Identification of novel bacterial lineages as active members of microbial populations in a freshwater sediment using a rapid RNA extraction procedure and RT-PCR.

No abstract is available for this paper.

• Publication year

  1999

• Venue

  Microbiology

• Publication date

  1999-08-01

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1099/13500872-145-8-1977PMID 10463164
• 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.

• Antigens of Rickettsia conorii recognized by seropositive healthy people from Salamanca (Central-West Spain)

  2004cited by this paper
• The RDP-II (Ribosomal Database Project)

  2001cited by this paper
• Divergent members of the bacterial division Verrucomicrobiales in a temperate freshwater lake

  1998cited by this paper
• Quantification of bacterial mRNA involved in degradation of 1,2,4-trichlorobenzene by Pseudomonas sp. strain P51 from liquid culture and from river sediment by reverse transcriptase PCR (RT/PCR).

  1998cited by this paper
• Novel Division Level Bacterial Diversity in a Yellowstone Hot Spring

  1998influential reference
• Microbial Diversity in a Hydrocarbon- and Chlorinated-Solvent-Contaminated Aquifer Undergoing Intrinsic Bioremediation

  1998cited by this paper
• Impact of Culture-Independent Studies on the Emerging Phylogenetic View of Bacterial Diversity

  1998cited by this paper
• Analysis of Subfossil Molecular Remains of Purple Sulfur Bacteria in a Lake Sediment

  1998cited by this paper
• Growth Rate Regulation of rRNA Content of a MarineSynechococcus (Cyanobacterium) Strain

  1998cited by this paper
• Phylogeny of the Main Bacterial 16S rRNA Sequences in Drentse A Grassland Soils (The Netherlands)

  1998cited by this paper
• Bacterial diversity in Adirondack mountain lakes as revealed by 16S rRNA gene sequences

  1997cited by this paper
• Molecular microbial diversity in soils from eastern Amazonia: evidence for unusual microorganisms and microbial population shifts associated with deforestation

  1997cited by this paper
• The RDP (Ribosomal Database Project)

  1997cited by this paper
• Verrucomicrobia div. nov., a new division of the Bacteria containing three new species of Prosthecobacter

  1997cited by this paper
• Novel anaerobic ultramicrobacteria belonging to the Verrucomicrobiales lineage of bacterial descent isolated by dilution culture from anoxic rice paddy soil

  1997cited by this paper
• Bacterial diversity of a Carolina bay as determined by 16S rRNA gene analysis: confirmation of novel taxa

  1997cited by this paper
• Direct ribosome isolation from soil to extract bacterial rRNA for community analysis

  1996cited by this paper
• Phylogeny of Prosthecobacter, the fusiform caulobacters: members of a recently discovered division of the bacteria.

  1996cited by this paper
• Phylogenetic analysis of the bacterial communities in marine sediments

  1996cited by this paper
• Distribution of sulfate-reducing bacteria in a stratified fjord (Mariager Fjord, Denmark) as evaluated by most-probable-number counts and denaturing gradient gel electrophoresis of PCR-amplified ribosomal DNA fragments

  1996cited by this paper
• Rapid Extraction of DNA and rRNA from Sediments by a Novel Hydroxyapatite Spin-Column Method

  1996cited by this paper
• Molecular microbial diversity of an agricultural soil in Wisconsin

  1996cited by this paper
• Estimation of the abundance of an uncultured soil bacterial strain by a competitive quantitative PCR method

  1996cited by this paper
• Detection of stratified microbial populations related to Chlorobium and Fibrobacter species in the Atlantic and Pacific oceans

  1996cited by this paper
• Microbial Diversity in Oceanic Systems: rRNA Approaches to the Study of Unculturable Microbes

  1995cited by this paper
• Molecular Ecology of Aquatic Microbes

  1995cited by this paper
• Isolation and characterization of RNA from low-biomass deep-subsurface sediments

  1995cited by this paper
• Ogram A, Sun W, Brockman FJ, Fredrickson JK.. Isolation and characterization of RNA from low-biomass deep-subsurface sediments. Appl Environ Microbiol 61: 763-768

  1995cited by this paper
• Molecular phylogenetic analysis of a soil microbial community in a soybean field

  1995cited by this paper
• Assignment of hitherto unidentified 16S rDNA species to a main line of descent within the domain Bacteria

  1995cited by this paper
• Improved Method for Recovery of mRNA from Aquatic Samples and Its Application to Detection of mer Expression

  1994cited by this paper
• TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment

  1994cited by this paper
• merA gene expression in aquatic environments measured by mRNA production and Hg(II) volatilization

