E. Wilson, M.E. Lidstrom and D.A.C. Beck. 2021. A multi-task learning approach to enhance sustainable biomolecule production in engineered microorganisms. Climate Change AI conference ICML 2021 paper #77
J. Wang, K. Anderson, E. Yang, L. He, M.E. and Lidstrom. 2021. Enzyme engineering and in vivo testing of a formate reduction pathway. Synth Biol (Oxf).6(1):ysab020, eCollection 2021.
Erin H. Wilson, Joseph D. Groom, M. Claire Sarfatis, Stephanie M. Ford, Mary E. Lidstrom, and David A. C. Beck. A Computational Framework for Identifying Promoter Sequences in Nonmodel Organisms Using RNA-seq Data Sets. ACS Synthetic Biology. 2021 May 14. (Article)
N. S. Wigginton, R. M. Cunningham, R. H. Katz, M. E. Lidstrom, K. A. Moler, D. Wirtz, M. T. Zuber. Moving academic research forward during COVID-19. Science. 12 Jun 2020. Vol. 368, Issue 6496, pp. 1190-1192. DOI: 10.1126/science.abc5599.
Charles DeLisi, Aristides Patrinos, Michael MacCracken, Dan Drell, George Annas, Adam Arkin, George Church, Robert Cook-Deegan, Henry Jacoby, Mary Lidstrom, Jerry Melillo, Ron Milo, Keith Paustian, John Reilly, Richard J. Roberts, Daniel Segrè, Susan Solomon, Dominic Woolf, Stan D. Wullschleger, and Xiaohan Yang. The Role of Synthetic Biology in Atmospheric Greenhouse Gas Reduction: Prospects and Challenges. BioDesign Research. vol. 2020, Article ID 1016207, 8 pages, 2020. doi: https://doi.org/10.34133/2020/1016207
He L, Fu Y, Lidstrom ME. Quantifying Methane and Methanol Metabolism of "Methylotuvimicrobium buryatense" 5GB1C under Substrate Limitation. mSystems. 2019 Dec 10;4(6). pii: e00748-19. doi: 10.1128/mSystems.00748-19. PubMed PMID: 31822604; PubMed Central PMCID: PMC6906744
Groom JD, Ford SM, Pesesky MW, Lidstrom ME. A Mutagenic Screen Identifies a TonB-Dependent Receptor Required for the Lanthanide Metal Switch in the Type I Methanotroph "Methylotuvimicrobium buryatense" 5GB1C. J Bacteriol. 2019 Jul 10;201(15). pii: e00120-19. doi: 10.1128/JB.00120-19. Print 2019 Aug 1. PubMed PMID: 31085692; PubMed Central PMCID: PMC6620403
Fu Y, He L, Reeve J, Beck DAC, Lidstrom ME. Core Metabolism Shifts during Growth on Methanol versus Methane in the Methanotroph Methylomicrobium buryatense 5GB1. mBio. 2019 Apr 9;10(2). pii: e00406-19. doi: 10.1128/mBio.00406-19. PubMed PMID: 30967465; PubMed Central PMCID: PMC6456754
Puri AW, Liu D, Schaefer AL, Yu Z, Pesesky MW, Greenberg EP, Lidstrom ME. Interspecies Chemical Signaling in a Methane-Oxidizing Bacterial Community. Appl Environ Microbiol. 2019 Mar 22;85(7). pii: e02702-18. doi: 10.1128/AEM.02702-18. Print 2019 Apr 1. PubMed PMID: 30709826; PubMed Central PMCID: PMC6585505
Puri AW, Mevers E, Ramadhar TR, Petras D, Liu D, Piel J, Dorrestein PC, Greenberg EP, Lidstrom ME, Clardy J. Tundrenone: An Atypical Secondary Metabolite from Bacteria with Highly Restricted Primary Metabolism. J Am Chem Soc. 2018 Feb 14;140(6):2002-2006. doi: 10.1021/jacs.7b12240. Epub 2018 Jan 30. PubMed PMID: 29361220; PubMed Central PMCID: PMC5817624
Zheng Y, Harris DF, Yu Z, Fu Y, Poudel S, Ledbetter RN, Fixen KR, Yang ZY, Boyd ES, Lidstrom ME, Seefeldt LC, Harwood CS. A pathway for biological methane production using bacterial iron-only nitrogenase. Nat Microbiol. 2018 Mar;3(3):281-286. doi: 10.1038/s41564-017-0091-5. Epub 2018 Jan 15. PubMed PMID: 29335552
Gilman A, Fu Y, Hendershott M, Chu F, Puri AW, Smith AL, Pesesky M, Lieberman R, Beck DAC, Lidstrom ME. Oxygen-limited metabolism in the methanotroph Methylomicrobium buryatense 5GB1C. PeerJ. 2017 Oct 20;5:e3945. doi: 10.7717/peerj.3945. eCollection 2017. PubMed PMID: 29062611; PubMed Central PMCID: PMC5652258
Krause SM, Johnson T, Samadhi Karunaratne Y, Fu Y, Beck DA, Chistoserdova L, Lidstrom ME. Lanthanide-dependent cross-feeding of methane-derived carbon is linked by microbial community interactions. Proc Natl Acad Sci U S A. 2017 Jan 10;114(2):358-363. doi: 10.1073/pnas.1619871114. Epub 2016 Dec 27. PubMed PMID: 28028242; PubMed Central PMCID: PMC5240692
Puri AW, Schaefer AL, Fu Y, Beck DAC, Greenberg EP, Lidstrom ME. Quorum Sensing in a Methane-Oxidizing Bacterium. J Bacteriol. 2017 Feb 14;199(5). pii: e00773-16. doi: 10.1128/JB.00773-16. Print 2017 Mar 1. PubMed PMID: 27994019; PubMed Central PMCID: PMC5309911
Chu F, Beck DA, Lidstrom ME. MxaY regulates the lanthanide-mediated methanol dehydrogenase switch in Methylomicrobium buryatense. PeerJ. 2016 Sep 7;4:e2435. doi: 10.7717/peerj.2435. eCollection 2016. PubMed PMID: 27651996; PubMed Central PMCID: PMC5018670
Fu Y, Beck DA, Lidstrom ME. Difference in C3-C4 metabolism underlies tradeoff between growth rate and biomass yield in Methylobacterium extorquens AM1. BMC Microbiol. 2016 Jul 19;16(1):156. doi: 10.1186/s12866-016-0778-4. PubMed PMID: 27435978; PubMed Central PMCID: PMC4949768
Hu B, Yang YM, Beck DA, Wang QW, Chen WJ, Yang J, Lidstrom ME, Yang S. Comprehensive molecular characterization of Methylobacterium extorquens AM1 adapted for 1-butanol tolerance. Biotechnol Biofuels. 2016 Apr 11;9:84. doi: 10.1186/s13068-016-0497-y. eCollection 2016. PubMed PMID: 27069508; PubMed Central PMCID: PMC4827201
Chu F, Lidstrom ME. XoxF Acts as the Predominant Methanol Dehydrogenase in the Type I Methanotroph Methylomicrobium buryatense. J Bacteriol. 2016 Mar 31;198(8):1317-25. doi: 10.1128/JB.00959-15. Print 2016 Apr. PubMed PMID: 26858104; PubMed Central PMCID: PMC4859581
Yan X, Chu F, Puri AW, Fu Y, Lidstrom ME. Electroporation-Based Genetic Manipulation in Type I Methanotrophs. Appl Environ Microbiol. 2016 Jan 22;82(7):2062-2069. doi: 10.1128/AEM.03724-15. PubMed PMID: 26801578; PubMed Central PMCID: PMC4807507
Reaser BC, Yang S, Fitz BD, Parsons BA, Lidstrom ME, Synovec RE. Non-targeted determination of (13)C-labeling in the Methylobacterium extorquens AM1 metabolome using the two-dimensional mass cluster method and principal component analysis. J Chromatogr A. 2016 Feb 5;1432:111-21. doi: 10.1016/j.chroma.2015.12.088. Epub 2016 Jan 7. PubMed PMID: 26787164
de la Torre A, Metivier A, Chu F, Laurens LM, Beck DA, Pienkos PT, Lidstrom ME, Kalyuzhnaya MG. Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1). Microb Cell Fact. 2015 Nov 25;14:188. doi: 10.1186/s12934-015-0377-3. PubMed PMID: 26607880; PubMed Central PMCID: PMC4658805
Gilman A, Laurens LM, Puri AW, Chu F, Pienkos PT, Lidstrom ME. Bioreactor performance parameters for an industrially-promising methanotroph Methylomicrobium buryatense 5GB1. Microb Cell Fact. 2015 Nov 16;14:182. doi: 10.1186/s12934-015-0372-8. PubMed PMID: 26572866; PubMed Central PMCID: PMC4647623
Martinez-Gomez NC, Good NM, Lidstrom ME. Methenyl-Dephosphotetrahydromethanopterin Is a Regulatory Signal for Acclimation to Changes in Substrate Availability in Methylobacterium extorquens AM1. J Bacteriol. 2015 Jun 15;197(12):2020-6. doi: 10.1128/JB.02595-14. Epub 2015 Apr 6. PubMed PMID: 25845846; PubMed Central PMCID: PMC4438218
Kalyuzhnaya MG, Puri AW, Lidstrom ME. Metabolic engineering in methanotrophic bacteria. Metab Eng. 2015 May;29:142-152. doi: 10.1016/j.ymben.2015.03.010. Epub 2015 Mar 28. Review. PubMed PMID: 25825038
