Proteomic and transcriptomic analyses of "Candidatus Pelagibacter ubique" describe the first PII-independent response to nitrogen limitation in a free-living Alphaproteobacterium (Q37408436)

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English	Proteomic and transcriptomic analyses of "Candidatus Pelagibacter ubique" describe the first PII-independent response to nitrogen limitation in a free-living Alphaproteobacterium	scientific article

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

Proteomic and transcriptomic analyses of "Candidatus Pelagibacter ubique" describe the first PII-independent response to nitrogen limitation in a free-living Alphaproteobacterium (English)

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

0 references

1 reference

based on heuristic

inferred from title

Pelagibacter ubique

object named as

Candidatus Pelagibacter ubique

1 reference

based on heuristic

inferred from title

object named as

Paul Carini

6

0 references

Kristin E Burnum

object named as

Kristin E Burnum-Johnson

5

0 references

Richard D. Smith

object named as

Richard D Smith

7

0 references

4

object named as

Mary S Lipton

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

Carrie D Nicora

3

object named as

Carrie D Nicora

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

Stephen J. Giovannoni

8

object named as

Stephen J Giovannoni

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

author name string

Daniel P Smith

1

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

J Cameron Thrash

2

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

publication date

26 November 2013

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

4

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

6

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

e00133-12

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

Streamlining and core genome conservation among highly divergent members of the SAR11 clade

1 reference

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6 September 2017

Post-transcriptional regulation on a global scale: form and function of Csr/Rsm systems.

1 reference

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6 September 2017

Insights into the regulation of protein abundance from proteomic and transcriptomic analyses

1 reference

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6 September 2017

Phylogenomic evidence for a common ancestor of mitochondria and the SAR11 clade

1 reference

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Global transcriptomic and proteomic responses of Dehalococcoides ethenogenes strain 195 to fixed nitrogen limitation

1 reference

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Bacterial flavin-containing monooxygenase is trimethylamine monooxygenase

1 reference

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One carbon metabolism in SAR11 pelagic marine bacteria

1 reference

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The significance of nitrogen cost minimization in proteomes of marine microorganisms

1 reference

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Phylogenomic Evidence for the Presence of a Flagellum and cbb3 Oxidase in the Free-Living Mitochondrial Ancestor

1 reference

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Bacterial aptamers that selectively bind glutamine

1 reference

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

1 reference

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Novel regulatory cascades controlling expression of nitrogen-fixation genes in Geobacter sulfurreducens

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progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement

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Transcriptional and translational regulatory responses to iron limitation in the globally distributed marine bacterium Candidatus pelagibacter ubique

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Global signatures of protein and mRNA expression levels

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Correlation of mRNA and protein in complex biological samples.

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A variant riboswitch aptamer class for S-adenosylmethionine common in marine bacteria

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NtrC-dependent regulatory network for nitrogen assimilation in Pseudomonas putida

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6 September 2017

Identification of candidate structured RNAs in the marine organism 'Candidatus Pelagibacter ubique'

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6 September 2017

Coding-sequence determinants of gene expression in Escherichia coli

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6 September 2017

Decon2LS: An open-source software package for automated processing and visualization of high resolution mass spectrometry data

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Unique glycine-activated riboswitch linked to glycine-serine auxotrophy in SAR11

1 reference

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The challenge of regulation in a minimal photoautotroph: non-coding RNAs in Prochlorococcus

1 reference

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Association between the availability of environmental resources and the atomic composition of organismal proteomes: evidence from Prochlorococcus strains living at different depths

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

6 September 2017

Fully automated four-column capillary LC-MS system for maximizing throughput in proteomic analyses.

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6 September 2017

VIPER: an advanced software package to support high-throughput LC-MS peptide identification

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Nitrogen regulation in bacteria and archaea

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

6 September 2017

Fisher's combined p-value for detecting differentially expressed genes using Affymetrix expression arrays

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6 September 2017

The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific

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6 September 2017

Mesoscale iron enrichment experiments 1993-2005: synthesis and future directions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

6 September 2017

Glutamine signalling in bacteria

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

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Chemically etched open tubular and monolithic emitters for nanoelectrospray ionization mass spectrometry

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Correlation of mRNA expression and protein abundance affected by multiple sequence features related to translational efficiency in Desulfovibrio vulgaris: a quantitative analysis

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RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

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Integrated analysis of transcriptomic and proteomic data of Desulfovibrio vulgaris: zero-inflated Poisson regression models to predict abundance of undetected proteins

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Advances in proteomics data analysis and display using an accurate mass and time tag approach.

