Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 82

1.

Complete Genome Sequence of Anaeromyxobacter sp. Fw109-5, an Anaerobic, Metal-Reducing Bacterium Isolated from a Contaminated Subsurface Environment.

Hwang C, Copeland A, Lucas S, Lapidus A, Barry K, Glavina Del Rio T, Dalin E, Tice H, Pitluck S, Sims D, Brettin T, Bruce DC, Detter JC, Han CS, Schmutz J, Larimer FW, Land ML, Hauser LJ, Kyrpides N, Lykidis A, Richardson P, Belieav A, Sanford RA, Löeffler FE, Fields MW.

Genome Announc. 2015 Jan 22;3(1). pii: e01449-14. doi: 10.1128/genomeA.01449-14.

2.

Caldicellulosiruptor core and pangenomes reveal determinants for noncellulosomal thermophilic deconstruction of plant biomass.

Blumer-Schuette SE, Giannone RJ, Zurawski JV, Ozdemir I, Ma Q, Yin Y, Xu Y, Kataeva I, Poole FL 2nd, Adams MW, Hamilton-Brehm SD, Elkins JG, Larimer FW, Land ML, Hauser LJ, Cottingham RW, Hettich RL, Kelly RM.

J Bacteriol. 2012 Aug;194(15):4015-28. doi: 10.1128/JB.00266-12. Epub 2012 May 25.

3.

Complete genome sequence of the filamentous anoxygenic phototrophic bacterium Chloroflexus aurantiacus.

Tang KH, Barry K, Chertkov O, Dalin E, Han CS, Hauser LJ, Honchak BM, Karbach LE, Land ML, Lapidus A, Larimer FW, Mikhailova N, Pitluck S, Pierson BK, Blankenship RE.

BMC Genomics. 2011 Jun 29;12:334. doi: 10.1186/1471-2164-12-334.

4.

Complete genome sequence of the anaerobic, halophilic alkalithermophile Natranaerobius thermophilus JW/NM-WN-LF.

Zhao B, Mesbah NM, Dalin E, Goodwin L, Nolan M, Pitluck S, Chertkov O, Brettin TS, Han J, Larimer FW, Land ML, Hauser L, Kyrpides N, Wiegel J.

J Bacteriol. 2011 Aug;193(15):4023-4. doi: 10.1128/JB.05157-11. Epub 2011 Jun 3.

5.

Genome Sequence of the ethene- and vinyl chloride-oxidizing actinomycete Nocardioides sp. strain JS614.

Coleman NV, Wilson NL, Barry K, Brettin TS, Bruce DC, Copeland A, Dalin E, Detter JC, Del Rio TG, Goodwin LA, Hammon NM, Han S, Hauser LJ, Israni S, Kim E, Kyrpides N, Land ML, Lapidus A, Larimer FW, Lucas S, Pitluck S, Richardson P, Schmutz J, Tapia R, Thompson S, Tice HN, Spain JC, Gossett JG, Mattes TE.

J Bacteriol. 2011 Jul;193(13):3399-400. doi: 10.1128/JB.05109-11. Epub 2011 May 6.

6.

Genome sequence of Chthoniobacter flavus Ellin428, an aerobic heterotrophic soil bacterium.

Kant R, van Passel MW, Palva A, Lucas S, Lapidus A, Glavina del Rio T, Dalin E, Tice H, Bruce D, Goodwin L, Pitluck S, Larimer FW, Land ML, Hauser L, Sangwan P, de Vos WM, Janssen PH, Smidt H.

J Bacteriol. 2011 Jun;193(11):2902-3. doi: 10.1128/JB.00295-11. Epub 2011 Apr 1.

7.

Genome sequence of "Pedosphaera parvula" Ellin514, an aerobic Verrucomicrobial isolate from pasture soil.

Kant R, van Passel MW, Sangwan P, Palva A, Lucas S, Copeland A, Lapidus A, Glavina del Rio T, Dalin E, Tice H, Bruce D, Goodwin L, Pitluck S, Chertkov O, Larimer FW, Land ML, Hauser L, Brettin TS, Detter JC, Han S, de Vos WM, Janssen PH, Smidt H.

J Bacteriol. 2011 Jun;193(11):2900-1. doi: 10.1128/JB.00299-11. Epub 2011 Apr 1.

8.

