1
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Chang BZ, Zhang S, Chen DZ, Gao KT, Yang GF. Performance, kinetic characteristics and bacterial community of short-cut nitrification and denitrification system at different ferrous ion conditions. Biodegradation 2024; 35:621-639. [PMID: 38619793 DOI: 10.1007/s10532-024-10080-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Accepted: 03/06/2024] [Indexed: 04/16/2024]
Abstract
In order to explore the operation performance, kinetic characteristics and bacterial community of the short-cut nitrification and denitrification (SND) system, the SND system with pre-cultured short cut nitrification and denitrification sludge was established and operated under different ferrous ion (Fe (II)) conditions. Experimental results showed that the average NH4+-N removal efficiency (ARE) of SND system was 97.3% on Day 5 and maintained a high level of 94.9% ± 1.3% for a long operation period. When the influent Fe(II) concentration increased from 2.3 to 7.3 mg L-1, the sedimentation performance, sludge concentration and organic matter removal performance were improved. However, higher Fe(II) of 12.3 mg L-1 decreased the removal of nitrogen and CODCr with the relative abundance (RA) of Proteobacteria and Bacteroidetes decreased to 30.28% and 19.41%, respectively. Proteobacteria, Bacteroidetes and Firmicutes were the dominant phyla in SND system. Higher Fe(II) level of 12.3 mg L-1 increase the RA of denitrifying genus Trichococcus (33.93%), and the denitrifying genus Thauera and Tolumonas dominant at Fe(II) level of no more than 7.3 mg L-1.
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Affiliation(s)
- Ben-Ze Chang
- Department of Environmental Science and Engineering, Zhejiang Ocean University, No.1 Haida South Road, Zhoushan, 316022, People's Republic of China
| | - Shuai Zhang
- Department of Environmental Science and Engineering, Zhejiang Ocean University, No.1 Haida South Road, Zhoushan, 316022, People's Republic of China
| | - Dong-Zhi Chen
- Department of Environmental Science and Engineering, Zhejiang Ocean University, No.1 Haida South Road, Zhoushan, 316022, People's Republic of China
- Zhejiang Provincial Key Laboratory of Petrochemical Environmental Pollution Control, Zhoushan, 316022, People's Republic of China
| | - Kai-Tuo Gao
- Department of Environmental Science and Engineering, Zhejiang Ocean University, No.1 Haida South Road, Zhoushan, 316022, People's Republic of China
- Focused Photonics Limited Company, Hangzhou, No.760, Bin'an Road, Binjiang District, Hangzhou, 310052, People's Republic of China
| | - Guang-Feng Yang
- Department of Environmental Science and Engineering, Zhejiang Ocean University, No.1 Haida South Road, Zhoushan, 316022, People's Republic of China.
- Zhejiang Provincial Key Laboratory of Petrochemical Environmental Pollution Control, Zhoushan, 316022, People's Republic of China.
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2
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Cadena S, Cerqueda-García D, Uribe-Flores MM, Ramírez SI. Metagenomic profiling of halites from the Atacama Desert: an extreme environment with natural perchlorate does not promote high diversity of perchlorate reducing microorganisms. Extremophiles 2024; 28:25. [PMID: 38664270 DOI: 10.1007/s00792-024-01342-6] [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: 08/17/2023] [Accepted: 04/12/2024] [Indexed: 07/17/2024]
Abstract
We surveyed the presence of perchlorate-reducing microorganisms in available metagenomic data of halite environments from the Atacama Desert, an extreme environment characterized by high perchlorate concentrations, intense ultraviolet radiation, saline and oxidizing soils, and severe desiccation. While the presence of perchlorate might suggest a broad community of perchlorate reducers or a high abundance of a dominant taxa, our search reveals a scarce presence. In fact, we identified only one halophilic species, Salinibacter sp003022435, carrying the pcrA and pcrC genes, represented in low abundance. Moreover, we also discovered some napA genes and organisms carrying the nitrate reductase nasB gene, which hints at the possibility of cryptic perchlorate reduction occurring in these ecosystems. Our findings contribute with the knowledge of perchlorate reduction metabolism potentially occurring in halites from Atacama Desert and point towards promising future research into the perchlorate-reducing mechanism in Salinibacter, a common halophilic bacterium found in hypersaline ecosystems, whose metabolic potential remains largely unknown.
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Affiliation(s)
- Santiago Cadena
- Centro de Investigaciones Químicas, Universidad Autónoma del Estado de Morelos, Av. Universidad #1001 Col. Chamilpa, C. P. 62209, Cuernavaca, Morelos, Mexico
| | - Daniel Cerqueda-García
- Red de Manejo Biorracional de Plagas y Vectores, Clúster Científico y Tecnológico Biomimic®, Instituto de Ecología, A.C., Carretera Antigua a Coatepec #351, Col. El Haya, C. P. 91073, Xalapa, Veracruz, Mexico
| | - María Magdalena Uribe-Flores
- Centro de Investigaciones Químicas, Universidad Autónoma del Estado de Morelos, Av. Universidad #1001 Col. Chamilpa, C. P. 62209, Cuernavaca, Morelos, Mexico
| | - Sandra I Ramírez
- Centro de Investigaciones Químicas, Universidad Autónoma del Estado de Morelos, Av. Universidad #1001 Col. Chamilpa, C. P. 62209, Cuernavaca, Morelos, Mexico.
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3
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Runzheimer K, Lozano C, Boy D, Boy J, Godoy R, Matus FJ, Engel D, Pavletic B, Leuko S, Armengaud J, Moeller R. Exploring Andean High-Altitude Lake Extremophiles through Advanced Proteotyping. J Proteome Res 2024; 23:891-904. [PMID: 38377575 PMCID: PMC10913102 DOI: 10.1021/acs.jproteome.3c00538] [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: 08/25/2023] [Revised: 01/05/2024] [Accepted: 01/11/2024] [Indexed: 02/22/2024]
Abstract
Quickly identifying and characterizing isolates from extreme environments is currently challenging while very important to explore the Earth's biodiversity. As these isolates may, in principle, be distantly related to known species, techniques are needed to reliably identify the branch of life to which they belong. Proteotyping these environmental isolates by tandem mass spectrometry offers a rapid and cost-effective option for their identification using their peptide profiles. In this study, we document the first high-throughput proteotyping approach for environmental extremophilic and halophilic isolates. Microorganisms were isolated from samples originating from high-altitude Andean lakes (3700-4300 m a.s.l.) in the Chilean Altiplano, which represent environments on Earth that resemble conditions on other planets. A total of 66 microorganisms were cultivated and identified by proteotyping and 16S rRNA gene amplicon sequencing. Both the approaches revealed the same genus identification for all isolates except for three isolates possibly representing not yet taxonomically characterized organisms based on their peptidomes. Proteotyping was able to indicate the presence of two potentially new genera from the families of Paracoccaceae and Chromatiaceae/Alteromonadaceae, which have been overlooked by 16S rRNA amplicon sequencing approach only. The paper highlights that proteotyping has the potential to discover undescribed microorganisms from extreme environments.
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Affiliation(s)
- Katharina Runzheimer
- Department
of Radiation Biology, Institute of Aerospace
Medicine, German Aerospace Center (DLR), 51147 Cologne, Germany
| | - Clément Lozano
- Département
Médicaments et Technologies pour la Santé (DMTS), CEA,
INRAE, SPI, Université, Paris-Saclay, F-30200 Bagnols-sur-Cèze, France
| | - Diana Boy
- Institute
of Microbiology, Leibniz University Hannover, 30419 Hannover, Germany
| | - Jens Boy
- Institute
of Soil Science, Leibniz University Hannover, 30419 Hannover, Germany
| | - Roberto Godoy
- Instituto
de Ciencias Ambientales y Evolutivas, Universidad
Austral de Chile, 509000 Valdivia, Chile
| | - Francisco J. Matus
- Laboratory
of Conservation and Dynamics of Volcanic Soils, Department of Chemical
Sciences and Natural Resources, Universidad
de La Frontera, 4811230 Temuco, Chile
- Network
for Extreme Environmental Research (NEXER), Universidad de La Frontera, 4811230 Temuco, Chile
| | - Denise Engel
- Department
of Radiation Biology, Institute of Aerospace
Medicine, German Aerospace Center (DLR), 51147 Cologne, Germany
| | - Bruno Pavletic
- Department
of Radiation Biology, Institute of Aerospace
Medicine, German Aerospace Center (DLR), 51147 Cologne, Germany
| | - Stefan Leuko
- Department
of Radiation Biology, Institute of Aerospace
Medicine, German Aerospace Center (DLR), 51147 Cologne, Germany
| | - Jean Armengaud
- Département
Médicaments et Technologies pour la Santé (DMTS), CEA,
INRAE, SPI, Université, Paris-Saclay, F-30200 Bagnols-sur-Cèze, France
| | - Ralf Moeller
- Department
of Radiation Biology, Institute of Aerospace
Medicine, German Aerospace Center (DLR), 51147 Cologne, Germany
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4
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Li J, Zhang F, Ma B, Kong D, Hu Y, Chen G, Ruan Y. Characterization of simultaneous ammonium and nitrate removal and microbial communities in airlift reactor using 3-hydroxybutyrate-co-3-hydroxyvalerate (PHBV) as carbon source and biofilm carrier. BIORESOURCE TECHNOLOGY 2024; 393:130049. [PMID: 37995872 DOI: 10.1016/j.biortech.2023.130049] [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: 08/10/2023] [Revised: 11/07/2023] [Accepted: 11/15/2023] [Indexed: 11/25/2023]
Abstract
As a novel trend, solid carbon sources are applied to act as electron donors and biofilm carrier in biological denitrification process. In this study, simultaneous nitrate and ammonium removal process in an airlift sequencing batch reactor using 3-hydroxybutyrate-co-3-hydroxyvalerate (PHBV) as carbon source and biofilm carrier under intermittent aeration conditions was established to treat effluent of synthetic marine recirculating aquaculture system. The results showed that maximum nitrate and ammonia nitrogen removal rates of 0.45 and 0.09 kg m-3 d-1 were achieved. No significant nitrite accumulation was found during 200-day operation, while effluent dissolved organic carbon accumulation and particle size reduction significantly increased. Microbial community analysis and batch tests illuminate that the generated sludge and attached biofilm played important roles in nitrogen removal. This study demonstrates the potential mechanism for the nitrogen removal process mediated by 3-hydroxybutyrate-co-3-hydroxyvalerate and provide a new idea for the alternative solutions of solid carbon sources.
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Affiliation(s)
- Junchi Li
- Institute of Agricultural Bio-Environmental Engineering, College of Bio-Systems Engineering and Food Science, Zhejiang University, Hangzhou 310058, China; The Rural Development Academy, Zhejiang University, Hangzhou 310058, China
| | - Fan Zhang
- ZJU-Hangzhou Global Scientific and Technological Innovation Center, Zhejiang University, Hangzhou 310058, China
| | - Bin Ma
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Dedong Kong
- Institute of Digital Agriculture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China
| | - Yiming Hu
- Institute of Agricultural Bio-Environmental Engineering, College of Bio-Systems Engineering and Food Science, Zhejiang University, Hangzhou 310058, China; The Rural Development Academy, Zhejiang University, Hangzhou 310058, China
| | - Guangsuo Chen
- The Rural Development Academy, Zhejiang University, Hangzhou 310058, China
| | - Yunjie Ruan
- Institute of Agricultural Bio-Environmental Engineering, College of Bio-Systems Engineering and Food Science, Zhejiang University, Hangzhou 310058, China; The Rural Development Academy, Zhejiang University, Hangzhou 310058, China.
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5
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Veloso M, Waldisperg A, Arros P, Berríos-Pastén C, Acosta J, Colque H, Varas MA, Allende ML, Orellana LH, Marcoleta AE. Diversity, Taxonomic Novelty, and Encoded Functions of Salar de Ascotán Microbiota, as Revealed by Metagenome-Assembled Genomes. Microorganisms 2023; 11:2819. [PMID: 38004830 PMCID: PMC10673233 DOI: 10.3390/microorganisms11112819] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2023] [Revised: 11/12/2023] [Accepted: 11/15/2023] [Indexed: 11/26/2023] Open
Abstract
Salar de Ascotán is a high-altitude arsenic-rich salt flat exposed to high ultraviolet radiation in the Atacama Desert, Chile. It hosts unique endemic flora and fauna and is an essential habitat for migratory birds, making it an important site for conservation and protection. However, there is limited information on the resident microbiota's diversity, genomic features, metabolic potential, and molecular mechanisms that enable it to thrive in this extreme environment. We used long- and short-read metagenomics to investigate the microbial communities in Ascotán's water, sediment, and soil. Bacteria predominated, mainly Pseudomonadota, Acidobacteriota, and Bacteroidota, with a remarkable diversity of archaea in the soil. Following hybrid assembly, we recovered high-quality bacterial (101) and archaeal (6) metagenome-assembled genomes (MAGs), including representatives of two putative novel families of Patescibacteria and Pseudomonadota and two novel orders from the archaeal classes Halobacteriota and Thermoplasmata. We found different metabolic capabilities across distinct lineages and a widespread presence of genes related to stress response, DNA repair, and resistance to arsenic and other metals. These results highlight the remarkable diversity and taxonomic novelty of the Salar de Ascotán microbiota and its rich functional repertoire, making it able to resist different harsh conditions. The highly complete MAGs described here could serve future studies and bioprospection efforts focused on salt flat extremophiles, and contribute to enriching databases with microbial genome data from underrepresented regions of our planet.
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Affiliation(s)
- Marcelo Veloso
- Grupo de Microbiología Integrativa, Laboratorio de Biología Estructural y Molecular BEM, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile; (M.V.); (A.W.); (P.A.); (C.B.-P.); (J.A.); (H.C.); (M.A.V.)
| | - Angie Waldisperg
- Grupo de Microbiología Integrativa, Laboratorio de Biología Estructural y Molecular BEM, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile; (M.V.); (A.W.); (P.A.); (C.B.-P.); (J.A.); (H.C.); (M.A.V.)
| | - Patricio Arros
- Grupo de Microbiología Integrativa, Laboratorio de Biología Estructural y Molecular BEM, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile; (M.V.); (A.W.); (P.A.); (C.B.-P.); (J.A.); (H.C.); (M.A.V.)
| | - Camilo Berríos-Pastén
- Grupo de Microbiología Integrativa, Laboratorio de Biología Estructural y Molecular BEM, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile; (M.V.); (A.W.); (P.A.); (C.B.-P.); (J.A.); (H.C.); (M.A.V.)
| | - Joaquín Acosta
- Grupo de Microbiología Integrativa, Laboratorio de Biología Estructural y Molecular BEM, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile; (M.V.); (A.W.); (P.A.); (C.B.-P.); (J.A.); (H.C.); (M.A.V.)
| | - Hazajem Colque
- Grupo de Microbiología Integrativa, Laboratorio de Biología Estructural y Molecular BEM, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile; (M.V.); (A.W.); (P.A.); (C.B.-P.); (J.A.); (H.C.); (M.A.V.)
| | - Macarena A. Varas
- Grupo de Microbiología Integrativa, Laboratorio de Biología Estructural y Molecular BEM, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile; (M.V.); (A.W.); (P.A.); (C.B.-P.); (J.A.); (H.C.); (M.A.V.)
