4.6 Article

Experimental metatranscriptomics reveals the costs and benefits of dissolved organic matter photo-alteration for freshwater microbes

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Limnology

Photodegradation disproportionately impacts biodegradation of semi-labile DOM in streams

Jennifer C. Bowen et al.

LIMNOLOGY AND OCEANOGRAPHY (2020)

Article Chemistry, Analytical

Assessing the prevalence, products, and pathways of dissolved organic matter partial photo-oxidation in arctic surface waters

Collin P. Ward et al.

ENVIRONMENTAL SCIENCE-PROCESSES & IMPACTS (2020)

Article Biotechnology & Applied Microbiology

Roles of three TonB systems in the iron utilization and virulence of the Aeromonas hydrophila Chinese epidemic strain NJ-35

Yuhao Dong et al.

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2019)

Article Engineering, Environmental

Photochemical Production of Sulfate and Methanesulfonic Acid from Dissolved Organic Sulfur

Rachele Ossola et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2019)

Article Biotechnology & Applied Microbiology

Environmental Adaptability and Quorum Sensing: Iron Uptake Regulation during Biofilm Formation by Paracoccus denitrificans

Yang Zhang et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2018)

Article Engineering, Environmental

Photochemical Alteration of Dissolved Organic Sulfur from Sulfidic Porewater

Gonzalo V. Gomez-Saez et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2017)

Article Environmental Sciences

Low photolability of yedoma permafrost dissolved organic carbon

Aron Stubbins et al.

JOURNAL OF GEOPHYSICAL RESEARCH-BIOGEOSCIENCES (2017)

Article Environmental Sciences

Patterns of Bacterial and Archaeal Gene Expression through the Lower Amazon River

Brandon M. Satinsky et al.

FRONTIERS IN MARINE SCIENCE (2017)

Article Engineering, Environmental

Complete and Partial Photo-oxidation of Dissolved Organic Matter Draining Permafrost Soils

Collin P. Ward et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2016)

Article Multidisciplinary Sciences

Arctic lakes show strong decadal trend in earlier spring ice-out

Tereza Smejkalova et al.

SCIENTIFIC REPORTS (2016)

Article Geochemistry & Geophysics

Chemical composition of dissolved organic matter draining permafrost soils

Collin P. Ward et al.

GEOCHIMICA ET COSMOCHIMICA ACTA (2015)

Article Genetics & Heredity

The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4)

Marcel Huntemann et al.

STANDARDS IN GENOMIC SCIENCES (2015)

Article Biochemical Research Methods

Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes

Stephen Nayfach et al.

PLOS COMPUTATIONAL BIOLOGY (2015)

Article Biochemistry & Molecular Biology

Inhibitors of the Sulfur Assimilation Pathway in Bacterial Pathogens as Enhancers of Antibiotic Therapy

Barbara Campanini et al.

CURRENT MEDICINAL CHEMISTRY (2014)

Article Engineering, Environmental

Effects of Molecular Composition of Natural Organic Matter on Ferric Iron Complexation at Circumneutral pH

Manabu Fujii et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2014)

Article Multidisciplinary Sciences

Uncoupling of Bacterial and Terrigenous Dissolved Organic Matter Dynamics in Decomposition Experiments

Daniel P. R. Herlemann et al.

PLOS ONE (2014)

Article Multidisciplinary Sciences

Sunlight controls water column processing of carbon in arctic fresh waters

Rose M. Cory et al.

SCIENCE (2014)

Article Environmental Sciences

A coupled geochemical and biogeochemical approach to characterize the bioreactivity of dissolved organic matter from a headwater stream

Rachel L. Sleighter et al.

JOURNAL OF GEOPHYSICAL RESEARCH-BIOGEOSCIENCES (2014)

Article Biotechnology & Applied Microbiology

Simultaneous Catabolism of Plant-Derived Aromatic Compounds Results in Enhanced Growth for Members of the Roseobacter Lineage

Christopher A. Gulvik et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2013)

Article Biotechnology & Applied Microbiology

Growth rate-coordinated transcriptome reorganization in bacteria

Yuki Matsumoto et al.

BMC GENOMICS (2013)

Article Mathematical & Computational Biology

Promoter activity dynamics in the lag phase of Escherichia coli

Daniel Madar et al.

BMC SYSTEMS BIOLOGY (2013)

Article Multidisciplinary Sciences

Global carbon dioxide emissions from inland waters

Peter A. Raymond et al.

NATURE (2013)

Letter Geosciences, Multidisciplinary

Permafrost-carbon complexities

Jorien E. Vonk et al.

NATURE GEOSCIENCE (2013)

Article Geosciences, Multidisciplinary

Degradation of terrestrially derived macromolecules in the Amazon River

Nicholas D. Ward et al.

