Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 72

1.

Corrigendum: Saliniramus fredricksonii gen. nov., sp. nov., a heterotrophic halophile isolated from Hot Lake, Washington, a member of a novel lineage (Salinarimonadaceae fam. nov.) within the order Rhizobiales, and reclassification of the genus Salinarimonas Liu et al. 2010 into Salinarimonadaceae.

Cole JK, Morton BR, Cardamone HC, Lake HRR, Dohnalkova AC, Kim YM, Kyle JE, Maezato Y, Dana KL, Metz TO, Romine MF, Nelson WC, Lindemann SR.

Int J Syst Evol Microbiol. 2018 Jun;68(6):2116-2123. doi: 10.1099/ijsem.0.002807.

PMID:
29855404
2.

Salinivirga fredricksonii gen. nov., sp. nov., a heterotrophic halophile isolated from a photosynthetic mat, a member of a novel lineage (Salinarimonadaceae fam. nov.) within the order Rhizobiales, and reclassification of the genus Salinarimonas Liu et al. 2010 into Salinarimonadaceae.

Cole JK, Morton BR, Cardamone HC, Lake HRR, Dohnalkova AC, Kim YM, Kyle JE, Maezato Y, Dana KL, Metz TO, Romine MF, Nelson WC, Lindemann SR.

Int J Syst Evol Microbiol. 2018 May;68(5):1591-1598. doi: 10.1099/ijsem.0.002715. Epub 2018 Mar 26.

PMID:
29580321
3.

Draft Genome Sequence of Cyanobacterium sp. Strain HL-69, Isolated from a Benthic Microbial Mat from a Magnesium Sulfate-Dominated Hypersaline Lake.

Mobberley JM, Romine MF, Cole JK, Maezato Y, Lindemann SR, Nelson WC.

Genome Announc. 2018 Feb 8;6(6). pii: e01583-17. doi: 10.1128/genomeA.01583-17.

4.

Genomic Reconstruction of Carbohydrate Utilization Capacities in Microbial-Mat Derived Consortia.

Leyn SA, Maezato Y, Romine MF, Rodionov DA.

Front Microbiol. 2017 Jul 13;8:1304. doi: 10.3389/fmicb.2017.01304. eCollection 2017.

5.

Predicting Species-Resolved Macronutrient Acquisition during Succession in a Model Phototrophic Biofilm Using an Integrated 'Omics Approach.

Lindemann SR, Mobberley JM, Cole JK, Markillie LM, Taylor RC, Huang E, Chrisler WB, Wiley HS, Lipton MS, Nelson WC, Fredrickson JK, Romine MF.

Front Microbiol. 2017 Jun 13;8:1020. doi: 10.3389/fmicb.2017.01020. eCollection 2017.

6.

Indirect Interspecies Regulation: Transcriptional and Physiological Responses of a Cyanobacterium to Heterotrophic Partnership.

Bernstein HC, McClure RS, Thiel V, Sadler NC, Kim YM, Chrisler WB, Hill EA, Bryant DA, Romine MF, Jansson JK, Fredrickson JK, Beliaev AS.

mSystems. 2017 Mar 7;2(2). pii: e00181-16. doi: 10.1128/mSystems.00181-16. eCollection 2017 Mar-Apr.

7.

Underlying mechanisms for syntrophic metabolism of essential enzyme cofactors in microbial communities.

Romine MF, Rodionov DA, Maezato Y, Osterman AL, Nelson WC.

ISME J. 2017 Jun;11(6):1434-1446. doi: 10.1038/ismej.2017.2. Epub 2017 Feb 10.

8.

Elucidation of roles for vitamin B12 in regulation of folate, ubiquinone, and methionine metabolism.

Romine MF, Rodionov DA, Maezato Y, Anderson LN, Nandhikonda P, Rodionova IA, Carre A, Li X, Xu C, Clauss TR, Kim YM, Metz TO, Wright AT.

Proc Natl Acad Sci U S A. 2017 Feb 14;114(7):E1205-E1214. doi: 10.1073/pnas.1612360114. Epub 2017 Jan 30.

9.

Unlocking the Constraints of Cyanobacterial Productivity: Acclimations Enabling Ultrafast Growth.

Bernstein HC, McClure RS, Hill EA, Markillie LM, Chrisler WB, Romine MF, McDermott JE, Posewitz MC, Bryant DA, Konopka AE, Fredrickson JK, Beliaev AS.

MBio. 2016 Jul 26;7(4). pii: e00949-16. doi: 10.1128/mBio.00949-16.