- Millenium Institute Center for Genome Regulation, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile;
| | - Miguel L. Allende
- Millenium Institute Center for Genome Regulation, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile;
| | - Luis H. Orellana
- Department of Molecular Ecology, Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359 Bremen, Germany;
| | - Andrés E. Marcoleta
- Grupo de Microbiología Integrativa, Laboratorio de Biología Estructural y Molecular BEM, Faculty of Science, Universidad de Chile, Las Palmeras 3425, Ñuñoa, Santiago 7800003, Chile; (M.V.); (A.W.); (P.A.); (C.B.-P.); (J.A.); (H.C.); (M.A.V.)
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6
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Wang K, Zhang H, Shen Y, Li J, Zhou W, Song H, Liu M, Wang H. Impact of salinity on anaerobic ceramic membrane bioreactor for textile wastewater treatment: Process performance, membrane fouling and machine learning models. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 345:118717. [PMID: 37536141 DOI: 10.1016/j.jenvman.2023.118717] [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: 02/17/2023] [Revised: 06/25/2023] [Accepted: 07/26/2023] [Indexed: 08/05/2023]
Abstract
Anaerobic membrane bioreactor (AnMBR) shows great potential for textile wastewater treatment, but high salinity in the influent may undermine its performance. This study evaluated the impact of salinity on the treatment performance of an upflow anaerobic sludge blanket (UASB) configured AnMBR using a flat sheet ceramic membrane. The salinity was stepwise increased (0, 5, 10 and 20 g/L) in four phases of the AnMBR operation. Results indicated that increased salinity jeopardized the COD removal efficiency of AnMBR from 92% to 73%, but had a marginal effect on dye removal efficacy (90-96%). Low salinity (5 g/L) boosted the biogas production whilst high salinity (>10 g/L) had a negative impact. Additionally, the increase of salinity resulted in the soluble microbial production (SMP) concentration soar and membrane fouling rate increase, peaking at a salinity of 10 g/L (Phase III) and recovering back to a lower level at a salinity of 20 g/L (Phase IV). This indicated a transition occurrence at a salinity of 10 g/L (Phase III). The microbial diversity analyses further suggested a transition from salinity-sensitive microbes (Aminiphilus, Caldatribacterium, Mesotoga, Methanobrevibacter, Methanobacterium, Methanosaeta) to salinity-tolerant microbes (Longilinea, Ignavibacterium, Rhodovarius, Bosea and Flexilinea). This transition can be associated with the increase SMP concentration and more severe membrane fouling in Phase III, which were mitigated after a new equilibrium was reached when the microbial consortium acclimatized to the high salinity. Finally, a machine learning model of the Adaboost algorithm was established to predict COD removal under different salinities. Importantly, this study revealed that AnMBR process performance and membrane operation can be maintained for high salinity textile wastewater treatment with a halophilic microbial community growth under high-salinity selection pressure.
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Affiliation(s)
- Kanming Wang
- College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China; College of Architecture and Environment, Sichuan University, Chengdu, 610000, China; Shaoxing Research Institute, Zhejiang University of Technology, Shaoxing, 312000, Zhejiang, China
| | - Haoliang Zhang
- College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China
| | - Yuxiang Shen
- College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China
| | - Jiale Li
- College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China
| | - Wu Zhou
- College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China
| | - Hualong Song
- Shaoxing Water Treatment Development Co., Ltd, Shaoxing, 312074, Zhejiang, China
| | - Min Liu
- College of Architecture and Environment, Sichuan University, Chengdu, 610000, China
| | - Hongyu Wang
- College of Environment, Zhejiang University of Technology, Hangzhou, 310014, China.
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7
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Wang Y, Sun Z, Qiang Z. Start-up of solid-phase denitrification process for treatment of nitrate-rich water in recirculating mariculture system: Carbon source selection and nitrate removal mechanism. CHEMOSPHERE 2023; 338:139568. [PMID: 37479001 DOI: 10.1016/j.chemosphere.2023.139568] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Revised: 06/24/2023] [Accepted: 07/17/2023] [Indexed: 07/23/2023]
Abstract
Efficient nitrate removal from recirculating mariculture system (RMS) water is of significance since high concentration of nitrate would cause chronic health effects on aquatic organisms and eutrophication. Solid-phase denitrification (SPD) is a safer and more sustainable approach than conventional heterotrophic denitrification by dosing liquid carbon sources. Thus, its application for treating nitrate-rich RMS water was investigated in this study. Poly 3-hydroxybutyrate-co-3-hydroxyvalerate (PHBV) was identified with the best nitrate removal among four kinds of carbon sources. PHBV-filled reactors started with mariculture, municipal and mixing sludges (at the ratio of 1:1) and fed with 200 mg L-1 nitrate-rich RMS water all achieved over 81% nitrate removals with a HRT of 4 days. The dissolved organic carbon concentrations of the reactors were in the range of 3-9 mg L-1. Arcobacter, Halomonas, and Psedomonas were dominant genera responsible for nitrate removal in different reactors. Metagenomic analyses indicate that both denitrification and assimilatory nitrate reduction (ANR) are the main contributors to nitrate removals. Metagenomic results illustrated nirB/D cooperated with nasA may perform ANR pathway, which transformed nitrate to ammonia for biosynthesis. These results indicate that SPD could be a safer alternative for treating nitrate-rich RMS water, and provide new insights into nitrogen metabolism pathways in SPD process.
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Affiliation(s)
- Yinghan Wang
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Zhe Sun
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China.
| | - Zhimin Qiang
- State Key Laboratory of Environmental Aquatic Chemistry, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China; University of Chinese Academy of Sciences, Beijing, 100049, China
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8
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Pardo-Esté C, Leiva SG, Remonsellez F, Castro-Nallar E, Castro-Severyn J, Saavedra CP. Exploring the Influence of Small-Scale Geographical and Seasonal Variations Over the Microbial Diversity in a Poly-extreme Athalosaline Wetland. Curr Microbiol 2023; 80:297. [PMID: 37490160 PMCID: PMC10368551 DOI: 10.1007/s00284-023-03395-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2023] [Accepted: 06/26/2023] [Indexed: 07/26/2023]
Abstract
Microorganisms are the most diverse life form on the planet and are critical for maintaining the geochemical cycles, especially in extreme environments. Bacterial communities are dynamic and respond directly to changes in abiotic conditions; among these communities, poly-extremophiles are particularly sensitive to perturbations due to their high specialization. Salar de Huasco is a high-altitude wetland located on the Chilean Altiplano exhibiting several conditions considered extreme for life, including negative water balance, extreme variations in temperature and pH values, high UV radiation, and the presence of various toxic metal(oids). However, previous reports have revealed a diverse bacterial community that has adapted to these conditions, here, we aimed to determine whether microbial community diversity and composition changed in response to geographical and seasonal variations. We found that there are significant differences in diversity, abundance, and composition in bacterial taxa that could be attributed to local geographical and seasonal variations, which in turn, can be associated with microbial traits. In conclusion, in this poly-extreme environment, small-scale changes can trigger significant changes in the microbial communities that maintain basic biogeochemical cycles. Further in depth analysis of microbial functionality and geo-ecological dynamics are necessary to better understand the relationships between seasonal changes and bacterial communities.
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Affiliation(s)
- Coral Pardo-Esté
- Laboratorio de Microbiología Molecular, Facultad de Ciencias de la Vida, Universidad Andres Bello, Santiago, Chile
- Departamento de Ciencias Farmacéuticas, Facultad de Ciencias, Universidad Católica del Norte, Antofagasta, Chile
| | - Sergio Guajardo Leiva
- Departamento de Microbiología, Facultad de Ciencias de la Salud, Universidad de Talca, Campus Talca, Avda. Lircay s/n, Talca, Chile
- Centro de Ecología Integrativa, Universidad de Talca, Campus Talca, Avda. Lircay s/n, Talca, Chile
| | - Francisco Remonsellez
- Laboratorio de Microbiología Aplicada y Extremófilos, Departamento de Ingeniería Química, Universidad Católica del Norte, Antofagasta, Chile
- Centro de Investigación Tecnológica del Agua en el Desierto-CEITSAZA, Universidad Católica del Norte, Antofagasta, Chile
| | - Eduardo Castro-Nallar
- Departamento de Microbiología, Facultad de Ciencias de la Salud, Universidad de Talca, Campus Talca, Avda. Lircay s/n, Talca, Chile
- Centro de Ecología Integrativa, Universidad de Talca, Campus Talca, Avda. Lircay s/n, Talca, Chile
| | - Juan Castro-Severyn
- Laboratorio de Microbiología Aplicada y Extremófilos, Departamento de Ingeniería Química, Universidad Católica del Norte, Antofagasta, Chile.
| | - Claudia P Saavedra
- Laboratorio de Microbiología Molecular, Facultad de Ciencias de la Vida, Universidad Andres Bello, Santiago, Chile.
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9
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Li X, Liu Q, Yu X, Zhang C, Liu M, Zhou X, Gu C, Wang M, Shao H, Li J, Jiang Y. Spatial pattern and co-occurrence network of microbial community in response to extreme environment of salt lakes on the Qinghai-Tibet Plateau. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:20615-20630. [PMID: 36255574 DOI: 10.1007/s11356-022-23572-x] [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: 01/19/2022] [Accepted: 10/07/2022] [Indexed: 06/16/2023]
Abstract
Microbial communities are important components of alpine lakes, especially in extreme environments such as salt lakes. However, few studies have examined the co-occurrence network of microbial communities and various environmental factors in the water of salt lakes on the Qinghai-Tibet Plateau. From May to June 2019, nine samples from seven salt lakes with water salinity ranges from 13 to 267‰ on the Qinghai-Tibet Plateau were collected. There were great differences between low-salinity samples and high-salinity samples in the inorganic salt ion concentration, pH, and biodiversity. In addition, the microbial community sturcture in low-salinity samples and high-salinity samples differed, suggesting that each sample has its own specific species. The co-occurrence network suggests that salinity was the most important forcing factor. We believe that salinity and inorganic salt ions can result in differences in microbial community in different salt lakes. This sequencing survey of multiple salt lakes with various salinities on the Qinghai-Tibet Plateau enhances our understanding of the response of microbial communities to environmental heterogeneity.
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Affiliation(s)
- Xianrong Li
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
| | - Qian Liu
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
- Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education, Ocean University of China, Qingdao, 266100, China
| | - Xiaowen Yu
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
| | - Chenru Zhang
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
| | - Mingjian Liu
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
| | - Xinhao Zhou
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
| | - Chengxiang Gu
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
| | - Min Wang
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
- Frontiers Science Center for Deep Ocean Multispheres and Earth System, Ocean University of China, Qingdao, 2661000, China
| | - Hongbing Shao
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China
| | - Jiansen Li
- Qinghai Institute of Salt Lakes, Chinese Academy of Sciences, Xining, 810008, China
| | - Yong Jiang
- College of Marine Life Sciences & Institute of Evolution and Marine Biodiversity, Ocean University of China, Qingdao, 266003, China.
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10
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Bourhane Z, Cagnon C, Castañeda C, Rodríguez-Ochoa R, Álvaro-Fuentes J, Cravo-Laureau C, Duran R. Vertical organization of microbial communities in Salineta hypersaline wetland, Spain. Front Microbiol 2023; 14:869907. [PMID: 36778872 PMCID: PMC9911865 DOI: 10.3389/fmicb.2023.869907] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2022] [Accepted: 01/03/2023] [Indexed: 01/28/2023] Open
Abstract
Microbial communities inhabiting hypersaline wetlands, well adapted to the environmental fluctuations due to flooding and desiccation events, play a key role in the biogeochemical cycles, ensuring ecosystem service. To better understand the ecosystem functioning, we studied soil microbial communities of Salineta wetland (NE Spain) in dry and wet seasons in three different landscape stations representing situations characteristic of ephemeral saline lakes: S1 soil usually submerged, S2 soil intermittently flooded, and S3 soil with halophytes. Microbial community composition was determined according to different redox layers by 16S rRNA gene barcoding. We observed reversed redox gradient, negative at the surface and positive in depth, which was identified by PERMANOVA as the main factor explaining microbial distribution. The Pseudomonadota, Gemmatimonadota, Bacteroidota, Desulfobacterota, and Halobacteriota phyla were dominant in all stations. Linear discriminant analysis effect size (LEfSe) revealed that the upper soil surface layer was characterized by the predominance of operational taxonomic units (OTUs) affiliated to strictly or facultative anaerobic halophilic bacteria and archaea while the subsurface soil layer was dominated by an OTU affiliated to Roseibaca, an aerobic alkali-tolerant bacterium. In addition, the potential functional capabilities, inferred by PICRUSt2 analysis, involved in carbon, nitrogen, and sulfur cycles were similar in all samples, irrespective of the redox stratification, suggesting functional redundancy. Our findings show microbial community changes according to water flooding conditions, which represent useful information for biomonitoring and management of these wetlands whose extreme aridity and salinity conditions are exposed to irreversible changes due to human activities.
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Affiliation(s)
- Zeina Bourhane
- Université de Pau et des Pays de l’Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Christine Cagnon
- Université de Pau et des Pays de l’Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | | | - Rafael Rodríguez-Ochoa
- Departamento de Medio Ambiente y Ciencias del Suelo, Universidad de Lleida, Lleida, Spain
| | | | | | - Robert Duran
- Université de Pau et des Pays de l’Adour, E2S UPPA, CNRS, IPREM, Pau, France
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11
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Németh A, Ainsworth J, Ravishankar H, Lens PNL, Heffernan B. Temperature dependence of nitrification in a membrane-aerated biofilm reactor. Front Microbiol 2023; 14:1114647. [PMID: 37168114 PMCID: PMC10165249 DOI: 10.3389/fmicb.2023.1114647] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Accepted: 02/20/2023] [Indexed: 05/13/2023] Open
Abstract
The membrane-aerated biofilm reactor (MABR) is a novel method for the biological treatment of wastewaters and has been successfully applied for nitrification. To improve the design and adaptation of MABR processes for colder climates and varying temperatures, the temperature dependence of a counter-diffusional biofilm's nitrification performance was investigated. A lab-scale MABR system with silicone hollow fibre membranes was operated at various temperatures between 8 and 30°C, and batch tests were performed to determine the ammonia oxidation kinetics. Biofilm samples were taken at 8 and 24°C and analysed with 16S rRNA sequencing to monitor changes in the microbial community composition, and a mathematical model was used to study the temperature dependence of mass transfer. A high nitrification rate (3.08 g N m-2 d-1) was achieved at 8°C, and temperature dependence was found to be low (θ = 1.024-1.026) compared to suspended growth processes. Changes in the community composition were moderate, Nitrospira defluvii remaining the most dominant species. Mass transfer limitations were shown to be largely responsible for the observed trends, consistent with other biofilm processes. The results show that the MABR is a promising technology for low temperature nitrification, and appropriate management of the mass transfer resistance can optimise the process for both low and high temperature operation.