Siegel JB, Smith AL, Poust S, Wargacki AJ, Bar-Even A, Louw C, Shen BW, Eiben CB, Tran HM, Noor E, Gallaher JL, Bale J, Yoshikuni Y, Gelb MH, Keasling JD, Stoddard BL, Lidstrom ME, Baker D. Computational protein design enables a novel one-carbon assimilation pathway. Proc Natl Acad Sci U S A. 2015 Mar 24;112(12):3704-9. doi: 10.1073/pnas.1500545112. Epub 2015 Mar 9. PubMed PMID: 25775555; PubMed Central PMCID: PMC4378393
Hernandez ME, Beck DA, Lidstrom ME, Chistoserdova L. Oxygen availability is a major factor in determining the composition of microbial communities involved in methane oxidation. PeerJ. 2015 Feb 24;3:e801. doi: 10.7717/peerj.801. eCollection 2015. PubMed PMID: 25755930; PubMed Central PMCID: PMC4349146
Beck DA, McTaggart TL, Setboonsarng U, Vorobev A, Goodwin L, Shapiro N, Woyke T, Kalyuzhnaya MG, Lidstrom ME, Chistoserdova L. Multiphyletic origins of methylotrophy in Alphaproteobacteria, exemplified by comparative genomics of Lake Washington isolates. Environ Microbiol. 2015 Mar;17(3):547-54. doi: 10.1111/1462-2920.12736. Epub 2015 Feb 11. PubMed PMID: 25683159
McTaggart TL, Beck DA, Setboonsarng U, Shapiro N, Woyke T, Lidstrom ME, Kalyuzhnaya MG, Chistoserdova L. Genomics of Methylotrophy in Gram-Positive Methylamine-Utilizing Bacteria. Microorganisms. 2015 Mar 20;3(1):94-112. doi: 10.3390/microorganisms3010094. PubMed PMID: 27682081; PubMed Central PMCID: PMC5023230
Puri AW, Owen S, Chu F, Chavkin T, Beck DA, Kalyuzhnaya MG, Lidstrom ME. Genetic tools for the industrially promising methanotroph Methylomicrobium buryatense. Appl Environ Microbiol. 2015 Mar;81(5):1775-81. doi: 10.1128/AEM.03795-14. Epub 2014 Dec 29. PubMed PMID: 25548049; PubMed Central PMCID: PMC4325140
Good NM, Martinez-Gomez NC, Beck DA, Lidstrom ME. Ethylmalonyl coenzyme A mutase operates as a metabolic control point in Methylobacterium extorquens AM1. J Bacteriol. 2015 Feb 15;197(4):727-35. doi: 10.1128/JB.02478-14. Epub 2014 Dec 1. PubMed PMID: 25448820; PubMed Central PMCID: PMC4334189
Hu B, Lidstrom ME. Metabolic engineering of Methylobacterium extorquens AM1 for 1-butanol production. Biotechnol Biofuels. 2014 Oct 21;7(1):156. doi: 10.1186/s13068-014-0156-0. eCollection 2014. PubMed PMID: 25349627; PubMed Central PMCID: PMC4207312
Oshkin IY, Beck DA, Lamb AE, Tchesnokova V, Benuska G, McTaggart TL, Kalyuzhnaya MG, Dedysh SN, Lidstrom ME, Chistoserdova L. Methane-fed microbial microcosms show differential community dynamics and pinpoint taxa involved in communal response. ISME J. 2015 May;9(5):1119-29. doi: 10.1038/ismej.2014.203. Epub 2014 Oct 21. PubMed PMID: 25333464; PubMed Central PMCID: PMC4409156
Beck DA, McTaggart TL, Setboonsarng U, Vorobev A, Kalyuzhnaya MG, Ivanova N, Goodwin L, Woyke T, Lidstrom ME, Chistoserdova L. The expanded diversity of methylophilaceae from Lake Washington through cultivation and genomic sequencing of novel ecotypes. PLoS One. 2014 Jul 24;9(7):e102458. doi: 10.1371/journal.pone.0102458. eCollection 2014. PubMed PMID: 25058595; PubMed Central PMCID: PMC4109929
Kalyuzhnaya MG, Yang S, Rozova ON, Smalley NE, Clubb J, Lamb A, Gowda GA, Raftery D, Fu Y, Bringel F, Vuilleumier S, Beck DA, Trotsenko YA, Khmelenina VN, Lidstrom ME. Highly efficient methane biocatalysis revealed in a methanotrophic bacterium. Nat Commun. 2013;4:2785. doi: 10.1038/ncomms3785. PubMed PMID: 24302011
Yang S, Hoggard JC, Lidstrom ME, Synovec RE. Comprehensive discovery of 13C labeled metabolites in the bacterium Methylobacterium extorquens AM1 using gas chromatography-mass spectrometry. J Chromatogr A. 2013 Nov 22;1317:175-85. doi: 10.1016/j.chroma.2013.08.059. Epub 2013 Aug 21. PubMed PMID: 24007683
Vorobev A, Beck DA, Kalyuzhnaya MG, Lidstrom ME, Chistoserdova L. Comparative transcriptomics in three Methylophilaceae species uncover different strategies for environmental adaptation. PeerJ. 2013 Jul 25;1:e115. doi: 10.7717/peerj.115. Print 2013. PubMed PMID: 23904993; PubMed Central PMCID: PMC3728764
Beck DA, Kalyuzhnaya MG, Malfatti S, Tringe SG, Glavina Del Rio T, Ivanova N, Lidstrom ME, Chistoserdova L. A metagenomic insight into freshwater methane-utilizing communities and evidence for cooperation between the Methylococcaceae and the Methylophilaceae. PeerJ. 2013 Feb 19;1:e23. doi: 10.7717/peerj.23. Print 2013. PubMed PMID: 23638358; PubMed Central PMCID: PMC3628875
Martinez-Gomez NC, Nguyen S, Lidstrom ME. Elucidation of the role of the methylene-tetrahydromethanopterin dehydrogenase MtdA in the tetrahydromethanopterin-dependent oxidation pathway in Methylobacterium extorquens AM1. J Bacteriol. 2013 May;195(10):2359-67. doi: 10.1128/JB.00029-13. Epub 2013 Mar 15. PubMed PMID: 23504017; PubMed Central PMCID: PMC3650556
Mustakhimov I, Kalyuzhnaya MG, Lidstrom ME, Chistoserdova L. Insights into denitrification in Methylotenera mobilis from denitrification pathway and methanol metabolism mutants. J Bacteriol. 2013 May;195(10):2207-11. doi: 10.1128/JB.00069-13. Epub 2013 Mar 8. PubMed PMID: 23475964; PubMed Central PMCID: PMC3650538
Yang S, Nadeau JS, Humston-Fulmer EM, Hoggard JC, Lidstrom ME, Synovec RE. Gas chromatography-mass spectrometry with chemometric analysis for determining ¹²C and ¹³C labeled contributions in metabolomics and ¹³C flux analysis. J Chromatogr A. 2012 Jun 1;1240:156-64. doi: 10.1016/j.chroma.2012.03.072. Epub 2012 Mar 29. PubMed PMID: 22503618
Sauter LM, Latypova E, Smalley NE, Lidstrom ME, Hallam S, Kalyuzhnaya MG. Methanotrophic communities of Saanich Inlet: a microcosm perspective. Syst Appl Microbiol. 2012 May;35(3):198-203. doi: 10.1016/j.syapm.2011.10.006. Epub 2012 Mar 9. PubMed PMID: 22406542
Yang S, Synovec RE, Kalyuzhnaya MG, Lidstrom ME. Development of a solid phase extraction protocol coupled with liquid chromatography mass spectrometry to analyze central carbon metabolites in lake sediment microcosms. J Sep Sci. 2011 Dec;34(24):3597-605. doi: 10.1002/jssc.201100533. Epub 2011 Nov 21. PubMed PMID: 22102321
Skovran E, Palmer AD, Rountree AM, Good NM, Lidstrom ME. XoxF is required for expression of methanol dehydrogenase in Methylobacterium extorquens AM1. J Bacteriol. 2011 Nov;193(21):6032-8. doi: 10.1128/JB.05367-11. Epub 2011 Aug 26. PubMed PMID: 21873495; PubMed Central PMCID: PMC3194914
Beck DA, Hendrickson EL, Vorobev A, Wang T, Lim S, Kalyuzhnaya MG, Lidstrom ME, Hackett M, Chistoserdova L. An integrated proteomics/transcriptomics approach points to oxygen as the main electron sink for methanol metabolism in Methylotenera mobilis. J Bacteriol. 2011 Sep;193(18):4758-65. doi: 10.1128/JB.05375-11. Epub 2011 Jul 15. PubMed PMID: 21764938; PubMed Central PMCID: PMC3165657
Lapidus A, Clum A, Labutti K, Kaluzhnaya MG, Lim S, Beck DA, Glavina Del Rio T, Nolan M, Mavromatis K, Huntemann M, Lucas S, Lidstrom ME, Ivanova N, Chistoserdova L. Genomes of three methylotrophs from a single niche reveal the genetic and metabolic divergence of the methylophilaceae. J Bacteriol. 2011 Aug;193(15):3757-64. doi: 10.1128/JB.00404-11. Epub 2011 May 27. PubMed PMID: 21622745; PubMed Central PMCID: PMC3147524
Strovas TJ, McQuaide SC, Anderson JB, Nandakumar V, Kalyuzhnaya MG, Burgess LW, Holl MR, Meldrum DR, Lidstrom ME. Direct measurement of oxygen consumption rates from attached and unattached cells in a reversibly sealed, diffusionally isolated sample chamber. Adv Biosci Biotechnol. 2010 Dec 1;5(5):398-408. PubMed PMID: 21546993; PubMed Central PMCID: PMC3086294
