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title = {Hierarchical regulation of photosynthesis gene expression by the oxygen-responsive PrrBA and AppA-PpsR systems of Rhodobacter sphaeroides.},
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journal = {J Bacteriol},
year = {2008},
doi = {10.1128/jb.01094-08},
pmid = {18931128}
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@article{lin235497,
title = {Changes in denitrifier abundance, denitrification gene mRNA levels, nitrous oxide emissions, and denitrification in anoxic soil microcosms amended with glucose and plant residues.},
author = {Henderson SL, Dandie CE, Patten CL, Zebarth BJ, Burton DL, Trevors JT, Goyer C.},
journal = {Appl Environ Microbiol},
year = {2010},
doi = {10.1128/aem.02993-09},
pmid = {20154105}
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@article{lin353263,
title = {Potential of aerobic denitrification by Pseudomonas stutzeri TR2 to reduce nitrous oxide emissions from wastewater treatment plants.},
author = {Miyahara M, Kim SW, Fushinobu S, Takaki K, Yamada T, Watanabe A, Miyauchi K, Endo G, Wakagi T, Shoun H.},
journal = {Appl Environ Microbiol},
year = {2010},
doi = {10.1128/aem.01983-09},
pmid = {20495048}
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@article{lin235461,
title = {Evolution of respiratory complex I: "supernumerary" subunits are present in the alpha-proteobacterial enzyme.},
author = {Yip CY, Harbour ME, Jayawardena K, Fearnley IM, Sazanov LA.},
journal = {J Biol Chem},
year = {2011},
doi = {10.1074/jbc.m110.194993},
pmid = {21115482}
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title = {Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end illumina reads.},
author = {Bartram AK, Lynch MD, Stearns JC, Moreno-Hagelsieb G, Neufeld JD.},
journal = {Appl Environ Microbiol},
year = {2011},
doi = {10.1128/aem.02772-10},
pmid = {21460107}
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@article{lin235538,
title = {Evaluations of the Effects of Extremely Low-Frequency Electromagnetic Fields on Growth and Antibiotic Susceptibility of Escherichia coli and Pseudomonas aeruginosa.},
author = {Segatore B, Setacci D, Bennato F, Cardigno R, Amicosante G, Iorio R.},
journal = {Int J Microbiol},
year = {2012},
doi = {10.1155/2012/587293},
pmid = {22577384}
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@article{lin235466,
title = {Redundancy and modularity in membrane-associated dissimilatory nitrate reduction in Bacillus.},
author = {Heylen K, Keltjens J.},
journal = {Front Microbiol},
year = {2012},
doi = {10.3389/fmicb.2012.00371},
pmid = {23087684}
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@article{lin235519,
title = {Ligand-enhanced abiotic iron oxidation and the effects of chemical versus biological iron cycling in anoxic environments.},
author = {Kopf SH, Henny C, Newman DK.},
journal = {Environ Sci Technol},
year = {2013},
doi = {10.1021/es3049459},
pmid = {23402562}
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@article{lin235462,
title = {Cumate-inducible gene expression system for sphingomonads and other Alphaproteobacteria.},
author = {Kaczmarczyk A, Vorholt JA, Francez-Charlot A.},
journal = {Appl Environ Microbiol},
year = {2013},
doi = {10.1128/aem.02296-13},
pmid = {23995928}
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@article{lin235475,
title = {3-Hydroxybutyrate oligomer hydrolase and 3-hydroxybutyrate dehydrogenase participate in intracellular polyhydroxybutyrate and polyhydroxyvalerate degradation in Paracoccus denitrificans.},
author = {Lu J, Takahashi A, Ueda S.},
journal = {Appl Environ Microbiol},
year = {2014},
doi = {10.1128/aem.03396-13},
pmid = {24271169}
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@article{lin28492,