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Affiliation(s)
- András Németh
- OxyMem Ltd., Athlone, Ireland
- *Correspondence: András Németh,
| | | | | | - Piet N. L. Lens
- Department of Microbiology, University of Galway, Galway, Ireland
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12
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Li Q, Zhang Y, Hu J, Dai Q. Response of bacterial communities and nitrogen-cycling genes in newly reclaimed mudflat paddy soils to nitrogen fertilizer gradients. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:71113-71123. [PMID: 35595885 DOI: 10.1007/s11356-022-20770-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Accepted: 05/08/2022] [Indexed: 06/15/2023]
Abstract
Conversion of coastal mudflats into paddy soils is an effective measure to alleviate the pressures on land resources. However, few studies have evaluated the effects of nitrogen (N) fertilizers on bacterial communities in newly reclaimed mudflat paddy soils. We performed a field plot experiment with six N fertilizer rates (0, 210, 255, 300, 345, and 390 kg N ha-1) in a newly reclaimed mudflat paddy for 2 consecutive years and used Illumina sequencing and qPCR to investigate the effects of N fertilizers on bacterial communities and N-cycling genes. Results showed that high N fertilization (above 300 kg N ha-1) increased the contents of organic matter (OM), total N (TN), ammonium (NH4+), and nitrate (NO3-) and significantly decreased the diversity and richness of bacteria. Furthermore, high N fertilization had a stronger effect on bacterial communities than low N fertilization, probably due to high concentrations of NH4+, OM, and NO3-. Additionally, in paddy soils with high N fertilizer application, the relative abundances of Bacteroidetes, γ-proteobacteria, and Actinobacteria increased significantly, but the reverse was true for those of Chloroflexi, Firmicutes, δ-proteobacteria, α-proteobacteria, Acidobacteria, and β-proteobacteria. The results of qPCR indicated that high N fertilization significantly increased the relative abundance of nifH genes involved in N fixation and decreased that of amoA-archaea involved in ammonia oxidation, nirS genes involved in nitrite reduction, and nosZ genes involved in nitrous oxide reduction, which suggested that high N fertilization increased the potential of available N retention and reduced the potential of nitrous oxide emission. Overall, N fertilizers with an N fertilizer rate of above 300 kg N ha-1 significantly altered the bacterial communities and N-cycle of mudflat paddy soils.
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Affiliation(s)
- Qing Li
- Jiangsu Key Laboratory of Crop Genetic and Physiology/Jiangsu Key Laboratory of Crop Cultivation and Physiology/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Research Institute of Rice Industrial Engineering Technology, Yangzhou University, Yangzhou, 225009, China
| | - Yang Zhang
- College of Environmental Science and Engineering, Yangzhou University, Yangzhou, 225127, China
| | - Jian Hu
- College of Environmental Science and Engineering, Yangzhou University, Yangzhou, 225127, China
| | - Qigen Dai
- Jiangsu Key Laboratory of Crop Genetic and Physiology/Jiangsu Key Laboratory of Crop Cultivation and Physiology/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Research Institute of Rice Industrial Engineering Technology, Yangzhou University, Yangzhou, 225009, China.
- Joint International Research Laboratory of Agriculture and Agri-Product Safety, the Ministry of Education of China, Yangzhou University, Yangzhou, 225009, China.
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13
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Chen Q, Wu W, Zhang L, Wei F. Shifts in enzymatic activities and microbial community structures in the bioenhanced treatment of ship domestic sewage under microaerobic conditions. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:51242-51250. [PMID: 33982250 DOI: 10.1007/s11356-021-14232-7] [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: 01/04/2021] [Accepted: 04/28/2021] [Indexed: 06/12/2023]
Abstract
A bioenhancement strategy for improving the anaerobic degradation efficiency of ship domestic sewage under microaerobic conditions was proposed in this study. Strains Stenotrophomonas sp. MSPP05 and Prevotella sp. MSPP07 with high organic-degrading efficiency and extracellular hydrolase yield were used for the bioenhancement of activated sludge. In batch experiments, the removal rates of chemical oxygen demand and total nitrogen reached 94.5% and 66.9% after 72 h of degradation. The activities of dehydrogenase, extracellular amylase, and protease in the treatment group were 1.2, 1.4, and 2.0 times higher than those in the control group. Microbial community analysis showed that exogenous enhanced strains competed with original microorganisms and became dominant. One-stage continuous stirred tank reactor with bioenhanced activated sludge ran steadily for 90 days with average effluent COD and TN concentrations of 87.5 and 14.6 mg/L. The feasibility of improving organic-degrading efficiency through bioenhancement by using exogenous hydrolase-producing strains was confirmed under microaerobic conditions. This work provided a theoretical basis for improving treatment effects and developing a new technique for ship domestic sewage treatment.
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Affiliation(s)
- Qing Chen
- Marine Engineering College, Dalian Maritime University, Dalian, 116026, People's Republic of China
| | - Wanqing Wu
- Marine Engineering College, Dalian Maritime University, Dalian, 116026, People's Republic of China.
| | - Linghua Zhang
- Environmental Science and Engineering College, Dalian Maritime University, Dalian, 116026, People's Republic of China
| | - Fang Wei
- Marine Engineering College, Dalian Maritime University, Dalian, 116026, People's Republic of China
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14
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Ryu J, Jung J, Park K, Song W, Choi B, Kweon J. Humic acid removal and microbial community function in membrane bioreactor. JOURNAL OF HAZARDOUS MATERIALS 2021; 417:126088. [PMID: 34229409 DOI: 10.1016/j.jhazmat.2021.126088] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2021] [Revised: 04/16/2021] [Accepted: 05/07/2021] [Indexed: 06/13/2023]
Abstract
A membrane bioreactor with humic acid substrate (MBR-H) was operated to investigate organic removal and membrane performance. Approximately, 60% of chemical oxygen demand removal was observed in MBR-H. The biosorption capacity reached to the maximum value of 29.2 mg g-1 in the experiments with various activated sludge concentrations and the amount adsorbed on the newly produced microbes was limited. To understand key functions of microorganisms in the biodegradation of humic acid, the microbial community was examined. The dominant phylum was changed from Actinobacteria at the raw sludge to Proteobacteria at the MBR-H. Especially, great increases of β-, γ-, and δ-Proteobacteria in the MBR-H indicated that those class of Proteobacteria played a vital role in humic acid removal. Investigation at the genus level showed enrichment of Stenotrophobacter in the MBR-H, which indicated the presence of metabolites in the proposed humic substance degradation pathway. In addition, the bacteria producing extracellular polymeric substances were increased in the MBR-H. Substantial variation of microbial community function was occurred in the MBR to degrade humic acid. Operational parameters in MBRs might be sought to maintain water permeability and to obtain preferable condition to evolution of microbial consortia for degradation of the refractory organic matter.
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Affiliation(s)
- JunHee Ryu
- Department of Environmental Engineering, Konkuk University, 120, Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea.
| | - JaeHyun Jung
- HANSU Technical Service Ltd., Bundang Techno-Park, 145 Yatap-Dong, Bundang-Gu, Sungnam-City, Kyunggi-Do 13510, Republic of Korea.
| | - KiYoung Park
- Department of Environmental Engineering, Konkuk University, 120, Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea.
| | - WonJung Song
- Department of Environmental Engineering, Konkuk University, 120, Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea.
| | - ByeongGyu Choi
- Water Supply and Sewerage Research Division, Environmental Infrastructure Research Department, National Institute of Environmental Research, Hwangyeong-ro 42, Seo-gu, Incheon 22689, Republic of Korea.
| | - JiHyang Kweon
- Department of Environmental Engineering, Konkuk University, 120, Neungdong-ro, Gwangjin-gu, Seoul 05029, Republic of Korea.
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15
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Kumari K, Naskar M, Aftabuddin M, Das Sarkar S, Ghosh BD, Sarkar UK, Nag SK, Jana C, Das BK. Evaluation of Three Prokaryote Primers for Identification of Prokaryote Community Structure and Their Abode Preference in Three Distinct Wetland Ecosystems. Front Microbiol 2021; 12:643945. [PMID: 34335488 PMCID: PMC8317468 DOI: 10.3389/fmicb.2021.643945] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2020] [Accepted: 06/10/2021] [Indexed: 01/04/2023] Open
Abstract
The ultimate role of prokaryote (bacteria and archaea), the decomposer of the wetland ecosystem, depends on its community structure and its interaction with the environment. The present study has used three universal prokaryote primers to compare prokaryote community structure and diversity of three distinctly different wetlands. The study results revealed that α-diversity indices and phylogenetic differential abundance patterns did not differ significantly among primers, but they did differ significantly across wetlands. Microbial community composition revealed a distinct pattern for each primer in each wetland. Overall comparison of prokaryote communities in sediments of three wetlands revealed the highest prokaryote richness and diversity in Bhomra (freshwater wetland) followed by Malencho (brackish-water wetland) and East Kolkata wetland (EKW) (sewage-fed wetland). Indicator genus analysis identified 21, 4, and 29 unique indicator genera, having preferential abode for Bhomra, EKW, and Malencho, respectively. Prediction of potential roles of these microbes revealed a preference for sulfate-reducing microbes in Malencho and methanogens in Bhomra. The distinct phylogenetic differential abundance pattern, microbial abode preference, and their potential functional role predict ecosystem variables shaping microbial diversity. The variation in community composition of prokaryotes in response to ecosystem variables can serve as the most sensitive bioindicator of wetland ecosystem assessment and management.
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Affiliation(s)
- Kavita Kumari
- Aquatic Environmental Biotechnology and Nanotechnology Division, ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
| | - Malay Naskar
- Fisheries Resource Assessment and Informatics Division, ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
| | - Md Aftabuddin
- Fisheries Resource Assessment and Informatics Division, ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
| | - Soma Das Sarkar
- Fisheries Resource Assessment and Informatics Division, ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
| | - Bandana Das Ghosh
- ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
| | - Uttam Kumar Sarkar
- Reservoir and Wetland Fisheries Division, ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
| | - Subir Kumar Nag
- Fisheries Resource Assessment and Informatics Division, ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
| | - Chayna Jana
- Fisheries Resource Assessment and Informatics Division, ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
| | - Basanta Kumar Das
- ICAR-Central Inland Fisheries Research Institute, Barrackpore, India
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16
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de la Fuente A, Meruane C, Suárez F. Long-term spatiotemporal variability in high Andean wetlands in northern Chile. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 756:143830. [PMID: 33257055 DOI: 10.1016/j.scitotenv.2020.143830] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Revised: 10/16/2020] [Accepted: 11/03/2020] [Indexed: 06/12/2023]
Abstract
High Andean wetlands of the elevated plateaus of the Andes Mountains of Chile, Argentina, Perú and Bolivia are true oases that sustain life in this arid region. Despite their ecological value, they have been rarely studied and are vulnerable to climate change and human activities that require groundwater resources. One such activity that may be intensified in the near future is mining for nonmetallic minerals such as lithium, whose worldwide demand is expected to increase with the rise of electric vehicles that need batteries. To determine a baseline of the natural dynamics of these systems, which allows sustainable management, it is essential to understand the spatiotemporal dynamics of these wetlands. In this article, we studied the temporal and spatial dynamics of high Andean wetlands of Chile, with the aim of identifying the key processes that govern their dynamics. To do this, we used time series of Landsat data from 1984 to 2019 to study 10 high Andean wetlands. Furthermore, to characterize the climate variability in these systems, we studied the long-term relation between the changes in water and vegetation areas with rainfall and evaporation variability. It was found that the groundwater reservoir plays a key role in sustaining the high Andean wetlands. Wet years with a period of occurrence of 20-30 years are the years in which the groundwater reservoirs are actually recharged, and in between wet years, the groundwater reservoirs gradually release the water that sustains the aquatic ecosystems. Hence, groundwater exploitation should be carefully designed from a long-term perspective, as groundwater levels could take decades to recover.
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Affiliation(s)
| | - Carolina Meruane
- Departamento de Ingeniería Civil, Universidad de Chile, Santiago, Chile; Modelación Ambiental SpA, Chile
| | - Francisco Suárez
- Departamento de Ingeniería Hidráulica y Ambiental, Pontificia Universidad Católica de Chile, Santiago, Chile; Centro de Desarrollo Urbano Sustentable (CEDEUS), Santiago, Chile; Centro de Excelencia en Geotermia de los Andes (CEGA), Santiago, Chile
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17
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Desert Environments Facilitate Unique Evolution of Biosynthetic Potential in Streptomyces. Molecules 2021; 26:molecules26030588. [PMID: 33499369 PMCID: PMC7865587 DOI: 10.3390/molecules26030588] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2020] [Revised: 01/15/2021] [Accepted: 01/19/2021] [Indexed: 12/19/2022] Open
Abstract
Searching for new bioactive metabolites from the bacterial genus Streptomyces is a challenging task. Combined genomic tools and metabolomic screening of Streptomyces spp. native to extreme environments could be a promising strategy to discover novel compounds. While Streptomyces of desertic origin have been proposed as a source of new metabolites, their genome mining, phylogenetic analysis, and metabolite profiles to date are scarcely documented. Here, we hypothesized that Streptomyces species of desert environments have evolved with unique biosynthetic potential. To test this, along with an extensive characterization of biosynthetic potential of a desert isolate Streptomyces sp. SAJ15, we profiled phylogenetic relationships among the closest and previously reported Streptomyces of desert origin. Results revealed that Streptomyces strains of desert origin are closer to each other and relatively distinct from Streptomyces of other environments. The draft genome of strain SAJ15 was 8.2 Mb in size, which had 6972 predicted genes including 3097 genes encoding hypothetical proteins. Successive genome mining and phylogenetic analysis revealed the presence of putative novel biosynthetic gene clusters (BGCs) with low incidence in another Streptomyces. In addition, high-resolution metabolite profiling indicated the production of arylpolyene, terpenoid, and macrolide compounds in an optimized medium by strain SAJ15. The relative abundance of different BGCs in arid Streptomyces differed from the non-arid counterparts. Collectively, the results suggested a distinct evolution of desert Streptomyces with a unique biosynthetic potential.