Konopka MC, McQuaide S, Ojala DS, Kalyuzhnaya MG, Lidstrom ME. Single cell methods for methane oxidation analysis. Methods Enzymol. 2011;495:149-66. doi: 10.1016/B978-0-12-386905-0.00010-3. PubMed PMID: 21419920
Kalyuzhnaya MG, Beck DA, Vorobev A, Smalley N, Kunkel DD, Lidstrom ME, Chistoserdova L. Novel methylotrophic isolates from lake sediment, description of Methylotenera versatilis sp. nov. and emended description of the genus Methylotenera. Int J Syst Evol Microbiol. 2012 Jan;62(Pt 1):106-11. doi: 10.1099/ijs.0.029165-0. Epub 2011 Feb 18. PubMed PMID: 21335496
Skovran E, Crowther GJ, Guo X, Yang S, Lidstrom ME. A systems biology approach uncovers cellular strategies used by Methylobacterium extorquens AM1 during the switch from multi- to single-carbon growth. PLoS One. 2010 Nov 24;5(11):e14091. doi: 10.1371/journal.pone.0014091. PubMed PMID: 21124828; PubMed Central PMCID: PMC2991311
Konopka MC, Strovas TJ, Ojala DS, Chistoserdova L, Lidstrom ME, Kalyuzhnaya MG. Respiration response imaging for real-time detection of microbial function at the single-cell level. Appl Environ Microbiol. 2011 Jan;77(1):67-72. doi: 10.1128/AEM.01166-10. Epub 2010 Nov 12. PubMed PMID: 21075887; PubMed Central PMCID: PMC3019738
Yang S, Sadilek M, Lidstrom ME. Streamlined pentafluorophenylpropyl column liquid chromatography-tandem quadrupole mass spectrometry and global (13)C-labeled internal standards improve performance for quantitative metabolomics in bacteria. J Chromatogr A. 2010 Nov 19;1217(47):7401-10. doi: 10.1016/j.chroma.2010.09.055. Epub 2010 Sep 29. PubMed PMID: 20950815; PubMed Central PMCID: PMC3007600
Lidstrom ME, Konopka MC. The role of physiological heterogeneity in microbial population behavior. Nat Chem Biol. 2010 Oct;6(10):705-12. doi: 10.1038/nchembio.436. Epub 2010 Sep 17. Review. PubMed PMID: 20852608
Hendrickson EL, Beck DA, Wang T, Lidstrom ME, Hackett M, Chistoserdova L. Expressed genome of Methylobacillus flagellatus as defined through comprehensive proteomics and new insights into methylotrophy. J Bacteriol. 2010 Oct;192(19):4859-67. doi: 10.1128/JB.00512-10. Epub 2010 Jul 16. PubMed PMID: 20639322; PubMed Central PMCID: PMC2944507
Okubo Y, Yang S, Chistoserdova L, Lidstrom ME. Alternative route for glyoxylate consumption during growth on two-carbon compounds by Methylobacterium extorquens AM1. J Bacteriol. 2010 Apr;192(7):1813-23. doi: 10.1128/JB.01166-09. Epub 2010 Jan 29. PubMed PMID: 20118267; PubMed Central PMCID: PMC2838054
Molter TW, McQuaide SC, Suchorolski MT, Strovas TJ, Burgess LW, Meldrum DR, Lidstrom ME. A microwell array device capable of measuring single-cell oxygen consumption rates. Sens Actuators B Chem. 2009 Jan 15;135(2):678-686. PubMed PMID: 20084089; PubMed Central PMCID: PMC2661028
Kalyuzhnaya MG, Beck DA, Suciu D, Pozhitkov A, Lidstrom ME, Chistoserdova L. Functioning in situ: gene expression in Methylotenera mobilis in its native environment as assessed through transcriptomics. ISME J. 2010 Mar;4(3):388-98. doi: 10.1038/ismej.2009.117. Epub 2009 Nov 19. PubMed PMID: 19924155
Kalyuhznaya MG, Martens-Habbena W, Wang T, Hackett M, Stolyar SM, Stahl DA, Lidstrom ME, Chistoserdova L. Methylophilaceae link methanol oxidation to denitrification in freshwater lake sediment as suggested by stable isotope probing and pure culture analysis. Environ Microbiol Rep. 2009 Oct;1(5):385-92. doi: 10.1111/j.1758-2229.2009.00046.x. Epub 2009 Jul 16. PubMed PMID: 23765891
Chistoserdova L, Kalyuzhnaya MG, Lidstrom ME. The expanding world of methylotrophic metabolism. Annu Rev Microbiol. 2009;63:477-99. doi: 10.1146/annurev.micro.091208.073600. Review. PubMed PMID: 19514844; PubMed Central PMCID: PMC2827926
Vuilleumier S, Chistoserdova L, Lee MC, Bringel F, Lajus A, Zhou Y, Gourion B, Barbe V, Chang J, Cruveiller S, Dossat C, Gillett W, Gruffaz C, Haugen E, Hourcade E, Levy R, Mangenot S, Muller E, Nadalig T, Pagni M, Penny C, Peyraud R, Robinson DG, Roche D, Rouy Z, Saenampechek C, Salvignol G, Vallenet D, Wu Z, Marx CJ, Vorholt JA, Olson MV, Kaul R, Weissenbach J, Médigue C, Lidstrom ME. Methylobacterium genome sequences: a reference blueprint to investigate microbial metabolism of C1 compounds from natural and industrial sources. PLoS One. 2009;4(5):e5584. doi: 10.1371/journal.pone.0005584. Epub 2009 May 18. PubMed PMID: 19440302; PubMed Central PMCID: PMC2680597
Strovas TJ, Lidstrom ME. Population heterogeneity in Methylobacterium extorquens AM1. Microbiology. 2009 Jun;155(Pt 6):2040-2048. doi: 10.1099/mic.0.025890-0. Epub 2009 Apr 21. PubMed PMID: 19383691; PubMed Central PMCID: PMC2763498
Yang S, Sadilek M, Synovec RE, Lidstrom ME. Liquid chromatography-tandem quadrupole mass spectrometry and comprehensive two-dimensional gas chromatography-time-of-flight mass spectrometry measurement of targeted metabolites of Methylobacterium extorquens AM1 grown on two different carbon sources. J Chromatogr A. 2009 Apr 10;1216(15):3280-9. doi: 10.1016/j.chroma.2009.02.030. Epub 2009 Feb 21. PubMed PMID: 19268957; PubMed Central PMCID: PMC2746075
Hope JL, Prazen BJ, Nilsson EJ, Lidstrom ME, Synovec RE. Comprehensive two-dimensional gas chromatography with time-of-flight mass spectrometry detection: analysis of amino acid and organic acid trimethylsilyl derivatives, with application to the analysis of metabolites in rye grass samples. Talanta. 2005 Jan 30;65(2):380-8. doi: 10.1016/j.talanta.2004.06.025. PubMed PMID: 18969810
Ao P, Lee LW, Lidstrom ME, Yin L, Zhu X. Towards kinetic modeling of global metabolic networks: Methylobacterium extorquens AM1 growth as validation. Sheng Wu Gong Cheng Xue Bao. 2008 Jun;24(6):980-94. PubMed PMID: 18807980
Boardman AK, McQuaide SC, Zhu C, Whitmore CD, Lidstrom ME, Dovichi NJ. Interface of an array of five capillaries with an array of one-nanoliter wells for high-resolution electrophoretic analysis as an approach to high-throughput chemical cytometry. Anal Chem. 2008 Oct 1;80(19):7631-4. doi: 10.1021/ac800890b. Epub 2008 Aug 22. PubMed PMID: 18717573; PubMed Central PMCID: PMC2636696
Kalyuzhnaya MG, Lapidus A, Ivanova N, Copeland AC, McHardy AC, Szeto E, Salamov A, Grigoriev IV, Suciu D, Levine SR, Markowitz VM, Rigoutsos I, Tringe SG, Bruce DC, Richardson PM, Lidstrom ME, Chistoserdova L. High-resolution metagenomics targets specific functional types in complex microbial communities. Nat Biotechnol. 2008 Sep;26(9):1029-34. doi: 10.1038/nbt.1488. PubMed PMID: 18711340
Bosch G, Skovran E, Xia Q, Wang T, Taub F, Miller JA, Lidstrom ME, Hackett M. Comprehensive proteomics of Methylobacterium extorquens AM1 metabolism under single carbon and nonmethylotrophic conditions. Proteomics. 2008 Sep;8(17):3494-505. doi: 10.1002/pmic.200800152. PubMed PMID: 18686303; PubMed Central PMCID: PMC2707879
Kalyuzhnaya MG, Lidstrom ME, Chistoserdova L. Real-time detection of actively metabolizing microbes by redox sensing as applied to methylotroph populations in Lake Washington. ISME J. 2008 Jul;2(7):696-706. doi: 10.1038/ismej.2008.32. Epub 2008 Mar 27. PubMed PMID: 18607374
Crowther GJ, Kosály G, Lidstrom ME. Formate as the main branch point for methylotrophic metabolism in Methylobacterium extorquens AM1. J Bacteriol. 2008 Jul;190(14):5057-62. doi: 10.1128/JB.00228-08. Epub 2008 May 23. PubMed PMID: 18502865; PubMed Central PMCID: PMC2447001