title = {Potential role of nitrite for abiotic Fe(II) oxidation and cell encrustation during nitrate reduction by denitrifying bacteria.},
author = {Klueglein N, Zeitvogel F, Stierhof YD, Floetenmeyer M, Konhauser KO, Kappler A, Obst M},
journal = {Appl Environ Microbiol},
year = {2013},
doi = {10.1128/AEM.03277-13},
pmid = {24271182}
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@article{lin235454,
title = {The more, the merrier: heterotroph richness stimulates methanotrophic activity.},
author = {Ho A, de Roy K, Thas O, De Neve J, Hoefman S, Vandamme P, Heylen K, Boon N.},
journal = {ISME J},
year = {2014},
doi = {10.1038/ismej.2014.74},
pmid = {24785289}
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@article{lin235516,
title = {Sphaerotilus natans encrusted with nanoball-shaped Fe(III) oxide minerals formed by nitrate-reducing mixotrophic Fe(II) oxidation.},
author = {Park S, Kim DH, Lee JH, Hur HG.},
journal = {FEMS Microbiol Ecol},
year = {2014},
doi = {10.1111/1574-6941.12372},
pmid = {24965827}
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@article{lin235517,
title = {Carboxyl-modified single-walled carbon nanotubes negatively affect bacterial growth and denitrification activity.},
author = {Zheng X, Su Y, Chen Y, Wan R, Li M, Wei Y, Huang H.},
journal = {Sci Rep},
year = {2014},
doi = {10.1038/srep05653},
pmid = {25008009}
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@article{lin235495,
title = {Biocompatibilities and biodegradation of poly(3-hydroxybutyrate-co-3-hydroxyvalerate)s produced by a model metabolic reaction-based system.},
author = {Napathorn SC.},
journal = {BMC Microbiol},
year = {2014},
doi = {10.1186/s12866-014-0285-4},
pmid = {25495195}
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@article{lin235484,
title = {Iron corrosion induced by nonhydrogenotrophic nitrate-reducing Prolixibacter sp. strain MIC1-1.},
author = {Iino T, Ito K, Wakai S, Tsurumaru H, Ohkuma M, Harayama S.},
journal = {Appl Environ Microbiol},
year = {2015},
doi = {10.1128/aem.03741-14},
pmid = {25548048}
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@article{lin28491,
title = {Molecular, Physiological and Phenotypic Characterization of Paracoccus denitrificans ATCC 19367 Mutant Strain P-87 Producing Improved Coenzyme Q10.},
author = {Tokdar P, Sanakal A, Ranadive P, Khora SS, George S, Deshmukh SK},
journal = {Indian J Microbiol},
year = {2014},
doi = {10.1007/s12088-014-0506-4},
pmid = {25805905}
}
@article{lin235526,
title = {Fe biomineralization mirrors individual metabolic activity in a nitrate-dependent Fe(II)-oxidizer.},
author = {Miot J, Remusat L, Duprat E, Gonzalez A, Pont S, Poinsot M.},
journal = {Front Microbiol},
year = {2015},
doi = {10.3389/fmicb.2015.00879},
pmid = {26441847}
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@article{lin235515,
title = {Alteration of intracellular protein expressions as a key mechanism of the deterioration of bacterial denitrification caused by copper oxide nanoparticles.},
author = {Su Y, Zheng X, Chen Y, Li M, Liu K.},
journal = {Sci Rep},
year = {2015},
doi = {10.1038/srep15824},
pmid = {26508362}
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@article{lin235455,
title = {Dissimilatory nitrogen reduction in intertidal sediments of a temperate estuary: small scale heterogeneity and novel nitrate-to-ammonium reducers.},
author = {Decleyre H, Heylen K, Van Colen C, Willems A.},
journal = {Front Microbiol},
year = {2015},
doi = {10.3389/fmicb.2015.01124},
pmid = {26528270}
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@article{lin235460,
title = {Transient Accumulation of NO2- and N2O during Denitrification Explained by Assuming Cell Diversification by Stochastic Transcription of Denitrification Genes.},
author = {Hassan J, Qu Z, Bergaust LL, Bakken LR.},
journal = {PLoS Comput Biol},
year = {2016},
doi = {10.1371/journal.pcbi.1004621},