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18
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Achieving Partial Nitrification via Intermittent Aeration in SBR and Short-Term Effects of Different C/N Ratios on Reactor Performance and Microbial Community Structure. WATER 2020. [DOI: 10.3390/w12123485] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
A sequencing batch reactor (SBR) with an intermittent aeration mode was established to achieve partial nitrification (PN) and the short-term effects of C/N ratios were investigated. Stable nitrite accumulation was achieved after 107 cycles, about 56d, with the average ammonia nitrogen removal efficiency (ARE) and nitrite accumulation rate (NAR) of 96.92% and 82.49%, respectively. When the C/N ratios decreased from 4.64 to 3.87 and 2.32, ARE and NAR still kept a stable and high level. However, when the C/N ratio further decreased to 0.77, nitrite accumulation became fluctuation, and ARE, total nitrogen (TN), and chemical oxygen demand (COD) removal performance declined obviously. Except for four common phyla (Proteobacteria, Bacteroidetes, Chloroflexi, and Actinobacteria) in the wastewater treatment system, Patescibacteria, the newly defined superphylum, was found and became the most dominant phylum in the PN sludge for their ultra-small cell size. The only ammonia oxidation bacteria (AOB), Nitrosomonas, and nitrite oxidation bacteria (NOB), Nitrospira, were detected. The relative abundance of NOB was low at different C/N ratios, showing the stable and effective inhibition effects of intermittent aeration on NOB growth.
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19
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Vila I, Hermosilla V, Gonzalez F, Sobarzo G, Rojas P. Macroinvertebrate community structure in an extreme altiplanic environment from Chile: The Ascotán salt pan. Glob Ecol Conserv 2020. [DOI: 10.1016/j.gecco.2020.e01260] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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20
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Zárate A, Dorador C, Araya R, Guajardo M, Z Florez J, Icaza G, Cornejo D, Valdés J. Connectivity of bacterial assemblages along the Loa River in the Atacama Desert, Chile. PeerJ 2020; 8:e9927. [PMID: 33062423 PMCID: PMC7533063 DOI: 10.7717/peerj.9927] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2018] [Accepted: 08/21/2020] [Indexed: 01/04/2023] Open
Abstract
The Loa River is the only perennial artery that crosses the Atacama Desert in northern Chile. It plays an important role in the ecological and economic development of the most water-stressed region, revealing the impact of the mining industry, which exacerbate regional water shortages for many organisms and ecological processes. Despite this, the river system has remained understudied. To our knowledge, this study provides the first effort to attempt to compare the microbial communities at spatial scale along the Loa River, as well as investigate the physicochemical factors that could modulate this important biological component that still remains largely unexplored. The analysis of the spatial bacterial distribution and their interconnections in the water column and sediment samples from eight sites located in three sections along the river catchment (upper, middle and lower) was conducted using 16S rRNA gene-based Illumina MiSeq sequencing. Among a total of 543 ASVs identified at the family level, over 40.5% were cosmopolitan in the river and distributed within a preference pattern by the sediment substrate with 162 unique ASVs, while only 87 were specific to the column water. Bacterial diversity gradually decreased from the headwaters, where the upper section had the largest number of unique families. Distinct groupings of bacterial communities often associated with anthropogenic disturbance, including Burkholderiaceae and Flavobacteriaceae families were predominant in the less-impacted upstream section. Members of the Arcobacteraceae and Marinomonadaceae were prominent in the agriculturally and mining-impacted middle sector while Rhodobacteraceae and Coxiellaceae were most abundant families in downstream sites. Such shifts in the community structure were also related to the influence of salinity, chlorophyll, dissolved oxygen and redox potential. Network analyses corroborated the strong connectivity and modular structure of bacterial communities across this desert river, shedding light on taxonomic relatedness of co-occurring species and highlighting the need for planning the integral conservation of this basin.
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Affiliation(s)
- Ana Zárate
- Doctorado en Ciencias Aplicadas mención Sistemas Marinos Costeros, Universidad de Antofagasta, Antofagasta, Chile.,Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta & Centro de Bioingeniería y Biotecnología (CeBiB), Universidad de Antofagasta, Antofagasta, Chile.,Humedales del Caribe colombiano, Universidad del Atlantico, Barranquilla, Colombia
| | - Cristina Dorador
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta & Centro de Bioingeniería y Biotecnología (CeBiB), Universidad de Antofagasta, Antofagasta, Chile.,Departamento de Biotecnología, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de Antofagasta, Antofagasta, Chile
| | - Ruben Araya
- Laboratorio de Microbiología de Sedimentos, Departamento de Acuicultura, Facultad de Recursos del Mar, Universidad de Antofagasta, Antofagasta, Chile
| | - Mariela Guajardo
- Doctorado en Genómica Integrativa y Centro GEMA, Facultad de Ciencias, Universidad Mayor, Santiago, Chile
| | - July Z Florez
- Humedales del Caribe colombiano, Universidad del Atlantico, Barranquilla, Colombia.,Centro i mar and CeBiB, Universidad de Los Lagos, Puerto Montt, Chile.,Departamento de Ciencias Farmacéuticas, Universidad Católica del Norte, Antofagasta, Chile
| | - Gonzalo Icaza
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta & Centro de Bioingeniería y Biotecnología (CeBiB), Universidad de Antofagasta, Antofagasta, Chile
| | - Diego Cornejo
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta & Centro de Bioingeniería y Biotecnología (CeBiB), Universidad de Antofagasta, Antofagasta, Chile.,Chair of Technical Biochemistry, Technische Universitāt, Dresden Dresden, Germany
| | - Jorge Valdés
- Laboratorio de Sedimentología y Paleoambientes, Instituto de Ciencias Naturales A. von Humboldt, Facultad de Ciencias del Mar y de Recursos Biológicos, Universidad de Antofagasta, Antofagasta, Chile
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21
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Ingalls M, Frantz CM, Snell KE, Trower EJ. Carbonate facies-specific stable isotope data record climate, hydrology, and microbial communities in Great Salt Lake, UT. GEOBIOLOGY 2020; 18:566-593. [PMID: 32196875 DOI: 10.1111/gbi.12386] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2019] [Revised: 01/17/2020] [Accepted: 02/27/2020] [Indexed: 06/10/2023]
Abstract
Organic and inorganic stable isotopes of lacustrine carbonate sediments are commonly used in reconstructions of ancient terrestrial ecosystems and environments. Microbial activity and local hydrological inputs can alter porewater chemistry (e.g., pH, alkalinity) and isotopic composition (e.g., δ18 Owater , δ13 CDIC ), which in turn has the potential to impact the stable isotopic compositions recorded and preserved in lithified carbonate. The fingerprint these syngenetic processes have on lacustrine carbonate facies is yet unknown, however, and thus, reconstructions based on stable isotopes may misinterpret diagenetic records as broader climate signals. Here, we characterize geochemical and stable isotopic variability of carbonate minerals, organic matter, and water within one modern lake that has known microbial influences (e.g., microbial mats and microbialite carbonate) and combine these data with the context provided by 16S rRNA amplicon sequencing community profiles. Specifically, we measure oxygen, carbon, and clumped isotopic compositions of carbonate sediments (δ18 Ocarb , δ13 Ccarb , ∆47 ), as well as carbon isotopic compositions of bulk organic matter (δ13 Corg ) and dissolved inorganic carbon (DIC; δ13 CDIC ) of lake and porewater in Great Salt Lake, Utah from five sites and three seasons. We find that facies equivalent to ooid grainstones provide time-averaged records of lake chemistry that reflect minimal alteration by microbial activity, whereas microbialite, intraclasts, and carbonate mud show greater alteration by local microbial influence and hydrology. Further, we find at least one occurrence of ∆47 isotopic disequilibrium likely driven by local microbial metabolism during authigenic carbonate precipitation. The remainder of the carbonate materials (primarily ooids, grain coatings, mud, and intraclasts) yield clumped isotope temperatures (T(∆47 )), δ18 Ocarb , and calculated δ18 Owater in isotopic equilibrium with ambient water and temperature at the time and site of carbonate precipitation. Our findings suggest that it is possible and necessary to leverage diverse carbonate facies across one sedimentary horizon to reconstruct regional hydroclimate and evaporation-precipitation balance, as well as identify microbially mediated carbonate formation.
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Affiliation(s)
- Miquela Ingalls
- Department of Geological Sciences, University of Colorado, Boulder, CO, USA
- Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, USA
| | - Carie M Frantz
- Department of Earth & Environmental Sciences, Weber State University, Ogden, UT, USA
| | - Kathryn E Snell
- Department of Geological Sciences, University of Colorado, Boulder, CO, USA
| | - Elizabeth J Trower
- Department of Geological Sciences, University of Colorado, Boulder, CO, USA
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22
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Gajardo G, Redón S. Andean hypersaline lakes in the
Atacama Desert
, northern
Chile
: Between lithium exploitation and unique biodiversity conservation. CONSERVATION SCIENCE AND PRACTICE 2019. [DOI: 10.1111/csp2.94] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Affiliation(s)
- Gonzalo Gajardo
- Laboratorio de Genética, Acuicultura & Biodiversidad, Departamento de Ciencias Biológicas y BiodiversidadUniversidad de Los Lagos Osorno Chile
| | - Stella Redón
- Laboratorio de Genética, Acuicultura & BiodiversidadUniversidad de Los Lagos Osorno Chile
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23
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Cortés-Albayay C, Dorador C, Schumann P, Andrews B, Asenjo J, Nouioui I. Streptomyces huasconensis sp. nov., an haloalkalitolerant actinobacterium isolated from a high altitude saline wetland at the Chilean Altiplano. Int J Syst Evol Microbiol 2019; 69:2315-2322. [DOI: 10.1099/ijsem.0.003468] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Carlos Cortés-Albayay
- 1School of Natural and Environmental Sciences, Newcastle University, Devonshire Building, Newcastle upon Tyne NE1 7RU, UK
- 2Centre for Biotechnology and Bioengineering, University of Chile, Beauchef 851, Santiago, Chile
| | - Cristina Dorador
- 3Laboratory of Microbial Complexity and Functional Ecology, Departamento de Biotecnología, Facultad de Ciencias del Mary Recursos Biológicos and Centre for Biotechnology and Bioengineering, Universidad de Antofagasta, Chile
| | - Peter Schumann
- 4Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Germany
| | - Barbara Andrews
- 2Centre for Biotechnology and Bioengineering, University of Chile, Beauchef 851, Santiago, Chile
| | - Juan Asenjo
- 2Centre for Biotechnology and Bioengineering, University of Chile, Beauchef 851, Santiago, Chile
| | - Imen Nouioui
- 1School of Natural and Environmental Sciences, Newcastle University, Devonshire Building, Newcastle upon Tyne NE1 7RU, UK
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24
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The Polyextreme Ecosystem, Salar de Huasco at the Chilean Altiplano of the Atacama Desert Houses Diverse Streptomyces spp. with Promising Pharmaceutical Potentials. DIVERSITY-BASEL 2019. [DOI: 10.3390/d11050069] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Salar de Huasco at the Chilean Altiplano of the Atacama Desert is considered a polyextreme environment, where solar radiation, salinity and aridity are extremely high and occur simultaneously. In this study, a total of 76 bacterial isolates were discovered from soil samples collected at two different sites in the east shoreline of Salar de Huasco, including H0 (base camp next to freshwater stream in the north part) and H6 (saline soils in the south part). All isolated bacteria were preliminarily identified using some of their phenotypic and genotypic data into the genera Streptomyces (86%), Nocardiopsis (9%), Micromonospora (3%), Bacillus (1%), and Pseudomonas (1%). Streptomyces was found dominantly in both sites (H0 = 19 isolates and H6 = 46 isolates), while the other genera were found only in site H0 (11 isolates). Based on the genotypic and phylogenetic analyses using the 16S rRNA gene sequences of all Streptomyces isolates, 18% (12 isolates) revealed <98.7% identity of the gene sequences compared to those in the publicly available databases and were determined as highly possibly novel species. Further studies suggested that many Streptomyces isolates possess the nonribosomal peptide synthetases-coding gene, and some of which could inhibit growth of at least two test microbes (i.e., Gram-positive and Gram-negative bacteria and fungi) and showed also the cytotoxicity against hepatocellular carcinoma and or mouse fibroblast cell lines. The antimicrobial activity and cytotoxicity of these Streptomyces isolates were highly dependent upon the nutrients used for their cultivation. Moreover, the HPLC-UV-MS profiles of metabolites produced by the selected Streptomyces isolates unveiled apparent differences when compared to the public database of existing natural products. With our findings, the polyextreme environments like Salar de Huasco are promising sources for exploring novel and valuable bacteria with pharmaceutical potentials.
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25
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Aguilar P, Dorador C, Vila I, Sommaruga R. Bacterioplankton composition in tropical high-elevation lakes of the Andean plateau. FEMS Microbiol Ecol 2019; 94:4810748. [PMID: 29346530 PMCID: PMC6018938 DOI: 10.1093/femsec/fiy004] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2017] [Accepted: 01/15/2018] [Indexed: 01/12/2023] Open
Abstract
High-elevation lakes in the tropics are subject to extreme environmental fluctuations and microbes may harbor a unique genomic repertoire, but their composition and diversity are largely unknown. Here, we compared the planktonic bacterial community composition (BCC) and diversity of three tropical lakes located in the high Andean plateau (≥4400 m above sea level) during the dry and wet season. Diversity in these lakes was higher in the cool and wet season than in the warm and dry one. Operational taxonomic units (OTUs) composition was significantly different among lakes and between seasons. Members of the class Opitutae, Spartobacteria, Burkholderiales and Actinobacteria were dominant, but only the hgcI clade (Actinobacteria) and the Comamonadaceae family (Burkholderiales) were shared between seasons among the three lakes. In general, a large percentage (up to 42%) of the rare OTUs was unclassified even at the family level. In one lake, a pycnocline and an anoxic water layer with high abundance of Thiocapsa sp. was found in the wet season indicating that the known polymictic thermal condition is not always given. Our study highlights the particular BCC of tropical high-elevation lakes and also how little is known about the variability in physico-chemical conditions of these ecosystems.