Kalyuzhnaya MG, Hristova KR, Lidstrom ME, Chistoserdova L. Characterization of a novel methanol dehydrogenase in representatives of Burkholderiales: implications for environmental detection of methylotrophy and evidence for convergent evolution. J Bacteriol. 2008 Jun;190(11):3817-23. doi: 10.1128/JB.00180-08. Epub 2008 Apr 4. PubMed PMID: 18390659; PubMed Central PMCID: PMC2395034
Molter TW, McQuaide SC, Holl MR, Meldrum DR, Dragavon JM, Anderson JB, Young AC, Burgess LW, Lidstrom ME. A New Approach for Measuring Single-Cell Oxygen Consumption Rates. IEEE Trans Autom Sci Eng. 2008 Jan 1;5(1):32-42. PubMed PMID: 21057593; PubMed Central PMCID: PMC2971563
Okubo Y, Skovran E, Guo X, Sivam D, Lidstrom ME. Implementation of microarrays for Methylobacterium extorquens AM1. OMICS. 2007 Winter;11(4):325-40. PubMed PMID: 18092906
Chistoserdova L, Crowther GJ, Vorholt JA, Skovran E, Portais JC, Lidstrom ME. Identification of a fourth formate dehydrogenase in Methylobacterium extorquens AM1 and confirmation of the essential role of formate oxidation in methylotrophy. J Bacteriol. 2007 Dec;189(24):9076-81. Epub 2007 Oct 5. PubMed PMID: 17921299; PubMed Central PMCID: PMC2168636
Guo X, Lidstrom ME. Metabolite profiling analysis of Methylobacterium extorquens AM1 by comprehensive two-dimensional gas chromatography coupled with time-of-flight mass spectrometry. Biotechnol Bioeng. 2008 Mar 1;99(4):929-40. PubMed PMID: 17879968
Strovas TJ, Sauter LM, Guo X, Lidstrom ME. Cell-to-cell heterogeneity in growth rate and gene expression in Methylobacterium extorquens AM1. J Bacteriol. 2007 Oct;189(19):7127-33. Epub 2007 Jul 20. PubMed PMID: 17644598; PubMed Central PMCID: PMC2045205
Chistoserdova L, Lapidus A, Han C, Goodwin L, Saunders L, Brettin T, Tapia R, Gilna P, Lucas S, Richardson PM, Lidstrom ME. Genome of Methylobacillus flagellatus, molecular basis for obligate methylotrophy, and polyphyletic origin of methylotrophy. J Bacteriol. 2007 Jun;189(11):4020-7. Epub 2007 Apr 6. PubMed PMID: 17416667; PubMed Central PMCID: PMC1913398
Kalyuzhnaya MG, Bowerman S, Lara JC, Lidstrom ME, Chistoserdova L. Methylotenera mobilis gen. nov., sp. nov., an obligately methylamine-utilizing bacterium within the family Methylophilaceae. Int J Syst Evol Microbiol. 2006 Dec;56(Pt 12):2819-23. PubMed PMID: 17158982
Kalyuzhnaya MG, De Marco P, Bowerman S, Pacheco CC, Lara JC, Lidstrom ME, Chistoserdova L. Methyloversatilis universalis gen. nov., sp. nov., a novel taxon within the Betaproteobacteria represented by three methylotrophic isolates. Int J Syst Evol Microbiol. 2006 Nov;56(Pt 11):2517-22. PubMed PMID: 17082383
Rothfuss H, Lara JC, Schmid AK, Lidstrom ME. Involvement of the S-layer proteins Hpi and SlpA in the maintenance of cell envelope integrity in Deinococcus radiodurans R1. Microbiology. 2006 Sep;152(Pt 9):2779-2787. doi: 10.1099/mic.0.28971-0. PubMed PMID: 16946272
Guo X, Lidstrom ME. Physiological analysis of Methylobacterium extorquens AM1 grown in continuous and batch cultures. Arch Microbiol. 2006 Aug;186(2):139-49. Epub 2006 Jul 5. PubMed PMID: 16821027
Kalyuzhnaya MG, Zabinsky R, Bowerman S, Baker DR, Lidstrom ME, Chistoserdova L. Fluorescence in situ hybridization-flow cytometry-cell sorting-based method for separation and enrichment of type I and type II methanotroph populations. Appl Environ Microbiol. 2006 Jun;72(6):4293-301. PubMed PMID: 16751544; PubMed Central PMCID: PMC1489643
Holland AD, Rothfuss HM, Lidstrom ME. Development of a defined medium supporting rapid growth for Deinococcus radiodurans and analysis of metabolic capacities. Appl Microbiol Biotechnol. 2006 Oct;72(5):1074-82. Epub 2006 Mar 31. PubMed PMID: 16575566
Strovas TJ, Dragavon JM, Hankins TJ, Callis JB, Burgess LW, Lidstrom ME. Measurement of respiration rates of Methylobacterium extorquens AM1 cultures by use of a phosphorescence-based sensor. Appl Environ Microbiol. 2006 Feb;72(2):1692-5. PubMed PMID: 16461730; PubMed Central PMCID: PMC1392911
Nercessian O, Kalyuzhnaya MG, Joye SB, Lidstrom ME, Chistoserdova L. Analysis of fae and fhcD genes in Mono Lake, California. Appl Environ Microbiol. 2005 Dec;71(12):8949-53. PubMed PMID: 16332897; PubMed Central PMCID: PMC1317423
Kalyuzhnaya MG, Bowerman S, Nercessian O, Lidstrom ME, Chistoserdova L. Highly divergent genes for methanopterin-linked C1 transfer reactions in Lake Washington, assessed via metagenomic analysis and mRNA detection. Appl Environ Microbiol. 2005 Dec;71(12):8846-54. PubMed PMID: 16332881; PubMed Central PMCID: PMC1317443
Kalyuzhnaya MG, Stolyar SM, Auman AJ, Lara JC, Lidstrom ME, Chistoserdova L. Methylosarcina lacus sp. nov., a methanotroph from Lake Washington, Seattle, USA, and emended description of the genus Methylosarcina. Int J Syst Evol Microbiol. 2005 Nov;55(Pt 6):2345-50. PubMed PMID: 16280494
Zhang M, FitzGerald KA, Lidstrom ME. Identification of an upstream regulatory sequence that mediates the transcription of mox genes in Methylobacterium extorquens AM1. Microbiology. 2005 Nov;151(Pt 11):3723-3728. doi: 10.1099/mic.0.28243-0. PubMed PMID: 16272393
Nercessian O, Noyes E, Kalyuzhnaya MG, Lidstrom ME, Chistoserdova L. Bacterial populations active in metabolism of C1 compounds in the sediment of Lake Washington, a freshwater lake. Appl Environ Microbiol. 2005 Nov;71(11):6885-99. PubMed PMID: 16269723; PubMed Central PMCID: PMC1287692
Kalyuzhnaya MG, Lidstrom ME. QscR-mediated transcriptional activation of serine cycle genes in Methylobacterium extorquens AM1. J Bacteriol. 2005 Nov;187(21):7511-7. PubMed PMID: 16237034; PubMed Central PMCID: PMC1272982
Vorholt JA, Kalyuzhnaya MG, Hagemeier CH, Lidstrom ME, Chistoserdova L. MtdC, a novel class of methylene tetrahydromethanopterin dehydrogenases. J Bacteriol. 2005 Sep;187(17):6069-74. PubMed PMID: 16109948; PubMed Central PMCID: PMC1196156
McDonald IR, Smith K, Lidstrom ME. Methanotrophic populations in estuarine sediment from Newport Bay, California. FEMS Microbiol Lett. 2005 Sep 15;250(2):287-93. PubMed PMID: 16085370
Kalyuzhnaya MG, Nercessian O, Lidstrom ME, Chistoserdova L. Development and application of polymerase chain reaction primers based on fhcD for environmental detection of methanopterin-linked C1-metabolism in bacteria. Environ Microbiol. 2005 Aug;7(8):1269-74. PubMed PMID: 16011764
Kalyuzhnaya MG, Korotkova N, Crowther G, Marx CJ, Lidstrom ME, Chistoserdova L. Analysis of gene islands involved in methanopterin-linked C1 transfer reactions reveals new functions and provides evolutionary insights. J Bacteriol. 2005 Jul;187(13):4607-14. PubMed PMID: 15968072; PubMed Central PMCID: PMC1151760
Schmid AK, Lipton MS, Mottaz H, Monroe ME, Smith RD, Lidstrom ME. Global whole-cell FTICR mass spectrometric proteomics analysis of the heat shock response in the radioresistant bacterium Deinococcus radiodurans. J Proteome Res. 2005 May-Jun;4(3):709-18. PubMed PMID: 15952717
Miller JA, Kalyuzhnaya MG, Noyes E, Lara JC, Lidstrom ME, Chistoserdova L. Labrys methylaminiphilus sp. nov., a novel facultatively methylotrophic bacterium from a freshwater lake sediment. Int J Syst Evol Microbiol. 2005 May;55(Pt 3):1247-53. PubMed PMID: 15879264
