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Items: 1 to 50 of 99

1.

Consent insufficient for data release-Response.

Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I.

Science. 2019 May 3;364(6439):446. doi: 10.1126/science.aax7509. No abstract available.

PMID:
31048484
2.

A Physiological and Genomic Comparison of Nitrosomonas Cluster 6a and 7 Ammonia-Oxidizing Bacteria.

Sedlacek CJ, McGowan B, Suwa Y, Sayavedra-Soto L, Laanbroek HJ, Stein LY, Norton JM, Klotz MG, Bollmann A.

Microb Ecol. 2019 Apr 11. doi: 10.1007/s00248-019-01378-8. [Epub ahead of print]

PMID:
30976841
3.

Editorial: The Responses of Marine Microorganisms, Communities and Ecofunctions to Environmental Gradients.

Dang H, Klotz MG, Lovell CR, Sievert SM.

Front Microbiol. 2019 Feb 8;10:115. doi: 10.3389/fmicb.2019.00115. eCollection 2019. No abstract available.

4.

Toward unrestricted use of public genomic data.

Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I.

Science. 2019 Jan 25;363(6425):350-352. doi: 10.1126/science.aaw1280. No abstract available.

5.

Evolutionary History of Copper Membrane Monooxygenases.

Khadka R, Clothier L, Wang L, Lim CK, Klotz MG, Dunfield PF.

Front Microbiol. 2018 Oct 29;9:2493. doi: 10.3389/fmicb.2018.02493. eCollection 2018.

6.

Erratum: Addendum: Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.).

Waite DW, Vanwonterghem I, Rinke C, Parks DH, Zhang Y, Takai K, Sievert SM, Simon J, Campbell BJ, Hanson TE, Woyke T, Klotz MG, Hugenholtz P.

Front Microbiol. 2018 Apr 18;9:772. doi: 10.3389/fmicb.2018.00772. eCollection 2018.

7.

Draft Genome Sequences of Two Gammaproteobacterial Methanotrophs Isolated from Rice Ecosystems.

Frindte K, Kalyuzhnaya MG, Bringel F, Dunfield PF, Jetten MSM, Khmelenina VN, Klotz MG, Murrell JC, Op den Camp HJM, Sakai Y, Semrau JD, Shapiro N, DiSpirito AA, Stein LY, Svenning MM, Trotsenko YA, Vuilleumier S, Woyke T, Knief C.

Genome Announc. 2017 Aug 17;5(33). pii: e00526-17. doi: 10.1128/genomeA.00526-17.

8.

Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.).

Waite DW, Vanwonterghem I, Rinke C, Parks DH, Zhang Y, Takai K, Sievert SM, Simon J, Campbell BJ, Hanson TE, Woyke T, Klotz MG, Hugenholtz P.

Front Microbiol. 2017 Apr 24;8:682. doi: 10.3389/fmicb.2017.00682. eCollection 2017. Erratum in: Front Microbiol. 2018 Apr 18;9:772.

9.

Complete Genome Sequence of Nitrosomonas cryotolerans ATCC 49181, a Phylogenetically Distinct Ammonia-Oxidizing Bacterium Isolated from Arctic Waters.

Rice MC, Norton JM, Stein LY, Kozlowski J, Bollmann A, Klotz MG, Sayavedra-Soto L, Shapiro N, Goodwin LA, Huntemann M, Clum A, Pillay M, Varghese N, Mikhailova N, Palaniappan K, Ivanova N, Mukherjee S, Reddy TB, Yee Ngan C, Daum C, Kyrpides N, Woyke T.

Genome Announc. 2017 Mar 16;5(11). pii: e00011-17. doi: 10.1128/genomeA.00011-17.

10.
11.

Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil.

Rice MC, Norton JM, Valois F, Bollmann A, Bottomley PJ, Klotz MG, Laanbroek HJ, Suwa Y, Stein LY, Sayavedra-Soto L, Woyke T, Shapiro N, Goodwin LA, Huntemann M, Clum A, Pillay M, Kyrpides N, Varghese N, Mikhailova N, Markowitz V, Palaniappan K, Ivanova N, Stamatis D, Reddy TB, Ngan CY, Daum C.

Stand Genomic Sci. 2016 Jul 28;11:46. doi: 10.1186/s40793-016-0168-4. eCollection 2016.

12.

