microbial communities in mangrove microbial fuel cells and first description of Shewanella fodinae as electroactive bacterium. Bioelectrochemistry 2023; 153:108460. [PMID: 37224603 DOI: 10.1016/j.bioelechem.2023.108460] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Revised: 04/26/2023] [Accepted: 05/04/2023] [Indexed: 05/26/2023]
Abstract
Understanding exoelectrogenic bacteria mechanisms and their interactions in complex biofilm is critical for the development of microbial fuel cells (MFCs). In this article, assumptions concerning the benefits of the complex sediment microbial community for electricity production were explored with both the complex microbial community and isolates identified as Shewanella. Analysis of the microbial community revealed a strong influence of the sediment community on anodes and electrolytes compared to that of only water. Moreover, while Pelobacteraceae-related genera were dominant in our MFCs instead of Desulfuromonas and Geobacter as usually reported, the electroactive Shewanella algae and Shewanella fodinae were isolated and cultivated from the anodic biofilm. S. fodinae, described for the first time as an electroactive bacterium to the best of our knowledge, led to a maximal current density of 3.6 A/m2 set as 0.3 V/SCE in a three-electrode set-up fed with lactate. S. algae, in a complex medium containing several available substrates, showed several preferential oxidative behaviors including a diauxic behavior. In pure culture and under our conditions, S. fodinae and S. algae were not able to use acetate as a sole electron donor. However, their presence in our acetate-fed MFCs and the adaptive behavior of S. algae hint a syntrophic interaction between the bacteria to optimize the use of the substrate in a complex environment.
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Affiliation(s)
- Fatima Radouani
- Laboratoire des Matériaux et Molécules en Milieu Agressif, UR4_1, UFR STE, Université des Antilles, Schoelcher, France
| | - Concepcion Sanchez-Cid
- Environmental Microbial Genomics, CNRS UMR 5005 Laboratoire Ampère, École Centrale de Lyon, Université de Lyon, Écully, France
| | - Adèle Silbande
- Laboratoire des Matériaux et Molécules en Milieu Agressif, UR4_1, UFR STE, Université des Antilles, Schoelcher, France
| | - Adeline Laure
- Laboratoire des Matériaux et Molécules en Milieu Agressif, UR4_1, UFR STE, Université des Antilles, Schoelcher, France
| | - Azariel Ruiz-Valencia
- Environmental Microbial Genomics, CNRS UMR 5005 Laboratoire Ampère, École Centrale de Lyon, Université de Lyon, Écully, France
| | - Florent Robert
- Laboratoire des Matériaux et Molécules en Milieu Agressif, UR4_1, UFR STE, Université des Antilles, Schoelcher, France
| | - Timothy M Vogel
- Université de Lyon, Université Claude Bernard Lyon 1, UMR 5557, UMR INRAe 1418, VetAgro Sup, Écologie Microbienne, équipe BEER, F-69622 Villeurbanne, France
| | - Paule Salvin
- Laboratoire des Matériaux et Molécules en Milieu Agressif, UR4_1, UFR STE, Université des Antilles, Schoelcher, France.
