Estimating Population Turnover Rates by Relative Quantification Methods Reveals Microbial Dynamics in Marine Sediment

No abstract is available for this paper.

• Publication year

  2017

• Venue

  Applied and Environmental Microbiology

• Publication date

  2017-10-20

• Fields of study

  Medicine, Chemistry, Environmental Science

• Identifiers
  DOI 10.1128/AEM.01443-17PMID 29054869PMCID PMC5734028
• 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.

• Bacterial Abundance and Community Composition in Pond Water From Shrimp Aquaculture Systems With Different Stocking Densities

  2018cited by this paper
• Phylogenetically Novel Uncultured Microbial Cells Dominate Earth Microbiomes

  2018cited by this paper
• Microbial community assembly and evolution in subseafloor sediment

  2017cited by this paper
• Ubiquitous Gammaproteobacteria dominate dark carbon fixation in coastal sediments

  2016cited by this paper
• Genomic evidence for distinct carbon substrate preferences and ecological niches of Bathyarchaeota in estuarine sediments.

  2016cited by this paper
• Chasing the elusive Euryarchaeota class WSA2: genomes reveal a uniquely fastidious methyl-reducing methanogen

  2016cited by this paper
• Genomic reconstruction of a novel, deeply branched sediment archaeal phylum with pathways for acetogenesis and sulfur reduction

  2016cited by this paper
• Genomic resolution of linkages in carbon, nitrogen, and sulfur cycling among widespread estuary sediment bacteria

  2015cited by this paper
• Methanogenic archaea database containing physiological and biochemical characteristics.

  2015cited by this paper
• Genomic expansion of domain archaea highlights roles for organisms from new phyla in anaerobic carbon cycling.

  2015cited by this paper
• Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle

  2014cited by this paper
• Obtaining genomes from uncultivated environmental microorganisms using FACS–based single-cell genomics

  2014cited by this paper
• The Family Syntrophaceae

  2014cited by this paper
• Dead or Alive: Molecular Assessment of Microbial Viability

  2014cited by this paper
• Mathematical modeling of primary succession of murine intestinal microbiota

  2013cited by this paper
• Predominant archaea in marine sediments degrade detrital proteins

  2013cited by this paper
• Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

  2013cited by this paper
• Archaea in biogeochemical cycles.

  2013cited by this paper
• DNA-SIP Reveals That Syntrophaceae Play an Important Role in Methanogenic Hexadecane Degradation

  2013cited by this paper
• Global distribution of microbial abundance and biomass in subseafloor sediment

  2012cited by this paper
• Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

  2012cited by this paper
• Aceticlastic and NaCl-Requiring Methanogen “Methanosaeta pelagica” sp. nov., Isolated from Marine Tidal Flat Sediment

  2012cited by this paper
• The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

  2012cited by this paper
• Impact of Long-Term Diesel Contamination on Soil Microbial Community Structure

  2012cited by this paper
• Endospore abundance, microbial growth and necromass turnover in deep sub-seafloor sediment

  2012cited by this paper
• Archaea of the Miscellaneous Crenarchaeotal Group are abundant, diverse and widespread in marine sediments

  2012cited by this paper
• Isolation of Two Novel Marine Ethylene-Assimilating Bacteria, Haliea Species ETY-M and ETY-NAG, Containing Particulate Methane Monooxygenase-like Genes

  2012cited by this paper
• Microbial seed banks: the ecological and evolutionary implications of dormancy

  2011cited by this paper
• How sulphate-reducing microorganisms cope with stress: lessons from systems biology

  2011cited by this paper
• The quantitative significance of Syntrophaceae and syntrophic partnerships in methanogenic degradation of crude oil alkanes

  2011cited by this paper
• Taxonomic and Functional Metagenomic Profiling of the Microbial Community in the Anoxic Sediment of a Sub-saline Shallow Lake (Laguna de Carrizo, Central Spain)

  2011cited by this paper
• Oligonucleotide primers, probes and molecular methods for the environmental monitoring of methanogenic archaea

  2011cited by this paper
• Environmental evidence for net methane production and oxidation in putative ANaerobic MEthanotrophic (ANME) archaea.

  2011cited by this paper
• A cryptic sulfur cycle driven by iron in the methane zone of marine sediment (Aarhus Bay, Denmark)

  2011cited by this paper
• 24. Microbial Diversity in the Deep Sea and the Underexplored “Rare Biosphere”

  2011cited by this paper
• Marinicella litoralis gen. nov., sp. nov., a gammaproteobacterium isolated from coastal seawater.