Genome sequence of the verrucomicrobium Opitutus terrae PB90-1, an abundant inhabitant of rice paddy soil ecosystems.

van Passel MW, Kant R, Palva A, Copeland A, Lucas S, Lapidus A, Glavina del Rio T, Pitluck S, Goltsman E, Clum A, Sun H, Schmutz J, Larimer FW, Land ML, Hauser L, Kyrpides N, Mikhailova N, Richardson PP, Janssen PH, de Vos WM, Smidt H.

J Bacteriol. 2011 May;193(9):2367-8. doi: 10.1128/JB.00228-11. Epub 2011 Mar 11.

9.

Genome sequence of Victivallis vadensis ATCC BAA-548, an anaerobic bacterium from the phylum Lentisphaerae, isolated from the human gastrointestinal tract.

van Passel MW, Kant R, Palva A, Lucas S, Copeland A, Lapidus A, Glavina del Rio T, Dalin E, Tice H, Bruce D, Goodwin L, Pitluck S, Davenport KW, Sims D, Brettin TS, Detter JC, Han S, Larimer FW, Land ML, Hauser L, Kyrpides N, Ovchinnikova G, Richardson PP, de Vos WM, Smidt H, Zoetendal EG.

J Bacteriol. 2011 May;193(9):2373-4. doi: 10.1128/JB.00271-11. Epub 2011 Mar 11.

10.

Prodigal: prokaryotic gene recognition and translation initiation site identification.

Hyatt D, Chen GL, Locascio PF, Land ML, Larimer FW, Hauser LJ.

BMC Bioinformatics. 2010 Mar 8;11:119. doi: 10.1186/1471-2105-11-119.

11.

Multiple genome sequences reveal adaptations of a phototrophic bacterium to sediment microenvironments.

Oda Y, Larimer FW, Chain PS, Malfatti S, Shin MV, Vergez LM, Hauser L, Land ML, Braatsch S, Beatty JT, Pelletier DA, Schaefer AL, Harwood CS.

Proc Natl Acad Sci U S A. 2008 Nov 25;105(47):18543-8. doi: 10.1073/pnas.0809160105. Epub 2008 Nov 19.

12.

A general system for studying protein-protein interactions in Gram-negative bacteria.

Pelletier DA, Hurst GB, Foote LJ, Lankford PK, McKeown CK, Lu TY, Schmoyer DD, Shah MB, Hervey WJ 4th, McDonald WH, Hooker BS, Cannon WR, Daly DS, Gilmore JM, Wiley HS, Auberry DL, Wang Y, Larimer FW, Kennel SJ, Doktycz MJ, Morrell-Falvey JL, Owens ET, Buchanan MV.

J Proteome Res. 2008 Aug;7(8):3319-28. doi: 10.1021/pr8001832. Epub 2008 Jul 1.

PMID:
18590317
13.

Complete genome sequence of Nitrosospira multiformis, an ammonia-oxidizing bacterium from the soil environment.

Norton JM, Klotz MG, Stein LY, Arp DJ, Bottomley PJ, Chain PS, Hauser LJ, Land ML, Larimer FW, Shin MW, Starkenburg SR.

Appl Environ Microbiol. 2008 Jun;74(11):3559-72. doi: 10.1128/AEM.02722-07. Epub 2008 Apr 4.

14.

Complete genome sequence of Nitrobacter hamburgensis X14 and comparative genomic analysis of species within the genus Nitrobacter.

Starkenburg SR, Larimer FW, Stein LY, Klotz MG, Chain PS, Sayavedra-Soto LA, Poret-Peterson AT, Gentry ME, Arp DJ, Ward B, Bottomley PJ.

Appl Environ Microbiol. 2008 May;74(9):2852-63. doi: 10.1128/AEM.02311-07. Epub 2008 Mar 7.

15.

Genome of the epsilonproteobacterial chemolithoautotroph Sulfurimonas denitrificans.

Sievert SM, Scott KM, Klotz MG, Chain PS, Hauser LJ, Hemp J, Hügler M, Land M, Lapidus A, Larimer FW, Lucas S, Malfatti SA, Meyer F, Paulsen IT, Ren Q, Simon J; USF Genomics Class.

Appl Environ Microbiol. 2008 Feb;74(4):1145-56. Epub 2007 Dec 7.

16.

