(Q30543365)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

title

Comparative genomics in acid mine drainage biofilm communities reveals metabolic and structural differentiation of co-occurring archaea (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

0 references

1 reference

0 references

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

Jillian Banfield

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

5

Vincent J Denef

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

author name string

Alexis P Yelton

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

Luis R Comolli

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

Nicholas B Justice

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

Brian C Thomas

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

language of work or name

English

0 references

publication date

17 July 2013

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

volume

14

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

page(s)

485

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

https://scigraph.springernature.com/pub.10.1186/1471-2164-14-485

5 March 2020

exact match

0 references

cites work

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20 June 2018

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20 June 2018

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Correlating carbon monoxide oxidation with cox genes in the abundant Marine Roseobacter Clade

20 June 2018

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Quantitative Proteome and Transcriptome Analysis of the Archaeon Thermoplasma acidophilum Cultured under Aerobic and Anaerobic Conditions

20 June 2018

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Identification of a novel class of membrane-bound [NiFe]-hydrogenases in Thermococcus onnurineus NA1 by in silico analysis

20 June 2018

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20 June 2018

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Metagenomes from high-temperature chemotrophic systems reveal geochemical controls on microbial community structure and function

20 June 2018

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20 June 2018

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Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities.

20 June 2018

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The nonphosphorylative Entner-Doudoroff pathway in the thermoacidophilic euryarchaeon Picrophilus torridus involves a novel 2-keto-3-deoxygluconate- specific aldolase

20 June 2018

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Mapping the tree of life: progress and prospects

20 June 2018

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Community-wide analysis of microbial genome sequence signatures

20 June 2018

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Acyl-CoA dehydrogenases: Dynamic history of protein family evolution

20 June 2018

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Biogeography of the Sulfolobus islandicus pan-genome

20 June 2018

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Community genomic and proteomic analyses of chemoautotrophic iron-oxidizing "Leptospirillum rubarum" (Group II) and "Leptospirillum ferrodiazotrophum" (Group III) bacteria in acid mine drainage biofilms

20 June 2018

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FastTree: computing large minimum evolution trees with profiles instead of a distance matrix

20 June 2018

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20 June 2018

The structure of F-pili

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Natural acidophilic biofilm communities reflect distinct organismal and functional organization

20 June 2018

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A new iron-oxidizing/O2-reducing supercomplex spanning both inner and outer membranes, isolated from the extreme acidophile Acidithiobacillus ferrooxidans

20 June 2018

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Microbial communities in contaminated sediments, associated with bioremediation of uranium to submicromolar levels

20 June 2018

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Electron microscopy encounters with unusual thermophiles helps direct genomic analysis of Aciduliprofundum boonei

20 June 2018

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Isolation and characterization of Ferroplasma thermophilum sp. nov., a novel extremely acidophilic, moderately thermophilic archaeon and its role in bioleaching of chalcopyrite

20 June 2018

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Recent developments in the MAFFT multiple sequence alignment program

20 June 2018

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Velvet: algorithms for de novo short read assembly using de Bruijn graphs

20 June 2018

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Haloferax volcanii AglB and AglD are involved in N-glycosylation of the S-layer glycoprotein and proper assembly of the surface layer.

20 June 2018

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Thermogymnomonas acidicola gen. nov., sp. nov., a novel thermoacidophilic, cell wall-less archaeon in the order Thermoplasmatales, isolated from a solfataric soil in Hakone, Japan

20 June 2018

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Genetic exchange across a species boundary in the archaeal genus ferroplasma

20 June 2018

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Genome dynamics in a natural archaeal population

20 June 2018

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

20 June 2018

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Ferroplasma cupricumulans sp. nov., a novel moderately thermophilic, acidophilic archaeon isolated from an industrial-scale chalcocite bioleach heap

20 June 2018

1 reference

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Analysis of differential protein expression during growth states of Ferroplasma strains and insights into electron transport for iron oxidation

20 June 2018

1 reference

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Unusual pathways and enzymes of central carbohydrate metabolism in Archaea.