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Affiliation(s)
- Pablo Aguilar
- Lake and Glacier Ecology Research Group, Institute of Ecology, University of Innsbruck, Technikerstr 25, Innsbruck 6020, Austria
| | - Cristina Dorador
- Laboratory of Microbial Complexity and Functional Ecology, Instituto Antofagasta & Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de Antofagasta, Chile.,Centre for Biotechnology and Bioengineering (CeBiB), Beaucheff 851 Antofagasta, Chile
| | - Irma Vila
- Departamento de Ciencias Ecológicas, Facultad de Ciencias, Universidad de Chile, Av. Libertador Bernardo O'Higgins 1058 Santiago, Chile
| | - Ruben Sommaruga
- Lake and Glacier Ecology Research Group, Institute of Ecology, University of Innsbruck, Technikerstr 25, Innsbruck 6020, Austria
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26
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Jiang L, Chen X, Qin M, Cheng S, Wang Y, Zhou W. On-board saline black water treatment by bioaugmentation original marine bacteria with Pseudoalteromonas sp. SCSE709-6 and the associated microbial community. BIORESOURCE TECHNOLOGY 2019; 273:496-505. [PMID: 30469140 DOI: 10.1016/j.biortech.2018.11.043] [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: 09/26/2018] [Revised: 11/06/2018] [Accepted: 11/11/2018] [Indexed: 06/09/2023]
Abstract
To reduce fresh water load on ships, seawater can be used for toilet flushing on-board. And saline black water was treated on-site by bioaugmentation original marine bacteria with Pseudoalteromonas sp. SCSE709-6 (P. sp. SCSE709-6) to prevent marine pollution. In the batch experiments, P. sp. SCSE709-6 was effective in nutrient removal, which was not closely related to the amount of inoculation. In the on-board continuous experiments, the systems inoculated with P. sp. SCSE709-6 possessed excellent TP removal ability (removal rate: 80.93% for T3 and 88.39% for T4). The inoculum of P. sp. SCSE709-6 changed the microbial community structure and increased the similarity of microbial communities. P. sp. SCSE709-6 had a significant influence on the performance and microbial community of the systems. This study strongly proposes that the P. sp. SCSE709-6 is a promising alternative in saline black water treatment, which has great significance to the practice of on-board seawater flushing toilet.
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Affiliation(s)
- Li Jiang
- School of Environmental Science and Engineering, Shandong University, Jinan, Shandong 250100, China
| | - Xi Chen
- 27 King's College Circle, Ontario, Toronto M5S 1A1, Canada
| | - Min Qin
- School of Environmental Science and Engineering, Shandong University, Jinan, Shandong 250100, China
| | - Shuhua Cheng
- School of Environmental Science and Engineering, Shandong University, Jinan, Shandong 250100, China
| | - Yunxiao Wang
- School of Environmental Science and Engineering, Shandong University, Jinan, Shandong 250100, China
| | - Weizhi Zhou
- School of Environmental Science and Engineering, Shandong University, Jinan, Shandong 250100, China.
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27
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First description of an euryoecious acanthoecid choanoflagellate species, Enibas tolerabilis gen. et sp. nov. from a salar in the Chilean Andes based on morphological and transcriptomic data. Eur J Protistol 2019; 67:106-113. [DOI: 10.1016/j.ejop.2018.11.004] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2018] [Revised: 11/16/2018] [Accepted: 11/26/2018] [Indexed: 01/13/2023]
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28
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Dynamic Change in Enzyme Activity and Bacterial Community with long-term rice Cultivation in Mudflats. Curr Microbiol 2019; 76:361-369. [DOI: 10.1007/s00284-019-01636-5] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2018] [Accepted: 01/17/2019] [Indexed: 11/27/2022]
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29
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Portero LR, Alonso-Reyes DG, Zannier F, Vazquez MP, Farías ME, Gärtner W, Albarracín VH. Photolyases and Cryptochromes in UV-resistant Bacteria from High-altitude Andean Lakes. Photochem Photobiol 2019; 95:315-330. [DOI: 10.1111/php.13061] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2018] [Accepted: 11/18/2018] [Indexed: 11/30/2022]
Affiliation(s)
- Luciano Raúl Portero
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA); Planta Piloto de Procesos Industriales y Microbiológicos (PROIMI); CCT; CONICET; Tucumán Argentina
- Centro de Investigaciones y Servicios de Microscopía Electrónica (CISME-CONICET-UNT); CCT, CONICET; Tucumán Argentina
| | - Daniel G. Alonso-Reyes
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA); Planta Piloto de Procesos Industriales y Microbiológicos (PROIMI); CCT; CONICET; Tucumán Argentina
- Centro de Investigaciones y Servicios de Microscopía Electrónica (CISME-CONICET-UNT); CCT, CONICET; Tucumán Argentina
| | - Federico Zannier
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA); Planta Piloto de Procesos Industriales y Microbiológicos (PROIMI); CCT; CONICET; Tucumán Argentina
- Centro de Investigaciones y Servicios de Microscopía Electrónica (CISME-CONICET-UNT); CCT, CONICET; Tucumán Argentina
| | - Martín P. Vazquez
- Instituto de Agrobiotecnología de Rosario (INDEAR); Predio CCT Rosario; Santa Fe Argentina
| | - María Eugenia Farías
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA); Planta Piloto de Procesos Industriales y Microbiológicos (PROIMI); CCT; CONICET; Tucumán Argentina
| | - Wolfgang Gärtner
- Institute for Analytical Chemistry; University of Leipzig; Leipzig Germany
| | - Virginia Helena Albarracín
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA); Planta Piloto de Procesos Industriales y Microbiológicos (PROIMI); CCT; CONICET; Tucumán Argentina
- Centro de Investigaciones y Servicios de Microscopía Electrónica (CISME-CONICET-UNT); CCT, CONICET; Tucumán Argentina
- Facultad de Ciencias Naturales; Instituto Miguel Lillo; Universidad Nacional de Tucumán; Tucumán Argentina
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30
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Zhao Y, Cao X, Song X, Zhao Z, Wang Y, Si Z, Lin F, Chen Y, Zhang Y. Montmorillonite supported nanoscale zero-valent iron immobilized in sodium alginate (SA/Mt-NZVI) enhanced the nitrogen removal in vertical flow constructed wetlands (VFCWs). BIORESOURCE TECHNOLOGY 2018; 267:608-617. [PMID: 30056371 DOI: 10.1016/j.biortech.2018.07.072] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2018] [Revised: 07/11/2018] [Accepted: 07/14/2018] [Indexed: 06/08/2023]
Abstract
Lacking of electron donor generally causes the low denitrification performance of constructed wetlands (CWs). Montmorillonite supported nanoscale zero-valent iron immobilized in sodium alginate (SA/Mt-NZVI) as novel electron donor-acceptor compounds were added in the denitrification zone of vertical flow constructed wetlands (VFCWs) to enhance the nitrogen removal. The key factors of the SA/Mt-NZVI dosage, the hydraulic retention time (HRT) of VFCWs, and the C/N ratios of influent were explored. SA/Mt-NZVI significantly improved the nitrogen (NO3--N) removal efficiency in VFCWs. When the optimal dosage of SA/Mt-NZVI was set as 2 g and the C/N was set as 6, the highest NO3--N removal efficiency was improved by 32.5 ± 1.0%. The microbial community analysis of by 16S rRNA had revealed that Proteobacteria and Bacteroidetes at phylum level and Betaproteobacteria, Gammaproteobacteria, and Alphaproteobacteria at class level played an important role in nitrogen removal.
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Affiliation(s)
- Yufeng Zhao
- State Environmental Protection Engineering Center for Pollution Treatment and Control in Textile Industry, College of Environmental Science and Engineering, Donghua University, Shanghai 201620, China
| | - Xin Cao
- State Environmental Protection Engineering Center for Pollution Treatment and Control in Textile Industry, College of Environmental Science and Engineering, Donghua University, Shanghai 201620, China
| | - Xinshan Song
- State Environmental Protection Engineering Center for Pollution Treatment and Control in Textile Industry, College of Environmental Science and Engineering, Donghua University, Shanghai 201620, China.
| | - Zhimiao Zhao
- Engineering Research Center for Water Environment Ecology in Shanghai, College of Marine Ecology and Environment, Shanghai Ocean University, Shanghai 201306, China
| | - Yuhui Wang
- State Environmental Protection Engineering Center for Pollution Treatment and Control in Textile Industry, College of Environmental Science and Engineering, Donghua University, Shanghai 201620, China
| | - Zhihao Si
- State Environmental Protection Engineering Center for Pollution Treatment and Control in Textile Industry, College of Environmental Science and Engineering, Donghua University, Shanghai 201620, China
| | - Fanda Lin
- State Environmental Protection Engineering Center for Pollution Treatment and Control in Textile Industry, College of Environmental Science and Engineering, Donghua University, Shanghai 201620, China
| | - Yan Chen
- State Environmental Protection Engineering Center for Pollution Treatment and Control in Textile Industry, College of Environmental Science and Engineering, Donghua University, Shanghai 201620, China
| | - Yinjiang Zhang
- Engineering Research Center for Water Environment Ecology in Shanghai, College of Marine Ecology and Environment, Shanghai Ocean University, Shanghai 201306, China
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31
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Remonsellez F, Castro-Severyn J, Pardo-Esté C, Aguilar P, Fortt J, Salinas C, Barahona S, León J, Fuentes B, Areche C, Hernández KL, Aguayo D, Saavedra CP. Characterization and Salt Response in Recurrent Halotolerant Exiguobacterium sp. SH31 Isolated From Sediments of Salar de Huasco, Chilean Altiplano. Front Microbiol 2018; 9:2228. [PMID: 30294311 PMCID: PMC6158405 DOI: 10.3389/fmicb.2018.02228] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2018] [Accepted: 08/31/2018] [Indexed: 12/22/2022] Open
Abstract
Poly-extremophiles microorganisms have the capacity to inhabit hostile environments and can survive several adverse conditions that include as variations in temperature, pH, and salinity, high levels UV light and atmospheric pressure, and even the presence of toxic compounds and the formation of reactive oxygen species (ROS). A halotolerant Exiguobacterium strain was isolated from Salar de Huasco (Chilean Altiplano), a well-known shallow lake area with variable salinity levels, little human intervention, and extreme environmental conditions, which makes it ideal for the study of resistant mechanisms and the evolution of adaptations. This bacterial genus has not been extensively studied, although its cosmopolitan location indicates that it has high levels of plasticity and adaptive capacity. However, to date, there are no studies regarding the tolerance and resistance to salinity and osmotic pressure. We set out to characterize the Exiguobacterium sp. SH31 strain and describe its phenotypical and genotypical response to osmotic stress. In this context, as a first step to characterize the response to the SH31 strain to salinity and to establish the bases for a molecular study, we proposed to compare its response under three salt conditions (0, 25, and 50 g/l NaCl). Using different physiology, genomic, and transcriptomic approaches, we determined that the bacterium is able to grow properly in a NaCl concentration of up to 50 g/l; however, the best growth rate was observed at 25 g/l. Although the presence of flagella is not affected by salinity, motility was diminished at 25 g/l NaCl and abolished at 50 g/l. Biofilm formation was induced proportionally with increases in salinity, which was expected. These phenotypic results correlated with the expression of related genes: fliG and fliS Motility); opuBA and putP (transport); glnA, proC, gltA, and gbsA (compatible solutes); ywqC, bdlA, luxS y pgaC (biofilm and stress response); and therefore, we conclude that this strain effectively modifies gene expression and physiology in a differential manner when faced with different concentrations of NaCl and these modifications aid survival.
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Affiliation(s)
- Francisco Remonsellez
- Departamento de Ingeniería Química, Facultad de Ingeniería y Ciencias Geológicas, Universidad Católica del Norte, Antofagasta, Chile
- Centro de Investigación Tecnológica del Agua en el Desierto (CEITSAZA), Universidad Católica del Norte, Antofagasta, Chile
| | - Juan Castro-Severyn
- Laboratorio de Microbiología Molecular, Departamento de Ciencias Biológicas, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Santiago, Chile
| | - Coral Pardo-Esté
- Laboratorio de Microbiología Molecular, Departamento de Ciencias Biológicas, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Santiago, Chile
| | - Pablo Aguilar
- Lake and Glacier Ecology Research Group, Institute of Ecology, University of Innsbruck, Innsbruck, Austria
| | - Jonathan Fortt
- Departamento de Ingeniería Química, Facultad de Ingeniería y Ciencias Geológicas, Universidad Católica del Norte, Antofagasta, Chile
| | - Cesar Salinas
- Laboratorio de Microbiología Molecular, Departamento de Ciencias Biológicas, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Santiago, Chile
| | - Sergio Barahona
- Departamento de Ingeniería Química, Facultad de Ingeniería y Ciencias Geológicas, Universidad Católica del Norte, Antofagasta, Chile
| | - Joice León
- Departamento de Ingeniería Química, Facultad de Ingeniería y Ciencias Geológicas, Universidad Católica del Norte, Antofagasta, Chile
| | - Bárbara Fuentes
- Departamento de Ingeniería Química, Facultad de Ingeniería y Ciencias Geológicas, Universidad Católica del Norte, Antofagasta, Chile
| | - Carlos Areche
- Departamento de Química, Facultad de Ciencias, Universidad de Chile, Santiago, Chile
| | - Klaudia L. Hernández
- Centro de Investigación Marina Quintay, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Santiago, Chile
- Instituto de Ciencias Marinas y Limnológicas, Universidad Austral de Chile, Valdivia, Chile
| | - Daniel Aguayo
- Center for Bioinformatics and Integrative Biology, Departamento de Ciencias Biológicas, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Santiago, Chile
| | - Claudia P. Saavedra
- Laboratorio de Microbiología Molecular, Departamento de Ciencias Biológicas, Facultad de Ciencias de la Vida, Universidad Andrés Bello, Santiago, Chile
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32
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Dorador C, Fink P, Hengst M, Icaza G, Villalobos AS, Vejar D, Meneses D, Zadjelovic V, Burmann L, Moelzner J, Harrod C. Microbial community composition and trophic role along a marked salinity gradient in Laguna Puilar, Salar de Atacama, Chile. Antonie van Leeuwenhoek 2018; 111:1361-1374. [PMID: 29744693 DOI: 10.1007/s10482-018-1091-z] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/19/2018] [Accepted: 04/23/2018] [Indexed: 10/16/2022]
Abstract
The geological, hydrological and microbiological features of the Salar de Atacama, the most extensive evaporitic sedimentary basin in the Atacama Desert of northern Chile, have been extensively studied. In contrast, relatively little attention has been paid to the composition and roles of microbial communities in hypersaline lakes which are a unique feature in the Salar. In the present study biochemical, chemical and molecular biological tools were used to determine the composition and roles of microbial communities in water, microbial mats and sediments along a marked salinity gradient in Laguna Puilar which is located in the "Los Flamencos" National Reserve. The bacterial communities at the sampling sites were dominated by members of the phyla Bacteroidetes, Chloroflexi, Cyanobacteria and Proteobacteria. Stable isotope and fatty acid analyses revealed marked variability in the composition of microbial mats at different sampling sites both horizontally (at different sites) and vertically (in the different layers). The Laguna Puilar was shown to be a microbially dominated ecosystem in which more than 60% of the fatty acids at particular sites are of bacterial origin. Our pioneering studies also suggest that the energy budgets of avian consumers (three flamingo species) and dominant invertebrates (amphipods and gastropods) use minerals as a source of energy and nutrients. Overall, the results of this study support the view that the Salar de Atacama is a heterogeneous and fragile ecosystem where small changes in environmental conditions may alter the balance of microbial communities with possible consequences at different trophic levels.