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Valdespino-Castillo PM, Bautista-García A, Favoretto F, Merino-Ibarra M, Alcántara-Hernández RJ, Pi-Puig T, Castillo FS, Espinosa-Matías S, Holman HY, Blanco-Jarvio A. Interplay of microbial communities with mineral environments in coralline algae. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 757:143877. [PMID: 33316514 DOI: 10.1016/j.scitotenv.2020.143877] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Revised: 11/12/2020] [Accepted: 11/12/2020] [Indexed: 06/12/2023]
Abstract
Coralline algae are worldwide carbonate builders, considered to be foundational species and biodiversity hotspots. Coralline habitats face increasing pressure from human activities and effects related to Global Change, yet their ecological properties and adaptive responses remain poorly understood. The relationships of the algal microbiota with the mineral bioconstructions, as well as plasticity and resilience of coralline holobionts in a changing environment, are of particular interest. In the Gulf of California, Neogoniolithon trichotomum (Rhodophyta) is the main carbonate builder in tidal pools. We performed a multi-disciplinary assessment of the N. trichotomum microstructure using XRD, SEM microscopy and SR-FTIR spectromicroscopy. In the algal perithallus, magnesium-calcite and aragonite were spatially segregated and embedded in a polysaccharide matrix (rich in sulfated polysaccharides). Mg-calcites (18-19 mol% Mg) were the main mineral components of the thallus overall, followed by iron carbonates related to dolomite (ankerite) and siderite. Minerals of late evaporitic sequences (sylvite and bischofite) were also present, suggesting potential halophilic microenvironments within the algal thalli. The diverse set of abundant halophilic, halotolerant and oligotrophic taxa, whose abundance increase in the summer, further suggests this condition. We created an integrated model, based on environmental parameters and the microbiota distribution, that identified temperature and nutrient availability (particularly nitrate and silicate) as the main parameters related to specific taxa patterns. Among these, Hahella, Granulossicoccus, Ferrimonas, Spongiibacteraceae and cyanobacterial Xenococcaceae and Nostocaceae change significantly between seasons. These bacterial components might play relevant roles in algal plasticity and adaptive responses to a changing environment. This study contributes to the understanding of the interplay of the prokaryotic microbiota with the mineral microenvironments of coralline algae. Because of their carbonates with potential resistance to dissolution in a higher pCO2 world and their seasonally dynamic bacteria, coralline algae are relevant targets to study coastal resilience and carbonated systems responses to changing environments.
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Affiliation(s)
- Patricia M Valdespino-Castillo
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States
| | - Andrea Bautista-García
- Laboratorio de Bioingeniería y Ciencias Ambientales (BICA), Departamento Académico de Ingeniería en Pesquerías, Universidad Autónoma de Baja California Sur, La Paz, BCS, Mexico
| | - Fabio Favoretto
- Laboratorio de Bioingeniería y Ciencias Ambientales (BICA), Departamento Académico de Ingeniería en Pesquerías, Universidad Autónoma de Baja California Sur, La Paz, BCS, Mexico; Gulf of California Marine Program, Scripps Institution of Oceanography, University of California San Diego, CA, United States
| | - Martín Merino-Ibarra
- Unidad Académica de Biodiversidad Acuática, Instituto de Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | | | - Teresa Pi-Puig
- Instituto de Geología, Universidad Nacional Autónoma de México, Mexico City, Mexico; Laboratorio Nacional de Geoquímica y Mineralogía (LANGEM), Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - F Sergio Castillo
- Unidad Académica de Biodiversidad Acuática, Instituto de Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - Silvia Espinosa-Matías
- Laboratorio de Microscopía Electrónica de Barrido, Facultad de Ciencias, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - Hoi-Ying Holman
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, United States
| | - Anidia Blanco-Jarvio
- Laboratorio de Bioingeniería y Ciencias Ambientales (BICA), Departamento Académico de Ingeniería en Pesquerías, Universidad Autónoma de Baja California Sur, La Paz, BCS, Mexico.
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Araujo FJ, Hissa DC, Silva GO, Antunes ASLM, Nogueira VLR, Gonçalves LRB, Melo VMM. A novel bacterial carboxylesterase identified in a metagenome derived-clone from Brazilian mangrove sediments. Mol Biol Rep 2020; 47:3919-3928. [DOI: 10.1007/s11033-020-05484-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2020] [Accepted: 04/30/2020] [Indexed: 10/24/2022]
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Microbial embryonal colonization during pipefish male pregnancy. Sci Rep 2019; 9:3. [PMID: 30626884 PMCID: PMC6327025 DOI: 10.1038/s41598-018-37026-3] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2018] [Accepted: 11/08/2018] [Indexed: 02/06/2023] Open
Abstract
While originally acquired from the environment, a fraction of the microbiota is transferred from parents to offspring. The immune system shapes the microbial colonization, while commensal microbes may boost host immune defences. Parental transfer of microbes in viviparous animals remains ambiguous, as the two transfer routes (transovarial vs. pregnancy) are intermingled within the maternal body. Pipefishes and seahorses (syngnathids) are ideally suited to disentangle transovarial microbial transfer from a contribution during pregnancy due to their maternal egg production and their unique male pregnancy. We assessed the persistency and the changes in the microbial communities of the maternal and paternal reproductive tracts over proceeding male pregnancy by sequencing microbial 16S rRNA genes of swabs from maternal gonads and brood pouches of non-pregnant and pregnant fathers. Applying parental immunological activation with heat-killed bacteria, we evaluated the impact of parental immunological status on microbial development. Our data indicate that maternal gonads and paternal brood pouches harbor distinct microbial communities, which could affect embryonal development in a sex-specific manner. Upon activation of the immune system, a shift of the microbial community was observed. The activation of the immune system induced the expansion of microbiota richness during late pregnancy, which corresponds to the time point of larval mouth opening, when initial microbial colonization must take place.