Schmid AK, Howell HA, Battista JR, Peterson SN, Lidstrom ME. Global transcriptional and proteomic analysis of the Sig1 heat shock regulon of Deinococcus radiodurans. J Bacteriol. 2005 May;187(10):3339-51. PubMed PMID: 15866918; PubMed Central PMCID: PMC1111999
Chistoserdova L, Rasche ME, Lidstrom ME. Novel dephosphotetrahydromethanopterin biosynthesis genes discovered via mutagenesis in Methylobacterium extorquens AM1. J Bacteriol. 2005 Apr;187(7):2508-12. PubMed PMID: 15774894; PubMed Central PMCID: PMC1065231
Schmid AK, Howell HA, Battista JR, Peterson SN, Lidstrom ME. HspR is a global negative regulator of heat shock gene expression in Deinococcus radiodurans. Mol Microbiol. 2005 Mar;55(5):1579-90. PubMed PMID: 15720562
Kalyuzhnaya MG, Lidstrom ME, Chistoserdova L. Utility of environmental primers targeting ancient enzymes: methylotroph detection in Lake Washington. Microb Ecol. 2004 Nov;48(4):463-72. Epub 2004 Oct 14. PubMed PMID: 15696380
Chistoserdova L, Vorholt JA, Lidstrom ME. A genomic view of methane oxidation by aerobic bacteria and anaerobic archaea. Genome Biol. 2005;6(2):208. Epub 2005 Feb 1. Review. PubMed PMID: 15693955; PubMed Central PMCID: PMC551527
Korotkova N, Lidstrom ME, Chistoserdova L. Identification of genes involved in the glyoxylate regeneration cycle in Methylobacterium extorquens AM1, including two new genes, meaC and meaD. J Bacteriol. 2005 Feb;187(4):1523-6. PubMed PMID: 15687219; PubMed Central PMCID: PMC545636
Marx CJ, Van Dien SJ, Lidstrom ME. Flux analysis uncovers key role of functional redundancy in formaldehyde metabolism. PLoS Biol. 2005 Feb;3(2):e16. Epub 2005 Jan 4. PubMed PMID: 15660163; PubMed Central PMCID: PMC539335
Lidstrom ME, Meldrum DR. Life-on-a-chip. Nat Rev Microbiol. 2003 Nov;1(2):158-64. Review. PubMed PMID: 15035045
Marx CJ, Miller JA, Chistoserdova L, Lidstrom ME. Multiple formaldehyde oxidation/detoxification pathways in Burkholderia fungorum LB400. J Bacteriol. 2004 Apr;186(7):2173-8. PubMed PMID: 15028703; PubMed Central PMCID: PMC374398
Chistoserdova L, Jenkins C, Kalyuzhnaya MG, Marx CJ, Lapidus A, Vorholt JA, Staley JT, Lidstrom ME. The enigmatic planctomycetes may hold a key to the origins of methanogenesis and methylotrophy. Mol Biol Evol. 2004 Jul;21(7):1234-41. Epub 2004 Mar 10. PubMed PMID: 15014146
Korotkova N, Lidstrom ME. MeaB is a component of the methylmalonyl-CoA mutase complex required for protection of the enzyme from inactivation. J Biol Chem. 2004 Apr 2;279(14):13652-8. Epub 2004 Jan 20. PubMed PMID: 14734568
Marx CJ, Lidstrom ME. Development of an insertional expression vector system for Methylobacterium extorquens AM1 and generation of null mutants lacking mtdA and/or fch. Microbiology. 2004 Jan;150(Pt 1):9-19. doi: 10.1099/mic.0.26587-0. PubMed PMID: 14702393
Chistoserdova L, Laukel M, Portais JC, Vorholt JA, Lidstrom ME. Multiple formate dehydrogenase enzymes in the facultative methylotroph Methylobacterium extorquens AM1 are dispensable for growth on methanol. J Bacteriol. 2004 Jan;186(1):22-8. PubMed PMID: 14679220; PubMed Central PMCID: PMC303455
Van Dien SJ, Marx CJ, O'Brien BN, Lidstrom ME. Genetic characterization of the carotenoid biosynthetic pathway in Methylobacterium extorquens AM1 and isolation of a colorless mutant. Appl Environ Microbiol. 2003 Dec;69(12):7563-6. PubMed PMID: 14660416; PubMed Central PMCID: PMC310018
Marx CJ, Chistoserdova L, Lidstrom ME. Formaldehyde-detoxifying role of the tetrahydromethanopterin-linked pathway in Methylobacterium extorquens AM1. J Bacteriol. 2003 Dec;185(24):7160-8. PubMed PMID: 14645276; PubMed Central PMCID: PMC296243
Marx CJ, Laukel M, Vorholt JA, Lidstrom ME. Purification of the formate-tetrahydrofolate ligase from Methylobacterium extorquens AM1 and demonstration of its requirement for methylotrophic growth. J Bacteriol. 2003 Dec;185(24):7169-75. PubMed PMID: 14645277; PubMed Central PMCID: PMC296244
Van Dien SJ, Strovas T, Lidstrom ME. Quantification of central metabolic fluxes in the facultative methylotroph methylobacterium extorquens AM1 using 13C-label tracing and mass spectrometry. Biotechnol Bioeng. 2003 Oct 5;84(1):45-55. PubMed PMID: 12910542
Chistoserdova L, Chen SW, Lapidus A, Lidstrom ME. Methylotrophy in Methylobacterium extorquens AM1 from a genomic point of view. J Bacteriol. 2003 May;185(10):2980-7. Review. PubMed PMID: 12730156; PubMed Central PMCID: PMC154073
Zhang M, Lidstrom ME. Promoters and transcripts for genes involved in methanol oxidation in Methylobacterium extorquens AM1. Microbiology. 2003 Apr;149(Pt 4):1033-1040. doi: 10.1099/mic.0.26105-0. PubMed PMID: 12686645
Van Dien SJ, Okubo Y, Hough MT, Korotkova N, Taitano T, Lidstrom ME. Reconstruction of C(3) and C(4) metabolism in Methylobacterium extorquens AM1 using transposon mutagenesis. Microbiology. 2003 Mar;149(Pt 3):601-609. doi: 10.1099/mic.0.25955-0. PubMed PMID: 12634329
Laukel M, Chistoserdova L, Lidstrom ME, Vorholt JA. The tungsten-containing formate dehydrogenase from Methylobacterium extorquens AM1: purification and properties. Eur J Biochem. 2003 Jan;270(2):325-33. PubMed PMID: 12605683
Kalyuzhnaya MG, Lidstrom ME. QscR, a LysR-type transcriptional regulator and CbbR homolog, is involved in regulation of the serine cycle genes in Methylobacterium extorquens AM1. J Bacteriol. 2003 Feb;185(4):1229-35. PubMed PMID: 12562792; PubMed Central PMCID: PMC142849
Marx CJ, O'Brien BN, Breezee J, Lidstrom ME. Novel methylotrophy genes of Methylobacterium extorquens AM1 identified by using transposon mutagenesis including a putative dihydromethanopterin reductase. J Bacteriol. 2003 Jan;185(2):669-73. PubMed PMID: 12511515; PubMed Central PMCID: PMC145341
FitzGerald KA, Lidstrom ME. Overexpression of a heterologous protein, haloalkane dehalogenase, in a poly-beta-hydroxybutyrate-deficient strain of the facultative methylotroph Methylobacterium extorquens AM1. Biotechnol Bioeng. 2003 Feb 5;81(3):263-8. PubMed PMID: 12474248
Marx CJ, Lidstrom ME. Broad-host-range cre-lox system for antibiotic marker recycling in gram-negative bacteria. Biotechniques. 2002 Nov;33(5):1062-7. PubMed PMID: 12449384
Toyama H, Fukumoto H, Saeki M, Matsushita K, Adachi O, Lidstrom ME. PqqC/D, which converts a biosynthetic intermediate to pyrroloquinoline quinone. Biochem Biophys Res Commun. 2002 Nov 29;299(2):268-72. PubMed PMID: 12437981
Schmid AK, Lidstrom ME. Involvement of two putative alternative sigma factors in stress response of the radioresistant bacterium Deinococcus radiodurans. J Bacteriol. 2002 Nov;184(22):6182-9. PubMed PMID: 12399488; PubMed Central PMCID: PMC151957
Korotkova N, Chistoserdova L, Lidstrom ME. Poly-beta-hydroxybutyrate biosynthesis in the facultative methylotroph methylobacterium extorquens AM1: identification and mutation of gap11, gap20, and phaR. J Bacteriol. 2002 Nov;184(22):6174-81. PubMed PMID: 12399487; PubMed Central PMCID: PMC151960
Auman AJ, Lidstrom ME. Analysis of sMMO-containing type I methanotrophs in Lake Washington sediment. Environ Microbiol. 2002 Sep;4(9):517-24. PubMed PMID: 12220408
Costello AM, Auman AJ, Macalady JL, Scow KM, Lidstrom ME. Estimation of methanotroph abundance in a freshwater lake sediment. Environ Microbiol. 2002 Aug;4(8):443-50. PubMed PMID: 12153585
