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Items: 1 to 50 of 97

1.

Extracellular Electron Transfer May Be an Overlooked Contribution to Pelagic Respiration in Humic-Rich Freshwater Lakes.

He S, Lau MP, Linz AM, Roden EE, McMahon KD.

mSphere. 2019 Jan 23;4(1). pii: e00436-18. doi: 10.1128/mSphere.00436-18.

2.

Freshwater carbon and nutrient cycles revealed through reconstructed population genomes.

Linz AM, He S, Stevens SLR, Anantharaman K, Rohwer RR, Malmstrom RR, Bertilsson S, McMahon KD.

PeerJ. 2018 Dec 10;6:e6075. doi: 10.7717/peerj.6075. eCollection 2018.

3.

acI Actinobacteria Assemble a Functional Actinorhodopsin with Natively Synthesized Retinal.

Dwulit-Smith JR, Hamilton JJ, Stevenson DM, He S, Oyserman BO, Moya-Flores F, Garcia SL, Amador-Noguez D, McMahon KD, Forest KT.

Appl Environ Microbiol. 2018 Nov 30;84(24). pii: e01678-18. doi: 10.1128/AEM.01678-18. Print 2018 Dec 15.

PMID:
30315080
4.

TaxAss: Leveraging a Custom Freshwater Database Achieves Fine-Scale Taxonomic Resolution.

Rohwer RR, Hamilton JJ, Newton RJ, McMahon KD.

mSphere. 2018 Sep 5;3(5). pii: e00327-18. doi: 10.1128/mSphere.00327-18.

5.

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2018 Jul 6;36(7):660. doi: 10.1038/nbt0718-660a. No abstract available.

PMID:
29979671
6.

Model Communities Hint at Promiscuous Metabolic Linkages between Ubiquitous Free-Living Freshwater Bacteria.

Garcia SL, Buck M, Hamilton JJ, Wurzbacher C, Grossart HP, McMahon KD, Eiler A.

mSphere. 2018 May 30;3(3). pii: e00202-18. doi: 10.1128/mSphere.00202-18. Print 2018 Jun 27.

7.

Keystone taxa predict compositional change in microbial communities.

Herren CM, McMahon KD.

Environ Microbiol. 2018 Jun;20(6):2207-2217. doi: 10.1111/1462-2920.14257. Epub 2018 Jul 2.

PMID:
29708645
8.

Inhibition of Cyanobacterial Growth on a Municipal Wastewater Sidestream Is Impacted by Temperature.

Korosh TC, Dutcher A, Pfleger BF, McMahon KD.

mSphere. 2018 Feb 28;3(1). pii: e00538-17. doi: 10.1128/mSphere.00538-17. eCollection 2018 Jan-Feb.

9.

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2018 Feb 6;36(2):196. doi: 10.1038/nbt0218-196a. No abstract available.

10.

Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations.

Garcia SL, Stevens SLR, Crary B, Martinez-Garcia M, Stepanauskas R, Woyke T, Tringe SG, Andersson SGE, Bertilsson S, Malmstrom RR, McMahon KD.

ISME J. 2018 Mar;12(3):742-755. doi: 10.1038/s41396-017-0001-0. Epub 2017 Dec 8.

11.

Corrigendum to "Candidatus Accumulibacter phosphatis clades enriched under cyclic anaerobic and microaerobic conditions simultaneously use different electron acceptors" [Water Res. 102 (2016) 125-137].

Camejo PY, Owen BR, Martirano J, Ma J, Kapoor V, Domingo JS, McMahon KD, Noguera DR.

Water Res. 2017 Dec 15;127:258. doi: 10.1016/j.watres.2017.10.056. No abstract available.

PMID:
29153149
12.

Engineering photosynthetic production of L-lysine.

Korosh TC, Markley AL, Clark RL, McGinley LL, McMahon KD, Pfleger BF.

Metab Eng. 2017 Nov;44:273-283. doi: 10.1016/j.ymben.2017.10.010. Epub 2017 Oct 28.

13.

Gut microbiomes of mobile predators vary with landscape context and species identity.

Tiede J, Scherber C, Mutschler J, McMahon KD, Gratton C.

Ecol Evol. 2017 Sep 12;7(20):8545-8557. doi: 10.1002/ece3.3390. eCollection 2017 Oct.