  2010cited by this paper
• Sulfate-reducing bacteria in marine sediment (Aarhus Bay, Denmark): abundance and diversity related to geochemical zonation.

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

  2009cited by this paper
• Quantification of mcrA by fluorescent PCR in methanogenic and methanotrophic microbial communities.

  2008cited by this paper
• Methanogenic archaea: ecologically relevant differences in energy conservation

  2008cited by this paper
• Microbial Population Structures in the Deep Marine Biosphere

  2007cited by this paper
• Methanosaeta, the forgotten methanogen?

  2007cited by this paper
• Use of 16S rRNA Gene Based Clone Libraries to Assess Microbial Communities Potentially Involved in Anaerobic Methane Oxidation in a Mediterranean Cold Seep

  2007cited by this paper
• Hydrogen 'leakage' during methanogenesis from methanol and methylamine: implications for anaerobic carbon degradation pathways in aquatic sediments.

  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
• Microbial diversity in the deep sea and the underexplored “rare biosphere”

  2006cited by this paper
• Long-term survival during stationary phase: evolution and the GASP phenotype

  2006cited by this paper
• Anaerolinea thermolimosa sp. nov., Levilinea saccharolytica gen. nov., sp. nov. and Leptolinea tardivitalis gen. nov., sp. nov., novel filamentous anaerobes, and description of the new classes Anaerolineae classis nov. and Caldilineae classis nov. in the bacterial phylum Chloroflexi.

  2006cited by this paper
• Global gene expression of Prochlorococcus ecotypes in response to changes in nitrogen availability

  2006cited by this paper
• Diversity of Archaea in Marine Sediments from Skan Bay, Alaska, Including Cultivated Methanogens, and Description of Methanogenium boonei sp. nov

  2006cited by this paper
• Analysis of community structures in anaerobic processes using a quantitative real-time PCR method.

  2005cited by this paper
• Biogeographic and Quantitative Analyses of Abundant Uncultivated γ-Proteobacterial Clades from Marine Sediment

  2005cited by this paper
• River contract in Wallonia (Belgium) and its application for water management in the Sourou valley (Burkina Faso).

  2005cited by this paper
• Isolation of an autotrophic ammonia-oxidizing marine archaeon

  2005cited by this paper
• Viruses in the sea

  2005cited by this paper
• Microbial Diversity in Coastal Subsurface Sediments: a Cultivation Approach Using Various Electron Acceptors and Substrate Gradients

  2005cited by this paper
• Here a virus, there a virus, everywhere the same virus?

  2005cited by this paper
• Deep sub-seafloor prokaryotes stimulated at interfaces over geological time

  2005cited by this paper
• Quantitative analysis of bacterial communities from Mediterranean sapropels based on cultivation-dependent methods.

  2004cited by this paper
• A Predator Unmasked: Life Cycle of Bdellovibrio bacteriovorus from a Genomic Perspective

  2004cited by this paper
• Diversity and evolution of Bdellovibrio-and-like organisms (BALOs), reclassification of Bacteriovorax starrii as Peredibacter starrii gen. nov., comb. nov., and description of the Bacteriovorax-Peredibacter clade as Bacteriovoracaceae fam. nov.

  2004cited by this paper
• Anaerobic methane oxidation

  2004cited by this paper
• Convenient determination of DNA extraction efficiency using an external DNA recovery standard and quantitative-competitive PCR.

  2004cited by this paper
• The uncultured microbial majority.

  2003cited by this paper
• Anaerolinea thermophila gen. nov., sp. nov. and Caldilinea aerophila gen. nov., sp. nov., novel filamentous thermophiles that represent a previously uncultured lineage of the domain Bacteria at the subphylum level.

  2003cited by this paper
• Effect of anoxia and high sulphide concentrations on heterotrophic microbial communities in reduced surface sediments (Black Spots) in sandy intertidal flats of the German Wadden Sea.

  2003cited by this paper
• Determination of bacterial load by real-time PCR using a broad-range (universal) probe and primers set.

  2002cited by this paper
• Determination of Virus Abundance in Marine Sediments

  2001cited by this paper
• Community Structure, Cellular rRNA Content, and Activity of Sulfate-Reducing Bacteria in Marine Arctic Sediments

  2000cited by this paper
• A marine microbial consortium apparently mediating anaerobic oxidation of methane

  2000cited by this paper
• A novel pH2 control on the expression of flagella in the hyperthermophilic strictly hydrogenotrophic methanarchaeaon Methanococcus jannaschii.

