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Items: 49


Elucidating Syntrophic Butyrate-Degrading Populations in Anaerobic Digesters Using Stable-Isotope-Informed Genome-Resolved Metagenomics.

Ziels RM, Nobu MK, Sousa DZ.

mSystems. 2019 Aug 6;4(4). pii: e00159-19. doi: 10.1128/mSystems.00159-19.


Short term changes in the abundance of nitrifying microorganisms in a soil-plant system simultaneously exposed to copper nanoparticles and atrazine.

Parada J, Rubilar O, Sousa DZ, Martínez M, Fernández-Baldo MA, Tortella GR.

Sci Total Environ. 2019 Jun 20;670:1068-1074. doi: 10.1016/j.scitotenv.2019.03.221. Epub 2019 Mar 20.


Development of a Bioelectrochemical System as a Tool to Enrich H2-Producing Syntrophic Bacteria.

Guzman JJL, Sousa DZ, Angenent LT.

Front Microbiol. 2019 Feb 5;10:110. doi: 10.3389/fmicb.2019.00110. eCollection 2019.


Co-culture of a Novel Fermentative Bacterium, Lucifera butyrica gen. nov. sp. nov., With the Sulfur Reducer Desulfurella amilsii for Enhanced Sulfidogenesis.

Sánchez-Andrea I, Florentino AP, Semerel J, Strepis N, Sousa DZ, Stams AJM.

Front Microbiol. 2018 Dec 13;9:3108. doi: 10.3389/fmicb.2018.03108. eCollection 2018.


Trichococcus shcherbakoviae sp. nov., isolated from a laboratory-scale anaerobic EGSB bioreactor operated at low temperature.

Parshina SN, Strepis N, Aalvink S, Nozhevnikova AN, Stams AJM, Sousa DZ.

Int J Syst Evol Microbiol. 2019 Feb;69(2):529-534. doi: 10.1099/ijsem.0.003193. Epub 2019 Jan 3.


Inhibition Studies with 2-Bromoethanesulfonate Reveal a Novel Syntrophic Relationship in Anaerobic Oleate Degradation.

Salvador AF, Cavaleiro AJ, Paulo AMS, Silva SA, Guedes AP, Pereira MA, Stams AJM, Sousa DZ, Alves MM.

Appl Environ Microbiol. 2019 Jan 9;85(2). pii: e01733-18. doi: 10.1128/AEM.01733-18. Print 2019 Jan 15.


Novel energy conservation strategies and behaviour of Pelotomaculum schinkii driving syntrophic propionate catabolism.

Hidalgo-Ahumada CAP, Nobu MK, Narihiro T, Tamaki H, Liu WT, Kamagata Y, Stams AJM, Imachi H, Sousa DZ.

Environ Microbiol. 2018 Dec;20(12):4503-4511. doi: 10.1111/1462-2920.14388. Epub 2018 Oct 30.


Towards sustainable feedstocks: A guide to electron donors for microbial carbon fixation.

Claassens NJ, Sánchez-Andrea I, Sousa DZ, Bar-Even A.

Curr Opin Biotechnol. 2018 Apr;50:195-205. doi: 10.1016/j.copbio.2018.01.019. Epub 2018 Feb 22. Review.


High Rate Biomethanation of Carbon Monoxide-Rich Gases via a Thermophilic Synthetic Coculture.

Diender M, Uhl PS, Bitter JH, Stams AJM, Sousa DZ.

ACS Sustain Chem Eng. 2018 Feb 5;6(2):2169-2176. doi: 10.1021/acssuschemeng.7b03601. Epub 2017 Dec 11.


The deep-subsurface sulfate reducer Desulfotomaculum kuznetsovii employs two methanol-degrading pathways.

Sousa DZ, Visser M, van Gelder AH, Boeren S, Pieterse MM, Pinkse MWH, Verhaert PDEM, Vogt C, Franke S, Kümmel S, Stams AJM.

Nat Commun. 2018 Jan 16;9(1):239. doi: 10.1038/s41467-017-02518-9.


Enrichment of syngas-converting communities from a multi-orifice baffled bioreactor.

Arantes AL, Alves JI, Stams AJM, Alves MM, Sousa DZ.

Microb Biotechnol. 2018 Jul;11(4):639-646. doi: 10.1111/1751-7915.12864. Epub 2017 Nov 21.


DNA-SIP based genome-centric metagenomics identifies key long-chain fatty acid-degrading populations in anaerobic digesters with different feeding frequencies.

Ziels RM, Sousa DZ, Stensel HD, Beck DAC.