  1994cited by this paper
• Characterization of marine prokaryotic communities via DNA and RNA

  1994cited by this paper
• The Development of Media Suitable for the Microorganisms Morphologically Resembling Planctomyces spp., Pirellula spp., and other Planctomycetales from Various Aquatic Habitats Using Dilute Media

  1994cited by this paper
• The genetic data environment an expandable GUI for multiple sequence analysis

  1994cited by this paper
• Phylogenetic diversity of subsurface marine microbial communities from the Atlantic and Pacific Oceans

  1993cited by this paper
• Gene Expression per Gene Dose, a Specific Measure of Gene Expression in Aquatic Microorganisms

  1993cited by this paper
• Simple method of concentrating enteroviruses and hepatitis A virus from sewage and ocean water for rapid detection by reverse transcriptase-polymerase chain reaction

  1993cited by this paper
• Phylogenetic diversity of aggregate‐attached vs. free‐living marine bacterial assemblages

  1993cited by this paper
• Quantitative Relationship between Naphthalene Catabolic Gene Frequency and Expression in Predicting PAH Degradation in Soils at Town Gas Manufacturing Sites

  1993cited by this paper
• Measurement of rRNA Variations in Natural Communities of Microorganisms on the Southeastern U.S. Continental Shelf

  1993cited by this paper
• Direct extraction and purification of rRNA for ecological studies

  1993cited by this paper
• Polymerase chain reaction amplification of naphthalene-catabolic and 16S rRNA gene sequences from indigenous sediment bacteria

  1993cited by this paper
• Rapid DNA extraction protocol from soil for polymerase chain reaction‐mediated amplification

  1993cited by this paper
• Variations in rRNA content of marine Vibrio spp. during starvation-survival and recovery

  1992cited by this paper
• Occurrence of novel groups of the domain Bacteria as revealed by analysis of genetic material isolated from an Australian terrestrial environment

  1992cited by this paper
• Rapid method for separation of bacterial DNA from humic substances in sediments for polymerase chain reaction

  1992cited by this paper
• Bacterioplankton community structure and dynamics after large-scale release of nonindigenous bacteria as revealed by low-molecular-weight-RNA analysis

  1992cited by this paper
• Ribosomal RNA Analysis of Microorganisms as They Occur in Nature

  1992cited by this paper
• The Order Planctomycetales and the Genera Planctomyces, Pirellula, Gemmata, and Isosphaera

  1992cited by this paper
• The polymerase chain reaction in an anemic mode: how to avoid cold oligodeoxyribonuclear fusion.

  1991cited by this paper
• Detection of Gene Expression in Genetically Engineered Microorganisms and Natural Phytoplankton Populations in the Marine Environment by mRNA Analysis

  1991cited by this paper
• Genetic diversity in Sargasso Sea bacterioplankton

  1990cited by this paper
• Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA.

  1989cited by this paper
• Sedimentary record of polycyclic aromatic and aliphatic hydrocarbons in the Windermere catchment

  1989cited by this paper
• Selective Recovery of 16S rRNA Sequences from Natural Microbial Communities in the Form of cDNA

  1989cited by this paper
• Rapid extraction of bacterial genomic DNA with guanidium thiocyanate

  1989cited by this paper
• Verrucomicrobium spinosum gen. nov., sp. nov.: a Fimbriated Prosthecate Bacterium

  1987cited by this paper
• Creating a ribonuclease-free environment.

  1987cited by this paper
• The extraction and purification of microbial DNA from sediments

  1987cited by this paper
• The neighbor-joining method: a new method for reconstructing phylogenetic trees.

  1987cited by this paper
• Molecular Cell Biology

  1986cited by this paper
• Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses.

  1985cited by this paper
• Nucleotide sequence of a gene from the Pseudomonas transposon Tn501 encoding mercuric reductase.

  1983cited by this paper
• The Jenkin Surface-Mud Sampler : user manual

  1982cited by this paper
• Evolution of Protein Molecules

  1979cited by this paper
• Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli.

  1978cited by this paper
• CHAPTER 24 – Evolution of Protein Molecules

  1969cited by this paper
• Ribonucleic acid composition of bacteria as a function of growth rate.

  1966cited by this paper

• Alleviation of xenobiotic stress in Helianthus annuus plants via a system of Rhodococcus erythropolis IGTS8 and Brevibacillus formosus HMA5.