Van Dien SJ, Lidstrom ME. Stoichiometric model for evaluating the metabolic capabilities of the facultative methylotroph Methylobacterium extorquens AM1, with application to reconstruction of C(3) and C(4) metabolism. Biotechnol Bioeng. 2002 May 5;78(3):296-312. PubMed PMID: 11920446
Lidstrom ME, Chistoserdova L. Plants in the pink: cytokinin production by methylobacterium. J Bacteriol. 2002 Apr;184(7):1818. PubMed PMID: 11889085; PubMed Central PMCID: PMC134909
Korotkova N, Chistoserdova L, Kuksa V, Lidstrom ME. Glyoxylate regeneration pathway in the methylotroph Methylobacterium extorquens AM1. J Bacteriol. 2002 Mar;184(6):1750-8. PubMed PMID: 11872727; PubMed Central PMCID: PMC134890
Auman AJ, Speake CC, Lidstrom ME. nifH sequences and nitrogen fixation in type I and type II methanotrophs. Appl Environ Microbiol. 2001 Sep;67(9):4009-16. PubMed PMID: 11525998; PubMed Central PMCID: PMC93122
Marx CJ, Lidstrom ME. Development of improved versatile broad-host-range vectors for use in methylotrophs and other Gram-negative bacteria. Microbiology. 2001 Aug;147(Pt 8):2065-2075. doi: 10.1099/00221287-147-8-2065. PubMed PMID: 11495985
Meima R, Rothfuss HM, Gewin L, Lidstrom ME. Promoter cloning in the radioresistant bacterium Deinococcus radiodurans. J Bacteriol. 2001 May;183(10):3169-75. PubMed PMID: 11325946; PubMed Central PMCID: PMC95218
Korotkova N, Lidstrom ME. Connection between poly-beta-hydroxybutyrate biosynthesis and growth on C(1) and C(2) compounds in the methylotroph Methylobacterium extorquens AM1. J Bacteriol. 2001 Feb;183(3):1038-46. PubMed PMID: 11208803; PubMed Central PMCID: PMC94972
Stolyar S, Franke M, Lidstrom ME. Expression of individual copies of Methylococcus capsulatus bath particulate methane monooxygenase genes. J Bacteriol. 2001 Mar;183(5):1810-2. PubMed PMID: 11160118; PubMed Central PMCID: PMC95072
Auman AJ, Stolyar S, Costello AM, Lidstrom ME. Molecular characterization of methanotrophic isolates from freshwater lake sediment. Appl Environ Microbiol. 2000 Dec;66(12):5259-66. PubMed PMID: 11097900; PubMed Central PMCID: PMC92454
Vorholt JA, Marx CJ, Lidstrom ME, Thauer RK. Novel formaldehyde-activating enzyme in Methylobacterium extorquens AM1 required for growth on methanol. J Bacteriol. 2000 Dec;182(23):6645-50. PubMed PMID: 11073907; PubMed Central PMCID: PMC111405
Meima R, Lidstrom ME. Characterization of the minimal replicon of a cryptic Deinococcus radiodurans SARK plasmid and development of versatile Escherichia coli-D. radiodurans shuttle vectors. Appl Environ Microbiol. 2000 Sep;66(9):3856-67. PubMed PMID: 10966401; PubMed Central PMCID: PMC92231
Hagemeier CH, Chistoserdova L, Lidstrom ME, Thauer RK, Vorholt JA. Characterization of a second methylene tetrahydromethanopterin dehydrogenase from Methylobacterium extorquens AM1. Eur J Biochem. 2000 Jun;267(12):3762-9. PubMed PMID: 10848995
Chistoserdova L, Gomelsky L, Vorholt JA, Gomelsky M, Tsygankov YD, Lidstrom ME. Analysis of two formaldehyde oxidation pathways in Methylobacillus flagellatus KT, a ribulose monophosphate cycle methylotroph. Microbiology. 2000 Jan;146 ( Pt 1):233-238. doi: 10.1099/00221287-146-1-233. PubMed PMID: 10658669
Costello AM, Lidstrom ME. Molecular characterization of functional and phylogenetic genes from natural populations of methanotrophs in lake sediments. Appl Environ Microbiol. 1999 Nov;65(11):5066-74. PubMed PMID: 10543824; PubMed Central PMCID: PMC91682
Vorholt JA, Chistoserdova L, Stolyar SM, Thauer RK, Lidstrom ME. Distribution of tetrahydromethanopterin-dependent enzymes in methylotrophic bacteria and phylogeny of methenyl tetrahydromethanopterin cyclohydrolases. J Bacteriol. 1999 Sep;181(18):5750-7. PubMed PMID: 10482517; PubMed Central PMCID: PMC94096
Stolyar S, Costello AM, Peeples TL, Lidstrom ME. Role of multiple gene copies in particulate methane monooxygenase activity in the methane-oxidizing bacterium Methylococcus capsulatus Bath. Microbiology. 1999 May;145 ( Pt 5):1235-1244. doi: 10.1099/13500872-145-5-1235. PubMed PMID: 10376840
Pomper BK, Vorholt JA, Chistoserdova L, Lidstrom ME, Thauer RK. A methenyl tetrahydromethanopterin cyclohydrolase and a methenyl tetrahydrofolate cyclohydrolase in Methylobacterium extorquens AM1. Eur J Biochem. 1999 Apr;261(2):475-80. PubMed PMID: 10215859
Vorholt JA, Chistoserdova L, Lidstrom ME, Thauer RK. The NADP-dependent methylene tetrahydromethanopterin dehydrogenase in Methylobacterium extorquens AM1. J Bacteriol. 1998 Oct;180(20):5351-6. PubMed PMID: 9765566; PubMed Central PMCID: PMC107583
Toyama H, Anthony C, Lidstrom ME. Construction of insertion and deletion mxa mutants of Methylobacterium extorquens AM1 by electroporation. FEMS Microbiol Lett. 1998 Sep 1;166(1):1-7. PubMed PMID: 9741078
Hancock TL, Costello AM, Lidstrom ME, Oremland RS. Strain IMB-1, a novel bacterium for the removal of methyl bromide in fumigated agricultural soils. Appl Environ Microbiol. 1998 Aug;64(8):2899-905. PubMed PMID: 9750123; PubMed Central PMCID: PMC106790
Hurst GB, Weaver K, Doktycz MJ, Buchanan MV, Costello AM, Lidstrom ME. MALDI-TOF analysis of polymerase chain reaction products from methanotrophic bacteria. Anal Chem. 1998 Jul 1;70(13):2693-8. PubMed PMID: 9666732
Chistoserdova L, Vorholt JA, Thauer RK, Lidstrom ME. C1 transfer enzymes and coenzymes linking methylotrophic bacteria and methanogenic Archaea. Science. 1998 Jul 3;281(5373):99-102. PubMed PMID: 9651254
Chen L, Doi M, Durley RC, Chistoserdov AY, Lidstrom ME, Davidson VL, Mathews FS. Refined crystal structure of methylamine dehydrogenase from Paracoccus denitrificans at 1.75 A resolution. J Mol Biol. 1998 Feb 13;276(1):131-49. PubMed PMID: 9514722
Springer AL, Auman AJ, Lidstrom ME. Sequence and characterization of mxaB, a response regulator involved in regulation of methanol oxidation, and of mxaW, a methanol-regulated gene in Methylobacterium extorquens AM1. FEMS Microbiol Lett. 1998 Mar 1;160(1):119-24. PubMed PMID: 9495022
Toyama H, Lidstrom ME. pqqA is not required for biosynthesis of pyrroloquinoline quinone in Methylobacterium extorquens AM1. Microbiology. 1998 Jan;144 ( Pt 1):183-91. PubMed PMID: 9467911
Davagnino J, Springer AL, Lidstrom ME. An RNA polymerase preparation from Methylobacterium extorquens AM1 capable of transcribing from a methylotrophic promoter. Microbiology. 1998 Jan;144 ( Pt 1):177-82. PubMed PMID: 9467910
Smith KS, Costello AM, Lidstrom ME. Methane and trichloroethylene oxidation by an estuarine methanotroph, Methylobacter sp. strain BB5.1. Appl Environ Microbiol. 1997 Nov;63(11):4617-20. Erratum in: Appl Environ Microbiol 1998 Jun;64(6):2332. PubMed PMID: 9361449; PubMed Central PMCID: PMC168782
Chistoserdova L, Lidstrom ME. Identification and mutation of a gene required for glycerate kinase activity from a facultative methylotroph, Methylobacterium extorquens AM1. J Bacteriol. 1997 Aug;179(15):4946-8. PubMed PMID: 9244287; PubMed Central PMCID: PMC179346
Springer AL, Morris CJ, Lidstrom ME. Molecular analysis of mxbD and mxbM, a putative sensor-regulator pair required for oxidation of methanol in Methylobacterium extorquens AM1. Microbiology. 1997 May;143 ( Pt 5):1737-44. PubMed PMID: 9168623