20 June 2018

1 reference

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Novel energy metabolism in anaerobic hyperthermophilic archaea: a modified Embden-Meyerhof pathway

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Towards a genome-based taxonomy for prokaryotes

20 June 2018

1 reference

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Characteristics and adaptability of iron- and sulfur-oxidizing microorganisms used for the recovery of metals from minerals and their concentrates

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Functionally specified protein signatures distinctive for each of the different blue copper proteins

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Differential protein expression during growth of Acidithiobacillus ferrooxidans on ferrous iron, sulfur compounds, or metal sulfides

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Regulation of the expression of the Acidithiobacillus ferrooxidans rus operon encoding two cytochromes c, a cytochrome oxidase and rusticyanin.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Genome sequence of Picrophilus torridus and its implications for life around pH 0

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Characterization of Ferroplasma isolates and Ferroplasma acidarmanus sp. nov., extreme acidophiles from acid mine drainage and industrial bioleaching environments

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Reconstruction of the central carbohydrate metabolism of Thermoproteus tenax by use of genomic and biochemical data

20 June 2018

1 reference

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Community structure and metabolism through reconstruction of microbial genomes from the environment

20 June 2018

1 reference

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Soluble CuA domain of cyanobacterial cytochrome c oxidase

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Molecular and culture-based analyses of aerobic carbon monoxide oxidizer diversity

20 June 2018

1 reference

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The microbiology of acidic mine waters

20 June 2018

1 reference

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Evolution of mosaic operons by horizontal gene transfer and gene displacement in situ

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Geographic barriers isolate endemic populations of hyperthermophilic archaea

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Hexameric ring structure of the ATPase domain of the membrane-integrated metalloprotease FtsH from Thermus thermophilus HB8

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Novel pathways for biosynthesis of nucleotide-activated glycero-manno-heptose precursors of bacterial glycoproteins and cell surface polysaccharides

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Quinol:fumarate oxidoreductases and succinate:quinone oxidoreductases: phylogenetic relationships, metal centres and membrane attachment

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Life on carbon monoxide: X-ray structure of Rhodospirillum rubrum Ni-Fe-S carbon monoxide dehydrogenase

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

The genome sequence of the thermoacidophilic scavenger Thermoplasma acidophilum

20 June 2018

1 reference

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Ferroplasma acidiphilum gen. nov., sp. nov., an acidophilic, autotrophic, ferrous-iron-oxidizing, cell-wall-lacking, mesophilic member of the Ferroplasmaceae fam. nov., comprising a distinct lineage of the Archaea

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

An archaeal iron-oxidizing extreme acidophile important in acid mine drainage

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Characterization of an operon encoding two c-type cytochromes, an aa(3)-type cytochrome oxidase, and rusticyanin in Thiobacillus ferrooxidans ATCC 33020.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Interaction-induced redox switch in the electron transfer complex rusticyanin-cytochrome c(4).

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Mechanism of pyrite dissolution in the presence of Thiobacillus ferrooxidans

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Consed: a graphical tool for sequence finishing

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Isolation and characterization of insertional mutations in flagellin genes in the archaeon Methanococcus voltae.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Isolation and characterization of flagella and flagellin proteins from the Thermoacidophilic archaea Thermoplasma volcanium and Sulfolobus shibatae

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Microbial hydrogenases: primary structure, classification, signatures and phylogeny

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

The superfamily of heme-copper respiratory oxidases

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Plastocyanin: structural and functional analysis

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Molecular mechanisms of copper resistance and accumulation in bacteria

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Glucose metabolism in the extreme thermoacidophilic archaebacterium Sulfolobus solfataricus

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

A Thermophilic, Acidophilic Mycoplasma Isolated from a Coal Refuse Pile

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Sequence analysis and expression of the Salmonella typhimurium asr operon encoding production of hydrogen sulfide from sulfite