D1FHS, the Type Strain of the Ammonia-Oxidizing Bacterium Nitrosococcus wardiae spec. nov.: Enrichment, Isolation, Phylogenetic, and Growth Physiological Characterization.

Wang L, Lim CK, Dang H, Hanson TE, Klotz MG.

Front Microbiol. 2016 Apr 14;7:512. doi: 10.3389/fmicb.2016.00512. eCollection 2016.

13.

Editorial: Systems Biology and Ecology of Microbial Mat Communities.

Klotz MG, Bryant DA, Fredrickson JK, Inskeep WP, Kühl M.

Front Microbiol. 2016 Feb 9;7:115. doi: 10.3389/fmicb.2016.00115. eCollection 2016. No abstract available.

14.

Pathways and key intermediates required for obligate aerobic ammonia-dependent chemolithotrophy in bacteria and Thaumarchaeota.

Kozlowski JA, Stieglmeier M, Schleper C, Klotz MG, Stein LY.

ISME J. 2016 Aug;10(8):1836-45. doi: 10.1038/ismej.2016.2. Epub 2016 Feb 16.

15.

The nitrogen cycle.

Stein LY, Klotz MG.

Curr Biol. 2016 Feb 8;26(3):R94-8. doi: 10.1016/j.cub.2015.12.021.

16.

Draft Genome Sequences of Gammaproteobacterial Methanotrophs Isolated from Marine Ecosystems.

Flynn JD, Hirayama H, Sakai Y, Dunfield PF, Klotz MG, Knief C, Op den Camp HJ, Jetten MS, Khmelenina VN, Trotsenko YA, Murrell JC, Semrau JD, Svenning MM, Stein LY, Kyrpides N, Shapiro N, Woyke T, Bringel F, Vuilleumier S, DiSpirito AA, Kalyuzhnaya MG.

Genome Announc. 2016 Jan 21;4(1). pii: e01629-15. doi: 10.1128/genomeA.01629-15.

17.

Draft Genome Sequence of the Moderately Halophilic Methanotroph Methylohalobius crimeensis Strain 10Ki.

Sharp CE, Smirnova AV, Kalyuzhnaya MG, Bringel F, Hirayama H, Jetten MS, Khmelenina VN, Klotz MG, Knief C, Kyrpides N, Op den Camp HJ, Reshetnikov AS, Sakai Y, Shapiro N, Trotsenko YA, Vuilleumier S, Woyke T, Dunfield PF.

Genome Announc. 2015 Jun 11;3(3). pii: e00644-15. doi: 10.1128/genomeA.00644-15.

18.

Draft genomes of gammaproteobacterial methanotrophs isolated from terrestrial ecosystems.

Hamilton R, Kits KD, Ramonovskaya VA, Rozova ON, Yurimoto H, Iguchi H, Khmelenina VN, Sakai Y, Dunfield PF, Klotz MG, Knief C, Op den Camp HJ, Jetten MS, Bringel F, Vuilleumier S, Svenning MM, Shapiro N, Woyke T, Trotsenko YA, Stein LY, Kalyuzhnaya MG.

Genome Announc. 2015 Jun 4;3(3). pii: e00515-15. doi: 10.1128/genomeA.00515-15.

19.

Methane oxidation coupled to nitrate reduction under hypoxia by the Gammaproteobacterium Methylomonas denitrificans, sp. nov. type strain FJG1.

Kits KD, Klotz MG, Stein LY.

Environ Microbiol. 2015 Sep;17(9):3219-32. doi: 10.1111/1462-2920.12772. Epub 2015 Mar 10.

PMID:
25580993
20.

Nitrosospira lacus sp. nov., a psychrotolerant, ammonia-oxidizing bacterium from sandy lake sediment.

Urakawa H, Garcia JC, Nielsen JL, Le VQ, Kozlowski JA, Stein LY, Lim CK, Pommerening-Röser A, Martens-Habbena W, Stahl DA, Klotz MG.

Int J Syst Evol Microbiol. 2015 Jan;65(Pt 1):242-50. doi: 10.1099/ijs.0.070789-0. Epub 2014 Oct 21.

PMID:
25336720
21.

Distribution of ether lipids and composition of the archaeal community in terrestrial geothermal springs: impact of environmental variables.

Xie W, Zhang CL, Wang J, Chen Y, Zhu Y, de la Torre JR, Dong H, Hartnett HE, Hedlund BP, Klotz MG.