  2025cites this paper
• Arctic tundra soil depth, more than seasonality, determines active layer bacterial community variation down to the permafrost transition

  2024cites this paper
• Diversity of Culturable Bacteria from the Coral Reef Areas in the South China Sea and Their Agar-Degrading Abilities

  2024cites this paper
• In vitro and in vivo detection of microbial gene expression in bioactivated scaffolds seeded with cyanobacteria

  2022cites this paper
• A critical analysis of research methods and experimental models to study irrigants and irrigation systems

  2022cites this paper
• Effect of sludge recirculation on removal of antibiotics in two-stage membrane bioreactor (MBR) treating livestock wastewater

  2020cites this paper
• Spatiotemporal dynamics of the total and active Vibrio spp. populations throughout the Changjiang estuary in China

  2020cites this paper
• Planctomycetes as Host-Associated Bacteria: A Perspective That Holds Promise for Their Future Isolations, by Mimicking Their Native Environmental Niches in Clinical Microbiology Laboratories

  2020cites this paper
• Polyhydroxyalkanoates (PHA) from Halomonas pacifica ASL10 and Halomonas salifodiane ASL11 isolated from Mariout salt lakes.

  2020cites this paper
• Recruitment of cyanobacteria by reverse transcription quantitative real-time PCR based on expression of Microcystis gene

  2019cites this paper
• Vertical variation of bulk and metabolically active prokaryotic community in sediment of a hypereutrophic freshwater lake

  2019cites this paper
• Nucleic Acid Extraction for Studying Plant-Microbe Interactions in Rhizosphere

  2017cites this paper
• Presence of Mycobacterium leprae genotype 4 in environmental waters in Northeast Brazil.

  2017cites this paper
• Pyrosequencing analysis of bacterial communities in Lake Bosten, a large brackish inland lake in the arid northwest of China.

  2016cites this paper
• Identification of subannual patterns in microbial community signatures from individual sedimentary laminae using a freeze‐coring approach

  2016cites this paper
• Analysis of Bacterial Activity in Sound and Cariogenic Biofilm: A Pilot in vivo Study

  2016cites this paper
• Dynamics of the diversity and structure of the overall and nitrifying microbial community in activated sludge along gradient copper exposures

  2016cites this paper
• Production of Bio-Based Hydrogen Enriched Methane from Waste Glycerol in a Two Stage Continuous System

  2016cites this paper
• Production of Bio-Based Hydrogen Enriched Methane from Waste Glycerol in a Two Stage Continuous System

  2016cites this paper
• Viability of Mycobacterium leprae in the environment and its role in leprosy dissemination

  2016cites this paper
• Analysis of Bacterial Activity in Sound and Cariogenic Biofilm: A Pilot in vivo Study.

  2016cites this paper
• Benthic bacteria in the German Bight: Characterising community structure and influencing environmental factors

  2015cites this paper
• Estudo in vivo da susceptibilidade de bactérias Gram-positivas após procedimentos químico-cirúrgico e medicação intracanal pelo método de reação de cadeia de polimerase baseado em DNA e RNA

  2015cites this paper
• Distribution of human-specific Bacteroidales and fecal indicators in an 1 urban watershed impacted by sewage pollution using RNA and DNA 2 based quantitative PCR assays

  2014cites this paper
• Distribution of Human-Specific Bacteroidales and Fecal Indicator Bacteria in an Urban Watershed Impacted by Sewage Pollution, Determined Using RNA- and DNA-Based Quantitative PCR Assays

  2014cites this paper
• Reverse-transcriptional gene expression of anammox and ammonia-oxidizing archaea and bacteria in soybean and rice paddy soils of Northeast China

  2014cites this paper
• Phylogenetic diversity of aqueous microorganisms separated after the advanced tertiary of tap water

  2014cites this paper
• Erratum to: Hydrogenase Activity of Mineral-Associated and Suspended Populations of Desulfovibrio desulfuricans Essex 6

  2014cites this paper
• Antarctic sea-ice microbial communities show distinct patterns of zonation in response to algal-derived substrates

  2014cites this paper
• Hydrogenase Activity of Mineral-Associated and Suspended Populations of Desulfovibrio desulfuricans Essex 6

  2014cites this paper
• Molecular identification of polyhydroxyalkanoates-producing bacteria isolated from enriched microbial community.

  2013cites this paper
• Detection of fecal bacteria and source tracking identifiers in environmental waters using rRNA-based RT-qPCR and rDNA-based qPCR assays.

  2013cites this paper
• A systematic insight into a single‐stage deammonification process operated in granular sludge reactor with high‐loaded reject‐water: characterization and quantification of microbiological community

  2013cites this paper
• Geo-Chip analysis reveals reduced functional diversity of the bacterial community at a dumping site for dredged Elbe sediment.