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Zhou YX, Wang C, Du ZJ, Chen GJ. Aquimarina agarivorans sp. nov., a genome-sequenced member of the class Flavobacteriia isolated from Gelidium amansii. Int J Syst Evol Microbiol 2015; 65:2684-2688. [DOI: 10.1099/ijs.0.000323] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel Gram-stain-negative, facultatively anaerobic, rod-shaped, agar-digesting bacterial strain, designated HQM9T, was isolated from the surface of the marine red alga Gelidium amansii collected from the intertidal zone of Weihai, China. Cells of HQM9T were 3.0–4.0 μm long and 0.2–0.3 μm wide and lacked flagella. The new isolate grew optimally at 28–30 °C, at pH 7.0–7.5, and in the presence of 2.5–3.0 % NaCl. The predominant cellular fatty acids were iso-C15 : 0 and iso-C17 : 0 3-OH. The sole menaquinone was MK-6. The DNA G+C content was 33 mol%. The major polar lipids were comprised of phosphatidylethanolamine and four unknown polar lipids. Based on the 16S rRNA gene sequence, the closest relative was Aquimarina agarilytica ZC1T with 97.16 % sequence similarity, with which strain HQM9T formed a distinct cluster belonging to the genus Aquimarina in a phylogenetic tree. Moreover, average nucleotide identity and estimated DNA–DNA hybridization values between strains HQM9T and ZC1T were 78.7 % and 12.50 ± 2.95 %, respectively. On the basis of phenotypic, chemotaxonomic and phylogenetic analysis, strain HQM9T represents the type strain of a novel species within the genus Aquimarina in the family Flavobacteriaceae, phylum Bacteroidetes, for which the name Aquimarina agarivorans sp. nov. is proposed. The type strain is HQM9T ( = ATCC BAA-2612T = CICC 10835T).
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Affiliation(s)
- Yan-Xia Zhou
- College of Marine Science, Shandong University at Weihai, Weihai 264209, PR China
| | - Chao Wang
- College of Marine Science, Shandong University at Weihai, Weihai 264209, PR China
| | - Zong-Jun Du
- College of Marine Science, Shandong University at Weihai, Weihai 264209, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
| | - Guan-Jun Chen
- College of Marine Science, Shandong University at Weihai, Weihai 264209, PR China
- State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, PR China
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Spring S, Scheuner C, Göker M, Klenk HP. A taxonomic framework for emerging groups of ecologically important marine gammaproteobacteria based on the reconstruction of evolutionary relationships using genome-scale data. Front Microbiol 2015; 6:281. [PMID: 25914684 PMCID: PMC4391266 DOI: 10.3389/fmicb.2015.00281] [Citation(s) in RCA: 85] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2015] [Accepted: 03/21/2015] [Indexed: 11/13/2022] Open
Abstract
In recent years a large number of isolates were obtained from saline environments that are phylogenetically related to distinct clades of oligotrophic marine gammaproteobacteria, which were originally identified in seawater samples using cultivation independent methods and are characterized by high seasonal abundances in coastal environments. To date a sound taxonomic framework for the classification of these ecologically important isolates and related species in accordance with their evolutionary relationships is missing. In this study we demonstrate that a reliable allocation of members of the oligotrophic marine gammaproteobacteria (OMG) group and related species to higher taxonomic ranks is possible by phylogenetic analyses of whole proteomes but also of the RNA polymerase beta subunit, whereas phylogenetic reconstructions based on 16S rRNA genes alone resulted in unstable tree topologies with only insignificant bootstrap support. The identified clades could be correlated with distinct phenotypic traits illustrating an adaptation to common environmental factors in their evolutionary history. Genome wide gene-content analyses revealed the existence of two distinct ecological guilds within the analyzed lineage of marine gammaproteobacteria which can be distinguished by their trophic strategies. Based on our results a novel order within the class Gammaproteobacteria is proposed, which is designated Cellvibrionales ord. nov. and comprises the five novel families Cellvibrionaceae fam. nov., Halieaceae fam. nov., Microbulbiferaceae fam. nov., Porticoccaceae fam. nov., and Spongiibacteraceae fam. nov.