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Genome Streamlining in a Cosmopolitan Oceanic Bacterium

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6 September 2017

Accelerated evolution associated with genome reduction in a free-living prokaryote

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6 September 2017

Contribution of SAR11 bacteria to dissolved dimethylsulfoniopropionate and amino acid uptake in the North Atlantic ocean

1 reference

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6 September 2017

Iron and phosphorus co-limit nitrogen fixation in the eastern tropical North Atlantic.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

6 September 2017

MUSCLE: multiple sequence alignment with high accuracy and high throughput

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6 September 2017

Ammonium/methylammonium transport (Amt) proteins facilitate diffusion of NH3 bidirectionally

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

6 September 2017

P(II) signal transduction proteins, pivotal players in microbial nitrogen control

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

6 September 2017

Multiplicity of ammonium uptake systems in Corynebacterium glutamicum: role of Amt and AmtB.

1 reference

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6 September 2017

Phosphate depletion in the western North Atlantic Ocean

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6 September 2017

Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis

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6 September 2017

Prochlorococcus, a marine photosynthetic prokaryote of global significance

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6 September 2017

Fluctuating silicate:nitrate ratios and coastal plankton food webs

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6 September 2017

Regulation of the synthesis of glutamine synthetase by the PII protein in Klebsiella aerogenes

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6 September 2017

Adaptive eradication of methionine and cysteine from cyanobacterial light-harvesting proteins.

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6 September 2017

Regulation of synthesis of glutamine synthetase by adenylylated glutamine synthetase

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

6 September 2017

Nutrient co-limitation of primary producer communities.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

14 September 2017

How Prochlorococcus bacteria use nitrogen sparingly in their proteins.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

14 September 2017

Nitrogen control in bacteria

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14 September 2017

In vivo functional characterization of the Escherichia coli ammonium channel AmtB: evidence for metabolic coupling of AmtB to glutamine synthetase

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26 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

26 June 2018

Nitrogen, Phosphorus, and Eutrophication in the Coastal Marine Environment

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26 June 2018

Characterization of a novel Azorhizobium caulinodans ORS571 two-component regulatory system, NtrY/NtrX, involved in nitrogen fixation and metabolism

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

26 June 2018

Nutrient requirements for growth of the extreme oligotroph 'Candidatus Pelagibacter ubique' HTCC1062 on a defined medium

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Contrasting mechanisms of proteomic nitrogen thrift in Prochlorococcus.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Resource patch formation and exploitation throughout the marine microbial food web.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Transport functions dominate the SAR11 metaproteome at low-nutrient extremes in the Sargasso Sea.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Dissection of ammonium uptake systems in Corynebacterium glutamicum: mechanism of action and energetics of AmtA and AmtB.

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2 September 2018

Characterization of anaerobic catabolism of p-coumarate in Rhodopseudomonas palustris by integrating transcriptomics and quantitative proteomics

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Purification and characterisation of Azospirillum brasilense N-truncated NtrX protein.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Biochemical basis for whole-cell uptake kinetics: specific affinity, oligotrophic capacity, and the meaning of the michaelis constant

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Ammonium sensing in Escherichia coli. Role of the ammonium transporter AmtB and AmtB-GlnK complex formation

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2 September 2018

Antagonism of PII signalling by the AmtB protein of Escherichia coli

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Molecular evolution of protein atomic composition.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Nitrogen-fixing aerobic bacteria have higher genomic GC content than non-fixing species within the same genus.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

2 September 2018

Microarray analysis of phosphate regulation in the marine cyanobacterium Synechococcus sp. WH8102

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

3 December 2018

Global analysis of nitrogen and phosphorus limitation of primary producers in freshwater, marine and terrestrial ecosystems

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3870248

3 December 2018

Microscale Patchiness of Nutrients in Plankton Communities

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3 December 2018

Nitrogen versus carbon use in prokaryotic genomes and proteomes

1 reference

https://pubmed.ncbi.nlm.nih.gov/24281717

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Complex formation between AmtB and GlnK: an ancestral role in prokaryotic nitrogen control

1 reference

https://pubmed.ncbi.nlm.nih.gov/24281717

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Self-made frits for nanoscale columns in proteomics

1 reference

https://pubmed.ncbi.nlm.nih.gov/24281717

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Bacterial regulatory networks include direct contact of response regulator proteins: interaction of RegA and NtrX in Rhodobacter capsulatus

1 reference

https://pubmed.ncbi.nlm.nih.gov/24281717

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1128/MBIO.00133-12

0 references

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

20 August 2017

ResearchGate publication ID

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