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Items: 49

1.

Alexa fluor-labeled fluorescent cellulose nanocrystals for bioimaging solid cellulose in spatially structured microenvironments.

Grate JW, Mo KF, Shin Y, Vasdekis A, Warner MG, Kelly RT, Orr G, Hu D, Dehoff KJ, Brockman FJ, Wilkins MJ.

Bioconjug Chem. 2015 Mar 18;26(3):593-601. doi: 10.1021/acs.bioconjchem.5b00048. Epub 2015 Mar 2.

PMID:
25730280
2.

Global transcriptomics analysis of the Desulfovibrio vulgaris change from syntrophic growth with Methanosarcina barkeri to sulfidogenic metabolism.

Plugge CM, Scholten JC, Culley DE, Nie L, Brockman FJ, Zhang W.

Microbiology. 2010 Sep;156(Pt 9):2746-56. doi: 10.1099/mic.0.038539-0. Epub 2010 Jun 24.

PMID:
20576691
3.

Microbial dynamics in upflow anaerobic sludge blanket (UASB) bioreactor granules in response to short-term changes in substrate feed.

Kovacik WP Jr, Scholten JC, Culley D, Hickey R, Zhang W, Brockman FJ.

Microbiology. 2010 Aug;156(Pt 8):2418-27. doi: 10.1099/mic.0.036715-0. Epub 2010 Apr 29.

PMID:
20430810
4.

Use of gene probes to assess the impact and effectiveness of aerobic in situ bioremediation of TCE.

Hazen TC, Chakraborty R, Fleming JM, Gregory IR, Bowman JP, Jimenez L, Zhang D, Pfiffner SM, Brockman FJ, Sayler GS.

Arch Microbiol. 2009 Mar;191(3):221-32. doi: 10.1007/s00203-008-0445-8. Epub 2008 Nov 26.

PMID:
19034430
5.
6.

Environmental genomics reveals a single-species ecosystem deep within Earth.

Chivian D, Brodie EL, Alm EJ, Culley DE, Dehal PS, DeSantis TZ, Gihring TM, Lapidus A, Lin LH, Lowry SR, Moser DP, Richardson PM, Southam G, Wanger G, Pratt LM, Andersen GL, Hazen TC, Brockman FJ, Arkin AP, Onstott TC.

Science. 2008 Oct 10;322(5899):275-8. doi: 10.1126/science.1155495.

7.

mRNA-targeted fluorescent in situ hybridization (FISH) of Gram-negative bacteria without template amplification or tyramide signal amplification.

Coleman JR, Culley DE, Chrisler WB, Brockman FJ.

J Microbiol Methods. 2007 Dec;71(3):246-55. Epub 2007 Sep 26.

PMID:
17949838
8.

Development and assessment of whole-genome oligonucleotide microarrays to analyze an anaerobic microbial community and its responses to oxidative stress.

Scholten JC, Culley DE, Nie L, Munn KJ, Chow L, Brockman FJ, Zhang W.

Biochem Biophys Res Commun. 2007 Jun 29;358(2):571-7. Epub 2007 May 4.

PMID:
17498652
9.

Evolution of the syntrophic interaction between Desulfovibrio vulgaris and Methanosarcina barkeri: Involvement of an ancient horizontal gene transfer.

Scholten JC, Culley DE, Brockman FJ, Wu G, Zhang W.

Biochem Biophys Res Commun. 2007 Jan 5;352(1):48-54. Epub 2006 Nov 7.

PMID:
17107661
10.

LC-MS/MS based proteomic analysis and functional inference of hypothetical proteins in Desulfovibrio vulgaris.

Zhang W, Culley DE, Gritsenko MA, Moore RJ, Nie L, Scholten JC, Petritis K, Strittmatter EF, Camp DG 2nd, Smith RD, Brockman FJ.

Biochem Biophys Res Commun. 2006 Nov 3;349(4):1412-9. Epub 2006 Sep 15.

PMID:
16982031
11.

A proteomic view of Desulfovibrio vulgaris metabolism as determined by liquid chromatography coupled with tandem mass spectrometry.

Zhang W, Gritsenko MA, Moore RJ, Culley DE, Nie L, Petritis K, Strittmatter EF, Camp DG 2nd, Smith RD, Brockman FJ.

Proteomics. 2006 Aug;6(15):4286-99.

PMID:
16819729
12.

Modeling methanogenesis with a genome-scale metabolic reconstruction of Methanosarcina barkeri.

Feist AM, Scholten JC, Palsson BØ, Brockman FJ, Ideker T.

Mol Syst Biol. 2006;2:2006.0004. Epub 2006 Jan 31.

13.

Global transcriptomic analysis of Desulfovibrio vulgaris on different electron donors.

Zhang W, Culley DE, Scholten JC, Hogan M, Vitiritti L, Brockman FJ.

Antonie Van Leeuwenhoek. 2006 Feb;89(2):221-37. Epub 2006 May 5.

PMID:
16710634
14.

Oxidative stress and heat-shock responses in Desulfovibrio vulgaris by genome-wide transcriptomic analysis.

Zhang W, Culley DE, Hogan M, Vitiritti L, Brockman FJ.

Antonie Van Leeuwenhoek. 2006 Jul;90(1):41-55. Epub 2006 May 6.

PMID:
16680520
15.
16.

Optimization of RNA isolation from the archaebacterium Methanosarcina barkeri and validation for oligonucleotide microarray analysis.

Culley DE, Kovacik WP Jr, Brockman FJ, Zhang W.

J Microbiol Methods. 2006 Oct;67(1):36-43. Epub 2006 May 2.

PMID:
16631263
17.