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Affiliation(s)
- Cristina Dorador
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta, Universidad de Antofagasta, Antofagasta, Chile. .,Departamento de Biotecnología, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de Antofagasta, Angamos 601, Antofagasta, Chile. .,Centre for Biotechnology & Bioengineering (CeBiB), Santiago, Chile.
| | - Patrick Fink
- Workgroup Aquatic Chemical Ecology, University of Cologne, Cologne Biocenter, ZülpicherStraße 47b, 50674, Cologne, Germany
| | - Martha Hengst
- Centre for Biotechnology & Bioengineering (CeBiB), Santiago, Chile.,Laboratory of Molecular Ecology and Applied Microbiology, Departamento de Ciencias Farmacéuticas, Universidad Católica del Norte, Antofagasta, Chile
| | - Gonzalo Icaza
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta, Universidad de Antofagasta, Antofagasta, Chile.,Centre for Biotechnology & Bioengineering (CeBiB), Santiago, Chile
| | - Alvaro S Villalobos
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta, Universidad de Antofagasta, Antofagasta, Chile.,Marine Microbiology, GEOMAR Helmholtz, Centre for Ocean Research Kiel, Düsternbrooker Weg 20, 24105, Kiel, Germany
| | - Drina Vejar
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta, Universidad de Antofagasta, Antofagasta, Chile.,Centre for Biotechnology & Bioengineering (CeBiB), Santiago, Chile
| | - Daniela Meneses
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta, Universidad de Antofagasta, Antofagasta, Chile.,Centre for Biotechnology & Bioengineering (CeBiB), Santiago, Chile
| | - Vinko Zadjelovic
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta, Universidad de Antofagasta, Antofagasta, Chile
| | - Lisa Burmann
- Workgroup Aquatic Chemical Ecology, University of Cologne, Cologne Biocenter, ZülpicherStraße 47b, 50674, Cologne, Germany
| | - Jana Moelzner
- Workgroup Aquatic Chemical Ecology, University of Cologne, Cologne Biocenter, ZülpicherStraße 47b, 50674, Cologne, Germany
| | - Chris Harrod
- Instituto de Ciencias Naturales Alexander von Humboldt, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de Antofagasta, Antofagasta, Chile.,Núcleo Milenio INVASAL, Concepción, Chile
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The 'gifted' actinomycete Streptomyces leeuwenhoekii. Antonie van Leeuwenhoek 2018; 111:1433-1448. [PMID: 29397490 DOI: 10.1007/s10482-018-1034-8] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2017] [Accepted: 01/28/2018] [Indexed: 10/18/2022]
Abstract
Streptomyces leeuwenhoekii strains C34T, C38, C58 and C79 were isolated from a soil sample collected from the Chaxa Lagoon, located in the Salar de Atacama in northern Chile. These streptomycetes produce a variety of new specialised metabolites with antibiotic, anti-cancer and anti-inflammatory activities. Moreover, genome mining performed on two of these strains has revealed the presence of biosynthetic gene clusters with the potential to produce new specialised metabolites. This review focusses on this new clade of Streptomyces strains, summarises the literature and presents new information on strain C34T.
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Strahsburger E, Zapata F, Pedroso I, Fuentes D, Tapia P, Ponce R, Valdes J. Draft genome sequence of Exiguobacterium aurantiacum strain PN47 isolate from saline ponds, known as "Salar del Huasco", located in the Altiplano in the North of Chile. Braz J Microbiol 2018; 49:7-9. [PMID: 28757098 PMCID: PMC5790568 DOI: 10.1016/j.bjm.2017.03.011] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2016] [Revised: 02/14/2017] [Accepted: 03/10/2017] [Indexed: 11/24/2022] Open
Abstract
In this report, we present a draft genome of 2,886,173bp of an Exiguobacterium aurantiacum strain PN47 isolate from the sediment of a saline pond named "Salar del Huasco" in the Altiplano in the North of Chile. Strain PN47 encodes adaptive characteristics enabling survival in extreme environmental conditions of high heavy metal and salt concentrations and high alkalinity.
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Affiliation(s)
- Erwin Strahsburger
- Universidad Arturo Prat, Faculty of Renewable Naturals Resources, Molecular Biotechnology Laboratory, Iquique, Chile.
| | - Felipe Zapata
- Center for Systems Biotechnology, Fraunhofer Chile Research Foundation, Bio-Computing and Applied Genetics Division, Santiago, Chile
| | - Inti Pedroso
- Center for Systems Biotechnology, Fraunhofer Chile Research Foundation, Bio-Computing and Applied Genetics Division, Santiago, Chile
| | - Derie Fuentes
- Center for Systems Biotechnology, Fraunhofer Chile Research Foundation, Bio-Computing and Applied Genetics Division, Santiago, Chile
| | - Paz Tapia
- Center for Systems Biotechnology, Fraunhofer Chile Research Foundation, Bio-Computing and Applied Genetics Division, Santiago, Chile
| | - Raul Ponce
- Universidad Arturo Prat, Faculty of Renewable Naturals Resources, Molecular Biotechnology Laboratory, Iquique, Chile
| | - Jorge Valdes
- Center for Systems Biotechnology, Fraunhofer Chile Research Foundation, Bio-Computing and Applied Genetics Division, Santiago, Chile.
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Castro-Severyn J, Remonsellez F, Valenzuela SL, Salinas C, Fortt J, Aguilar P, Pardo-Esté C, Dorador C, Quatrini R, Molina F, Aguayo D, Castro-Nallar E, Saavedra CP. Comparative Genomics Analysis of a New Exiguobacterium Strain from Salar de Huasco Reveals a Repertoire of Stress-Related Genes and Arsenic Resistance. Front Microbiol 2017; 8:456. [PMID: 28377753 PMCID: PMC5360010 DOI: 10.3389/fmicb.2017.00456] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2016] [Accepted: 03/06/2017] [Indexed: 11/13/2022] Open
Abstract
The Atacama Desert hosts diverse ecosystems including salt flats and shallow Andean lakes. Several heavy metals are found in the Atacama Desert, and microorganisms growing in this environment show varying levels of resistance/tolerance to copper, tellurium, and arsenic, among others. Herein, we report the genome sequence and comparative genomic analysis of a new Exiguobacterium strain, sp. SH31, isolated from an altiplanic shallow athalassohaline lake. Exiguobacterium sp. SH31 belongs to the phylogenetic Group II and its closest relative is Exiguobacterium sp. S17, isolated from the Argentinian Altiplano (95% average nucleotide identity). Strain SH31 encodes a wide repertoire of proteins required for cadmium, copper, mercury, tellurium, chromium, and arsenic resistance. Of the 34 Exiguobacterium genomes that were inspected, only isolates SH31 and S17 encode the arsenic efflux pump Acr3. Strain SH31 was able to grow in up to 10 mM arsenite and 100 mM arsenate, indicating that it is arsenic resistant. Further, expression of the ars operon and acr3 was strongly induced in response to both toxics, suggesting that the arsenic efflux pump Acr3 mediates arsenic resistance in Exiguobacterium sp. SH31.
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Affiliation(s)
- Juan Castro-Severyn
- Laboratorio de Microbiología Molecular, Departamento de Ciencias Biológicas, Facultad de Ciencias Biológicas, Universidad Andres BelloSantiago, Chile; Centro de Bioinformática y Biología Integrativa, Facultad de Ciencias Biológicas, Universidad Andrés BelloSantiago, Chile
| | - Francisco Remonsellez
- Laboratorio de Tecnologías de Membranas, Biotecnología y Medio Ambiente, Departamento de Ingeniería Química, Facultad de Ingeniería y Ciencias Geológicas, Universidad Católica del Norte Antofagasta, Chile
| | - Sandro L Valenzuela
- Centro de Bioinformática y Biología Integrativa, Facultad de Ciencias Biológicas, Universidad Andrés Bello Santiago, Chile
| | - Cesar Salinas
- Laboratorio de Microbiología Molecular, Departamento de Ciencias Biológicas, Facultad de Ciencias Biológicas, Universidad Andres Bello Santiago, Chile
| | - Jonathan Fortt
- Laboratorio de Tecnologías de Membranas, Biotecnología y Medio Ambiente, Departamento de Ingeniería Química, Facultad de Ingeniería y Ciencias Geológicas, Universidad Católica del Norte Antofagasta, Chile
| | - Pablo Aguilar
- Laboratorio de Tecnologías de Membranas, Biotecnología y Medio Ambiente, Departamento de Ingeniería Química, Facultad de Ingeniería y Ciencias Geológicas, Universidad Católica del NorteAntofagasta, Chile; Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta and Departamento de Biotecnología, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de AntofagastaAntofagasta, Chile
| | - Coral Pardo-Esté
- Laboratorio de Microbiología Molecular, Departamento de Ciencias Biológicas, Facultad de Ciencias Biológicas, Universidad Andres Bello Santiago, Chile
| | - Cristina Dorador
- Laboratorio de Complejidad Microbiana y Ecología Funcional, Instituto Antofagasta and Departamento de Biotecnología, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de AntofagastaAntofagasta, Chile; Centre for Biotechnology and BioengineeringAntofagasta, Chile
| | - Raquel Quatrini
- Laboratorio de Ecofisiología Microbiana, Fundación Ciencia and Vida Santiago, Chile
| | | | - Daniel Aguayo
- Centro de Bioinformática y Biología Integrativa, Facultad de Ciencias Biológicas, Universidad Andrés BelloSantiago, Chile; Centro Interdisciplinario de Neurociencia de Valparaíso, Facultad de Ciencias, Universidad de ValparaísoValparaíso, Chile
| | - Eduardo Castro-Nallar
- Centro de Bioinformática y Biología Integrativa, Facultad de Ciencias Biológicas, Universidad Andrés Bello Santiago, Chile
| | - Claudia P Saavedra
- Laboratorio de Microbiología Molecular, Departamento de Ciencias Biológicas, Facultad de Ciencias Biológicas, Universidad Andres Bello Santiago, Chile
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Wang J, Gong B, Huang W, Wang Y, Zhou J. Bacterial community structure in simultaneous nitrification, denitrification and organic matter removal process treating saline mustard tuber wastewater as revealed by 16S rRNA sequencing. BIORESOURCE TECHNOLOGY 2017; 228:31-38. [PMID: 28056367 DOI: 10.1016/j.biortech.2016.12.071] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2016] [Revised: 12/16/2016] [Accepted: 12/21/2016] [Indexed: 05/12/2023]
Abstract
A simultaneous nitrification, denitrification and organic matter removal (SNDOR) process in sequencing batch biofilm reactor (SBBR) was established to treat saline mustard tuber wastewater (MTWW) in this study. An average COD removal efficiency of 86.48% and total nitrogen removal efficiency of 86.48% were achieved at 30gNaClL-1 during 100days' operation. The underlying mechanisms were investigated by PacBio SMRT DNA sequencing (V1-V9) to analyze the microbial community structures and its variation from low salinity at 10gNaClL-1 to high salinity at 30gNaClL-1. Results showed elevated salinity did not affect biological performance but reduced microbial diversity in SBBR, and halophilic bacteria gradually predominated by succession. Despite of high C/N, autotrophic ammonia-oxidizing bacteria (AOB) Nitrosomonas and ammonia-oxidizing archaea (AOA) Candidatus Nitrososphaera both contributed to ammonium oxidation. As salinity increasing, nitrite-oxidizing bacteria (NOB) were significantly inhibited, partial nitrification and denitrification (PND) process gradually contributed to nitrogen removal.
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Affiliation(s)
- Jiale Wang
- Faculty of Urban Construction and Environmental Engineering, Chongqing University, Chongqing 400045, PR China
| | - Benzhou Gong
- Faculty of Urban Construction and Environmental Engineering, Chongqing University, Chongqing 400045, PR China
| | - Wei Huang
- Faculty of Urban Construction and Environmental Engineering, Chongqing University, Chongqing 400045, PR China
| | - Yingmu Wang
- Faculty of Urban Construction and Environmental Engineering, Chongqing University, Chongqing 400045, PR China
| | - Jian Zhou
- Faculty of Urban Construction and Environmental Engineering, Chongqing University, Chongqing 400045, PR China; Key Laboratory of the Three Gorges Reservoir's Eco-Environments, Ministry of Education, Chongqing University, Chongqing 400045, PR China.
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37
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Cao Q, Wang H, Chen X, Wang R, Liu J. Composition and distribution of microbial communities in natural river wetlands and corresponding constructed wetlands. ECOLOGICAL ENGINEERING 2017; 98:40-48. [DOI: 10.1016/j.ecoleng.2016.10.063] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2024]
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Hernández KL, Yannicelli B, Olsen LM, Dorador C, Menschel EJ, Molina V, Remonsellez F, Hengst MB, Jeffrey WH. Microbial Activity Response to Solar Radiation across Contrasting Environmental Conditions in Salar de Huasco, Northern Chilean Altiplano. Front Microbiol 2016; 7:1857. [PMID: 27920763 PMCID: PMC5118629 DOI: 10.3389/fmicb.2016.01857] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Accepted: 11/04/2016] [Indexed: 11/13/2022] Open
Abstract
In high altitude environments, extreme levels of solar radiation and important differences of ionic concentrations over narrow spatial scales may modulate microbial activity. In Salar de Huasco, a high-altitude wetland in the Andean mountains, the high diversity of microbial communities has been characterized and associated with strong environmental variability. Communities that differed in light history and environmental conditions, such as nutrient concentrations and salinity from different spatial locations, were assessed for bacterial secondary production (BSP, 3H-leucine incorporation) response from short-term exposures to solar radiation. We sampled during austral spring seven stations categorized as: (a) source stations, with recently emerged groundwater (no-previous solar exposure); (b) stream running water stations; (c) stations connected to source waters but far downstream from source points; and (d) isolated ponds disconnected from ground sources or streams with a longer isolation and solar exposure history. Very high values of 0.25 μE m-2 s-1, 72 W m-2 and 12 W m-2 were measured for PAR, UVA, and UVB incident solar radiation, respectively. The environmental factors measured formed two groups of stations reflected by principal component analyses (near to groundwater sources and isolated systems) where isolated ponds had the highest BSP and microbial abundance (35 microalgae taxa, picoeukaryotes, nanoflagellates, and bacteria) plus higher salinities and PO43- concentrations. BSP short-term response (4 h) to solar radiation was measured by 3H-leucine incorporation under four different solar conditions: full sun, no UVB, PAR, and dark. Microbial communities established in waters with the longest surface exposure (e.g., isolated ponds) had the lowest BSP response to solar radiation treatments, and thus were likely best adapted to solar radiation exposure contrary to ground source waters. These results support our light history (solar exposure) hypothesis where the more isolated the community is from ground water sources, the better adapted it is to solar radiation. We suggest that factors other than solar radiation (e.g., salinity, PO43-, NO3-) are also important in determining microbial productivity in heterogeneous environments such as the Salar de Huasco.