pmid = {26731685}
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@article{lin235514,
title = {Efficient simultaneous adsorption-biodegradation of high-concentrated N,N-dimethylformamide from water by Paracoccus denitrificans-graphene oxide microcomposites.},
author = {Zheng Y, Chen D, Li N, Xu Q, Li H, He J, Lu J.},
journal = {Sci Rep},
year = {2016},
doi = {10.1038/srep20003},
pmid = {26829653}
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@article{lin235518,
title = {Carbon nanotubes affect the toxicity of CuO nanoparticles to denitrification in marine sediments by altering cellular internalization of nanoparticle.},
author = {Zheng X, Su Y, Chen Y, Wan R, Li M, Huang H, Li X.},
journal = {Sci Rep},
year = {2016},
doi = {10.1038/srep27748},
pmid = {27279546}
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@article{lin235525,
title = {Insights into Nitrate-Reducing Fe(II) Oxidation Mechanisms through Analysis of Cell-Mineral Associations, Cell Encrustation, and Mineralogy in the Chemolithoautotrophic Enrichment Culture KS.},
author = {Nordhoff M, Tominski C, Halama M, Byrne JM, Obst M, Kleindienst S, Behrens S, Kappler A.},
journal = {Appl Environ Microbiol},
year = {2017},
doi = {10.1128/aem.00752-17},
pmid = {28455336}
}
@article{lin235479,
title = {Fast and Simple Analysis of MiSeq Amplicon Sequencing Data with MetaAmp.},
author = {Dong X, Kleiner M, Sharp CE, Thorson E, Li C, Liu D, Strous M.},
journal = {Front Microbiol},
year = {2017},
doi = {10.3389/fmicb.2017.01461},
pmid = {28824589}
}
@article{lin235458,
title = {Environmental Adaptability and Quorum Sensing: Iron Uptake Regulation during Biofilm Formation by Paracoccus denitrificans.},
author = {Zhang Y, Gao J, Wang L, Liu S, Bai Z, Zhuang X, Zhuang G.},
journal = {Appl Environ Microbiol},
year = {2018},
doi = {10.1128/aem.00865-18},
pmid = {29776923}
}
@article{lin28490,
title = {Paracoccus suum sp. nov., isolated from a pig farm dust collector.},
author = {Heo J, Cho HY, Kim JS, Hong SB, Kwon SW, Kim SJ},
journal = {Int J Syst Evol Microbiol},
year = {2019},
doi = {10.1099/ijsem.0.003226},
pmid = {30663955}
}
@article{lin28489,
title = {Complete genome sequence of Paracoccus denitrificans ATCC 19367 and its denitrification characteristics.},
author = {Si YY, Xu KH, Yu XY, Wang MF, Chen XH},
journal = {Can J Microbiol},
year = {2019},
doi = {10.1139/cjm-2019-0037},
pmid = {30897350}
}
@article{lin235473,
title = {Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria.},
author = {Hordt A, Lopez MG, Meier-Kolthoff JP, Schleuning M, Weinhold LM, Tindall BJ, Gronow S, Kyrpides NC, Woyke T, Goker M.},
journal = {Front Microbiol},
year = {2020},
doi = {10.3389/fmicb.2020.00468},
pmid = {32373076}
}
@article{lin235481,
title = {The Modification of Regulatory Circuits Involved in the Control of Polyhydroxyalkanoates Metabolism to Improve Their Production.},
author = {Velazquez-Sanchez C, Espin G, Pena C, Segura D.},
journal = {Front Bioeng Biotechnol},
year = {2020},
doi = {10.3389/fbioe.2020.00386},
pmid = {32426348}
}
@article{lin353262,
title = {In vitro human colonic microbiota utilises D-beta-hydroxybutyrate to increase butyrogenesis.},
author = {Sasaki K, Sasaki D, Hannya A, Tsubota J, Kondo A.},
journal = {Sci Rep},
year = {2020},
doi = {10.1038/s41598-020-65561-5},
pmid = {32444846}
}
@article{lin235476,
title = {Targeted Depletion of Bacteria from Mixed Populations by Programmable Adhesion with Antagonistic Competitor Cells.},
author = {Ting SY, Martinez-Garcia E, Huang S, Bertolli SK, Kelly KA, Cutler KJ, Su ED, Zhi H, Tang Q, Radey MC, Raffatellu M, Peterson SB, de Lorenzo V, Mougous JD.},
journal = {Cell Host Microbe},
year = {2020},
doi = {10.1016/j.chom.2020.05.006},
pmid = {32470328}
}
@article{lin235477,
title = {Trace Metal Availability Affects Greenhouse Gas Emissions and Microbial Functional Group Abundance in Freshwater Wetland Sediments.},