ISME J. 2018 Jan;12(1):112-123. doi: 10.1038/ismej.2017.143. Epub 2017 Sep 12.


Effect of Nickel and Cobalt on Methanogenic Enrichment Cultures and Role of Biogenic Sulfide in Metal Toxicity Attenuation.

Paulo LM, Ramiro-Garcia J, van Mourik S, Stams AJM, Sousa DZ.

Front Microbiol. 2017 Jul 18;8:1341. doi: 10.3389/fmicb.2017.01341. eCollection 2017.


Whole Proteome Analyses on Ruminiclostridium cellulolyticum Show a Modulation of the Cellulolysis Machinery in Response to Cellulosic Materials with Subtle Differences in Chemical and Structural Properties.

Badalato N, Guillot A, Sabarly V, Dubois M, Pourette N, Pontoire B, Robert P, Bridier A, Monnet V, Sousa DZ, Durand S, Mazéas L, Buléon A, Bouchez T, Mortha G, Bize A.

PLoS One. 2017 Jan 23;12(1):e0170524. doi: 10.1371/journal.pone.0170524. eCollection 2017.


Harnessing the power of microbial autotrophy.

Claassens NJ, Sousa DZ, Dos Santos VA, de Vos WM, van der Oost J.

Nat Rev Microbiol. 2016 Nov;14(11):692-706. doi: 10.1038/nrmicro.2016.130. Epub 2016 Sep 26. Review.


Comparative Analysis of Carbon Monoxide Tolerance among Thermoanaerobacter Species.

Alves JI, Alves MM, Plugge CM, Stams AJ, Sousa DZ.

Front Microbiol. 2016 Aug 29;7:1330. doi: 10.3389/fmicb.2016.01330. eCollection 2016.


Proteomic Analysis of the Hydrogen and Carbon Monoxide Metabolism of Methanothermobacter marburgensis.

Diender M, Pereira R, Wessels HJ, Stams AJ, Sousa DZ.

Front Microbiol. 2016 Jul 4;7:1049. doi: 10.3389/fmicb.2016.01049. eCollection 2016.


Description of Trichococcus ilyis sp. nov. by combined physiological and in silico genome hybridization analyses.

Strepis N, Sánchez-Andrea I, van Gelder AH, van Kruistum H, Shapiro N, Kyrpides N, Göker M, Klenk HP, Schaap P, Stams AJ, Sousa DZ.

Int J Syst Evol Microbiol. 2016 Oct;66(10):3957-3963. doi: 10.1099/ijsem.0.001294. Epub 2016 Jul 11.


Toxicity of long chain fatty acids towards acetate conversion by Methanosaeta concilii and Methanosarcina mazei.

Silva SA, Salvador AF, Cavaleiro AJ, Pereira MA, Stams AJ, Alves MM, Sousa DZ.

Microb Biotechnol. 2016 Jul;9(4):514-8. doi: 10.1111/1751-7915.12365. Epub 2016 Jun 8.


Production of medium-chain fatty acids and higher alcohols by a synthetic co-culture grown on carbon monoxide or syngas.

Diender M, Stams AJ, Sousa DZ.

Biotechnol Biofuels. 2016 Apr 2;9:82. doi: 10.1186/s13068-016-0495-0. eCollection 2016.


Conversion of Cn-Unsaturated into Cn-2-Saturated LCFA Can Occur Uncoupled from Methanogenesis in Anaerobic Bioreactors.

Cavaleiro AJ, Pereira MA, Guedes AP, Stams AJ, Alves MM, Sousa DZ.

Environ Sci Technol. 2016 Mar 15;50(6):3082-90. doi: 10.1021/acs.est.5b03204. Epub 2016 Feb 25.


Pathways and Bioenergetics of Anaerobic Carbon Monoxide Fermentation.

Diender M, Stams AJ, Sousa DZ.

Front Microbiol. 2015 Nov 19;6:1275. doi: 10.3389/fmicb.2015.01275. eCollection 2015. Review.


Lachnotalea glycerini gen. nov., sp. nov., an anaerobe isolated from a nanofiltration unit treating anoxic groundwater.

Jarzembowska M, Sousa DZ, Beyer F, Zwijnenburg A, Plugge CM, Stams AJM.

Int J Syst Evol Microbiol. 2016 Feb;66(2):774-779. doi: 10.1099/ijsem.0.000791. Epub 2015 Nov 24.


Genome analysis of Desulfotomaculum gibsoniae strain Groll(T) a highly versatile Gram-positive sulfate-reducing bacterium.