Whole-genome analysis of the ammonia-oxidizing bacterium, Nitrosomonas eutropha C91: implications for niche adaptation.

Stein LY, Arp DJ, Berube PM, Chain PS, Hauser L, Jetten MS, Klotz MG, Larimer FW, Norton JM, Op den Camp HJ, Shin M, Wei X.

Environ Microbiol. 2007 Dec;9(12):2993-3007.

PMID:
17991028
17.

Whole-genome analysis of the methyl tert-butyl ether-degrading beta-proteobacterium Methylibium petroleiphilum PM1.

Kane SR, Chakicherla AY, Chain PS, Schmidt R, Shin MW, Legler TC, Scow KM, Larimer FW, Lucas SM, Richardson PM, Hristova KR.

J Bacteriol. 2007 Mar;189(5):1931-45. Epub 2006 Dec 8. Erratum in: J Bacteriol. 2007 Jul;189(13):4973.

18.

The genome of deep-sea vent chemolithoautotroph Thiomicrospira crunogena XCL-2.

Scott KM, Sievert SM, Abril FN, Ball LA, Barrett CJ, Blake RA, Boller AJ, Chain PS, Clark JA, Davis CR, Detter C, Do KF, Dobrinski KP, Faza BI, Fitzpatrick KA, Freyermuth SK, Harmer TL, Hauser LJ, Hügler M, Kerfeld CA, Klotz MG, Kong WW, Land M, Lapidus A, Larimer FW, Longo DL, Lucas S, Malfatti SA, Massey SE, Martin DD, McCuddin Z, Meyer F, Moore JL, Ocampo LH Jr, Paul JH, Paulsen IT, Reep DK, Ren Q, Ross RL, Sato PY, Thomas P, Tinkham LE, Zeruth GT.

PLoS Biol. 2006 Nov;4(12):e383.

19.

Complete genome sequence of the marine, chemolithoautotrophic, ammonia-oxidizing bacterium Nitrosococcus oceani ATCC 19707.

Klotz MG, Arp DJ, Chain PS, El-Sheikh AF, Hauser LJ, Hommes NG, Larimer FW, Malfatti SA, Norton JM, Poret-Peterson AT, Vergez LM, Ward BB.

Appl Environ Microbiol. 2006 Sep;72(9):6299-315.

20.

Genome sequence of the chemolithoautotrophic nitrite-oxidizing bacterium Nitrobacter winogradskyi Nb-255.

Starkenburg SR, Chain PS, Sayavedra-Soto LA, Hauser L, Land ML, Larimer FW, Malfatti SA, Klotz MG, Bottomley PJ, Arp DJ, Hickey WJ.

Appl Environ Microbiol. 2006 Mar;72(3):2050-63.

21.

Determination and comparison of the baseline proteomes of the versatile microbe Rhodopseudomonas palustris under its major metabolic states.

VerBerkmoes NC, Shah MB, Lankford PK, Pelletier DA, Strader MB, Tabb DL, McDonald WH, Barton JW, Hurst GB, Hauser L, Davison BH, Beatty JT, Harwood CS, Tabita FR, Hettich RL, Larimer FW.

J Proteome Res. 2006 Feb;5(2):287-98.

PMID:
16457594
22.

The genome sequence of the obligately chemolithoautotrophic, facultatively anaerobic bacterium Thiobacillus denitrificans.

Beller HR, Chain PS, Letain TE, Chakicherla A, Larimer FW, Richardson PM, Coleman MA, Wood AP, Kelly DP.

J Bacteriol. 2006 Feb;188(4):1473-88.

23.

Whole-genome analyses of speciation events in pathogenic Brucellae.

Chain PS, Comerci DJ, Tolmasky ME, Larimer FW, Malfatti SA, Vergez LM, Aguero F, Land ML, Ugalde RA, Garcia E.

Infect Immun. 2005 Dec;73(12):8353-61.

24.

The home stretch, a first analysis of the nearly completed genome of Rhodobacter sphaeroides 2.4.1.

Mackenzie C, Choudhary M, Larimer FW, Predki PF, Stilwagen S, Armitage JP, Barber RD, Donohue TJ, Hosler JP, Newman JE, Shapleigh JP, Sockett RE, Zeilstra-Ryalls J, Kaplan S.

Photosynth Res. 2001;70(1):19-41.