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Affiliation(s)
- Klaudia L Hernández
- Centro de Investigación Marina Quintay CIMARQ, Facultad de Ecología y Recursos Naturales, Universidad Andres BelloSantiago, Chile; Instituto de Ciencias Marinas y Limnológicas, Universidad Austral de ChileValdivia, Chile
| | - Beatriz Yannicelli
- Centro de Estudios Avanzados en Zonas AridasLa Serena, Chile; Facultad de Ciencias del Mar, Universidad Católica del NorteCoquimbo, Chile; Ecology and Sustainable Management of Oceanic Islands, Universidad Católica del Norte, CoquimboCoquimbo, Chile; Centro Universitario de la Región Este, Universidad de la RepúblicaRocha, Uruguay
| | | | - Cristina Dorador
- Laboratorio de Complejidad Microbiana y Ecología Funcional and Departamento de Biotecnología, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de AntofagastaAntofagasta, Chile; Centro de Biotecnología y BioingenieríaSantiago, Chile
| | - Eduardo J Menschel
- Instituto de Ciencias Marinas y Limnológicas, Universidad Austral de ChileValdivia, Chile; Programa de Postgrado en Oceanografía, Departamento de Oceanografía, Universidad de ConcepciónConcepción, Chile; Centro de Investigación Dinámica de Ecosistemas Marinos de Altas Latitudes (FONDAP-IDEAL), Universidad Austral de ChileValdivia-Punta Arenas, Chile
| | - Verónica Molina
- Departamento de Biología, Observatorio de Ecología Microbiana, Facultad de Ciencias Naturales y Exactas, Universidad de Playa Ancha Valparaíso, Chile
| | - Francisco Remonsellez
- Laboratorio de Microbiología Aplicada y Extremófilos, Departamento de Ingeniería Química, Universidad Católica del Norte Antofagasta, Chile
| | - Martha B Hengst
- Centro de Biotecnología y BioingenieríaSantiago, Chile; Departamento de Ciencias Farmacéuticas, Facultad de Ciencias, Universidad Católica del NorteAntofagasta, Chile
| | - Wade H Jeffrey
- Center for Environmental Diagnostics and Bioremediation, University of West Florida, Pensacola FL, USA
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Molina V, Hernández K, Dorador C, Eissler Y, Hengst M, Pérez V, Harrod C. Bacterial Active Community Cycling in Response to Solar Radiation and Their Influence on Nutrient Changes in a High-Altitude Wetland. Front Microbiol 2016; 7:1823. [PMID: 27909430 PMCID: PMC5112256 DOI: 10.3389/fmicb.2016.01823] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2016] [Accepted: 10/31/2016] [Indexed: 01/08/2023] Open
Abstract
Microbial communities inhabiting high-altitude spring ecosystems are subjected to extreme changes in solar irradiance and temperature throughout the diel cycle. Here, using 16S rRNA gene tag pyrosequencing (cDNA) we determined the composition of actively transcribing bacteria from spring waters experimentally exposed through the day (morning, noon, and afternoon) to variable levels of solar radiation and light quality, and evaluated their influence on nutrient recycling. Solar irradiance, temperature, and changes in nutrient dynamics were associated with changes in the active bacterial community structure, predominantly by Cyanobacteria, Verrucomicrobia, Proteobacteria, and 35 other Phyla, including the recently described Candidate Phyla Radiation (e.g., Parcubacteria, Gracilibacteria, OP3, TM6, SR1). Diversity increased at noon, when the highest irradiances were measured (3.3-3.9 H', 1125 W m-2) compared to morning and afternoon (0.6-2.8 H'). This shift was associated with a decrease in the contribution to pyrolibraries by Cyanobacteria and an increase of Proteobacteria and other initially low frequently and rare bacteria phyla (< 0.5%) in the pyrolibraries. A potential increase in the activity of Cyanobacteria and other phototrophic groups, e.g., Rhodobacterales, was observed and associated with UVR, suggesting the presence of photo-activated repair mechanisms to resist high levels of solar radiation. In addition, the percentage contribution of cyanobacterial sequences in the afternoon was similar to those recorded in the morning. The shifts in the contribution by Cyanobacteria also influenced the rate of change in nitrate, nitrite, and phosphate, highlighted by a high level of nitrate accumulation during hours of high radiation and temperature associated with nitrifying bacteria activity. We did not detect ammonia or nitrite oxidizing bacteria in situ, but both functional groups (Nitrosomona and Nitrospira) appeared mainly in pyrolibraries generated from dark incubations. In total, our results reveal that both the structure and the diversity of the active bacteria community was extremely dynamic through the day, and showed marked shifts in composition that influenced nutrient recycling, highlighting how abiotic variation affects potential ecosystem functioning.
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Affiliation(s)
- Verónica Molina
- Programa de Biodiversidad and Departamento de Biología, Facultad de Ciencias Naturales y Exactas, Observatorio de Ecología Microbiana, Universidad de Playa AnchaValparaíso, Chile
| | - Klaudia Hernández
- Centro de Investigación Marina Quintay, Facultad de Ecología y Recursos Naturales, Universidad Andres BelloValparaíso, Chile
| | - Cristina Dorador
- Laboratorio de Complejidad Microbiana y Ecología Funcional and Departamento de Biotecnología, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de Antofagasta, AntofagastaChile
- Centre for Biotechnology and BioengineeringSantiago, Chile
| | - Yoanna Eissler
- Centro de Investigación y Gestión de Recursos Naturales, Instituto de Química y Bioquímica, Facultad de Ciencias, Universidad de ValparaísoValparaíso, Chile
| | - Martha Hengst
- Centre for Biotechnology and BioengineeringSantiago, Chile
- Departamento de Ciencias Farmacéuticas, Facultad de Ciencias, Universidad Católica del NorteAntofagasta, Chile
| | - Vilma Pérez
- Laboratorio de Complejidad Microbiana y Ecología Funcional and Departamento de Biotecnología, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de Antofagasta, AntofagastaChile
- Centre for Biotechnology and BioengineeringSantiago, Chile
| | - Chris Harrod
- Fish and Stable Isotope Ecology Laboratory, Instituto de Ciencias Naturales Alexander von Humboldt, Facultad de Ciencias del Mar y Recursos Biológicos, Universidad de AntofagastaAntofagasta, Chile
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Aguilar P, Acosta E, Dorador C, Sommaruga R. Large Differences in Bacterial Community Composition among Three Nearby Extreme Waterbodies of the High Andean Plateau. Front Microbiol 2016; 7:976. [PMID: 27446017 PMCID: PMC4914511 DOI: 10.3389/fmicb.2016.00976] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2016] [Accepted: 06/06/2016] [Indexed: 11/30/2022] Open
Abstract
The high Andean plateau or Altiplano contains different waterbodies that are subjected to extreme fluctuations in abiotic conditions on a daily and an annual scale. The bacterial diversity and community composition of those shallow waterbodies is largely unexplored, particularly, of the ponds embedded within the peatland landscape (i.e., Bofedales). Here we compare the small-scale spatial variability (<1 m) in bacterial diversity and community composition between two of those ponds with contrasting apparent color, using 454 pyrosequencing of the 16S rRNA gene. Further, we compared the results with the nearest (80 m) main lagoon in the system to elucidate the importance of different environmental factors such as salinity and the importance of these ponds as a source of shared diversity. Bacterial diversity was higher in both ponds than in the lagoon and community composition was largely different among them and characterized by very low operational taxonomic unit sharing. Whereas the “green” pond with relatively low dissolved organic carbon (DOC) concentration (33.5 mg L-1) was dominated by Proteobacteria and Bacteroidetes, the one with extreme DOC concentration (424.1 mg L-1) and red hue was dominated by Cyanobacteria. By contrast, the lagoon was largely dominated by Proteobacteria, particularly by Gammaproteobacteria. A large percentage (47%) of all reads was unclassified suggesting the existence of large undiscovered bacterial diversity. Our results suggest that even at the very small-scale spatial range considered, local environmental factors are important in explaining differences in bacterial community composition in those systems. Further, our study highlights that Altiplano peatland ponds represent a hitherto unknown source of microbial diversity.
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Affiliation(s)
- Pablo Aguilar
- Lake and Glacier Ecology Research Group, Institute of Ecology, University of InnsbruckInnsbruck, Austria; Laboratory of Microbial Complexity and Functional Ecology, Antofagasta Institute, University of AntofagastaAntofagasta, Chile; Centre for Biotechnology and Bioengineering, Universidad de ChileSantiago, Chile
| | - Eduardo Acosta
- Laboratory of Microbial Complexity and Functional Ecology, Antofagasta Institute, University of AntofagastaAntofagasta, Chile; Centre for Biotechnology and Bioengineering, Universidad de ChileSantiago, Chile
| | - Cristina Dorador
- Laboratory of Microbial Complexity and Functional Ecology, Antofagasta Institute, University of AntofagastaAntofagasta, Chile; Centre for Biotechnology and Bioengineering, Universidad de ChileSantiago, Chile
| | - Ruben Sommaruga
- Lake and Glacier Ecology Research Group, Institute of Ecology, University of Innsbruck Innsbruck, Austria
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Imhoff JF. New Dimensions in Microbial Ecology-Functional Genes in Studies to Unravel the Biodiversity and Role of Functional Microbial Groups in the Environment. Microorganisms 2016; 4:microorganisms4020019. [PMID: 27681913 PMCID: PMC5029485 DOI: 10.3390/microorganisms4020019] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2016] [Revised: 05/20/2016] [Accepted: 05/20/2016] [Indexed: 12/11/2022] Open
Abstract
During the past decades, tremendous advances have been made in the possibilities to study the diversity of microbial communities in the environment. The development of methods to study these communities on the basis of 16S rRNA gene sequences analysis was a first step into the molecular analysis of environmental communities and the study of biodiversity in natural habitats. A new dimension in this field was reached with the introduction of functional genes of ecological importance and the establishment of genetic tools to study the diversity of functional microbial groups and their responses to environmental factors. Functional gene approaches are excellent tools to study the diversity of a particular function and to demonstrate changes in the composition of prokaryote communities contributing to this function. The phylogeny of many functional genes largely correlates with that of the 16S rRNA gene, and microbial species may be identified on the basis of functional gene sequences. Functional genes are perfectly suited to link culture-based microbiological work with environmental molecular genetic studies. In this review, the development of functional gene studies in environmental microbiology is highlighted with examples of genes relevant for important ecophysiological functions. Examples are presented for bacterial photosynthesis and two types of anoxygenic phototrophic bacteria, with genes of the Fenna-Matthews-Olson-protein (fmoA) as target for the green sulfur bacteria and of two reaction center proteins (pufLM) for the phototrophic purple bacteria, with genes of adenosine-5'phosphosulfate (APS) reductase (aprA), sulfate thioesterase (soxB) and dissimilatory sulfite reductase (dsrAB) for sulfur oxidizing and sulfate reducing bacteria, with genes of ammonia monooxygenase (amoA) for nitrifying/ammonia-oxidizing bacteria, with genes of particulate nitrate reductase and nitrite reductases (narH/G, nirS, nirK) for denitrifying bacteria and with genes of methane monooxygenase (pmoA) for methane oxidizing bacteria.
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Affiliation(s)
- Johannes F Imhoff
- GEOMAR Helmholtz-Zentrum für Ozeanforschung, Düsternbrooker Weg 20, D-24105 Kiel, Germany.
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Kozyreva L, Egorova D, Anan'ina L, Plotnikova E, Ariskina E, Prisyazhnaya N, Radnaeva L, Namsaraev B. Belliella buryatensis sp. nov., isolated from alkaline lake water. Int J Syst Evol Microbiol 2016; 66:137-143. [DOI: 10.1099/ijsem.0.000682] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Lyudmila Kozyreva
- Institute of General and Experimental Biology, Siberian Branch, Russian Academy of Sciences, 6, Sakhyanovoy str., Ulan-Ude, 670047, Russia
| | - Darya Egorova
- Institute of General and Experimental Biology, Siberian Branch, Russian Academy of Sciences, 6, Sakhyanovoy str., Ulan-Ude, 670047, Russia
| | - Lyudmila Anan'ina
- Institute of Ecology and Genetics of Microorganisms, Ural Branch, Russian Academy of Sciences, 13, Goleva str., Perm, 614081, Russia
| | - Elena Plotnikova
- Institute of Ecology and Genetics of Microorganisms, Ural Branch, Russian Academy of Sciences, 13, Goleva str., Perm, 614081, Russia
| | - Elena Ariskina
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Natalya Prisyazhnaya
- All-Russian Collection of Microorganisms (VKM), G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Larisa Radnaeva
- Baikal Institute of Nature Management, Siberian Branch, Russian Academy of Sciences, 6, Sakhyanovoy str., Ulan-Ude, 670047, Russia
| | - Bair Namsaraev
- Institute of General and Experimental Biology, Siberian Branch, Russian Academy of Sciences, 6, Sakhyanovoy str., Ulan-Ude, 670047, Russia
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Albarracín VH, Gärtner W, Farias ME. Forged Under the Sun: Life and Art of Extremophiles from Andean Lakes. Photochem Photobiol 2015; 92:14-28. [PMID: 26647770 DOI: 10.1111/php.12555] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2015] [Revised: 10/09/2015] [Accepted: 11/05/2015] [Indexed: 12/25/2022]
Abstract
High-altitude Andean lakes (HAAL) are a treasure chest for microbiological research in South America. Their indigenous microbial communities are exposed to extremely high UV irradiation and to multiple chemical extremes (Arsenic, high salt content, alkalinity). Microbes are found both, free-living or associated into microbial mats with different degrees of mineralization and lithification, including unique modern stromatolites located at 3570 m above sea level. Characterization of these polyextremophilic microbes began only recently, employing morphological and phylogenetic methods as well as high-throughput sequencing and proteomics approach. Aside from providing a general overview on microbial communities, special attention is given to various survival strategies; HAAL's microbes present a complex system of shared genetic and physiological mechanisms (UV-resistome) based on UV photoreceptors and stress sensors with their corresponding response regulators, UV avoidance and protection strategies, damage tolerance and UV damage repair. Molecular information will be provided for what is, so far the most studied HAAL molecule, a CPD-Class I photolyase from Acinetobacter Ver3 (Laguna Verde, 4400 m). This work further proposes some strategies that make an appeal for the preservation of HAAL, a highly fragile environment that offers promising and ample research possibilities.