Chistoserdova L, Lidstrom ME. Molecular and mutational analysis of a DNA region separating two methylotrophy gene clusters in Methylobacterium extorquens AM1. Microbiology. 1997 May;143 ( Pt 5):1729-36. PubMed PMID: 9168622
Berson O, Lidstrom ME. Cloning and characterization of corA, a gene encoding a copper-repressible polypeptide in the type I methanotroph, Methylomicrobium albus BG8. FEMS Microbiol Lett. 1997 Mar 15;148(2):169-74. PubMed PMID: 9084144
Toyama H, Chistoserdova L, Lidstrom ME. Sequence analysis of pqq genes required for biosynthesis of pyrroloquinoline quinone in Methylobacterium extorquens AM1 and the purification of a biosynthetic intermediate. Microbiology. 1997 Feb;143 ( Pt 2):595-602. PubMed PMID: 9043136
Chistoserdova LV, Lidstrom ME. Molecular characterization of a chromosomal region involved in the oxidation of acetyl-CoA to glyoxylate in the isocitrate-lyase-negative methylotroph Methylobacterium extorquens AM1. Microbiology. 1996 Jun;142 ( Pt 6):1459-68. PubMed PMID: 8704985
Springer AL, Ramamoorthi R, Lidstrom ME. Characterization and nucleotide sequence of pqqE and pqqF in Methylobacterium extorquens AM1. J Bacteriol. 1996 Apr;178(7):2154-7. PubMed PMID: 8606199; PubMed Central PMCID: PMC177920
Morris CJ, Kim YM, Perkins KE, Lidstrom ME. Identification and nucleotide sequences of mxaA, mxaC, mxaK, mxaL, and mxaD genes from Methylobacterium extorquens AM1. J Bacteriol. 1995 Dec;177(23):6825-31. PubMed PMID: 7592474; PubMed Central PMCID: PMC177549
Arps PJ, Speer BS, Kim YM, Lidstrom ME. The mxaAKL genes of Methylobacter albus BG8. Microbiology. 1995 Nov;141 ( Pt 11):2995-3004. PubMed PMID: 8535527
Springer AL, Chou HH, Fan WH, Lee E, Lidstrom ME. Methanol oxidation mutants in Methylobacterium extorquens AM1: identification of new genetic complementation groups. Microbiology. 1995 Nov;141 ( Pt 11):2985-93. PubMed PMID: 8535526
Holmes AJ, Costello A, Lidstrom ME, Murrell JC. Evidence that particulate methane monooxygenase and ammonia monooxygenase may be evolutionarily related. FEMS Microbiol Lett. 1995 Oct 15;132(3):203-8. PubMed PMID: 7590173
Gak ER, Chistoserdov AY, Lidstrom ME. Cloning, sequencing, and mutation of a gene for azurin in Methylobacillus flagellatum KT. J Bacteriol. 1995 Aug;177(15):4575-8. PubMed PMID: 7635847; PubMed Central PMCID: PMC177219
Semrau JD, Chistoserdov A, Lebron J, Costello A, Davagnino J, Kenna E, Holmes AJ, Finch R, Murrell JC, Lidstrom ME. Particulate methane monooxygenase genes in methanotrophs. J Bacteriol. 1995 Jun;177(11):3071-9. PubMed PMID: 7768803; PubMed Central PMCID: PMC176995
Semrau JD, Zolandz D, Lidstrom ME, Chan SI. The role of copper in the pMMO of Methylococcus capsulatus bath: a structural vs. catalytic function. J Inorg Biochem. 1995 Jun;58(4):235-44. PubMed PMID: 7500086
Lidstrom ME. Genetics of bacterial quinoproteins. Methods Enzymol. 1995;258:217-27. PubMed PMID: 8524152
Ramamoorthi R, Lidstrom ME. Transcriptional analysis of pqqD and study of the regulation of pyrroloquinoline quinone biosynthesis in Methylobacterium extorquens AM1. J Bacteriol. 1995 Jan;177(1):206-11. PubMed PMID: 8002620; PubMed Central PMCID: PMC176574
Chistoserdova LV, Lidstrom ME. Genetics of the serine cycle in Methylobacterium extorquens AM1: identification, sequence, and mutation of three new genes involved in C1 assimilation, orf4, mtkA, and mtkB. J Bacteriol. 1994 Dec;176(23):7398-404. PubMed PMID: 7961516; PubMed Central PMCID: PMC197134
Chistoserdova LV, Lidstrom ME. Genetics of the serine cycle in Methylobacterium extorquens AM1: cloning, sequence, mutation, and physiological effect of glyA, the gene for serine hydroxymethyltransferase. J Bacteriol. 1994 Nov;176(21):6759-62. PubMed PMID: 7961431; PubMed Central PMCID: PMC197035
Speer BS, Chistoserdova L, Lidstrom ME. Sequence of the gene for a NAD(P)-dependent formaldehyde dehydrogenase (class III alcohol dehydrogenase) from a marine methanotroph Methylobacter marinus A45. FEMS Microbiol Lett. 1994 Sep 1;121(3):349-55. PubMed PMID: 7926692
Chistoserdova L, Kuhn M, Lidstrom ME. Identification of a promoter region for mxaF (moxF) from the type I methanotroph, Methylobacter albus BG8. FEMS Microbiol Lett. 1994 Sep 1;121(3):343-8. PubMed PMID: 7926691
Duong MH, Grant SB, Lidstrom ME. Transfer solution chemistry affects mixed-phase hybridizations. Anal Biochem. 1994 Aug 1;220(2):431-3. PubMed PMID: 7526741
Chistoserdov AY, McIntire WS, Mathews FS, Lidstrom ME. Organization of the methylamine utilization (mau) genes in Methylophilus methylotrophus W3A1-NS. J Bacteriol. 1994 Jul;176(13):4073-80. PubMed PMID: 8021188; PubMed Central PMCID: PMC205606
Chistoserdov AY, Chistoserdova LV, McIntire WS, Lidstrom ME. Genetic organization of the mau gene cluster in Methylobacterium extorquens AM1: complete nucleotide sequence and generation and characteristics of mau mutants. J Bacteriol. 1994 Jul;176(13):4052-65. PubMed PMID: 8021187; PubMed Central PMCID: PMC205604
Nguyen HH, Shiemke AK, Jacobs SJ, Hales BJ, Lidstrom ME, Chan SI. The nature of the copper ions in the membranes containing the particulate methane monooxygenase from Methylococcus capsulatus (Bath). J Biol Chem. 1994 May 27;269(21):14995-5005. PubMed PMID: 8195135
Chistoserdova LV, Lidstrom ME. Genetics of the serine cycle in Methylobacterium extorquens AM1: identification of sgaA and mtdA and sequences of sgaA, hprA, and mtdA. J Bacteriol. 1994 Apr;176(7):1957-68. PubMed PMID: 8144463; PubMed Central PMCID: PMC205300
Lidstrom ME, Anthony C, Biville F, Gasser F, Goodwin P, Hanson RS, Harms N. New unified nomenclature for genes involved in the oxidation of methanol in gram-negative bacteria. FEMS Microbiol Lett. 1994 Mar 15;117(1):103-6. PubMed PMID: 8181704
Morris CJ, Biville F, Turlin E, Lee E, Ellermann K, Fan WH, Ramamoorthi R, Springer AL, Lidstrom ME. Isolation, phenotypic characterization, and complementation analysis of mutants of Methylobacterium extorquens AM1 unable to synthesize pyrroloquinoline quinone and sequences of pqqD, pqqG, and pqqC. J Bacteriol. 1994 Mar;176(6):1746-55. PubMed PMID: 8132470; PubMed Central PMCID: PMC205263
Arps PJ, Fulton GF, Minnich EC, Lidstrom ME. Genetics of serine pathway enzymes in Methylobacterium extorquens AM1: phosphoenolpyruvate carboxylase and malyl coenzyme A lyase. J Bacteriol. 1993 Jun;175(12):3776-83. PubMed PMID: 8509332; PubMed Central PMCID: PMC204794
Waechter-Brulla D, DiSpirito AA, Chistoserdova LV, Lidstrom ME. Methanol oxidation genes in the marine methanotroph Methylomonas sp. strain A4. J Bacteriol. 1993 Jun;175(12):3767-75. PubMed PMID: 7685335; PubMed Central PMCID: PMC204793
Morris CJ, Lidstrom ME. Cloning of a methanol-inducible moxF promoter and its analysis in moxB mutants of Methylobacterium extorquens AM1rif. J Bacteriol. 1992 Jul;174(13):4444-9. PubMed PMID: 1624436; PubMed Central PMCID: PMC206230
Chistoserdov AY, Boyd J, Mathews FS, Lidstrom ME. The genetic organization of the mau gene cluster of the facultative autotroph Paracoccus denitrificans. Biochem Biophys Res Commun. 1992 May 15;184(3):1181-9. PubMed PMID: 1590782
Chistoserdova LV, Lidstrom ME. Cloning, mutagenesis, and physiological effect of a hydroxypyruvate reductase gene from Methylobacterium extorquens AM1. J Bacteriol. 1992 Jan;174(1):71-7. PubMed PMID: 1729225; PubMed Central PMCID: PMC205678
