Tackling the minority: sulfate-reducing bacteria in an archaea-dominated subsurface biofilm

No abstract is available for this paper.

• Publication year

  2012

• Venue

  The ISME Journal

• Publication date

  2012-11-22

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1038/ismej.2012.133PMID 23178669PMCID PMC3578563
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Looking inside the box: using Raman microspectroscopy to deconstruct microbial biomass stoichiometry one cell at a time

  2011cited by this paper
• Archaeal symbionts and parasites.

  2011cited by this paper
• Archaea in artificial environments: Their presence in global spacecraft clean rooms and impact on planetary protection

  2011influential reference
• Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil

  2011cited by this paper
• Rapid resonance Raman microspectroscopy to probe carbon dioxide fixation by single cells in microbial communities

  2011cited by this paper
• Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea

  2010cited by this paper
• Identification of different bacterial species in biofilms using confocal Raman microscopy.

  2010cited by this paper
• Synchrotron IR spectromicroscopy: chemistry of living cells.

  2010influential reference
• Deep-Sea Oil Plume Enriches Indigenous Oil-Degrading Bacteria

  2010influential reference
• Real-time molecular monitoring of chemical environment in obligate anaerobes during oxygen adaptive response

  2009cited by this paper
• Deep-Sea Archaea Fix and Share Nitrogen in Methane-Consuming Microbial Consortia

  2009cited by this paper
• Single-cell ecophysiology of microbes as revealed by Raman microspectroscopy or secondary ion mass spectrometry imaging.

  2009cited by this paper
• Challenges in Biology and Medicine with Synchrotron Infrared Light

  2009cited by this paper
• New Horizons for Deep Subsurface Microbiology

  2009cited by this paper
• Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

  2009influential reference
• New Horizons for Deep Subsurface Microbiology Subsurface microorganisms may grow slowly, but their diversity and persistence offer insights into life in extremis

  2009cited by this paper
• UV‐inducible cellular aggregation of the hyperthermophilic archaeon Sulfolobus solfataricus is mediated by pili formation

  2008cited by this paper
• rrnDB: documenting the number of rRNA and tRNA genes in bacteria and archaea

  2008cited by this paper
• The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

  2008influential reference
• A moderately thermophilic ammonia-oxidizing crenarchaeote from a hot spring

  2008cited by this paper
• VARIATIONS IN INFRARED SPECTRA, MOLECULAR SYMMETRY AND SITE SYMMETRY OF SULFATE MINERALS

  2007cited by this paper
• Chemical Structure and Antiviral Activity of Water-soluble Sulfated Polysaccharides from Surgassum latifolium

  2007cited by this paper
• SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

  2007cited by this paper
• Raman-FISH: combining stable-isotope Raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function.

  2007cited by this paper
• Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation

  2007cited by this paper
• MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0.

  2007cited by this paper
• Infrared Spectroscopy in Microbiology

  2006cited by this paper
• Greengenes: Chimera-checked 16S rRNA gene database and workbench compatible in ARB

  2006cited by this paper
• New Insights into the Lifestyle of the Cold-Loving SM1 Euryarchaeon: Natural Growth as a Monospecies Biofilm in the Subsurface

  2006influential reference
• Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB

  2006cited by this paper
• DsrB gene-based DGGE for community and diversity surveys of sulfate-reducing bacteria.

  2006cited by this paper
• The unique structure of archaeal ‘hami’, highly complex cell appendages with nano‐grappling hooks

  2005cited by this paper
• A fluorescent redox dye. Influence of several substrates and electron carriers on the tetrazolium salt—formazan reaction of Ehrlich ascites tumour cells

  2005cited by this paper
• At Least 1 in 20 16S rRNA Sequence Records Currently Held in Public Repositories Is Estimated To Contain Substantial Anomalies

  2005cited by this paper
• Sulfuricurvum kujiense gen. nov., sp. nov., a facultatively anaerobic, chemolithoautotrophic, sulfur-oxidizing bacterium isolated from an underground crude-oil storage cavity.

  2004cited by this paper
• Community structure and metabolism through reconstruction of microbial genomes from the environment

  2004cited by this paper
• ARB: a software environment for sequence data.

  2004cited by this paper
• The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough

  2004cited by this paper
• Ecology and microbial structures of archaeal/bacterial strings-of-pearls communities and archaeal relatives thriving in cold sulfidic springs.

