Environmental proteomics of microbial plankton in a highly productive coastal upwelling system

No abstract is available for this paper.

• Publication year

  2011

• Venue

  The ISME Journal

• Publication date

  2011-05-01

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1038/ismej.2010.168PMID 21068774PMCID PMC3105774
• 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.

• Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction

  2010influential reference
• Transport functions dominate the SAR11 metaproteome at low-nutrient extremes in the Sargasso Sea

  2009influential reference
• Experimental approach for deep proteome measurements from small-scale microbial biomass samples.

  2008cited by this paper
• Diversity, ecology, and genomics of the Roseobacter clade: a short overview

  2008cited by this paper
• Microbial community gene expression in ocean surface waters

  2008cited by this paper
• The small genome of an abundant coastal ocean methylotroph.

  2008influential reference
• Shotgun metaproteomics of the human distal gut microbiota

  2008influential reference
• The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families

  2007influential reference
• Key role of selective viral-induced mortality in determining marine bacterial community composition.

  2007cited by this paper
• The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific

  2007influential reference
• Characterization of a marine gammaproteobacterium capable of aerobic anoxygenic photosynthesis

  2007influential reference
• Strain-resolved community proteomics reveals recombining genomes of acidophilic bacteria

  2007influential reference
• Polyphyletic photosynthetic reaction centre genes in oligotrophic marine Gammaproteobacteria.

  2007influential reference
• Natural variation in SAR11 marine bacterioplankton genomes inferred from metagenomic data

  2007cited by this paper
• The SAR92 Clade: an Abundant Coastal Clade of Culturable Marine Bacteria Possessing Proteorhodopsin

  2007cited by this paper
• Pirellula and OM43 are among the dominant lineages identified in an Oregon coast diatom bloom.

  2006cited by this paper
• Phosphorus Scavenging in the Unicellular Marine Diazotroph Crocosphaera watsonii

  2006cited by this paper
• Phosphate acquisition genes in Prochlorococcus ecotypes: Evidence for genome-wide adaptation

  2006cited by this paper
• Expression of glutamine synthetase and glutamate dehydrogenase by marine bacterioplankton: Assay optimizations and efficacy for assessing nitrogen to carbon metabolic balance in situ

  2006cited by this paper
• Community Genomics Among Stratified Microbial Assemblages in the Ocean's Interior

  2006cited by this paper
• Distribution of coccoid cyanobacteria and small eukaryotic phytoplankton in the upwelling ecosystem off the Oregon coast during 2001 and 2002

  2005cited by this paper
• Genome Streamlining in a Cosmopolitan Oceanic Bacterium

  2005cited by this paper
• Metaproteomic analysis of Chesapeake Bay microbial communities

  2005cited by this paper
• Proteorhodopsin in the ubiquitous marine bacterium SAR11

  2005cited by this paper
• Molecular diversity and ecology of microbial plankton

  2005cited by this paper
• Community Proteomics of a Natural Microbial Biofilm

  2005cited by this paper
• Analysis of Microbial Gene Transcripts in Environmental Samples

  2005cited by this paper
• The importance of continental margins in the global carbon cycle

  2005cited by this paper
• Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment

  2004cited by this paper
• Environmental Genome Shotgun Sequencing of the Sargasso Sea

  2004cited by this paper
• Cultivation and Growth Characteristics of a Diverse Group of Oligotrophic Marine Gammaproteobacteria

  2004cited by this paper
• Dimethylsulfoniopropionate Metabolism by Pfiesteria-Associated Roseobacter spp

  2004cited by this paper
• Distributions and variability of particulate organic matter in a coastal upwelling system

  2004cited by this paper
• Comparative Metagenomics of Microbial Communities

  2004cited by this paper
• Aerobic Anoxygenic Photosynthesis in Roseobacter Clade Bacteria from Diverse Marine Habitats

  2003cited by this paper
• Cold halocline, increased nutrients and higher chlorophyll off Oregon in 2002

  2003cited by this paper
• Evaluation of multidimensional chromatography coupled with tandem mass spectrometry (LC/LC-MS/MS) for large-scale protein analysis: the yeast proteome.

  2003cited by this paper
• Linking a Bacterial Taxon to Sulfur Cycling in the Sea: Studies of the Marine Roseobacter Group

  2003cited by this paper
• DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomics.

  2002influential reference
• Comparison of three directly coupled HPLC MS/MS strategies for identification of proteins from complex mixtures: single-dimension LC-MS/MS, 2-phase MudPIT, and 3-phase MudPIT

  2002influential reference
• Unsuspected diversity among marine aerobic anoxygenic phototrophs

  2002cited by this paper
• Bacteriochlorophyll a in the ocean: Is anoxygenic bacterial photosynthesis important?