10.

Functional roles of CymA and NapC in reduction of nitrate and nitrite by Shewanella putrefaciens W3-18-1.

Wei H, Dai J, Xia M, Romine MF, Shi L, Beliav A, Tiedje JM, Nealson KH, Fredrickson JK, Zhou J, Qiu D.

Microbiology. 2016 Jun;162(6):930-941. doi: 10.1099/mic.0.000285. Epub 2016 Mar 23.

PMID:
27010745
11.

Formaldehyde as a carbon and electron shuttle between autotroph and heterotroph populations in acidic hydrothermal vents of Norris Geyser Basin, Yellowstone National Park.

Moran JJ, Whitmore LM, Isern NG, Romine MF, Riha KM, Inskeep WP, Kreuzer HW.

Extremophiles. 2016 May;20(3):291-9. doi: 10.1007/s00792-016-0821-2. Epub 2016 Mar 19.

PMID:
26995682
12.

Live Cell Discovery of Microbial Vitamin Transport and Enzyme-Cofactor Interactions.

Anderson LN, Koech PK, Plymale AE, Landorf EV, Konopka A, Collart FR, Lipton MS, Romine MF, Wright AT.

ACS Chem Biol. 2016 Feb 19;11(2):345-54. doi: 10.1021/acschembio.5b00918. Epub 2015 Dec 22.

PMID:
26669591
13.

Multi-Omic Dynamics Associate Oxygenic Photosynthesis with Nitrogenase-Mediated H2 Production in Cyanothece sp. ATCC 51142.

Bernstein HC, Charania MA, McClure RS, Sadler NC, Melnicki MR, Hill EA, Markillie LM, Nicora CD, Wright AT, Romine MF, Beliaev AS.

Sci Rep. 2015 Nov 3;5:16004. doi: 10.1038/srep16004.

14.

Identification and Resolution of Microdiversity through Metagenomic Sequencing of Parallel Consortia.

Nelson WC, Maezato Y, Wu YW, Romine MF, Lindemann SR.

Appl Environ Microbiol. 2015 Oct 23;82(1):255-67. doi: 10.1128/AEM.02274-15. Print 2016 Jan 1.

15.

Ecophysiology of an uncultivated lineage of Aigarchaeota from an oxic, hot spring filamentous 'streamer' community.

Beam JP, Jay ZJ, Schmid MC, Rusch DB, Romine MF, Jennings Rde M, Kozubal MA, Tringe SG, Wagner M, Inskeep WP.

ISME J. 2016 Jan;10(1):210-24. doi: 10.1038/ismej.2015.83. Epub 2015 Jul 3.

16.

Genomic distribution of B-vitamin auxotrophy and uptake transporters in environmental bacteria from the Chloroflexi phylum.

Rodionova IA, Li X, Plymale AE, Motamedchaboki K, Konopka AE, Romine MF, Fredrickson JK, Osterman AL, Rodionov DA.

Environ Microbiol Rep. 2015 Apr;7(2):204-10. doi: 10.1111/1758-2229.12227. Epub 2014 Dec 17.

PMID:
25345570
17.

Shewanella oneidensis MR-1 nanowires are outer membrane and periplasmic extensions of the extracellular electron transport components.

Pirbadian S, Barchinger SE, Leung KM, Byun HS, Jangir Y, Bouhenni RA, Reed SB, Romine MF, Saffarini DA, Shi L, Gorby YA, Golbeck JH, El-Naggar MY.

Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12883-8. doi: 10.1073/pnas.1410551111. Epub 2014 Aug 20.

18.

Conservation of transcription start sites within genes across a bacterial genus.

Shao W, Price MN, Deutschbauer AM, Romine MF, Arkin AP.

MBio. 2014 Jul 1;5(4):e01398-14. doi: 10.1128/mBio.01398-14.

19.

Inference of interactions in cyanobacterial-heterotrophic co-cultures via transcriptome sequencing.

Beliaev AS, Romine MF, Serres M, Bernstein HC, Linggi BE, Markillie LM, Isern NG, Chrisler WB, Kucek LA, Hill EA, Pinchuk GE, Bryant DA, Wiley HS, Fredrickson JK, Konopka A.

ISME J. 2014 Nov;8(11):2243-55. doi: 10.1038/ismej.2014.69. Epub 2014 Apr 29.

20.

Comparisons of Shewanella strains based on genome annotations, modeling, and experiments.