  2004influential reference
• Intact polar membrane lipids in prokaryotes and sediments deciphered by high-performance liquid chromatography/electrospray ionization multistage mass spectrometry--new biomarkers for biogeochemistry and microbial ecology.

  2004cited by this paper
• An Improved Redox Dye-Staining Method Using 5-Cyano-2,3-Ditoryl Tetrazolium Chloride for Detection of Metabolically Active Bacteria in Activated Sludge

  2004cited by this paper
• Molekularbiologische Untersuchungen zur Verbreitung und Physiologie neuartiger, unkultivierter Archaeen in kalten Schwefelquellen

  2004cited by this paper
• Bacterial diversity and ecosystem function of filamentous microbial mats from aphotic (cave) sulfidic springs dominated by chemolithoautotrophic "Epsilonproteobacteria".

  2004cited by this paper
• Filamentous “Epsilonproteobacteria” Dominate Microbial Mats from Sulfidic Cave Springs

  2003influential reference
• Identification of foodborne bacteria by infrared spectroscopy using cellular fatty acid methyl esters.

  2003cited by this paper
• Application of Multivariate Curve Resolution for Analysis of FT-IR Microspectroscopic Images of in Situ Plant Tissue

  2003cited by this paper
• In situ growth of the novel SM1 euryarchaeon from a string-of-pearls-like microbial community in its cold biotope, its physical separation and insights into its structure and physiology

  2003influential reference
• Oligonucleotide Microarray for 16S rRNA Gene-Based Detection of All Recognized Lineages of Sulfate-Reducing Prokaryotes in the Environment

  2002cited by this paper
• Natural Communities of Novel Archaea and Bacteria with a String-of-Pearls-Like Morphology: Molecular Analysis of the Bacterial Partners

  2002influential reference
• Archaeal dominance in the mesopelagic zone of the Pacific Ocean

  2001cited by this paper
• Natural Communities of Novel Archaea and Bacteria Growing in Cold Sulfurous Springs with a String-of-Pearls-Like Morphology

  2001influential reference
• Methane-Consuming Archaea Revealed by Directly Coupled Isotopic and Phylogenetic Analysis

  2001cited by this paper
• rrndb: the Ribosomal RNA Operon Copy Number Database

  2001cited by this paper
• Archaea mediating anaerobic methane oxidation in deep-sea sediments at cold seeps of the eastern Aleutian subduction zone

  2000cited by this paper
• Xanthogenate nucleic acid isolation from cultured and environmental cyanobacteria

  2000cited by this paper
• An in Situ ATR-FTIR Investigation of Sulfate Bonding Mechanisms on Goethite.

  1999cited by this paper
• Phylogeny of Dissimilatory Sulfite Reductases Supports an Early Origin of Sulfate Respiration

  1998cited by this paper
• Everything in moderation: archaea as 'non-extremophiles'.

  1998cited by this paper
• Infrared Spectral Interpretation: A Systematic Approach

  1998cited by this paper
• Amorphous calcium carbonate transforms into calcite during sea urchin larval spicule growth

  1997cited by this paper
• Stress-Induced Production of Biofilm in the Hyperthermophile Archaeoglobus fulgidus

  1997cited by this paper
• Performance of an infrared microspectrometer at the NSLS

  1995cited by this paper
• Microscopic analysis of interactions between HIV particles and living leukocytes.

  1993cited by this paper
• Measurement of co‐localization of objects in dual‐colour confocal images

  1993influential reference
• Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms.

  1993cited by this paper
• Rapid identification of bacteria of the Comamonadaceae with amplified ribosomal DNA-restriction analysis (ARDRA).

  1992influential reference
• A phylogenetic analysis of Aquifex pyrophilus.

  1992cited by this paper
• Structures of archaebacterial membrane lipids

  1992cited by this paper
• Origin and morphology of limestone caves

  1991cited by this paper
• 16S/23S rRNA sequencing

  1991cited by this paper
• Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology

  1990influential reference
• Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations

  1990influential reference
• Basic local alignment search tool.

  1990cited by this paper
• A method for the separation and characterization of archaebacterial signature ether lipids.

  1986cited by this paper
• Geochemical implications of sulfate in sedimentary carbonates

  1985cited by this paper
• Fluorescent redox dyes

  1984cited by this paper
• Sulfate Reducers Can Outcompete Methanogens at Freshwater Sulfate Concentrations

  1983influential reference
• Applications of Infrared, Raman, and Resonance Raman Spectroscopy in Biochemistry

  1983cited by this paper
• Beggiatoa, Thiothrix, and Thioploca.