Environ Microbiol. 2015 May;17(5):1600-14. doi: 10.1111/1462-2920.12595. Epub 2014 Oct 13.

PMID:
25142282
22.

Nitrogen cycling. The environmental controls that govern the end product of bacterial nitrate respiration.

Kraft B, Tegetmeyer HE, Sharma R, Klotz MG, Ferdelman TG, Hettich RL, Geelhoed JS, Strous M.

Science. 2014 Aug 8;345(6197):676-9. doi: 10.1126/science.1254070.

23.

Metabolic environments and genomic features associated with pathogenic and mutualistic interactions between bacteria and plants.

Karpinets TV, Park BH, Syed MH, Klotz MG, Uberbacher EC.

Mol Plant Microbe Interact. 2014 Jul;27(7):664-77. doi: 10.1094/MPMI-12-13-0368-R.

24.

Draft Genome Sequence of Nitrosospira sp. Strain APG3, a Psychrotolerant Ammonia-Oxidizing Bacterium Isolated from Sandy Lake Sediment.

Garcia JC, Urakawa H, Le VQ, Stein LY, Klotz MG, Nielsen JL.

Genome Announc. 2013 Nov 7;1(6). pii: e00930-13. doi: 10.1128/genomeA.00930-13.

25.

Deep-sea methane seep sediments in the Okhotsk Sea sustain diverse and abundant anammox bacteria.

Shao S, Luan X, Dang H, Zhou H, Zhao Y, Liu H, Zhang Y, Dai L, Ye Y, Klotz MG.

FEMS Microbiol Ecol. 2014 Feb;87(2):503-16. doi: 10.1111/1574-6941.12241. Epub 2013 Nov 18.

26.

Energy-mediated vs. ammonium-regulated gene expression in the obligate ammonia-oxidizing bacterium, Nitrosococcus oceani.

Stein LY, Campbell MA, Klotz MG.

Front Microbiol. 2013 Sep 13;4:277. doi: 10.3389/fmicb.2013.00277. eCollection 2013.

27.

Complete genome sequence of Nitrosomonas sp. Is79, an ammonia oxidizing bacterium adapted to low ammonium concentrations.

Bollmann A, Sedlacek CJ, Norton J, Laanbroek HJ, Suwa Y, Stein LY, Klotz MG, Arp D, Sayavedra-Soto L, Lu M, Bruce D, Detter C, Tapia R, Han J, Woyke T, Lucas SM, Pitluck S, Pennacchio L, Nolan M, Land ML, Huntemann M, Deshpande S, Han C, Chen A, Kyrpides N, Mavromatis K, Markowitz V, Szeto E, Ivanova N, Mikhailova N, Pagani I, Pati A, Peters L, Ovchinnikova G, Goodwin LA.

Stand Genomic Sci. 2013 Feb 25;7(3):469-82. doi: 10.4056/sigs.3517166. eCollection 2013.

28.

Nitrate ammonification by Nautilia profundicola AmH: experimental evidence consistent with a free hydroxylamine intermediate.

Hanson TE, Campbell BJ, Kalis KM, Campbell MA, Klotz MG.

Front Microbiol. 2013 Jul 4;4:180. doi: 10.3389/fmicb.2013.00180. eCollection 2013.

29.

Draft Genome Sequence of Methylomicrobium buryatense Strain 5G, a Haloalkaline-Tolerant Methanotrophic Bacterium.

Khmelenina VN, Beck DA, Munk C, Davenport K, Daligault H, Erkkila T, Goodwin L, Gu W, Lo CC, Scholz M, Teshima H, Xu Y, Chain P, Bringel F, Vuilleumier S, Dispirito A, Dunfield P, Jetten MS, Klotz MG, Knief C, Murrell JC, Op den Camp HJ, Sakai Y, Semrau J, Svenning M, Stein LY, Trotsenko YA, Kalyuzhnaya MG.

Genome Announc. 2013 Jun 27;1(4). pii: e00053-13. doi: 10.1128/genomeA.00053-13.

30.

Abundance and distribution of diverse membrane-bound monooxygenase (Cu-MMO) genes within the Costa Rica oxygen minimum zone.

Tavormina PL, Ussler W 3rd, Steele JA, Connon SA, Klotz MG, Orphan VJ.

Environ Microbiol Rep. 2013 Jun;5(3):414-23. doi: 10.1111/1758-2229.12025. Epub 2013 Jan 29.