PMID:
16228360
25.

Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations.

Kolker E, Picone AF, Galperin MY, Romine MF, Higdon R, Makarova KS, Kolker N, Anderson GA, Qiu X, Auberry KJ, Babnigg G, Beliaev AS, Edlefsen P, Elias DA, Gorby YA, Holzman T, Klappenbach JA, Konstantinidis KT, Land ML, Lipton MS, McCue LA, Monroe M, Pasa-Tolic L, Pinchuk G, Purvine S, Serres MH, Tsapin S, Zakrajsek BA, Zhu W, Zhou J, Larimer FW, Lawrence CE, Riley M, Collart FR, Yates JR 3rd, Smith RD, Giometti CS, Nealson KH, Fredrickson JK, Tiedje JM.

Proc Natl Acad Sci U S A. 2005 Feb 8;102(6):2099-104. Epub 2005 Jan 31.

26.

Evaluation of "shotgun" proteomics for identification of biological threat agents in complex environmental matrixes: experimental simulations.

Verberkmoes NC, Hervey WJ, Shah M, Land M, Hauser L, Larimer FW, Van Berkel GJ, Goeringer DE.

Anal Chem. 2005 Feb 1;77(3):923-32.

PMID:
15679362
27.

Characterization of the 70S Ribosome from Rhodopseudomonas palustris using an integrated "top-down" and "bottom-up" mass spectrometric approach.

Strader MB, Verberkmoes NC, Tabb DL, Connelly HM, Barton JW, Bruce BD, Pelletier DA, Davison BH, Hettich RL, Larimer FW, Hurst GB.

J Proteome Res. 2004 Sep-Oct;3(5):965-78.

PMID:
15473684
28.

Complete genome sequence of the genetically tractable hydrogenotrophic methanogen Methanococcus maripaludis.

Hendrickson EL, Kaul R, Zhou Y, Bovee D, Chapman P, Chung J, Conway de Macario E, Dodsworth JA, Gillett W, Graham DE, Hackett M, Haydock AK, Kang A, Land ML, Levy R, Lie TJ, Major TA, Moore BC, Porat I, Palmeiri A, Rouse G, Saenphimmachak C, Söll D, Van Dien S, Wang T, Whitman WB, Xia Q, Zhang Y, Larimer FW, Olson MV, Leigh JA.

J Bacteriol. 2004 Oct;186(20):6956-69.

29.

The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism.

Armbrust EV, Berges JA, Bowler C, Green BR, Martinez D, Putnam NH, Zhou S, Allen AE, Apt KE, Bechner M, Brzezinski MA, Chaal BK, Chiovitti A, Davis AK, Demarest MS, Detter JC, Glavina T, Goodstein D, Hadi MZ, Hellsten U, Hildebrand M, Jenkins BD, Jurka J, Kapitonov VV, Kröger N, Lau WW, Lane TW, Larimer FW, Lippmeier JC, Lucas S, Medina M, Montsant A, Obornik M, Parker MS, Palenik B, Pazour GJ, Richardson PM, Rynearson TA, Saito MA, Schwartz DC, Thamatrakoln K, Valentin K, Vardi A, Wilkerson FP, Rokhsar DS.

Science. 2004 Oct 1;306(5693):79-86.

30.

Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis.

Chain PS, Carniel E, Larimer FW, Lamerdin J, Stoutland PO, Regala WM, Georgescu AM, Vergez LM, Land ML, Motin VL, Brubaker RR, Fowler J, Hinnebusch J, Marceau M, Medigue C, Simonet M, Chenal-Francisque V, Souza B, Dacheux D, Elliott JM, Derbise A, Hauser LJ, Garcia E.

Proc Natl Acad Sci U S A. 2004 Sep 21;101(38):13826-31. Epub 2004 Sep 9.

31.

Construction and validation of the Rhodobacter sphaeroides 2.4.1 DNA microarray: transcriptome flexibility at diverse growth modes.

Pappas CT, Sram J, Moskvin OV, Ivanov PS, Mackenzie RC, Choudhary M, Land ML, Larimer FW, Kaplan S, Gomelsky M.

J Bacteriol. 2004 Jul;186(14):4748-58.

32.

Complete genome sequence of the metabolically versatile photosynthetic bacterium Rhodopseudomonas palustris.