  1983influential reference
• Sulfolipid I of Mycobacterium tuberculosis, strain H37Rv. II. Structural studies.

  1970cited by this paper
• Microbial sulfolipids. 3. The disulfate of (+)-1,14-docosanediol in Ochromonas danica.

  1969cited by this paper
• Infrared Study of the OH Groups in Expanded Kaolinite

  1964cited by this paper
• 1040. The acid polysaccharide from the green seaweed Ulva lactuca. Part II. The site of the ester sulphate

  1963cited by this paper
• Infrared study of the carbonate minerals

  1960cited by this paper
• Mineralogical Society (London)

  1955cited by this paper
• THE POPULATION FREQUENCIES OF SPECIES AND THE ESTIMATION OF POPULATION PARAMETERS

  1953cited by this paper
• The Infrared Absorption Spectra of Unsaturated Fatty Acids and Esters1

  1952cited by this paper

• Artificial intelligence-empowered imaging technologies for biofilm static characterization and dynamic monitoring

  2025cites this paper
• Differential Expression of Core Metabolic Functions in Candidatus Altiarchaeum Inhabiting Distinct Subsurface Ecosystems

  2025cites this paper
• In situ X-ray and IR probes relevant to Earth science at the Advanced Light Source at Lawrence Berkeley Laboratory

  2024cites this paper
• Enhanced extracellular matrix production provides protection to cell wall-deficient Escherichia coli

  2024cites this paper
• The microbiome of Riccia liverworts is an important reservoir for microbial diversity in temporary agricultural crusts

  2023cites this paper
• Virus-Host Dynamics in Archaeal Groundwater Biofilms and the Associated Bacterial Community Composition

  2023cites this paper
• Progress and Challenges in Studying the Ecophysiology of Archaea.

  2022cites this paper
• Genetic diversity in terrestrial subsurface ecosystems impacted by geological degassing

  2022cites this paper
• Practical Handbook of Microbiology

  2022cites this paper
• Gaussian Processes for Autonomous Data Acquisition at Large-Scale Synchrotron and Neutron Scattering Facilities

  2021cites this paper
• Seasonal diet and microbiome shifts in wild rhesus macaques are better correlated at the level of nutrient components than food items.

  2021cites this paper
• Microscopic Methods for Identification of Sulfate-Reducing Bacteria from Various Habitats

  2021cites this paper
• Taxonomic and functional analyses of intact microbial communities thriving in extreme, astrobiology-relevant, anoxic sites

  2021cites this paper
• Analysis of Pathogenic Bacterial and Yeast Biofilms Using the Combination of Synchrotron ATR-FTIR Microspectroscopy and Chemometric Approaches

  2021cites this paper
• Comparative Genomics Provides Insights into the Genetic Diversity and Evolution of the DPANN Superphylum

  2021cites this paper
• Lytic archaeal viruses infect abundant primary producers in Earth’s crust

  2021cites this paper
• Gaussian processes for autonomous data acquisition at large-scale synchrotron and neutron facilities

  2021cites this paper
• Interplay of microbial communities with mineral environments in coralline algae.

  2020cites this paper
• Genome-informed microscopy reveals infections of uncultivated carbon-fixing archaea by lytic viruses in Earth’s crust

  2020cites this paper
• Multi-technique microscopy investigation on bacterial biofilm matrices: a study on Klebsiella pneumoniae clinical strains

  2019cites this paper
• Imaging the Microprocesses in Biofilm Matrices.

  2019cites this paper
• Membrane Vesicles Are the Dominant Structural Components of Ceftazidime-Induced Biofilm Formation in an Oxacillin-Sensitive MRSA

  2019cites this paper
• Genomic diversity, lifestyles and evolutionary origins of DPANN archaea

  2019cites this paper
• Dynamic Dispersal of Surface Layer Biofilm Induced by Nanosized TiO2 Based on Surface Plasmon Resonance and Waveguide

  2018cites this paper
• Exploring Biogeochemistry and Microbial Diversity of Extant Microbialites in Mexico and Cuba

  2018cites this paper
• The deep continental subsurface: the dark biosphere

  2018cites this paper
• Lipid analysis of CO2-rich subsurface aquifers suggests an autotrophy-based deep biosphere with lysolipids enriched in CPR bacteria

  2018cites this paper
• Green biocide for mitigating sulfate-reducing bacteria influenced microbial corrosion

  2018cites this paper
• Archaea Are Interactive Components of Complex Microbiomes.