PMID:
23754722
31.

Genome Sequence of the Obligate Gammaproteobacterial Methanotroph Methylomicrobium album Strain BG8.

Kits KD, Kalyuzhnaya MG, Klotz MG, Jetten MS, Op den Camp HJ, Vuilleumier S, Bringel F, Dispirito AA, Murrell JC, Bruce D, Cheng JF, Copeland A, Goodwin L, Hauser L, Lajus A, Land ML, Lapidus A, Lucas S, Médigue C, Pitluck S, Woyke T, Zeytun A, Stein LY.

Genome Announc. 2013 Apr 11;1(2):e0017013. doi: 10.1128/genomeA.00170-13.

32.
33.

Thaumarchaeotal signature gene distribution in sediments of the northern South China Sea: an indicator of the metabolic intersection of the marine carbon, nitrogen, and phosphorus cycles?

Dang H, Zhou H, Yang J, Ge H, Jiao N, Luan X, Zhang C, Klotz MG.

Appl Environ Microbiol. 2013 Apr;79(7):2137-47. doi: 10.1128/AEM.03204-12. Epub 2013 Jan 18.

34.

Environment-dependent distribution of the sediment nifH-harboring microbiota in the Northern South China Sea.

Dang H, Yang J, Li J, Luan X, Zhang Y, Gu G, Xue R, Zong M, Klotz MG.

Appl Environ Microbiol. 2013 Jan;79(1):121-32. doi: 10.1128/AEM.01889-12. Epub 2012 Oct 12.

35.

Diversity and evolution of bioenergetic systems involved in microbial nitrogen compound transformations.

Simon J, Klotz MG.

Biochim Biophys Acta. 2013 Feb;1827(2):114-35. doi: 10.1016/j.bbabio.2012.07.005. Epub 2012 Jul 25.

36.

Draft genome sequence of the volcano-inhabiting thermoacidophilic methanotroph Methylacidiphilum fumariolicum strain SolV.

Khadem AF, Wieczorek AS, Pol A, Vuilleumier S, Harhangi HR, Dunfield PF, Kalyuzhnaya MG, Murrell JC, Francoijs KJ, Stunnenberg HG, Stein LY, DiSpirito AA, Semrau JD, Lajus A, Médigue C, Klotz MG, Jetten MS, Op den Camp HJ.

J Bacteriol. 2012 Jul;194(14):3729-30. doi: 10.1128/JB.00501-12.

37.

Effects of nitrogen dioxide and anoxia on global gene and protein expression in long-term continuous cultures of Nitrosomonas eutropha C91.

Kartal B, Wessels HJ, van der Biezen E, Francoijs KJ, Jetten MS, Klotz MG, Stein LY.

Appl Environ Microbiol. 2012 Jul;78(14):4788-94. doi: 10.1128/AEM.00668-12. Epub 2012 May 4.

38.

Genome sequence of the haloalkaliphilic methanotrophic bacterium Methylomicrobium alcaliphilum 20Z.

Vuilleumier S, Khmelenina VN, Bringel F, Reshetnikov AS, Lajus A, Mangenot S, Rouy Z, Op den Camp HJ, Jetten MS, Dispirito AA, Dunfield P, Klotz MG, Semrau JD, Stein LY, Barbe V, Médigue C, Trotsenko YA, Kalyuzhnaya MG.

J Bacteriol. 2012 Jan;194(2):551-2. doi: 10.1128/JB.06392-11.

39.

The microbial sulfur cycle.

Klotz MG, Bryant DA, Hanson TE.

Front Microbiol. 2011 Dec 2;2:241. doi: 10.3389/fmicb.2011.00241. eCollection 2011. No abstract available.

40.

Complete genome sequence of the aerobic marine methanotroph Methylomonas methanica MC09.

Boden R, Cunliffe M, Scanlan J, Moussard H, Kits KD, Klotz MG, Jetten MS, Vuilleumier S, Han J, Peters L, Mikhailova N, Teshima H, Tapia R, Kyrpides N, Ivanova N, Pagani I, Cheng JF, Goodwin L, Han C, Hauser L, Land ML, Lapidus A, Lucas S, Pitluck S, Woyke T, Stein L, Murrell JC.

J Bacteriol. 2011 Dec;193(24):7001-2. doi: 10.1128/JB.06267-11.