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Affiliation(s)
- Stefan Spring
- Department Microorganisms, Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures Braunschweig, Germany
| | - Carmen Scheuner
- Department Microorganisms, Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures Braunschweig, Germany
| | - Markus Göker
- Department Microorganisms, Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures Braunschweig, Germany
| | - Hans-Peter Klenk
- Department Microorganisms, Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures Braunschweig, Germany ; School of Biology, Newcastle University Newcastle upon Tyne, UK
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Gutierrez T, Nichols PD, Whitman WB, Aitken MD. Porticoccus hydrocarbonoclasticus sp. nov., an aromatic hydrocarbon-degrading bacterium identified in laboratory cultures of marine phytoplankton. Appl Environ Microbiol 2012; 78:628-37. [PMID: 22139001 PMCID: PMC3264135 DOI: 10.1128/aem.06398-11] [Citation(s) in RCA: 63] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2011] [Accepted: 11/11/2011] [Indexed: 11/20/2022] Open
Abstract
A marine bacterium, designated strain MCTG13d, was isolated from a laboratory culture of the dinoflagellate Lingulodinium polyedrum CCAP1121/2 by enrichment with polycyclic aromatic hydrocarbons (PAHs) as the sole carbon source. Based on 16S rRNA gene sequence comparisons, the strain was most closely related to Porticoccus litoralis IMCC2115(T) (96.5%) and to members of the genera Microbulbifer (91.4 to 93.7%) and Marinimicrobium (90.4 to 92.0%). Phylogenetic trees showed that the strain clustered in a distinct phyletic line in the class Gammaproteobacteria for which P. litoralis is presently the sole cultured representative. The strain was strictly aerobic, rod shaped, Gram negative, and halophilic. Notably, it was able to utilize hydrocarbons as sole sources of carbon and energy, whereas sugars did not serve as growth substrates. The predominant isoprenoid quinone of strain MCTG13d was Q-8, and the dominant fatty acids were C(16:1ω7c), C(18:1ω7c), and C(16:0). DNA G+C content for the isolate was 54.9 ± 0.42 mol%. Quantitative PCR primers targeting the 16S rRNA gene of this strain showed that this organism was common in other laboratory cultures of marine phytoplankton. On the basis of phenotypic and genotypic characteristics, strain MCTG13d represents a novel species of Porticoccus, for which the name Porticoccus hydrocarbonoclasticus sp. nov. is proposed. The discovery of this highly specialized hydrocarbon-degrading bacterium living in association with marine phytoplankton suggests that phytoplankton represent a previously unrecognized biotope of novel bacterial taxa that degrade hydrocarbons in the ocean.
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Affiliation(s)
- Tony Gutierrez
- Department of Environmental Sciences and Engineering, Gillings School of Global Public Health, University of North Carolina, Chapel Hill, North Carolina, USA.
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Genome sequence of the oligotrophic marine Gammaproteobacterium HTCC2143, isolated from the Oregon Coast. J Bacteriol 2010; 192:4530-1. [PMID: 20601481 DOI: 10.1128/jb.00683-10] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Strain HTCC2143 was isolated from Oregon Coast surface waters using dilution-to-extinction culturing. Here we present the genome of strain HTCC2143 from the BD1-7 clade of the oligotrophic marine Gammaproteobacteria group. The genome of HTCC2143 contains genes for carotenoid biosynthesis and proteorhodopsin and for proteins that have potential biotechnological significance: epoxide hydrolases, Baeyer-Villiger monooxygenases, and polyketide synthases.
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