14.

Ecogenomics of virophages and their giant virus hosts assessed through time series metagenomics.

Roux S, Chan LK, Egan R, Malmstrom RR, McMahon KD, Sullivan MB.

Nat Commun. 2017 Oct 11;8(1):858. doi: 10.1038/s41467-017-01086-2.

15.

Ananke: temporal clustering reveals ecological dynamics of microbial communities.

Hall MW, Rohwer RR, Perrie J, McMahon KD, Beiko RG.

PeerJ. 2017 Sep 26;5:e3812. doi: 10.7717/peerj.3812. eCollection 2017.

16.

Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes.

He S, Stevens SLR, Chan LK, Bertilsson S, Glavina Del Rio T, Tringe SG, Malmstrom RR, McMahon KD.

mSphere. 2017 Sep 27;2(5). pii: e00277-17. doi: 10.1128/mSphere.00277-17. eCollection 2017 Sep-Oct.

17.

Genome-Enabled Insights into the Ecophysiology of the Comammox Bacterium "Candidatus Nitrospira nitrosa".

Camejo PY, Santo Domingo J, McMahon KD, Noguera DR.

mSystems. 2017 Sep 12;2(5). pii: e00059-17. doi: 10.1128/mSystems.00059-17. eCollection 2017 Sep-Oct.

18.

Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI.

Hamilton JJ, Garcia SL, Brown BS, Oyserman BO, Moya-Flores F, Bertilsson S, Malmstrom RR, Forest KT, McMahon KD.

mSystems. 2017 Aug 29;2(4). pii: e00091-17. doi: 10.1128/mSystems.00091-17. eCollection 2017 Jul-Aug.

19.

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2017 Aug 8;35(8):725-731. doi: 10.1038/nbt.3893.

PMID:
28787424
20.

Erratum for Linz et al., "Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes".

Linz AM, Crary BC, Shade A, Owens S, Gilbert JA, Knight R, McMahon KD.

mSphere. 2017 Jul 19;2(4). pii: e00296-17. doi: 10.1128/mSphere.00296-17. eCollection 2017 Jul-Aug.

21.

Cohesion: a method for quantifying the connectivity of microbial communities.

Herren CM, McMahon KD.

ISME J. 2017 Nov;11(11):2426-2438. doi: 10.1038/ismej.2017.91. Epub 2017 Jul 21.

22.

Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes.

Linz AM, Crary BC, Shade A, Owens S, Gilbert JA, Knight R, McMahon KD.

mSphere. 2017 Jun 28;2(3). pii: e00169-17. doi: 10.1128/mSphere.00169-17. eCollection 2017 May-Jun. Erratum in: mSphere. 2017 Jul 19;2(4):.

23.

Metabolic network analysis reveals microbial community interactions in anammox granules.

Lawson CE, Wu S, Bhattacharjee AS, Hamilton JJ, McMahon KD, Goel R, Noguera DR.

Nat Commun. 2017 May 31;8:15416. doi: 10.1038/ncomms15416.

24.

Whole-Community Metagenomics in Two Different Anammox Configurations: Process Performance and Community Structure.

Bhattacharjee AS, Wu S, Lawson CE, Jetten MSM, Kapoor V, Domingo JWS, McMahon KD, Noguera DR, Goel R.

Environ Sci Technol. 2017 Apr 18;51(8):4317-4327. doi: 10.1021/acs.est.6b05855. Epub 2017 Mar 31.

PMID:
28306234
25.

Community Assembly and Ecology of Activated Sludge under Photosynthetic Feast-Famine Conditions.

Oyserman BO, Martirano JM, Wipperfurth S, Owen BR, Noguera DR, McMahon KD.

Environ Sci Technol. 2017 Mar 21;51(6):3165-3175. doi: 10.1021/acs.est.6b03976. Epub 2017 Mar 10.

PMID:
28240542
26.

Environmental Disturbances Decrease the Variability of Microbial Populations within Periphyton.

Herren CM, Webert KC, McMahon KD.

mSystems. 2016 May 17;1(3). pii: e00013-16. eCollection 2016 May-Jun.

27.

De novo synthesis and functional analysis of the phosphatase-encoding gene acI-B of uncultured Actinobacteria from Lake Stechlin (NE Germany).