41.

Nitrous oxide production by lithotrophic ammonia-oxidizing bacteria and implications for engineered nitrogen-removal systems.

Chandran K, Stein LY, Klotz MG, van Loosdrecht MC.

Biochem Soc Trans. 2011 Dec;39(6):1832-7. doi: 10.1042/BST20110717. Review.

PMID:
22103535
42.

Nitrifying and denitrifying pathways of methanotrophic bacteria.

Stein LY, Klotz MG.

Biochem Soc Trans. 2011 Dec;39(6):1826-31. doi: 10.1042/BST20110712. Review.

PMID:
22103534
43.

The Wolinella succinogenes mcc gene cluster encodes an unconventional respiratory sulphite reduction system.

Kern M, Klotz MG, Simon J.

Mol Microbiol. 2011 Dec;82(6):1515-30. doi: 10.1111/j.1365-2958.2011.07906.x. Epub 2011 Nov 21.

44.

Molecular characterization of putative biocorroding microbiota with a novel niche detection of Epsilon- and Zetaproteobacteria in Pacific Ocean coastal seawaters.

Dang H, Chen R, Wang L, Shao S, Dai L, Ye Y, Guo L, Huang G, Klotz MG.

Environ Microbiol. 2011 Nov;13(11):3059-74. doi: 10.1111/j.1462-2920.2011.02583.x. Epub 2011 Sep 27.

PMID:
21951343
45.

Genome sequence of Nitrosomonas sp. strain AL212, an ammonia-oxidizing bacterium sensitive to high levels of ammonia.

Suwa Y, Norton JM, Bollmann A, Klotz MG, Stein LY, Laanbroek HJ, Arp DJ, Goodwin LA, Chertkov O, Held B, Bruce D, Detter JC, Detter JC, Tapia R, Han CS.

J Bacteriol. 2011 Sep;193(18):5047-8. doi: 10.1128/JB.05521-11. Erratum in: J Bacteriol. 2011 Nov;193(21):6112. Yuichi, Suwa [corrected to Suwa, Yuichi].

46.

Genome sequence of the Arctic methanotroph Methylobacter tundripaludum SV96.

Svenning MM, Hestnes AG, Wartiainen I, Stein LY, Klotz MG, Kalyuzhnaya MG, Spang A, Bringel F, Vuilleumier S, Lajus A, Médigue C, Bruce DC, Cheng JF, Goodwin L, Ivanova N, Han J, Han CS, Hauser L, Held B, Land ML, Lapidus A, Lucas S, Nolan M, Pitluck S, Woyke T.

J Bacteriol. 2011 Nov;193(22):6418-9. doi: 10.1128/JB.05380-11. Epub 2011 Jul 1.

47.

Model of the molecular basis for hydroxylamine oxidation and nitrous oxide production in methanotrophic bacteria.

Campbell MA, Nyerges G, Kozlowski JA, Poret-Peterson AT, Stein LY, Klotz MG.

FEMS Microbiol Lett. 2011 Sep;322(1):82-9. doi: 10.1111/j.1574-6968.2011.02340.x. Epub 2011 Jul 13.

48.

Characterizing bacterial gene expression in nitrogen cycle metabolism with RT-qPCR.

Graham JE, Wantland NB, Campbell M, Klotz MG.

Methods Enzymol. 2011;496:345-72. doi: 10.1016/B978-0-12-386489-5.00014-2. Review.

PMID:
21514471
49.

Research on nitrification and related processes, Part B. Preface.

Stein LY, Klotz MG.

Methods Enzymol. 2011;496:xix-xx. doi: 10.1016/B978-0-12-386489-5.00027-0. No abstract available.

PMID:
21514457
50.

Genome sequence of the methanotrophic alphaproteobacterium Methylocystis sp. strain Rockwell (ATCC 49242).

Stein LY, Bringel F, DiSpirito AA, Han S, Jetten MS, Kalyuzhnaya MG, Kits KD, Klotz MG, Op den Camp HJ, Semrau JD, Vuilleumier S, Bruce DC, Cheng JF, Davenport KW, Goodwin L, Han S, Hauser L, Lajus A, Land ML, Lapidus A, Lucas S, Médigue C, Pitluck S, Woyke T.

J Bacteriol. 2011 May;193(10):2668-9. doi: 10.1128/JB.00278-11. Epub 2011 Mar 25.

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