Kuever J, Visser M, Loeffler C, Boll M, Worm P, Sousa DZ, Plugge CM, Schaap PJ, Muyzer G, Pereira IA, Parshina SN, Goodwin LA, Kyrpides NC, Detter J, Woyke T, Chain P, Davenport KW, Rohde M, Spring S, Klenk HP, Stams AJ.

Stand Genomic Sci. 2014 Mar 20;9(3):821-39. doi: 10.4056/sigs.5209235. eCollection 2014 Jun 15.


Genome analyses of the carboxydotrophic sulfate-reducers Desulfotomaculum nigrificans and Desulfotomaculum carboxydivorans and reclassification of Desulfotomaculum caboxydivorans as a later synonym of Desulfotomaculum nigrificans.

Visser M, Parshina SN, Alves JI, Sousa DZ, Pereira IA, Muyzer G, Kuever J, Lebedinsky AV, Koehorst JJ, Worm P, Plugge CM, Schaap PJ, Goodwin LA, Lapidus A, Kyrpides NC, Detter JC, Woyke T, Chain P, Davenport KW, Spring S, Rohde M, Klenk HP, Stams AJ.

Stand Genomic Sci. 2014 Mar 1;9(3):655-75. doi: 10.4056/sigs.4718645. eCollection 2014 Jun 15.


A genomic view on syntrophic versus non-syntrophic lifestyle in anaerobic fatty acid degrading communities.

Worm P, Koehorst JJ, Visser M, Sedano-Núñez VT, Schaap PJ, Plugge CM, Sousa DZ, Stams AJM.

Biochim Biophys Acta. 2014 Dec;1837(12):2004-2016. doi: 10.1016/j.bbabio.2014.06.005. Epub 2014 Jun 26. Review.


Ercella succinigenes gen. nov., sp. nov., an anaerobic succinate-producing bacterium.

van Gelder AH, Sousa DZ, Rijpstra WI, Damsté JS, Stams AJ, Sánchez-Andrea I.

Int J Syst Evol Microbiol. 2014 Jul;64(Pt 7):2449-54. doi: 10.1099/ijs.0.058966-0. Epub 2014 Apr 28.


Enrichment of anaerobic syngas-converting bacteria from thermophilic bioreactor sludge.

Alves JI, Stams AJ, Plugge CM, Alves MM, Sousa DZ.

FEMS Microbiol Ecol. 2013 Dec;86(3):590-7. doi: 10.1111/1574-6941.12185. Epub 2013 Aug 23.


Atrazine dissipation and its impact on the microbial communities and community level physiological profiles in a microcosm simulating the biomixture of on-farm biopurification system.

Tortella GR, Mella-Herrera RA, Sousa DZ, Rubilar O, Acuña JJ, Briceño G, Diez MC.

J Hazard Mater. 2013 Sep 15;260:459-67. doi: 10.1016/j.jhazmat.2013.05.059. Epub 2013 Jun 10.


Carbendazim dissipation in the biomixture of on-farm biopurification systems and its effect on microbial communities.

Tortella GR, Mella-Herrera RA, Sousa DZ, Rubilar O, Briceño G, Parra L, Diez MC.

Chemosphere. 2013 Oct;93(6):1084-93. doi: 10.1016/j.chemosphere.2013.05.084. Epub 2013 Jun 24.


Moorella stamsii sp. nov., a new anaerobic thermophilic hydrogenogenic carboxydotroph isolated from digester sludge.

Alves JI, van Gelder AH, Alves MM, Sousa DZ, Plugge CM.

Int J Syst Evol Microbiol. 2013 Nov;63(Pt 11):4072-6. doi: 10.1099/ijs.0.050369-0. Epub 2013 Jun 7.


Activity and viability of methanogens in anaerobic digestion of unsaturated and saturated long-chain fatty acids.

Sousa DZ, Salvador AF, Ramos J, Guedes AP, Barbosa S, Stams AJ, Alves MM, Pereira MA.

Appl Environ Microbiol. 2013 Jul;79(14):4239-45. doi: 10.1128/AEM.00035-13. Epub 2013 May 3.


Bioaugmentation of sewage sludge with Trametes versicolor in solid-phase biopiles produces degradation of pharmaceuticals and affects microbial communities.

Rodríguez-Rodríguez CE, Jelić A, Pereira MA, Sousa DZ, Petrović M, Alves MM, Barceló D, Caminal G, Vicent T.

Environ Sci Technol. 2012 Nov 6;46(21):12012-20. doi: 10.1021/es301788n. Epub 2012 Oct 16.


Effects of pre-treatment and bioaugmentation strategies on the anaerobic digestion of chicken feathers.