  2002cited by this paper
• SAR11 clade dominates ocean surface bacterioplankton communities

  2002cited by this paper
• Overview of the US JGOFS Bermuda Atlantic Time-series Study (BATS): a decade-scale look at ocean biology and biogeochemistry

  2001cited by this paper
• Assaying picoplankton distribution by flow cytometry of underway samples collected along a meridional transect across the Atlantic Ocean

  2000cited by this paper
• Phosphate depletion in the western North Atlantic Ocean.

  2000cited by this paper
• Effect of nutrient kinetics and cytoarchitecture on bacterioplankter size

  2000cited by this paper
• Phylogenetic comparisons of a coastal bacterioplankton community with its counterparts in open ocean and freshwater systems.

  2000cited by this paper
• An immunological approach to detect phosphate stress in populations and single cells of photosynthetic picoplankton

  1997cited by this paper
• An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database

  1994influential reference
• Relationships between Biovolume and Biomass of Naturally Derived Marine Bacterioplankton.

  1987cited by this paper
• NUTRIENT REGENERATION AND PREFORMED NUTRIENTS OFF OREGON

  1967influential reference

• Diel cycle of lanthanide-dependent methylotrophy by TMED127/Methylaequorales bacteria in oligotrophic surface seawater

  2025cites this paper
• Microdiversity Shapes the Seasonal Niche of Prokaryotic Plankton Inhabiting Surface Waters in a Coastal Upwelling System

  2025cites this paper
• FISH-FACS proteomics: enhanced label-free quantitative proteome analysis from low cell numbers of uncultured environmental microorganisms

  2025cites this paper
• Beyond Meta-Omics: Functional Genomics in Future Marine Microbiome Research.

  2024cites this paper
• Compartment-related aspects of XoxF protein functionality in Methylorubrum extorquens DM4 analysed using its cytoplasmic targeting

  2023cites this paper
• Bacterial catabolism of membrane phospholipids links marine biogeochemical cycles

  2023cites this paper
• Role of Metaproteomic in the Investigating Marine Life

  2023cites this paper
• Lanthanide-Dependent Methanol Metabolism of a Proteobacteria-Dominated Community in a Light Lanthanide-Rich Deep Environment

  2022cites this paper
• Controls of SAR11 subclade abundance, diversity, and growth in two Mid-Atlantic estuaries

  2022cites this paper
• Microbial Community Structure and Ecological Networks during Simulation of Diatom Sinking

  2022cites this paper
• Water masses and their associated temperature and cross-domain biotic factors co-shape upwelling microbial communities.

  2022cites this paper
• Metaexoproteomics Reveals Microbial Behavior in the Ocean’s Interior

  2022cites this paper
• Metabolic tuning of a stable microbial community in the surface oligotrophic Indian Ocean revealed by integrated meta-omics

  2022cites this paper
• High-Throughput Analysis to Decipher Bacterial Diversity and their Functional Properties in Freshwater Bodies

  2021cites this paper
• Protist diversity and community complexity in the rhizosphere of switchgrass are dynamic as plants develop

  2021cites this paper
• Diel Protein Regulation of Marine Picoplanktonic Communities Assessed by Metaproteomics

  2021cites this paper
• Nitrogen availability drives gene length of dominant prokaryotes and diversity of genes acquiring Nitrogen-species in oceanic systems

  2021cites this paper
• Bacterial community variations in the South China Sea driven by different chemical conditions

  2021cites this paper
• Metaproteomics Reveals Similar Vertical Distribution of Microbial Transport Proteins in Particulate Organic Matter Throughout the Water Column in the Northwest Pacific Ocean

  2021influential citation
• PepMANDIS: A Peptide Selection Tool for Designing Function-Based Targeted Proteomic Assays in Complex Microbial Systems

  2021cites this paper
• Retrospective study on changes in Dondra lagoon (2006–2017) resulting from tsunami impact and post-tsunami development

  2020cites this paper
• The Cellular Response to Lanthanum Is Substrate Specific and Reveals a Novel Route for Glycerol Metabolism in Pseudomonas putida KT2440

  2020cites this paper
• Diversity and potential function of bacterial communities in different upwelling systems

  2020cites this paper
• Developing Front-end Devices for Improved Sample Preparation in MS-based Proteome Analysis.

  2020cites this paper
• Winter river plumes shape community composition and activity of heterotrophic microorganisms on the Oregon Coast

  2020cites this paper
• Diel Rhythms of Marine Picoplanktonic 1 Communities Assessed by Comparative 2 Metaproteomics 3

  2020cites this paper
• Occurrence of XoxF-type methanol dehydrogenases in bacteria inhabiting light lanthanide-rich shale rock.