author = {Giannopoulos G, Hartop KR, Brown BL, Song B, Elsgaard L, Franklin RB.},
journal = {Front Microbiol},
year = {2020},
doi = {10.3389/fmicb.2020.560861},
pmid = {33117308}
}
@article{lin28488,
title = {Temperature and oxygen level determine N2 O respiration activities of heterotrophic N2 O-reducing bacteria: Biokinetic study.},
author = {Zhou Y, Suenaga T, Qi C, Riya S, Hosomi M, Terada A},
journal = {Biotechnol Bioeng},
year = {2020},
doi = {10.1002/bit.27654},
pmid = {33305820}
}
@article{lin235463,
title = {Screening for Microbial Metal-Chelating Siderophores for the Removal of Metal Ions from Solutions.},
author = {Hofmann M, Heine T, Malik L, Hofmann S, Joffroy K, Senges CHR, Bandow JE, Tischler D.},
journal = {Microorganisms},
year = {2021},
doi = {10.3390/microorganisms9010111},
pmid = {33466508}
}
@article{lin235513,
title = {Phylogenomic Framework for Taxonomic Delineation of Paracoccus spp. and Exploration of Core-Pan Genome.},
author = {Puri A, Bajaj A, Lal S, Singh Y, Lal R.},
journal = {Indian J Microbiol},
year = {2021},
doi = {10.1007/s12088-021-00929-3},
pmid = {33927459}
}
@article{lin235474,
title = {A Critical Review on the Economically Feasible and Sustainable Poly(3-Hydroxybutyrate-co-3-hydroxyvalerate) Production from Alkyl Alcohols.},
author = {Wong HSJ, Bhubalan K, Amirul AA.},
journal = {Polymers (Basel)},
year = {2022},
doi = {10.3390/polym14040670},
pmid = {35215584}
}
@article{lin235511,
title = {Unchanged nitrate and nitrite isotope fractionation during heterotrophic and Fe(II)-mixotrophic denitrification suggest a non-enzymatic link between denitrification and Fe(II) oxidation.},
author = {Visser AN, Wankel SD, Frey C, Kappler A, Lehmann MF.},
journal = {Front Microbiol},
year = {2022},
doi = {10.3389/fmicb.2022.927475},
pmid = {36118224}
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@article{lin57948,
title = {Enhancement of biological denitrification by the addition of novel sRNA Pda200 under antibiotic pressure.},
author = {Wang M, Liang Y, Li F, Shen S, Huang X, Sun Y},
journal = {Bioresour Technol},
year = {2022},
doi = {10.1016/j.biortech.2022.128113},
pmid = {36252762}
}
@article{lin353261,
title = {Clarifying Microbial Nitrous Oxide Reduction under Aerobic Conditions: Tolerant, Intolerant, and Sensitive.},
author = {Wang Z, Vishwanathan N, Kowaliczko S, Ishii S.},
journal = {Microbiol Spectr},
year = {2023},
doi = {10.1128/spectrum.04709-22},
pmid = {36926990}
}
@article{lin235459,
title = {Pan-genome analysis of six Paracoccus type strain genomes reveal lifestyle traits.},
author = {Hollensteiner J, Schneider D, Poehlein A, Brinkhoff T, Daniel R.},
journal = {PLoS One},
year = {2023},
doi = {10.1371/journal.pone.0287947},
pmid = {38117845}
}
@article{lin235457,
title = {Multiple levels of transcriptional regulation control glycolate metabolism in Paracoccus denitrificans.},
author = {Schada von Borzyskowski L, Hermann L, Kremer K, Barthel S, Pommerenke B, Glatter T, Paczia N, Bremer E, Erb TJ.},
journal = {mBio},
year = {2024},
doi = {10.1128/mbio.01524-24},
pmid = {38953632}
}
@article{lin235512,
title = {Paracoccus broussonetiae subsp. drimophilus subsp. nov., a Novel Subspecies Salt-Tolerant Endophytic Bacterium from Maize Root in Hunan.},
author = {Li X, Zhou C, Li M, Zhang Q, Su L, Li X.},
journal = {Life (Basel)},
year = {2025},
doi = {10.3390/life15030354},
pmid = {40141699}
}
@article{lin235456,
title = {NAD-dependent dehydrogenases enable efficient growth of Paracoccus denitrificans on the PET monomer ethylene glycol.},
author = {Ren M, Li D, Addison H, Noteborn WEM, Andeweg EH, Glatter T, de Winde JH, Rebelein JG, Lamers MH, Schada von Borzyskowski L.},
journal = {Nat Commun},
year = {2025},
doi = {10.1038/s41467-025-61056-x},
pmid = {40592898}
}