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

The respiratory chain ofThiobacillus ferrooxidans: The reduction of cytochromes by Fe2+and the preliminary characterization of rusticyanin a novel ‘blue’ copper protein

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Prediction of effective genome size in metagenomic samples

20 June 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Soluble expression of recombinant proteins in the cytoplasm of Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

The rus operon genes are differentially regulated when Acidithiobacillus ferrooxidans LR is kept in contact with metal sulfides

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

The linked conservation of structure and function in a family of high diversity: the monomeric cupredoxins

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Sulfocyanin and subunit II, two copper proteins with novel features, provide new insight into the archaeal SoxM oxidase supercomplex.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Towards determining details of anaerobic growth coupled to ferric iron reduction by the acidophilic archaeon 'Ferroplasma acidarmanus' Fer1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Glyceraldehyde dehydrogenases from the thermoacidophilic euryarchaeota Picrophilus torridus and Thermoplasma acidophilum, key enzymes of the non-phosphorylative Entner-Doudoroff pathway, constitute a novel enzyme family within the aldehyde dehydroge

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Production of methanethiol and volatile sulfur compounds by the archaeon "Ferroplasma acidarmanus".

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Unusual ADP-forming acetyl-coenzyme A synthetases from the mesophilic halophilic euryarchaeon Haloarcula marismortui and from the hyperthermophilic crenarchaeon Pyrobaculum aerophilum

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Regulation of acetate and acetyl-CoA converting enzymes during growth on acetate and/or glucose in the halophilic archaeon Haloarcula marismortui

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Formate-driven growth coupled with H(2) production

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Molecular insight into extreme copper resistance in the extremophilic archaeon 'Ferroplasma acidarmanus' Fer1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

The fla gene cluster is involved in the biogenesis of flagella in Halobacterium salinarum

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

A simple and fast secondary structure prediction method using hidden neural networks.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-485

Ferrous iron oxidation by sulfur-oxidizing Acidithiobacillus ferrooxidans and analysis of the process at the levels of transcription and protein synthesis.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Organic solutes in hyperthermophilic archaea.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Insight into molecular stability and physiological properties of the diheme cytochrome CYC41 from the acidophilic bacterium Acidithiobacillus ferrooxidans

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Arsenic resistance in the archaeon "Ferroplasma acidarmanus": new insights into the structure and evolution of the ars genes.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

The archaeal respiratory supercomplex SoxM from S. acidocaldarius combines features of quinole and cytochrome c oxidases

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

Characterization of a new dihemic c(4)-type cytochrome isolated from Thiobacillus ferrooxidans.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3750248

New structural proteins of Halobacterium salinarum gas vesicle revealed by comparative proteomics analysis

26 November 2018

1 reference

12 December 2020

Redox components of cytochrome bc-type enzymes in acidophilic prokaryotes. I. Characterization of the cytochrome bc1-type complex of the acidophilic ferrous ion-oxidizing bacterium Thiobacillus ferrooxidans

1 reference

12 December 2020

Insertional inactivation of the flaH gene in the archaeon Methanococcus voltae results in non-flagellated cells

1 reference

12 December 2020

Glycan structure of a heptose-containing S-layer glycoprotein of Bacillus thermoaerophilus

1 reference

12 December 2020

Proteomic and bioinformatic analysis of iron- and sulfur-oxidizing Acidithiobacillus ferrooxidans using immobilized pH gradients and mass spectrometry

1 reference

12 December 2020

Mutants in flaI and flaJ of the archaeon Methanococcus voltae are deficient in flagellum assembly

1 reference

12 December 2020

Structural heterogeneity in the core oligosaccharide of the S-layer glycoprotein from Aneurinibacillus thermoaerophilus DSM 10155

1 reference

12 December 2020

Identifiers

DOI

10.1186/1471-2164-14-485

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

5 March 2020

1 reference

9 September 2019

https://scigraph.springernature.com/pub.10.1186/1471-2164-14-485

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json

5 March 2020

PubMed publication ID

23865623

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23865623%20AND%20SRC:MED&resulttype=core&format=json