  2020cites this paper
• Dissecting microbial community structure and metabolic activities at an oceanic deep chlorophyll maximum layer by size-fractionated metaproteomics

  2020cites this paper
• Proteomic Profiling of Emiliania huxleyi Using a Three-Dimensional Separation Method Combined with Tandem Mass Spectrometry

  2020cites this paper
• The application of molecular tools to study the drinking water microbiome – Current understanding and future needs

  2019cites this paper
• The cellular response towards lanthanum is substrate specific and reveals a novel route for glycerol metabolism in Pseudomonas putida KT2440

  2019cites this paper
• More Is Not Always Better: Evaluation of 1D and 2D-LC-MS/MS Methods for Metaproteomics

  2019cites this paper
• Use of rare‐earth elements in the phyllosphere colonizer Methylobacterium extorquens PA1

  2019cites this paper
• Taurine Is a Major Carbon and Energy Source for Marine Prokaryotes in the North Atlantic Ocean off the Iberian Peninsula

  2019cites this paper
• Genome-Resolved Proteomic Stable Isotope Probing of Soil Microbial Communities Using 13CO2 and 13C-Methanol

  2019cites this paper
• Deciphering the Functioning of Microbial Communities: Shedding Light on the Critical Steps in Metaproteomics

  2019cites this paper
• Effects of Vertical Water Mass Segregation on Bacterial Community Structure in the Beaufort Sea

  2019cites this paper
• Metaproteomics reveal that rapid perturbations in organic matter prioritize functional restructuring over taxonomy in western Arctic Ocean microbiomes

  2019cites this paper
• After the Taxonomic Identification Phase: Addressing the Functions of Symbiotic Communities Within Marine Invertebrates

  2019cites this paper
• Coupling Metaproteomics with Taxonomy to Determine Responses of Bacterioplankton to Organic Perturbations in the Western Arctic Ocean

  2019cites this paper
• Systems Biology Meets Enzymology: Recent Insights into Communal Metabolism of Methane and the Role of Lanthanides.

  2019cites this paper
• Microbial Cycling of Methane

  2019cites this paper
• Function Profiling of Microbial Community

  2019cites this paper
• Physiology and Biochemistry of the Aerobic Methanotrophs

  2018cites this paper
• Metals and Methanotrophy

  2018cites this paper
• Illuminating microbial metabolic activities in the dark deep ocean with metaproteomics

  2018cites this paper
• Rapid Formation of Microbe-Oil Aggregates and Changes in Community Composition in Coastal Surface Water Following Exposure to Oil and the Dispersant Corexit

  2018cites this paper
• Editorial: Molecular Ecology and Genetic Diversity of the Roseobacter Clade

  2018cites this paper
• Bacterial community structure in the Bohai Strait provides insights into organic matter niche partitioning

  2018cites this paper
• A multi-omics approach to microbial nitrogen and sulfur cycling in the oxygen starved ocean

  2018cites this paper
• Metaproteomics reveals major microbial players and their metabolic activities during the blooming period of a marine dinoflagellate Prorocentrum donghaiense

  2018cites this paper
• Comparative Metaproteomics to Study Environmental Changes

  2018cites this paper
• Application of Omics Approaches to Studying Methylotrophs and Methylotroph Comunities.

  2017cites this paper
• Metaproteomics of marine viral concentrates reveals key viral populations and abundant periplasmic proteins in the oligotrophic deep chlorophyll maximum of the South China Sea

  2017cites this paper
• Metagenomic insights into zooplankton‐associated bacterial communities

  2017cites this paper
• Genome characteristics and environmental distribution of the first phage that infects the LD28 clade, a freshwater methylotrophic bacterial group

  2017cites this paper
• Organic matter processing by microbial communities throughout the Atlantic water column as revealed by metaproteomics

  2017cites this paper
• Single-virus genomics reveals hidden cosmopolitan and abundant viruses

  2017cites this paper
• Light rare earth element depletion during Deepwater Horizon blowout methanotrophy

  2017cites this paper
• Culturable Facultative Methylotrophic Bacteria from the Cactus Neobuxbaumia macrocephala Possess the Locus xoxF and Consume Methanol in the Presence of Ce3+ and Ca2+

  2017cites this paper
• Comparative genomics of Paracoccus sp. SM22M-07 isolated from coral mucus: insights into bacteria-host interactions

  2017cites this paper
• Complementary Metaproteomic Approaches to Assess the Bacterioplankton Response toward a Phytoplankton Spring Bloom in the Southern North Sea

  2017cites this paper
• Crustacean zooplankton release copious amounts of dissolved organic matter as taurine in the ocean

  2017cites this paper
• Environmental proteomics reveals taxonomic and functional changes in an enriched aquatic ecosystem.