  2018cites this paper
• Active microbial biofilms in deep poor porous continental subsurface rocks

  2018cites this paper
• Bacteria from sub-explored environments: potential to fight lung cancer and associated infections

  2018cites this paper
• Technologies for Characterizing Molecular and Cellular Systems Relevant to Bioenergy and Environment. Workshop report, September 21–23, 2016

  2017cites this paper
• Human age and skin physiology shape diversity and abundance of Archaea on skin

  2017cites this paper
• Discrimination of foodborne pathogenic bacteria using synchrotron FTIR microspectroscopy

  2017cites this paper
• Novel Large Sulfur Bacteria in the Metagenomes of Groundwater-Fed Chemosynthetic Microbial Mats in the Lake Huron Basin

  2017cites this paper
• Structural, tribological, and mechanical properties of the hind leg joint of a jumping insect: Using katydids to inform bioinspired lubrication systems.

  2017cites this paper
• Discrimination of foodborne pathogenic bacteria using synchrotron FTIR microspectroscopy

  2017cites this paper
• Towards Integrating Synchrotron FTIR Microscopy with Mass Spectrometry at the Berkeley Synchrotron Infrared Structural Biology (BSISB) Program

  2017cites this paper
• Lawrence Berkeley National Laboratory Recent Work Title Microfluidic approaches to synchrotron radiation-based fourier transform infrared ( SR-FTIR ) spectral microscopy of living biosystems Permalink

  2016cites this paper
• Microfluidic Approaches to Synchrotron Radiation-Based Fourier Transform Infrared (SR-FTIR) Spectral Microscopy of Living Biosystems

  2016cites this paper
• Neue Archaeen aus der Tiefe setzen Treibhausgas um

  2015cites this paper
• S-layers at second glance? Altiarchaeal grappling hooks (hami) resemble archaeal S-layer proteins in structure and sequence

  2015influential citation
• A Post-Genomic View of the Ecophysiology, Catabolism and Biotechnological Relevance of Sulphate-Reducing Prokaryotes.

  2015cites this paper
• Diverse uncultivated ultra-small bacterial cells in groundwater

  2015cites this paper
• “Altiarchaeales”: Uncultivated Archaea from the Subsurface

  2015cites this paper
• Release mechanism of omega-3 fatty acid in κ-carrageenan/polydextrose undergoing glass transition.

  2015cites this paper
• Ambient infrared laser ablation mass spectrometry (AIRLAB-MS) of live plant tissue with plume capture by continuous flow solvent probe.

  2015cites this paper
• Comparing Bacterial Community Composition of Healthy and Dark Spot-Affected Siderastrea siderea in Florida and the Caribbean

  2014cites this paper
• Emerging Spectral Microscopy Techniques and Applications to Biofilm Detection

  2014cites this paper
• Microbial communities in UK aquifers: current understanding and future research needs

  2014cites this paper
• Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface

  2014cites this paper
• Grappling archaea: ultrastructural analyses of an uncultivated, cold-loving archaeon, and its biofilm

  2014cites this paper
• Coupling Genetic and Chemical Microbiome Profiling Reveals Heterogeneity of Archaeome and Bacteriome in Subsurface Biofilms That Are Dominated by the Same Archaeal Species

  2014influential citation
• Quantification of Encapsulated Bioburden in Spacecraft Polymer Materials by Cultivation-Dependent and Molecular Methods

  2014cites this paper
• Characterization of Wastewater Treatment Plant Microbial Communities and the Effects of Carbon Sources on Diversity in Laboratory Models

  2014cites this paper
• Biofilm formation of mucosa-associated methanoarchaeal strains

  2014cites this paper
• Biogeographic congruency among bacterial communities from terrestrial sulfidic springs

  2014cites this paper
• Microbial syntrophy: interaction for the common good.

  2013cites this paper
• Archaea on Human Skin

  2013cites this paper
• Near real time, accurate, and sensitive microbiological safety monitoring using an all-fibre spectroscopic fluorescence system

  2013cites this paper
• Total viable bacterial count using a real time all-fibre spectroscopic system.

  2013cites this paper