Srivastava A, McMahon KD, Stepanauskas R, Grossart HP.

Int Microbiol. 2015 Dec;18(4):39-47. doi: 10.2436/20.1501.01.262.

28.

Candidatus Accumulibacter phosphatis clades enriched under cyclic anaerobic and microaerobic conditions simultaneously use different electron acceptors.

Camejo PY, Owen BR, Martirano J, Ma J, Kapoor V, Santo Domingo J, McMahon KD, Noguera DR.

Water Res. 2016 Oct 1;102:125-137. doi: 10.1016/j.watres.2016.06.033. Epub 2016 Jun 16. Erratum in: Water Res. 2017 Dec 15;127:258.

PMID:
27340814
29.

Ancestral genome reconstruction identifies the evolutionary basis for trait acquisition in polyphosphate accumulating bacteria.

Oyserman BO, Moya F, Lawson CE, Garcia AL, Vogt M, Heffernen M, Noguera DR, McMahon KD.

ISME J. 2016 Dec;10(12):2931-2945. doi: 10.1038/ismej.2016.67. Epub 2016 Apr 29.

30.

Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria.

Eiler A, Mondav R, Sinclair L, Fernandez-Vidal L, Scofield DG, Schwientek P, Martinez-Garcia M, Torrents D, McMahon KD, Andersson SG, Stepanauskas R, Woyke T, Bertilsson S.

ISME J. 2016 Aug;10(8):1902-14. doi: 10.1038/ismej.2015.260. Epub 2016 Jan 19.

31.

Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations.

Bendall ML, Stevens SL, Chan LK, Malfatti S, Schwientek P, Tremblay J, Schackwitz W, Martin J, Pati A, Bushnell B, Froula J, Kang D, Tringe SG, Bertilsson S, Moran MA, Shade A, Newton RJ, McMahon KD, Malmstrom RR.

ISME J. 2016 Jul;10(7):1589-601. doi: 10.1038/ismej.2015.241. Epub 2016 Jan 8.

32.

Metatranscriptomic insights on gene expression and regulatory controls in Candidatus Accumulibacter phosphatis.

Oyserman BO, Noguera DR, del Rio TG, Tringe SG, McMahon KD.

ISME J. 2016 Apr;10(4):810-22. doi: 10.1038/ismej.2015.155. Epub 2015 Nov 10.

33.

Auxotrophy and intrapopulation complementary in the 'interactome' of a cultivated freshwater model community.

Garcia SL, Buck M, McMahon KD, Grossart HP, Eiler A, Warnecke F.

Mol Ecol. 2015 Sep;24(17):4449-59. doi: 10.1111/mec.13319. Epub 2015 Aug 8.

PMID:
26179741
34.

Long-term monitoring reveals carbon-nitrogen metabolism key to microcystin production in eutrophic lakes.

Beversdorf LJ, Miller TR, McMahon KD.

Front Microbiol. 2015 May 12;6:456. doi: 10.3389/fmicb.2015.00456. eCollection 2015.

35.

Microcystin mcyA and mcyE Gene Abundances Are Not Appropriate Indicators of Microcystin Concentrations in Lakes.

Beversdorf LJ, Chaston SD, Miller TR, McMahon KD.

PLoS One. 2015 May 6;10(5):e0125353. doi: 10.1371/journal.pone.0125353. eCollection 2015.

36.

Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage.

Ghylin TW, Garcia SL, Moya F, Oyserman BO, Schwientek P, Forest KT, Mutschler J, Dwulit-Smith J, Chan LK, Martinez-Garcia M, Sczyrba A, Stepanauskas R, Grossart HP, Woyke T, Warnecke F, Malmstrom R, Bertilsson S, McMahon KD.

ISME J. 2014 Dec;8(12):2503-16. doi: 10.1038/ismej.2014.135. Epub 2014 Aug 5.

37.

Phosphorus speciation in a eutrophic lake by ³¹P NMR spectroscopy.

Read EK, Ivancic M, Hanson P, Cade-Menun BJ, McMahon KD.

Water Res. 2014 Oct 1;62:229-40. doi: 10.1016/j.watres.2014.06.005. Epub 2014 Jun 11.

PMID:
24956605
38.