  2017cites this paper
• Characterisation of novel methylotrophs and the role of xoxF in coastal marine environments

  2017cites this paper
• Metals and Methanotrophs: 1. Genetic and Biochemical Characterization of the Uptake and Synthesis of Methanobactin; 2. Bioinformatic Analyses of the Effect of Rare Earth Elements on Gene Expression.

  2017cites this paper
• Application of 'omics' approaches to microbial oceanography

  2017cites this paper
• Microbial Signaling in Plant—Microbe Interactions and Its Role on Sustainability of Agroecosystems

  2017cites this paper
• Metagenomic Analysis of Low-Temperature Environments

  2017cites this paper
• Diversidad bacteriana metilotrófica asociada a la cactácea neobuxbaumia macrocephala, endémica en riesgo de la reserva Tehuacán Cuicatlán

  2017cites this paper
• METABOLITES OF BACTERIAL-PHYTOPLANKTON INTERACTIONS IN THE SURFACE OCEAN by COURTNEY M. THOMAS

  2017cites this paper
• Trace Metal Acquisition by Marine Heterotrophic Bacterioplankton with Contrasting Trophic Strategies

  2016cites this paper
• Marine Microbial Systems Ecology: Microbial Networks in the Sea

  2016cites this paper
• Quantitative Transcriptomics Reveals the Growth- and Nutrient-Dependent Response of a Streamlined Marine Methylotroph to Methanol and Naturally Occurring Dissolved Organic Matter

  2016cites this paper
• Marine Bacterial and Archaeal Ion-Pumping Rhodopsins: Genetic Diversity, Physiology, and Ecology

  2016influential citation
• Methanol Production by a Broad Phylogenetic Array of Marine Phytoplankton

  2016cites this paper
• Improving microalgal biotechnology by applying principles from ecological theory

  2016cites this paper
• Proteomics: Principles and Application in Microbiology of Prokaryotes

  2016cites this paper
• When riverine dissolved organic matter (DOM) meets labile DOM in coastal waters: changes in bacterial community activity and composition

  2016cites this paper
• A Metaproteomic Analysis of the Response of a Freshwater Microbial Community under Nutrient Enrichment

  2016cites this paper
• Hydrocarbon and Lipid Microbiology Protocols

  2016cites this paper
• Pyrroloquinoline Quinone Ethanol Dehydrogenase in Methylobacterium extorquens AM1 Extends Lanthanide-Dependent Metabolism to Multicarbon Substrates

  2016cites this paper
• Soil metaproteomics reveals an inter-kingdom stress response to the presence of black truffles

  2016cites this paper
• Ecophysiological Distinctions of Haloarchaea from a Hypersaline Antarctic Lake as Determined by Metaproteomics

  2016cites this paper
• Environmental Microbial Community Proteomics: Status, Challenges and Perspectives

  2016cites this paper
• Proteomic Stable Isotope Probing Reveals Taxonomically Distinct Patterns in Amino Acid Assimilation by Coastal Marine Bacterioplankton

  2016influential citation
• New Methyloceanibacter diversity from North Sea sediments includes methanotroph containing solely the soluble methane monooxygenase.

  2016cites this paper
• Metaproteomic Characterization of Daqu, a Fermentation Starter Cultureof Chinese Liquor

  2016cites this paper
• Seasonal variability in microbial methanol utilisation in coastal waters of the western English Channel

  2016cites this paper
• Lanthanides: New life metals?

  2016cites this paper
• Methanotrophic microbiomes from North Sea sediment

  2016cites this paper
• High molecular weight dissolved organic matter enrichment selects for methylotrophs in dilution to extinction cultures

  2015cites this paper
• Combining metagenomics with metaproteomics and stable isotope probing reveals metabolic pathways used by a naturally occurring marine methylotroph.

  2015cites this paper
• Navigating through metaproteomics data: A logbook of database searching

  2015cites this paper
• Tripartite ATP-independent Periplasmic (TRAP) Transporters Use an Arginine-mediated Selectivity Filter for High Affinity Substrate Binding

  2015cites this paper
• Microbial Bioprospecting in Marine Environments

  2015cites this paper
• Microbial methylated amine metabolism in marine surface waters

  2015cites this paper
• Suspended marine particulate proteins in coastal and oligotrophic waters

  2015cites this paper
• Novel Metabolic Pathway Requiring Rare-Earth Elements as an Essential Factor: 植物共生細菌たちがもつレアアース依存型C 1 代謝

  2015cites this paper
• Systems Biology Tools for Methylotrophs

  2015cites this paper