  2000cited by this paper
• Elements of a theory for the mechanisms controlling abundance, diversity, and biogeochemical role of lytic bacterial viruses in aquatic systems

  2000cited by this paper
• Acetogenesis from CO2 in an anoxic marine sediment

  1999cited by this paper
• Off-flavor problems in two reservoirs, associated with planktonic Pseudanabaena species

  1999cited by this paper
• Biogeochemical processes controlling methane in gassy coastal sediments—Part 1. A model coupling organic matter flux to gas production, oxidation and transport

  1998cited by this paper
• Thermodynamic control on hydrogen concentrations in anoxic sediments

  1998cited by this paper
• Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR

  1996cited by this paper
• Field and laboratory studies of methane oxidation in an anoxic marine sediment: Evidence for a methanogen‐sulfate reducer consortium

  1994cited by this paper
• Archaea in coastal marine environments.

  1992cited by this paper
• Spirochaeta thermophila sp. nov., an Obligately Anaerobic, Polysaccharolytic, Extremely Thermophilic Bacterium

  1992cited by this paper
• Factors that control the stable carbon isotopic composition of methane produced in an anoxic marine sediment

  1992cited by this paper
• Early Diagenesis: A Theoretical Approach

  1980cited by this paper
• Anaerobic methane oxidation: Rate depth distributions in Skan Bay sediments

  1980cited by this paper
• Bacterial Growth Rate in the Sea: Direct Analysis by Thymidine Autoradiography

  1967cited by this paper

• Polyphosphate as an Integral Component of Global Phosphorus Cycling through Earth's History.

  2026cites this paper
• PAH contamination in coastal surface sediments and associated bacterial communities

  2024cites this paper
• Temporal assembly patterns of microbial communities in three parallel bioreactors treating low-concentration coking wastewater with differing carbon source concentrations.

  2023cites this paper
• A systematic analysis of residue and risk of cyantraniliprole in the water-sediment system: Does metabolism reduce its environmental risk?

  2023cites this paper
• Biological methane production and accumulation under sulfate-rich conditions at Cape Lookout Bight, NC

  2023cites this paper
• Cryptic Methane-Cycling by Methanogens During Multi-Year Incubation of Estuarine Sediment

  2022influential citation
• ANME-1 archaea may drive methane accumulation and removal in estuarine sediments.

  2021cites this paper
• The influence of the DOCE river mouth on the microbiome of nearby coastal areas three years after the Fundão Dam failure, Brazil.

  2021cites this paper
• Quantification of pathogenic bacteria in the subgingival oral biofilm samples collected from cigarette-smokers, individuals using electronic nicotine delivery systems and non-smokers with and without periodontitis.

  2020cites this paper
• Mechanisms of decarboxylation of phenylacetic acids and their sodium salts in water at high temperature and pressure

  2020cites this paper
• ANME-1 archaea drive methane accumulation and removal in estuarine sediments

  2020cites this paper
• Evidence for a growth zone for deep subsurface microbial clades in near-surface anoxic sediments

  2020cites this paper
• The fate of organic carbon in marine sediments - New insights from recent data and analysis

  2020cites this paper
• Evidence for a Growth Zone for Deep-Subsurface Microbial Clades in Near-Surface Anoxic Sediments

  2020cites this paper
• Effects of Organic Phosphorus on Methylotrophic Methanogenesis in Coastal Lagoon Sediments With Seagrass (Zostera marina) Colonization

  2020cites this paper
• The Genetics, Biochemistry, and Biophysics of Carbon Cycling by Deep Life

  2019cites this paper
• A multiview model for relative and absolute microbial abundances

  2019cites this paper
• Consistent and correctable bias in metagenomic sequencing experiments

  2019cites this paper
• Anaerobic degradation of hexadecane and phenanthrene coupled to sulfate reduction by enriched consortia from northern Gulf of Mexico seafloor sediment

  2019cites this paper
• Phylogenetically Novel Uncultured Microbial Cells Dominate Earth Microbiomes

  2018cites this paper
• Bacterial Abundance and Community Composition in Pond Water From Shrimp Aquaculture Systems With Different Stocking Densities

  2018cites this paper