Putzer KP, Buchholz LA, Lidstrom ME, Remsen CC. Separation of methanotrophic bacteria by using percoll and its application to isolation of mixed and pure cultures. Appl Environ Microbiol. 1991 Dec;57(12):3656-9. PubMed PMID: 16348612; PubMed Central PMCID: PMC184030
Chistoserdova LV, Lidstrom ME. Purification and characterization of hydroxypyruvate reductase from the facultative methylotroph Methylobacterium extorquens AM1. J Bacteriol. 1991 Nov;173(22):7228-32. PubMed PMID: 1657886; PubMed Central PMCID: PMC209229
Chistoserdov AY, Lidstrom ME. The small-subunit polypeptide of methylamine dehydrogenase from Methylobacterium extorquens AM1 has an unusual leader sequence. J Bacteriol. 1991 Sep;173(18):5909-13. PubMed PMID: 1885555; PubMed Central PMCID: PMC208326
Chistoserdov AY, Tsygankov YD, Lidstrom ME. Genetic organization of methylamine utilization genes from Methylobacterium extorquens AM1. J Bacteriol. 1991 Sep;173(18):5901-8. PubMed PMID: 1653226; PubMed Central PMCID: PMC208325
McIntire WS, Wemmer DE, Chistoserdov A, Lidstrom ME. A new cofactor in a prokaryotic enzyme: tryptophan tryptophylquinone as the redox prosthetic group in methylamine dehydrogenase. Science. 1991 May 10;252(5007):817-24. PubMed PMID: 2028257
Meijer WG, Arnberg AC, Enequist HG, Terpstra P, Lidstrom ME, Dijkhuizen L. Identification and organization of carbon dioxide fixation genes in Xanthobacter flavus H4-14. Mol Gen Genet. 1991 Feb;225(2):320-30. PubMed PMID: 1900916
Lidstrom ME, Tsygankov YD. Molecular genetics of methylotrophic bacteria. Biotechnology. 1991;18:273-304. Review. PubMed PMID: 1909917
Chistoserdov AY, Tsygankov YD, Lidstrom ME. Nucleotide sequence of the amicyanin gene from Methylobacterium extorquens AM1. DNA Seq. 1991;2(1):53-5. PubMed PMID: 1802036
Lidstrom ME. Genetics of carbon metabolism in methylotrophic bacteria. FEMS Microbiol Rev. 1990 Dec;7(3-4):431-6. Review. PubMed PMID: 2128803
Chistoserdov AY, Tsygankov YD, Lidstrom ME. Cloning and sequencing of the structural gene for the small subunit of methylamine dehydrogenase from Methylobacterium extorquens AM1: evidence for two tryptophan residues involved in the active center. Biochem Biophys Res Commun. 1990 Oct 15;172(1):211-6. PubMed PMID: 2121141
DiSpirito AA, Lipscomb JD, Lidstrom ME. Soluble cytochromes from the marine methanotroph Methylomonas sp. strain A4. J Bacteriol. 1990 Sep;172(9):5360-7. PubMed PMID: 2168380; PubMed Central PMCID: PMC213200
Anderson DJ, Morris CJ, Nunn DN, Anthony C, Lidstrom ME. Nucleotide sequence of the Methylobacterium extorquens AM1 moxF and moxJ genes involved in methanol oxidation. Gene. 1990 May 31;90(1):173-6. PubMed PMID: 2116368
Meijer WG, Croes LM, Jenni B, Lehmicke LG, Lidstrom ME, Dijkhuizen L. Characterization of Xanthobacter strains H4-14 and 25a and enzyme profiles after growth under autotrophic and heterotrophic conditions. Arch Microbiol. 1990;153(4):360-7. PubMed PMID: 2337378
Lidstrom ME, Stirling DI. Methylotrophs: genetics and commercial applications. Annu Rev Microbiol. 1990;44:27-58. Review. PubMed PMID: 2123619
Fassel TA, Schaller MJ, Lidstrom ME, Remsen CC. Effect of fixation-resin combinations and ruthenium red on elucidating outer envelope structure and surface morphology of two methanotrophic bacteria. J Electron Microsc Tech. 1990 Jan;14(1):52-62. PubMed PMID: 2105383
Kim YM, Lidstrom ME. Plasmid analysis in pink facultative methylotrophic bacteria using a modified acetone-alkaline hydrolysis method. FEMS Microbiol Lett. 1989 Jul 1;51(1):125-30. PubMed PMID: 2507392
Lidstrom ME. Molecular approaches to problems in biogeochemical cycling. Antonie Van Leeuwenhoek. 1989;55(1):7-14. Review. PubMed PMID: 2472776
Anderson DJ, Lidstrom ME. The moxFG region encodes four polypeptides in the methanol-oxidizing bacterium Methylobacterium sp. strain AM1. J Bacteriol. 1988 May;170(5):2254-62. PubMed PMID: 3129405; PubMed Central PMCID: PMC211115
Stephens RL, Haygood MG, Lidstrom ME. Identification of putative methanol dehydrogenase (moxF) structural genes in methylotrophs and cloning of moxF genes from Methylococcus capsulatus bath and Methylomonas albus BG8. J Bacteriol. 1988 May;170(5):2063-9. PubMed PMID: 3129400; PubMed Central PMCID: PMC211087
Little CD, Palumbo AV, Herbes SE, Lidstrom ME, Tyndall RL, Gilmer PJ. Trichloroethylene biodegradation by a methane-oxidizing bacterium. Appl Environ Microbiol. 1988 Apr;54(4):951-6. PubMed PMID: 16347616; PubMed Central PMCID: PMC202578
Lidstrom ME. Isolation and characterization of marine methanotrophs. Antonie Van Leeuwenhoek. 1988;54(3):189-99. PubMed PMID: 3138946
Weaver CA, Lidstrom ME. Isolation, complementation and partial characterization of mutants of the methanol autotroph Xanthobacter H4-14 defective in methanol dissimilation. J Gen Microbiol. 1987 Jul;133(7):1721-31. PubMed PMID: 3312480
Nunn DN, Lidstrom ME. Phenotypic characterization of 10 methanol oxidation mutant classes in Methylobacterium sp. strain AM1. J Bacteriol. 1986 May;166(2):591-7. PubMed PMID: 3009412; PubMed Central PMCID: PMC214645
Nunn DN, Lidstrom ME. Isolation and complementation analysis of 10 methanol oxidation mutant classes and identification of the methanol dehydrogenase structural gene of Methylobacterium sp. strain AM1. J Bacteriol. 1986 May;166(2):581-90. PubMed PMID: 3009411; PubMed Central PMCID: PMC214644
Weaver CA, Lidstrom ME. Methanol dissimilation in Xanthobacter H4-14: activities, induction and comparison to Pseudomonas AM1 and Paracoccus denitrificans. J Gen Microbiol. 1985 Sep;131(9):2183-97. PubMed PMID: 2933486
Lehmicke LG, Lidstrom ME. Organization of genes necessary for growth of the hydrogen-methanol autotroph Xanthobacter sp. strain H4-14 on hydrogen and carbon dioxide. J Bacteriol. 1985 Jun;162(3):1244-9. PubMed PMID: 2987188; PubMed Central PMCID: PMC215910
Lidstrom ME, Wopat AE. Plasmids in methanotrophic bacteria: isolation, characterization and DNA hybridization analysis. Arch Microbiol. 1984 Nov;140(1):27-33. PubMed PMID: 6442554
Fulton GL, Nunn DN, Lidstrom ME. Molecular cloning of a malyl coenzyme A lyase gene from Pseudomonas sp. strain AM1, a facultative methylotroph. J Bacteriol. 1984 Nov;160(2):718-23. PubMed PMID: 6094488; PubMed Central PMCID: PMC214796
Toukdarian AE, Lidstrom ME. Nitrogen metabolism in a new obligate methanotroph, 'Methylosinus' strain 6. J Gen Microbiol. 1984 Jul;130(7):1827-37. PubMed PMID: 6432952
Lidstrom ME, Somers L. Seasonal study of methane oxidation in lake washington. Appl Environ Microbiol. 1984 Jun;47(6):1255-60. PubMed PMID: 16346563; PubMed Central PMCID: PMC240212
Toukdarian AE, Lidstrom ME. Molecular construction and characterization of nif mutants of the obligate methanotroph Methylosinus sp. strain 6. J Bacteriol. 1984 Mar;157(3):979-83. PubMed PMID: 6321452; PubMed Central PMCID: PMC215363
Toukdarian AE, Lidstrom ME. DNA hybridization analysis of the nif region of two methylotrophs and molecular cloning of nif-specific DNA. J Bacteriol. 1984 Mar;157(3):925-30. PubMed PMID: 6321444; PubMed Central PMCID: PMC215347
Lidstrom ME, Wopat AE, Nunn DN, Toukdarian AE. Manipulation of methanotrophs. Basic Life Sci. 1984;28:319-30. PubMed PMID: 6422924.