Ong WK, Vu TT, Lovendahl KN, Llull JM, Serres MH, Romine MF, Reed JL.

BMC Syst Biol. 2014 Mar 12;8:31. doi: 10.1186/1752-0509-8-31.

21.

Genome Sequence of the Thermophilic Cyanobacterium Thermosynechococcus sp. Strain NK55a.

Stolyar S, Liu Z, Thiel V, Tomsho LP, Pinel N, Nelson WC, Lindemann SR, Romine MF, Haruta S, Schuster SC, Bryant DA, Fredrickson JK.

Genome Announc. 2014 Jan 30;2(1). pii: e01060-13. doi: 10.1128/genomeA.01060-13.

22.

Live cell chemical profiling of temporal redox dynamics in a photoautotrophic cyanobacterium.

Sadler NC, Melnicki MR, Serres MH, Merkley ED, Chrisler WB, Hill EA, Romine MF, Kim S, Zink EM, Datta S, Smith RD, Beliaev AS, Konopka A, Wright AT.

ACS Chem Biol. 2014 Jan 17;9(1):291-300. doi: 10.1021/cb400769v. Epub 2013 Nov 6.

PMID:
24168666
23.

Changes in translational efficiency is a dominant regulatory mechanism in the environmental response of bacteria.

Taylor RC, Webb Robertson BJ, Markillie LM, Serres MH, Linggi BE, Aldrich JT, Hill EA, Romine MF, Lipton MS, Wiley HS.

Integr Biol (Camb). 2013 Nov;5(11):1393-406. doi: 10.1039/c3ib40120k. Epub 2013 Sep 30.

24.

Control of proteobacterial central carbon metabolism by the HexR transcriptional regulator: a case study in Shewanella oneidensis.

Leyn SA, Li X, Zheng Q, Novichkov PS, Reed S, Romine MF, Fredrickson JK, Yang C, Osterman AL, Rodionov DA.

J Biol Chem. 2011 Oct 14;286(41):35782-94. doi: 10.1074/jbc.M111.267963. Epub 2011 Aug 17.

25.

Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus.

Rodionov DA, Novichkov PS, Stavrovskaya ED, Rodionova IA, Li X, Kazanov MD, Ravcheev DA, Gerasimova AV, Kazakov AE, Kovaleva GY, Permina EA, Laikova ON, Overbeek R, Romine MF, Fredrickson JK, Arkin AP, Dubchak I, Osterman AL, Gelfand MS.

BMC Genomics. 2011 Jun 15;12 Suppl 1:S3. doi: 10.1186/1471-2164-12-S1-S3.

26.

Genome-wide protein localization prediction strategies for gram negative bacteria.

Romine MF.

BMC Genomics. 2011 Jun 15;12 Suppl 1:S1. doi: 10.1186/1471-2164-12-S1-S1.

27.

Fnr (EtrA) acts as a fine-tuning regulator of anaerobic metabolism in Shewanella oneidensis MR-1.

Cruz-García C, Murray AE, Rodrigues JL, Gralnick JA, McCue LA, Romine MF, Löffler FE, Tiedje JM.

BMC Microbiol. 2011 Mar 30;11:64. doi: 10.1186/1471-2180-11-64.

28.

Extracellular polymeric substances from Shewanella sp. HRCR-1 biofilms: characterization by infrared spectroscopy and proteomics.

Cao B, Shi L, Brown RN, Xiong Y, Fredrickson JK, Romine MF, Marshall MJ, Lipton MS, Beyenal H.

Environ Microbiol. 2011 Apr;13(4):1018-31. doi: 10.1111/j.1462-2920.2010.02407.x. Epub 2011 Jan 19.

PMID:
21251176
29.

Genomic encyclopedia of sugar utilization pathways in the Shewanella genus.

Rodionov DA, Yang C, Li X, Rodionova IA, Wang Y, Obraztsova AY, Zagnitko OP, Overbeek R, Romine MF, Reed S, Fredrickson JK, Nealson KH, Osterman AL.

BMC Genomics. 2010 Sep 13;11:494. doi: 10.1186/1471-2164-11-494.

30.

Mapping the subcellular proteome of Shewanella oneidensis MR-1 using sarkosyl-based fractionation and LC-MS/MS protein identification.

Brown RN, Romine MF, Schepmoes AA, Smith RD, Lipton MS.

J Proteome Res. 2010 Sep 3;9(9):4454-63. doi: 10.1021/pr100215h.

PMID:
20690604
31.