Costa JC, Barbosa SG, Sousa DZ.

Bioresour Technol. 2012 Sep;120:114-9. doi: 10.1016/j.biortech.2012.06.047. Epub 2012 Jun 21.


Role of syntrophic microbial communities in high-rate methanogenic bioreactors.

Stams AJ, Sousa DZ, Kleerebezem R, Plugge CM.

Water Sci Technol. 2012;66(2):352-62. doi: 10.2166/wst.2012.192.


Endurance of methanogenic archaea in anaerobic bioreactors treating oleate-based wastewater.

Salvador AF, Cavaleiro AJ, Sousa DZ, Alves MM, Pereira MA.

Appl Microbiol Biotechnol. 2013 Mar;97(5):2211-8. doi: 10.1007/s00253-012-4061-9. Epub 2012 May 9.


Thermochemical pre- and biological co-treatments to improve hydrolysis and methane production from poultry litter.

Costa JC, Barbosa SG, Alves MM, Sousa DZ.

Bioresour Technol. 2012 May;111:141-7. doi: 10.1016/j.biortech.2012.02.047. Epub 2012 Feb 17.


Biohydrogen production from arabinose and glucose using extreme thermophilic anaerobic mixed cultures.

Abreu AA, Karakashev D, Angelidaki I, Sousa DZ, Alves MM.

Biotechnol Biofuels. 2012 Feb 13;5:6. doi: 10.1186/1754-6834-5-6.


Strategies to suppress hydrogen-consuming microorganisms affect macro and micro scale structure and microbiology of granular sludge.

Abreu AA, Alves JI, Pereira MA, Sousa DZ, Alves MM.

Biotechnol Bioeng. 2011 Aug;108(8):1766-75. doi: 10.1002/bit.23145. Epub 2011 Apr 14.


Methane production from oleate: assessing the bioaugmentation potential of Syntrophomonas zehnderi.

Cavaleiro AJ, Sousa DZ, Alves MM.

Water Res. 2010 Sep;44(17):4940-7. doi: 10.1016/j.watres.2010.07.039. Epub 2010 Jul 21.


Waste lipids to energy: how to optimize methane production from long-chain fatty acids (LCFA).

Alves MM, Pereira MA, Sousa DZ, Cavaleiro AJ, Picavet M, Smidt H, Stams AJ.

Microb Biotechnol. 2009 Sep;2(5):538-50. doi: 10.1111/j.1751-7915.2009.00100.x. Epub 2009 Apr 16. Review.


Ecophysiology of syntrophic communities that degrade saturated and unsaturated long-chain fatty acids.

Sousa DZ, Smidt H, Alves MM, Stams AJ.

FEMS Microbiol Ecol. 2009 Jun;68(3):257-72. doi: 10.1111/j.1574-6941.2009.00680.x. Review.


Effect of sulfate on methanogenic communities that degrade unsaturated and saturated long-chain fatty acids (LCFA).

Sousa DZ, Alves JI, Alves MM, Smidt H, Stams AJ.

Environ Microbiol. 2009 Jan;11(1):68-80. doi: 10.1111/j.1462-2920.2008.01740.x. Epub 2008 Sep 8.


Anaerobic microbial LCFA degradation in bioreactors.

Sousa DZ, Pereira MA, Alves JI, Smidt H, Stams AJ, Alves MM.

Water Sci Technol. 2008;57(3):439-44. doi: 10.2166/wst.2008.090. Review.


Molecular assessment of complex microbial communities degrading long chain fatty acids in methanogenic bioreactors.

Sousa DZ, Pereira MA, Smidt H, Stams AJ, Alves MM.

FEMS Microbiol Ecol. 2007 May;60(2):252-65. Epub 2007 Mar 20.


Syntrophomonas zehnderi sp. nov., an anaerobe that degrades long-chain fatty acids in co-culture with Methanobacterium formicicum.

Sousa DZ, Smidt H, Alves MM, Stams AJ.

Int J Syst Evol Microbiol. 2007 Mar;57(Pt 3):609-15.


Microbial communities involved in anaerobic degradation of unsaturated or saturated long-chain fatty acids.

Sousa DZ, Pereira MA, Stams AJ, Alves MM, Smidt H.

Appl Environ Microbiol. 2007 Feb;73(4):1054-64. Epub 2006 Dec 8.


Mineralization of LCFA associated with anaerobic sludge: Kinetics, enhancement of methanogenic activity, and effect of VFA.

Pereira MA, Sousa DZ, Mota M, Alves MM.

Biotechnol Bioeng. 2004 Nov 20;88(4):502-11.


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