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Affiliation(s)
- Virginia Helena Albarracín
- Planta Piloto de Procesos Industriales y Microbiológicos (PROIMI), CCT, CONICET, Tucumán, Argentina.,Facultad de Ciencias Naturales e Instituto Miguel Lillo, Universidad Nacional de Tucumán, Tucumán, Argentina
| | - Wolfgang Gärtner
- Max-Planck-Institute for Chemical Energy Conversion, Mülheim, Germany
| | - María Eugenia Farias
- Planta Piloto de Procesos Industriales y Microbiológicos (PROIMI), CCT, CONICET, Tucumán, Argentina
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Albarracín VH, Kurth D, Ordoñez OF, Belfiore C, Luccini E, Salum GM, Piacentini RD, Farías ME. High-Up: A Remote Reservoir of Microbial Extremophiles in Central Andean Wetlands. Front Microbiol 2015; 6:1404. [PMID: 26733008 PMCID: PMC4679917 DOI: 10.3389/fmicb.2015.01404] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2015] [Accepted: 11/25/2015] [Indexed: 11/18/2022] Open
Abstract
The Central Andes region displays unexplored ecosystems of shallow lakes and salt flats at mean altitudes of 3700 m. Being isolated and hostile, these so-called "High-Altitude Andean Lakes" (HAAL) are pristine and have been exposed to little human influence. HAAL proved to be a rich source of microbes showing interesting adaptations to life in extreme settings (poly-extremophiles) such as alkalinity, high concentrations of arsenic and dissolved salts, intense dryness, large daily ambient thermal amplitude, and extreme solar radiation levels. This work reviews HAAL microbiodiversity, taking into account different microbial niches, such as plankton, benthos, microbial mats and microbialites. The modern stromatolites and other microbialites discovered recently at HAAL are highlighted, as they provide unique modern-though quite imperfect-analogs of environments proxy for an earlier time in Earth's history (volcanic setting and profuse hydrothermal activity, low atmospheric O2 pressure, thin ozone layer and high UV exposure). Likewise, we stress the importance of HAAL microbes as model poly-extremophiles in the study of the molecular mechanisms underlying their resistance ability against UV and toxic or deleterious chemicals using genome mining and functional genomics. In future research directions, it will be necessary to exploit the full potential of HAAL poly-extremophiles in terms of their biotechnological applications. Current projects heading this way have yielded detailed molecular information and functional proof on novel extremoenzymes: i.e., DNA repair enzymes and arsenic efflux pumps for which medical and bioremediation applications, respectively, are envisaged. But still, much effort is required to unravel novel functions for this and other molecules that dwell in a unique biological treasure despite its being hidden high up, in the remote Andes.
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Affiliation(s)
- Virginia H. Albarracín
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas, Planta Piloto de Procesos Industriales y Microbiológicos, Centro Científico Tecnológico, CONICETTucumán, Argentina
- Facultad de Ciencias Naturales e Instituto Miguel Lillo, Universidad Nacional de TucumánTucumán, Argentina
- Centro Integral de Microscopía Electrónica, Universidad Nacional de Tucumán, Centro Científico Tecnológico, CONICETTucumán, Argentina
| | - Daniel Kurth
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas, Planta Piloto de Procesos Industriales y Microbiológicos, Centro Científico Tecnológico, CONICETTucumán, Argentina
| | - Omar F. Ordoñez
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas, Planta Piloto de Procesos Industriales y Microbiológicos, Centro Científico Tecnológico, CONICETTucumán, Argentina
| | - Carolina Belfiore
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas, Planta Piloto de Procesos Industriales y Microbiológicos, Centro Científico Tecnológico, CONICETTucumán, Argentina
| | - Eduardo Luccini
- CONICET Centro de Excelencia en Productos y Procesos de la Provincia de CórdobaCórdoba, Argentina
- Facultad de Química e Ingeniería, Pontificia Universidad Católica ArgentinaRosario, Argentina
| | - Graciela M. Salum
- Instituto de Física Rosario, CONICET Universidad Nacional de RosarioRosario, Argentina
- Facultad Regional Concepción del Uruguay, Universidad Tecnológica NacionalConcepción del Uruguay, Argentina
| | - Ruben D. Piacentini
- Facultad Regional Concepción del Uruguay, Universidad Tecnológica NacionalConcepción del Uruguay, Argentina
- Facultad de Ciencias Exactas, Ingeniería y Agrimensura, Universidad Nacional de RosarioRosario, Argentina
| | - María E. Farías
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas, Planta Piloto de Procesos Industriales y Microbiológicos, Centro Científico Tecnológico, CONICETTucumán, Argentina
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Kormas KA, Pachiadaki MG, Karayanni H, Leadbetter ER, Bernhard JM, Edgcomb VP. Inter-comparison of the potentially active prokaryotic communities in the halocline sediments of Mediterranean deep-sea hypersaline basins. Extremophiles 2015; 19:949-60. [DOI: 10.1007/s00792-015-0770-1] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2015] [Accepted: 06/28/2015] [Indexed: 11/29/2022]
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Farías ME, Contreras M, Rasuk MC, Kurth D, Flores MR, Poiré DG, Novoa F, Visscher PT. Characterization of bacterial diversity associated with microbial mats, gypsum evaporites and carbonate microbialites in thalassic wetlands: Tebenquiche and La Brava, Salar de Atacama, Chile. Extremophiles 2014; 18:311-29. [DOI: 10.1007/s00792-013-0617-6] [Citation(s) in RCA: 92] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2013] [Accepted: 12/05/2013] [Indexed: 02/01/2023]
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Distribution of microbial arsenic reduction, oxidation and extrusion genes along a wide range of environmental arsenic concentrations. PLoS One 2013; 8:e78890. [PMID: 24205341 PMCID: PMC3815024 DOI: 10.1371/journal.pone.0078890] [Citation(s) in RCA: 63] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2013] [Accepted: 09/17/2013] [Indexed: 11/28/2022] Open
Abstract
The presence of the arsenic oxidation, reduction, and extrusion genes arsC, arrA, aioA, and acr3 was explored in a range of natural environments in northern Chile, with arsenic concentrations spanning six orders of magnitude. A combination of primers from the literature and newly designed primers were used to explore the presence of the arsC gene, coding for the reduction of As (V) to As (III) in one of the most common detoxification mechanisms. Enterobacterial related arsC genes appeared only in the environments with the lowest As concentration, while Firmicutes-like genes were present throughout the range of As concentrations. The arrA gene, involved in anaerobic respiration using As (V) as electron acceptor, was found in all the systems studied. The As (III) oxidation gene aioA and the As (III) transport gene acr3 were tracked with two primer sets each and they were also found to be spread through the As concentration gradient. Sediment samples had a higher number of arsenic related genes than water samples. Considering the results of the bacterial community composition available for these samples, the higher microbial phylogenetic diversity of microbes inhabiting the sediments may explain the increased number of genetic resources found to cope with arsenic. Overall, the environmental distribution of arsenic related genes suggests that the occurrence of different ArsC families provides different degrees of protection against arsenic as previously described in laboratory strains, and that the glutaredoxin (Grx)-linked arsenate reductases related to Enterobacteria do not confer enough arsenic resistance to live above certain levels of As concentrations.
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Farías ME, Rascovan N, Toneatti DM, Albarracín VH, Flores MR, Poiré DG, Collavino MM, Aguilar OM, Vazquez MP, Polerecky L. The discovery of stromatolites developing at 3570 m above sea level in a high-altitude volcanic lake Socompa, Argentinean Andes. PLoS One 2013; 8:e53497. [PMID: 23308236 PMCID: PMC3538587 DOI: 10.1371/journal.pone.0053497] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2012] [Accepted: 11/29/2012] [Indexed: 11/24/2022] Open
Abstract
We describe stromatolites forming at an altitude of 3570 m at the shore of a volcanic lake Socompa, Argentinean Andes. The water at the site of stromatolites formation is alkaline, hypersaline, rich in inorganic nutrients, very rich in arsenic, and warm (20-24°C) due to a hydrothermal input. The stromatolites do not lithify, but form broad, rounded and low-domed bioherms dominated by diatom frustules and aragonite micro-crystals agglutinated by extracellular substances. In comparison to other modern stromatolites, they harbour an atypical microbial community characterized by highly abundant representatives of Deinococcus-Thermus, Rhodobacteraceae, Desulfobacterales and Spirochaetes. Additionally, a high proportion of the sequences that could not be classified at phylum level showed less than 80% identity to the best hit in the NCBI database, suggesting the presence of novel distant lineages. The primary production in the stromatolites is generally high and likely dominated by Microcoleus sp. Through negative phototaxis, the location of these cyanobacteria in the stromatolites is controlled by UV light, which greatly influences their photosynthetic activity. Diatoms, dominated by Amphora sp., are abundant in the anoxic, sulfidic and essentially dark parts of the stromatolites. Although their origin in the stromatolites is unclear, they are possibly an important source of anaerobically degraded organic matter that induces in situ aragonite precipitation. To the best of our knowledge, this is so far the highest altitude with documented actively forming stromatolites. Their generally rich, diverse and to a large extent novel microbial community likely harbours valuable genetic and proteomic reserves, and thus deserves active protection. Furthermore, since the stromatolites flourish in an environment characterized by a multitude of extremes, including high exposure to UV radiation, they can be an excellent model system for studying microbial adaptations under conditions that, at least in part, resemble those during the early phase of life evolution on Earth.
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Affiliation(s)
- María E. Farías
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA), Planta Piloto de Procesos Industriales Microbiológicos (PROIMI), CCT, CONICET, San Miguel de Tucumán, Tucumán, Argentina
| | - Nicolás Rascovan
- Instituto de Agrobiotecnologia Rosario (INDEAR), Rosario, Santa Fe, Argentina
| | - Diego M. Toneatti
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA), Planta Piloto de Procesos Industriales Microbiológicos (PROIMI), CCT, CONICET, San Miguel de Tucumán, Tucumán, Argentina
| | - Virginia H. Albarracín
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA), Planta Piloto de Procesos Industriales Microbiológicos (PROIMI), CCT, CONICET, San Miguel de Tucumán, Tucumán, Argentina
- Facultad de Ciencias Naturales e Instituto Miguel Lillo, Universidad Nacional de Tucumán, San Miguel de Tucumán, Tucumán, Argentina
- Max-Planck Institute for Chemical Energy Conversion, Mülheim an der Ruhr, Germany
| | - María R. Flores
- Laboratorio de Investigaciones Microbiológicas de Lagunas Andinas (LIMLA), Planta Piloto de Procesos Industriales Microbiológicos (PROIMI), CCT, CONICET, San Miguel de Tucumán, Tucumán, Argentina
| | - Daniel G. Poiré
- Centro de Investigaciones Geológicas, Universidad Nacional de La Plata-CONICET, La Plata, Argentina
| | - Mónica M. Collavino
- Instituto de Biotecnología y Biología Molecular (IBBM), Universidad Nacional de La Plata-CONICET, La Plata, Argentina
| | - O. Mario Aguilar
- Instituto de Biotecnología y Biología Molecular (IBBM), Universidad Nacional de La Plata-CONICET, La Plata, Argentina
| | - Martin P. Vazquez
- Instituto de Agrobiotecnologia Rosario (INDEAR), Rosario, Santa Fe, Argentina
| | - Lubos Polerecky
- Max-Planck Institute for Marine Microbiology, Bremen, Germany
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Díez-Vives C, Gasol JM, Acinas SG. Evaluation of marine bacteroidetes-specific primers for microbial diversity and dynamics studies. MICROBIAL ECOLOGY 2012; 64:1047-1055. [PMID: 22805741 DOI: 10.1007/s00248-012-0087-x] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/24/2012] [Accepted: 06/04/2012] [Indexed: 06/01/2023]
Abstract
Assumptions on the matching specificity of group-specific bacterial primers may bias the interpretation of environmental microbial studies. As available sequence data continue growing, the performance of primers and probes needs to be reevaluated. Here, we present an evaluation of several commonly used and one newly designed Bacteroidetes-specific primer (CF418). First, we revised the in silico primer coverage and specificity with the current SILVA and RDP databases. We found minor differences with previous studies, which could be explained by the chosen databases, taxonomies, and matching criteria. We selected eight commonly used Bacteroidetes primers and tested them with a collection of assorted marine bacterial isolates. We also used the denaturing gradient gel electrophoresis (DGGE) approach in environmental samples to evaluate their ability to yield clear and diverse band patterns corresponding to Bacteroidetes phylotypes. Among the primers tested, CF968R did not provide satisfactory results in DGGE, although it exhibited the highest in silico coverage for Flavobacteria. Primers CFB560 and CFB555 presented undesirable features, such as requiring nested protocols or presence of degeneracies. Finally, the new primer CF418 and primer CF319a were used to explore the Bacteroidetes dynamics throughout a 1-year cycle in Mediterranean coastal waters (Blanes Bay Microbial Observatory). Both primers provided clear and diverse banding patterns, but the low specificity of CF319a was evidenced by 83.3 % of the bands sequenced corresponding to nontarget taxa. The satisfactory DGGE banding patterns and the wide diversity of sequences retrieved from DGGE bands with primer CF418 prove it to be a valuable alternative for the study of Bacteroidetes communities, recovering a wide range of phylotypes within the group.
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Affiliation(s)
- Cristina Díez-Vives
- Departament de Biologia Marina i Oceanografia, Institut de Ciències del Mar, Consejo Superior de Investigaciones Científicas, ES-08003, Barcelona, Catalunya, Spain
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Thiel V, Tank M, Neulinger SC, Gehrmann L, Dorador C, Imhoff JF. Unique communities of anoxygenic phototrophic bacteria in saline lakes of Salar de Atacama (Chile): evidence for a new phylogenetic lineage of phototrophic Gammaproteobacteria from pufLM gene analyses. FEMS Microbiol Ecol 2010; 74:510-22. [DOI: 10.1111/j.1574-6941.2010.00966.x] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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