Shewanella knowledgebase: integration of the experimental data and computational predictions suggests a biological role for transcription of intergenic regions.

Karpinets TV, Romine MF, Schmoyer DD, Kora GH, Syed MH, Leuze MR, Serres MH, Park BH, Samatova NF, Uberbacher EC.

Database (Oxford). 2010 Jul 6;2010:baq012. doi: 10.1093/database/baq012.

32.

Constraint-based model of Shewanella oneidensis MR-1 metabolism: a tool for data analysis and hypothesis generation.

Pinchuk GE, Hill EA, Geydebrekht OV, De Ingeniis J, Zhang X, Osterman A, Scott JH, Reed SB, Romine MF, Konopka AE, Beliaev AS, Fredrickson JK, Reed JL.

PLoS Comput Biol. 2010 Jun 24;6(6):e1000822. doi: 10.1371/journal.pcbi.1000822.

33.

Quantitative analysis of cell surface membrane proteins using membrane-impermeable chemical probe coupled with 18O labeling.

Zhang H, Brown RN, Qian WJ, Monroe ME, Purvine SO, Moore RJ, Gritsenko MA, Shi L, Romine MF, Fredrickson JK, Pasa-Tolić L, Smith RD, Lipton MS.

J Proteome Res. 2010 May 7;9(5):2160-9. doi: 10.1021/pr9009113.

34.

Electrokinesis is a microbial behavior that requires extracellular electron transport.

Harris HW, El-Naggar MY, Bretschger O, Ward MJ, Romine MF, Obraztsova AY, Nealson KH.

Proc Natl Acad Sci U S A. 2010 Jan 5;107(1):326-31. doi: 10.1073/pnas.0907468107. Epub 2009 Dec 14.

35.

Comparative systems biology across an evolutionary gradient within the Shewanella genus.

Konstantinidis KT, Serres MH, Romine MF, Rodrigues JL, Auchtung J, McCue LA, Lipton MS, Obraztsova A, Giometti CS, Nealson KH, Fredrickson JK, Tiedje JM.

Proc Natl Acad Sci U S A. 2009 Sep 15;106(37):15909-14. doi: 10.1073/pnas.0902000106. Epub 2009 Sep 1.

36.

Conserved synteny at the protein family level reveals genes underlying Shewanella species' cold tolerance and predicts their novel phenotypes.

Karpinets TV, Obraztsova AY, Wang Y, Schmoyer DD, Kora GH, Park BH, Serres MH, Romine MF, Land ML, Kothe TB, Fredrickson JK, Nealson KH, Uberbacher EC.

Funct Integr Genomics. 2010 Mar;10(1):97-110. doi: 10.1007/s10142-009-0142-y. Epub 2009 Oct 3.

37.

Reduction of nitrate in Shewanella oneidensis depends on atypical NAP and NRF systems with NapB as a preferred electron transport protein from CymA to NapA.

Gao H, Yang ZK, Barua S, Reed SB, Romine MF, Nealson KH, Fredrickson JK, Tiedje JM, Zhou J.

ISME J. 2009 Aug;3(8):966-76. doi: 10.1038/ismej.2009.40. Epub 2009 Apr 23.

PMID:
19387485
38.

Genomic reconstruction of Shewanella oneidensis MR-1 metabolism reveals a previously uncharacterized machinery for lactate utilization.

Pinchuk GE, Rodionov DA, Yang C, Li X, Osterman AL, Dervyn E, Geydebrekht OV, Reed SB, Romine MF, Collart FR, Scott JH, Fredrickson JK, Beliaev AS.

Proc Natl Acad Sci U S A. 2009 Feb 24;106(8):2874-9. doi: 10.1073/pnas.0806798106. Epub 2009 Feb 5.

39.

Towards environmental systems biology of Shewanella.

Fredrickson JK, Romine MF, Beliaev AS, Auchtung JM, Driscoll ME, Gardner TS, Nealson KH, Osterman AL, Pinchuk G, Reed JL, Rodionov DA, Rodrigues JL, Saffarini DA, Serres MH, Spormann AM, Zhulin IB, Tiedje JM.

Nat Rev Microbiol. 2008 Aug;6(8):592-603. doi: 10.1038/nrmicro1947. Epub 2008 Jul 7. Review.

PMID:
18604222
40.

Identification of diverse carbon utilization pathways in Shewanella oneidensis MR-1 via expression profiling.

Driscoll ME, Romine MF, Juhn FS, Serres MH, McCue LA, Beliaev AS, Fredrickson JK, Gardner TS.