Successful enrichment of the ubiquitous freshwater acI Actinobacteria.

Garcia SL, McMahon KD, Grossart HP, Warnecke F.

Environ Microbiol Rep. 2014 Feb;6(1):21-7. doi: 10.1111/1758-2229.12104. Epub 2013 Nov 10.

PMID:
24596259
39.

Seasonal bacterial community dynamics in a full-scale enhanced biological phosphorus removal plant.

Flowers JJ, Cadkin TA, McMahon KD.

Water Res. 2013 Dec 1;47(19):7019-31. doi: 10.1016/j.watres.2013.07.054. Epub 2013 Oct 23.

40.

Productivity and salinity structuring of the microplankton revealed by comparative freshwater metagenomics.

Eiler A, Zaremba-Niedzwiedzka K, Martínez-García M, McMahon KD, Stepanauskas R, Andersson SG, Bertilsson S.

Environ Microbiol. 2014 Sep;16(9):2682-98. doi: 10.1111/1462-2920.12301. Epub 2013 Nov 12.

41.

Spatiotemporal molecular analysis of cyanobacteria blooms reveals Microcystis--Aphanizomenon interactions.

Miller TR, Beversdorf L, Chaston SD, McMahon KD.

PLoS One. 2013 Sep 27;8(9):e74933. doi: 10.1371/journal.pone.0074933. eCollection 2013.

42.

Comparative genomics of two 'Candidatus Accumulibacter' clades performing biological phosphorus removal.

Flowers JJ, He S, Malfatti S, del Rio TG, Tringe SG, Hugenholtz P, McMahon KD.

ISME J. 2013 Dec;7(12):2301-14. doi: 10.1038/ismej.2013.117. Epub 2013 Jul 25.

43.

Microbial contributions to phosphorus cycling in eutrophic lakes and wastewater.

McMahon KD, Read EK.

Annu Rev Microbiol. 2013;67:199-219. doi: 10.1146/annurev-micro-092412-155713. Epub 2013 Jun 17. Review.

PMID:
23799816
44.

The role of nitrogen fixation in cyanobacterial bloom toxicity in a temperate, eutrophic lake.

Beversdorf LJ, Miller TR, McMahon KD.

PLoS One. 2013;8(2):e56103. doi: 10.1371/journal.pone.0056103. Epub 2013 Feb 6.

45.

Microbial diversity and dynamics during methane production from municipal solid waste.

Bareither CA, Wolfe GL, McMahon KD, Benson CH.

Waste Manag. 2013 Oct;33(10):1982-92. doi: 10.1016/j.wasman.2012.12.013. Epub 2013 Jan 12.

PMID:
23318155
46.

Lineage-specific responses of microbial communities to environmental change.

Youngblut ND, Shade A, Read JS, McMahon KD, Whitaker RJ.

Appl Environ Microbiol. 2013 Jan;79(1):39-47. doi: 10.1128/AEM.02226-12. Epub 2012 Oct 12.

47.

A decade of seasonal dynamics and co-occurrences within freshwater bacterioplankton communities from eutrophic Lake Mendota, WI, USA.

Kara EL, Hanson PC, Hu YH, Winslow L, McMahon KD.

ISME J. 2013 Mar;7(3):680-4. doi: 10.1038/ismej.2012.118. Epub 2012 Oct 11.

48.

Spatial and temporal scales of aquatic bacterial beta diversity.

Jones SE, Cadkin TA, Newton RJ, McMahon KD.

Front Microbiol. 2012 Aug 31;3:318. doi: 10.3389/fmicb.2012.00318. eCollection 2012.

49.

Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton.

Garcia SL, McMahon KD, Martinez-Garcia M, Srivastava A, Sczyrba A, Stepanauskas R, Grossart HP, Woyke T, Warnecke F.

ISME J. 2013 Jan;7(1):137-47. doi: 10.1038/ismej.2012.86. Epub 2012 Jul 19.

50.

Metagenomes of Mediterranean coastal lagoons.

Ghai R, Hernandez CM, Picazo A, Mizuno CM, Ininbergs K, Díez B, Valas R, DuPont CL, McMahon KD, Camacho A, Rodriguez-Valera F.

Sci Rep. 2012;2:490. doi: 10.1038/srep00490. Epub 2012 Jul 3.

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