  2013cites this paper
• Etude de la diversité bactérienne et génétique dans des cultures dégradant l'ETBE ou le MTBE

  2013cites this paper
• Sensitive life detection strategies for low-biomass environments: optimizing extraction of nucleic acids adsorbing to terrestrial and Mars analogue minerals.

  2012cites this paper
• Benthic bacterial diversity from freshwater tufas of the Iberian Range (Spain).

  2012cites this paper
• Sediment bacteria and archaea community analysis and nutrient fluxes in a sub-tropical polymictic reservoir

  2012cites this paper
• Diversity analysis of bacterial community compositions in sediments of urban lakes by terminal restriction fragment length polymorphism (T-RFLP)

  2012cites this paper
• Ecology of Microorganisms in Freshwater

  2011cites this paper
• Abundance and diversity of Planctomycetes in a Tyrrhenian coastal system of central Italy

  2011cites this paper
• Structure of microbial communities and hydrocarbon-dependent sulfate reduction in the anoxic layer of a polluted microbial mat.

  2011cites this paper
• Abundance, Diversity and Activity of Sulfate-Reducing Prokaryotes in Heavy Metal-Contaminated Sediment from a Salt Marsh in the Medway Estuary (UK)

  2011cites this paper
• Characterization of the aerobic hydrocarbon-oxidizing enrichments from a high-temperature petroleum reservoir by comparative analysis of DNA- and RNA-derived clone libraries

  2011cites this paper
• Temporal Variability of Coastal Planctomycetes Clades at Kabeltonne Station, North Sea

  2011cites this paper
• Cultivation-dependent and -independent characterization of microbial community producing polyhydroxyalkanoates from raw-glycerol.

  2010cites this paper
• Effects of temperature and fertilization on total vs. active bacterial communities exposed to crude and diesel oil pollution in NW Mediterranean Sea.

  2010cites this paper
• Molecular Evidence that Phylogenetically Diverged Ciliates Are Active in Microbial Mats of Deep‐Sea Cold‐Seep Sediment

  2010cites this paper
• Identification of bacterial populations in drinking water using 16S rRNA-based sequence analyses.

  2010cites this paper
• Bacterial diversity in dry modern freshwater stromatolites from Ruidera Pools Natural Park, Spain.

  2010cites this paper
• Identification of bacteria enduring endodontic treatment procedures by a combined reverse transcriptase-polymerase chain reaction and reverse-capture checkerboard approach.

  2010cites this paper
• Toxicogenomics : a transcriptomics approach to assess the toxicity of 4-nitrophenol to Sachharomyces cerevisiae

  2010cites this paper
• An investigation into the prokaryotic diversity of UK forest soils using high throughput sequencing

  2010cites this paper
• Marine microorganisms: Potential application and challenges

  2010cites this paper
• Abundance, distribution and diversity of planktonic Planctomycetes in coastal zones

  2010cites this paper
• Desenvolvimento, validação e aplicação de método molecular baseado na análise do rRNA para a identificação das bactérias formadoras de biofilme metabolicamente ativas na superfície das membranas de osmose reversa.

  2009cites this paper
• An improved method to extract RNA from soil with efficient removal of humic acids

  2009cites this paper
• Effect of gelling agent on colony formation in solid cultivation of microbial community in lake sediment.

  2009cites this paper
• Microbial eukaryotes in the hypersaline anoxic L'Atalante deep-sea basin.

  2009cites this paper
• Diversity and distribution of bacterial communities in dioxin-contaminated sediments from the Houston ship channel

  2009cites this paper
• Complete genome sequence of Pirellula staleyi type strain (ATCC 27377T)

  2009cites this paper
• Cultivation-independent assessment of the bathypelagic archaeal diversity of Tyrrhenian Sea: Comparative study of rDNA and rRNA-derived libraries and influence of sample decompression

  2009cites this paper
• Detection of viable Mycobacterium leprae in soil samples: insights into possible sources of transmission of leprosy.

  2008influential citation
• Multiscale analyses of microbial populations in extreme environments

  2008cites this paper
• Structure and function of benthic microbial community in highly variable freshwater systems

  2008cites this paper
• Supersaturated N2O in a perennially ice‐covered Antarctic lake: Molecular and stable isotopic evidence for a biogeochemical relict

  2008cites this paper
• Presence and activity of ammonia-oxidising bacteria detected amongst the overall bacterial diversity along a physico-chemical gradient of a nitrifying wastewater treatment plant.

  2008cites this paper
• In situ gene expression in cheese matrices: application to a set of enterococcal genes.