Genome Inform. 2007;18:287-98.

PMID:
18546496
41.

Investigations of structure and metabolism within Shewanella oneidensis MR-1 biofilms.

McLean JS, Majors PD, Reardon CL, Bilskis CL, Reed SB, Romine MF, Fredrickson JK.

J Microbiol Methods. 2008 Jul;74(1):47-56. doi: 10.1016/j.mimet.2008.02.015. Epub 2008 Feb 29.

PMID:
18448180
42.

Oxygen-dependent autoaggregation in Shewanella oneidensis MR-1.

McLean JS, Pinchuk GE, Geydebrekht OV, Bilskis CL, Zakrajsek BA, Hill EA, Saffarini DA, Romine MF, Gorby YA, Fredrickson JK, Beliaev AS.

Environ Microbiol. 2008 Jul;10(7):1861-76. doi: 10.1111/j.1462-2920.2008.01608.x. Epub 2008 Apr 10.

PMID:
18412550
43.

Identification of mobile elements and pseudogenes in the Shewanella oneidensis MR-1 genome.

Romine MF, Carlson TS, Norbeck AD, McCue LA, Lipton MS.

Appl Environ Microbiol. 2008 May;74(10):3257-65. doi: 10.1128/AEM.02720-07. Epub 2008 Mar 31.

44.

Utilization of DNA as a sole source of phosphorus, carbon, and energy by Shewanella spp.: ecological and physiological implications for dissimilatory metal reduction.

Pinchuk GE, Ammons C, Culley DE, Li SM, McLean JS, Romine MF, Nealson KH, Fredrickson JK, Beliaev AS.

Appl Environ Microbiol. 2008 Feb;74(4):1198-208. Epub 2007 Dec 21.

45.

Hydrogenase- and outer membrane c-type cytochrome-facilitated reduction of technetium(VII) by Shewanella oneidensis MR-1.

Marshall MJ, Plymale AE, Kennedy DW, Shi L, Wang Z, Reed SB, Dohnalkova AC, Simonson CJ, Liu C, Saffarini DA, Romine MF, Zachara JM, Beliaev AS, Fredrickson JK.

Environ Microbiol. 2008 Jan;10(1):125-36. Epub 2007 Sep 18.

PMID:
17888007
46.

Current production and metal oxide reduction by Shewanella oneidensis MR-1 wild type and mutants.

Bretschger O, Obraztsova A, Sturm CA, Chang IS, Gorby YA, Reed SB, Culley DE, Reardon CL, Barua S, Romine MF, Zhou J, Beliaev AS, Bouhenni R, Saffarini D, Mansfeld F, Kim BH, Fredrickson JK, Nealson KH.

Appl Environ Microbiol. 2007 Nov;73(21):7003-12. Epub 2007 Jul 20. Erratum in: Appl Environ Microbiol. 2008 Jan;74(2):553.

47.

Identification and analysis of a highly conserved chemotaxis gene cluster in Shewanella species.

Li J, Romine MF, Ward MJ.

FEMS Microbiol Lett. 2007 Aug;273(2):180-6. Epub 2007 Jun 21.

48.

AMT tag approach to proteomic characterization of Deinococcus radiodurans and Shewanella oneidensis.

Lipton MS, Romine MF, Monroe ME, Elias DA, Pasa-Tolic L, Anderson GA, Anderson DJ, Fredrickson J, Hixson KK, Masselon C, Mottaz H, Tolic N, Smith RD.

Methods Biochem Anal. 2006;49:113-34. No abstract available.

PMID:
16929677
49.

c-Type cytochrome-dependent formation of U(IV) nanoparticles by Shewanella oneidensis.

Marshall MJ, Beliaev AS, Dohnalkova AC, Kennedy DW, Shi L, Wang Z, Boyanov MI, Lai B, Kemner KM, McLean JS, Reed SB, Culley DE, Bailey VL, Simonson CJ, Saffarini DA, Romine MF, Zachara JM, Fredrickson JK.

PLoS Biol. 2006 Sep;4(9):e268.

50.

Comparative genomics and experimental characterization of N-acetylglucosamine utilization pathway of Shewanella oneidensis.

Yang C, Rodionov DA, Li X, Laikova ON, Gelfand MS, Zagnitko OP, Romine MF, Obraztsova AY, Nealson KH, Osterman AL.

J Biol Chem. 2006 Oct 6;281(40):29872-85. Epub 2006 Jul 20.

Supplemental Content

Loading ...
Support Center