Larimer FW, Chain P, Hauser L, Lamerdin J, Malfatti S, Do L, Land ML, Pelletier DA, Beatty JT, Lang AS, Tabita FR, Gibson JL, Hanson TE, Bobst C, Torres JL, Peres C, Harrison FH, Gibson J, Harwood CS.

Nat Biotechnol. 2004 Jan;22(1):55-61. Epub 2003 Dec 14.

PMID:
14704707
33.

Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation.

Rocap G, Larimer FW, Lamerdin J, Malfatti S, Chain P, Ahlgren NA, Arellano A, Coleman M, Hauser L, Hess WR, Johnson ZI, Land M, Lindell D, Post AF, Regala W, Shah M, Shaw SL, Steglich C, Sullivan MB, Ting CS, Tolonen A, Webb EA, Zinser ER, Chisholm SW.

Nature. 2003 Aug 28;424(6952):1042-7. Epub 2003 Aug 13.

34.

The genome of a motile marine Synechococcus.

Palenik B, Brahamsha B, Larimer FW, Land M, Hauser L, Chain P, Lamerdin J, Regala W, Allen EE, McCarren J, Paulsen I, Dufresne A, Partensky F, Webb EA, Waterbury J.

Nature. 2003 Aug 28;424(6952):1037-42. Epub 2003 Aug 13.

35.

The development of two flanking SCAR markers linked to a sex determination locus in Salix viminalis L.

Gunter LE, Roberts GT, Lee K, Larimer FW, Tuskan GA.

J Hered. 2003 Mar-Apr;94(2):185-9.

PMID:
12721232
36.

Genomes to Life "Center for Molecular and Cellular Systems": a research program for identification and characterization of protein complexes.

Buchanan MV, Larimer FW, Wiley HS, Kennel SJ, Squier TJ, Ramsey JM, Rodland KD, Hurst GB, Smith RD, Xu Y, Dixon D, Doktycz MJ, Colson S, Gesteland R, Giometti C, Young M, Giddings M.

OMICS. 2002;6(4):287-303.

PMID:
12630408
38.
39.

Identification of a catalytic aspartyl residue of D-ribulose 5-phosphate 3-epimerase by site-directed mutagenesis.

Chen YR, Larimer FW, Serpersu EH, Hartman FC.

J Biol Chem. 1999 Jan 22;274(4):2132-6.

40.

Comparative analyses of the secondary structures of synthetic and intracellular yeast MFA2 mRNAs.

Doktycz MJ, Larimer FW, Pastrnak M, Stevens A.

Proc Natl Acad Sci U S A. 1998 Dec 8;95(25):14614-21.

42.

Roles and microenvironments of tryptophanyl residues of spinach phosphoribulokinase.

Brandes HK, Larimer FW, Lu TY, Dey J, Hartman FC.

Arch Biochem Biophys. 1998 Apr 1;352(1):130-6.

PMID:
9521825
43.
44.

Mapping individual cosmid DNAs by direct AFM imaging.

Allison DP, Kerper PS, Doktycz MJ, Thundat T, Modrich P, Larimer FW, Johnson DK, Hoyt PR, Mucenski ML, Warmack RJ.

Genomics. 1997 May 1;41(3):379-84.

PMID:
9169135
45.

Identification of residues of spinach thioredoxin f that influence interactions with target enzymes.

Geck MK, Larimer FW, Hartman FC.

J Biol Chem. 1996 Oct 4;271(40):24736-40.

46.

Direct atomic force microscope imaging of EcoRI endonuclease site specifically bound to plasmid DNA molecules.

Allison DP, Kerper PS, Doktycz MJ, Spain JA, Modrich P, Larimer FW, Thundat T, Warmack RJ.

Proc Natl Acad Sci U S A. 1996 Aug 20;93(17):8826-9.

48.

The molecular pathway for the regulation of phosphoribulokinase by thioredoxin f.

Brandes HK, Larimer FW, Hartman FC.

J Biol Chem. 1996 Feb 16;271(7):3333-5.

49.

Analysis of spontaneous frameshift mutations in REV1 and rev1-1 strains of Saccharomyces cerevisiae.

Kalinowski DP, Larimer FW, Plewa MJ.

Mutat Res. 1995 Sep;331(1):149-59.

PMID:
7666862
50.

Supplemental Content

Loading ...
Support Center