  2008cites this paper
• Different Planctomycetes diversity patterns in latitudinal surface seawater of the open sea and in sediment

  2008cites this paper
• Detection of bphAa Gene Expression of Rhodococcus sp. Strain RHA1 in Soil Using a New Method of RNA Preparation from Soil

  2008cites this paper
• Characterization of depth-related microbial communities in lake sediment by denaturing gradient gel electrophoresis of amplified 16S rRNA fragments.

  2008cites this paper
• Expression, purification, crystallization and preliminary X-ray analysis of the polysaccharide lyase RB5312 from the marine planctomycete Rhodopirellula baltica.

  2008cites this paper
• Diversity and Activity of Sulfate-reducing bacteria in Sulfidogenic Wastewater Treatment Reactors

  2007influential citation
• A Molecular Approach to Identify Active Microbes in Environmental Eukaryote Clone Libraries

  2007cites this paper
• Community structure of Archaea and Bacteria in a profundal lake sediment Lake Kinneret (Israel).

  2007cites this paper
• Microarrays: Design and Use for Agricultural and Environmental Applications

  2007cites this paper
• Molecular diversity and anammox activity of novel planctomycete-like bacteria in the wastewater treatment system of a full-scale alcohol manufacturing plant

  2007cites this paper
• BACTERIAL amoA AND 16S rRNA GENES EXPRESSION IN ACTIVATED SLUDGE DURING AERATION PHASE IN SEQUENCING BATCH REACTOR

  2007cites this paper
• Systema Naturae. The classification of living organisms.

  2007cites this paper
• Phylogenetic and Metabolic Diversity of Planctomycetes from Anaerobic, Sulfide- and Sulfur-Rich Zodletone Spring, Oklahoma

  2007cites this paper
• Effects of Heavy Fuel Oil on the Bacterial Community Structure of a Pristine Microbial Mat

  2007cites this paper
• Phylogenetic and Metabolic Diversity of Planctomycetes from Anaerobic, Sulfide- and Sulfur-Rich Zodletone Spring, Oklahoma (cid:1)

  2007cites this paper
• Fosmids of novel marine Planctomycetes from the Namibian and Oregon coast upwelling systems and their cross-comparison with planctomycete genomes

  2007cites this paper
• Analysis of Diversity and Activity of Sulfate-Reducing Bacterial Communities in Sulfidogenic Bioreactors Using 16S rRNA and dsrB Genes as Molecular Markers

  2006cites this paper
• Prokaryotic diversity and metabolically active microbial populations in sediments from an active mud volcano in the Gulf of Mexico.

  2006cites this paper
• Survival and persistence of Bacteroidales human and ruminant specific fecal markers and occurrence with fecal pathogens

  2006cites this paper
• High abundance of planctomycetes in anoxic layers of a Sphagnum peat bog

  2006cites this paper
• Study of bacterial communities in Antarctic coastal waters by a combination of 16S rRNA and 16S rDNA sequencing.

  2006cites this paper
• Molecular detection and diversity of medium‐chain‐length polyhydroxyalkanoates‐producing bacteria enriched from activated sludge

  2006cites this paper
• Diversity of Transcripts of Nitrite Reductase Genes (nirK and nirS) in Rhizospheres of Grain Legumes

  2005cites this paper
• Nucleic acid recovery from complex environmental samples.

  2005cites this paper
• von Biofilmen in Langsamsandfiltern

  2005cites this paper
• Comparison of 16S rRNA and 16S rDNA T-RFLP Approaches to Study Bacterial Communities in Soil Microcosms Treated with Chromate as Perturbing Agent

  2005cites this paper
• Bacterial Populations Active in Metabolism of C1 Compounds in the Sediment of Lake Washington, a Freshwater Lake

  2005cites this paper
• Influence of trenbolone on the structural and functional diversity of microbial communities from a lake sediment

  2005cites this paper
• MOLECULAR ANALYSIS OF DIVERSITY, GENE EXPRESSION AND ACTIVITY OF MINERAL -ASSOCIATED BACTERIA

  2005cites this paper
• T-RFLP analysis of bacterial communities in cyclodextrin-amended bioreactors developed for biodegradation of polychlorinated biphenyls.

  2005cites this paper
• Investigation of bacterial diversity in Brazilian tropical estuarine sediments reveals high actinobacterial diversity

  2005cites this paper
• Comparative Analysis of Bacterial Diversity in Freshwater Sediment of a Shallow Eutrophic Lake by Molecular and Improved Cultivation-Based Techniques

  2005cites this paper
• Bacterial Communities Responsible for the Decomposition of Rice Straw Compost in a Japanese Rice Paddy Field Estimated by DGGE Analysis of Amplified 16S rDNA and 16S rRNA Fragments

  2005cites this paper