Community transcriptomics reveals universal patterns of protein sequence conservation in natural microbial communities (Q35086390)

6 August 2017

Community transcriptomics reveals universal patterns of protein sequence conservation in natural microbial communities (English)

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6 August 2017

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5

Edward F DeLong

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6 August 2017

1

Frank J Stewart

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6 August 2017

2

Adrian K Sharma

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6 August 2017

4

John M Eppley

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6 August 2017

Jessica A Bryant

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6 August 2017

22 March 2011

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6 August 2017

12

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3

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R26

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https://scigraph.springernature.com/pub.10.1186/gb-2011-12-3-r26

6 August 2017

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cites work

Among-site rate variation and its impact on phylogenetic analyses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Microbial metatranscriptomics in a permanent marine oxygen minimum zone.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Evolutionary rates and gene dispensability associate with replication timing in the archaeon Sulfolobus islandicus

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

The rate of the molecular clock and the cost of gratuitous protein synthesis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Quantitative analysis of a deeply sequenced marine microbial metatranscriptome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Evidence that mutation is universally biased towards AT in bacteria

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Spatial patterns and light-driven variation of microbial population gene expression in surface waters of the oligotrophic open ocean

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Evolutionary conservation of essential and highly expressed genes in Pseudomonas aeruginosa

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Development and quantitative analyses of a universal rRNA-subtraction protocol for microbial metatranscriptomics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Metatranscriptomics reveals unique microbial small RNAs in the ocean's water column

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Whole-genome mutational biases in bacteria

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Simultaneous assessment of soil microbial community structure and function through analysis of the meta-transcriptome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Microbial community gene expression in ocean surface waters

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Comparative bacterial proteomics: analysis of the core genome concept

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Patterns and implications of gene gain and loss in the evolution of Prochlorococcus

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Extensive horizontal transfer of core genome genes between two Lactobacillus species found in the gastrointestinal tract

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

MetaGene: prokaryotic gene finding from environmental genome shotgun sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

An integrated view of protein evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Genomic islands and the ecology and evolution of Prochlorococcus.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Why highly expressed proteins evolve slowly

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Transcriptome analysis of Pseudomonas aeruginosa growth: comparison of gene expression in planktonic cultures and developing and mature biofilms

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Selectionism and neutralism in molecular evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Bacterial genomes as new gene homes: the genealogy of ORFans in E. coli

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Evolutionary rate depends on number of protein-protein interactions independently of gene expression level

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Correlations between gene expression and gene conservation in fission yeast.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Schizosaccharomyces pombe essential genes: a pilot study.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Linkage limits the power of natural selection in Drosophila

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Microevolutionary genomics of bacteria

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Essential genes are more evolutionarily conserved than are nonessential genes in bacteria

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Evolutionary rate in the protein interaction network

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Lateral gene transfer and the nature of bacterial innovation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

From DNA sequence to biological function

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

The structures of cytochrome c and the rates of molecular evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Determinants of DNA sequence divergence between Escherichia coli and Salmonella typhimurium: codon usage, map position, and concerted evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Protein dispensability and rate of evolution

8 July 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2011-12-3-R26

The structure of cytochromec and the rates of molecular evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2011-12-3-R26

An analysis of determinants of amino acids substitution rates in bacterial proteins

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2011-12-3-R26

Gene expression level influences amino acid usage, but not codon usage, in the tsetse fly endosymbiont Wigglesworthia.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2011-12-3-R26

A single determinant dominates the rate of yeast protein evolution

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2011-12-3-R26

Genome-wide transcriptome analyses of the 'Knallgas' bacterium Ralstonia eutropha H16 with regard to polyhydroxyalkanoate metabolism

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2011-12-3-R26

Systematic artifacts in metagenomes from complex microbial communities.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FGB-2011-12-3-R26

Gene expression level shapes the amino acid usages in Prochlorococcus marinus MED4.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Essential Genes Are More Evolutionarily Conserved Than Are Nonessential Genes in Bacteria

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3129676

Growth phase-associated changes in the transcriptome and proteome of Streptococcus pyogenes

16 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21426537

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/GB-2011-12-3-R26

1 reference

6 August 2017

1 reference

6 August 2017

1 reference

PubMed ID

21426537