NATURE GEOSCIENCE (2013)

Article Biochemical Research Methods

UPARSE: highly accurate OTU sequences from microbial amplicon reads

Robert C. Edgar

NATURE METHODS (2013)

Article Multidisciplinary Sciences

Surface exposure to sunlight stimulates CO2 release from permafrost soil carbon in the Arctic

Rose M. Cory et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)

Article Environmental Sciences

Controls on the composition and lability of dissolved organic matter in Siberia's Kolyma River basin

P. J. Mann et al.

JOURNAL OF GEOPHYSICAL RESEARCH-BIOGEOSCIENCES (2012)

Article Limnology

Biological lability of streamwater fluorescent dissolved organic matter

Rose M. Cory et al.

LIMNOLOGY AND OCEANOGRAPHY (2012)

Review Biochemical Research Methods

The emerging role for bacteria in lignin degradation and bio-product formation

Timothy D. H. Bugg et al.

CURRENT OPINION IN BIOTECHNOLOGY (2011)

Review Microbiology

Microbial degradation of aromatic compounds - from one strategy to four

Georg Fuchs et al.

NATURE REVIEWS MICROBIOLOGY (2011)

Article Biotechnology & Applied Microbiology

Multi-omics approach to study the growth efficiency and amino acid metabolism in Lactococcus lactis at various specific growth rates

Petri-Jaan Lahtvee et al.

MICROBIAL CELL FACTORIES (2011)

Review Microbiology

TonB-Dependent Transporters: Regulation, Structure, and Function

Nicholas Noinaj et al.

ANNUAL REVIEW OF MICROBIOLOGY, VOL 64, 2010 (2010)

Article Biochemical Research Methods

Prodigal: prokaryotic gene recognition and translation initiation site identification

Doug Hyatt et al.

BMC BIOINFORMATICS (2010)

Article Engineering, Environmental

Singlet Oxygen in the Coupled Photochemical and Biochemical Oxidation of Dissolved Organic Matter

Rose M. Cory et al.

ENVIRONMENTAL SCIENCE & TECHNOLOGY (2010)

Letter Biochemical Research Methods

QIIME allows analysis of high-throughput community sequencing data

J. Gregory Caporaso et al.

NATURE METHODS (2010)

Article Multidisciplinary Sciences

Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea

Jay McCarren et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Article Multidisciplinary Sciences

Interdependence of Cell Growth and Gene Expression: Origins and Consequences

Matthew Scott et al.

SCIENCE (2010)

Article Environmental Sciences

Attenuation of in situ UV radiation in Mackenzie Delta lakes with varying dissolved organic matter compositions

Jolie A. L. Gareis et al.

WATER RESOURCES RESEARCH (2010)

Article Biotechnology & Applied Microbiology

A scaling normalization method for differential expression analysis of RNA-seq data

Mark D. Robinson et al.

GENOME BIOLOGY (2010)

Article Biotechnology & Applied Microbiology

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

Patrick D. Schloss et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2009)

Article Biochemical Research Methods

The Sequence Alignment/Map format and SAMtools

Heng Li et al.

BIOINFORMATICS (2009)

Article Biochemistry & Molecular Biology

Iron uptake regulation in Pseudomonas aeruginosa

Pierre Cornelis et al.

BIOMETALS (2009)

Article Environmental Sciences

Effect of chromophoric dissolved organic matter on epilimnetic stratification in lakes

Sophie Caplanne et al.

AQUATIC SCIENCES (2008)

Article Biochemistry & Molecular Biology

KEGG for linking genomes to life and the environment

Minoru Kanehisa et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Environmental Sciences

Chemical characteristics of fulvic acids from Arctic surface waters: Microbial contributions and photochemical transformations

Rose M. Cory et al.

JOURNAL OF GEOPHYSICAL RESEARCH-BIOGEOSCIENCES (2007)

Article Microbiology

Characterization of ferric and ferrous iron transport systems in Vibrio cholerae

Elizabeth E. Wyckoff et al.

JOURNAL OF BACTERIOLOGY (2006)

Article Biochemical Research Methods

From mass to structure: an aromaticity index for high-resolution mass data of natural organic matter

BP Koch et al.

RAPID COMMUNICATIONS IN MASS SPECTROMETRY (2006)

Review Microbiology

The regulation of bacterial transcription initiation

DF Browning et al.

NATURE REVIEWS MICROBIOLOGY (2004)

Review Microbiology

Regulation cascade of flagellar expression in Gram-negative bacteria

OA Soutourina et al.

FEMS MICROBIOLOGY REVIEWS (2003)

Article Biotechnology & Applied Microbiology

Bacterioplankton community shifts in an arctic lake correlate with seasonal changes in organic matter source

BC Crump et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2003)

Article Geochemistry & Geophysics

Proton-binding study of standard and reference fulvic acids, humic acids, and natural organic matter

JD Ritchie et al.

GEOCHIMICA ET COSMOCHIMICA ACTA (2003)

Review Microbiology

The Pho regulons of bacteria

OA Vershinina et al.

MICROBIOLOGY (2002)

Article Biotechnology & Applied Microbiology

Key aromatic-ring-cleaving enzyme, protocatechuate 3,4-dioxygenase, in the ecologically important marine Roseobacter lineage

A Buchan et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)

Article Limnology

Photochemical transformation of dissolved organic matter in lakes

S Bertilsson et al.

LIMNOLOGY AND OCEANOGRAPHY (2000)