DNA microarray analysis of anaerobic Methanosarcina barkeri reveals responses to heat shock and air exposure.

Zhang W, Culley DE, Nie L, Brockman FJ.

J Ind Microbiol Biotechnol. 2006 Sep;33(9):784-90. Epub 2006 Apr 8.

PMID:
16604357
18.
19.

Bioinformatic insights from metagenomics through visualization.

Havre SL, Webb-Robertson BJ, Shah A, Posse C, Gopalan B, Brockman FJ.

Proc IEEE Comput Syst Bioinform Conf. 2005:341-50.

PMID:
16447991
20.

Molecular analysis of deep subsurface Cretaceous rock indicates abundant Fe(III)- and S(zero)-reducing bacteria in a sulfate-rich environment.

Kovacik WP Jr, Takai K, Mormile MR, McKinley JP, Brockman FJ, Fredrickson JK, Holben WE.

Environ Microbiol. 2006 Jan;8(1):141-55.

PMID:
16343329
21.

Desulfotomaculum and Methanobacterium spp. dominate a 4- to 5-kilometer-deep fault.

Moser DP, Gihring TM, Brockman FJ, Fredrickson JK, Balkwill DL, Dollhopf ME, Lollar BS, Pratt LM, Boice E, Southam G, Wanger G, Baker BJ, Pfiffner SM, Lin LH, Onstott TC.

Appl Environ Microbiol. 2005 Dec;71(12):8773-83.

22.

Geomicrobiology of high-level nuclear waste-contaminated vadose sediments at the hanford site, washington state.

Fredrickson JK, Zachara JM, Balkwill DL, Kennedy D, Li SM, Kostandarithes HM, Daly MJ, Romine MF, Brockman FJ.

Appl Environ Microbiol. 2004 Jul;70(7):4230-41.

23.

Indigenous and contaminant microbes in ultradeep mines.

Onstott TC, Moser DP, Pfiffner SM, Fredrickson JK, Brockman FJ, Phelps TJ, White DC, Peacock A, Balkwill D, Hoover R, Krumholz LR, Borscik M, Kieft TL, Wilson R.

Environ Microbiol. 2003 Nov;5(11):1168-91.

PMID:
14641596
24.

Shifts in archaeal communities associated with lithological and geochemical variations in subsurface Cretaceous rock.

Takai K, Mormile MR, McKinley JP, Brockman FJ, Holben WE, Kovacik WP Jr, Fredrickson JK.

Environ Microbiol. 2003 Apr;5(4):309-20.

PMID:
12662178
25.

Microbial reduction of hexavalent chromium under vadose zone conditions.

Oliver DS, Brockman FJ, Bowman RS, Kieft TL.

J Environ Qual. 2003 Jan-Feb;32(1):317-24.

PMID:
12549572
26.

Direct detection of 16S rRNA in soil extracts by using oligonucleotide microarrays.

Small J, Call DR, Brockman FJ, Straub TM, Chandler DP.

Appl Environ Microbiol. 2001 Oct;67(10):4708-16.

27.

Detecting and genotyping Escherichia coli O157:H7 using multiplexed PCR and nucleic acid microarrays.

Call DR, Brockman FJ, Chandler DP.

Int J Food Microbiol. 2001 Jul 20;67(1-2):71-80.

PMID:
11482571
28.

Rotating rod renewable microcolumns for automated, solid-phase DNA hybridization studies.

Bruckner-Lea CJ, Stottlemyre MS, Holman DA, Grate JW, Brockman FJ, Chandler DP.

Anal Chem. 2000 Sep 1;72(17):4135-41.

PMID:
10994975
29.

Affinity purification of DNA and RNA from environmental samples with peptide nucleic acid clamps.

Chandler DP, Stults JR, Cebula S, Schuck BL, Weaver DW, Anderson KK, Egholm M, Brockman FJ.

Appl Environ Microbiol. 2000 Aug;66(8):3438-45.

30.

Affinity capture and recovery of DNA at femtomolar concentrations with peptide nucleic acid probes.

Chandler DP, Stults JR, Anderson KK, Cebula S, Schuck BL, Brockman FJ.

Anal Biochem. 2000 Aug 1;283(2):241-9.

PMID:
10906245
31.

Post-Sampling Changes in Microbial Community Composition and Activity in a Subsurface Paleosol

Brockman FJ, Li SW, Fredrickson JK, Ringelberg DB, Kieft TL, Spadoni CM, White DC, McKinley JP.

Microb Ecol. 1998 Sep;36(2):152-64. No abstract available.

PMID:
9688777
32.

Phylogenetic Diversity of Archaea and Bacteria in a Deep Subsurface Paleosol

Chandler DP, Brockman FJ, Bailey TJ, Fredrickson JK.

Microb Ecol. 1998 Jul;36(1):37-50. No abstract available.

PMID:
9622563
33.
35.

Assay for bacteria in porous media by diffusion-weighted NMR.

Potter K, Kleinberg RL, Brockman FJ, McFarland EW.

J Magn Reson B. 1996 Oct;113(1):9-15.

PMID:
8888588
36.
37.

Estimating biodegradative gene numbers at a JP-5 contaminated site using PCR.

Chandler DP, Brockman FJ.

Appl Biochem Biotechnol. 1996 Spring;57-58:971-82.

PMID:
8669924
38.

Microbiological Comparisons within and across Contiguous Lacustrine, Paleosol, and Fluvial Subsurface Sediments.

Kieft TL, Fredrickson JK, McKinley JP, Bjornstad BN, Rawson SA, Phelps TJ, Brockman FJ, Pfiffner SM.

Appl Environ Microbiol. 1995 Feb;61(2):749-57.

39.

Isolation and characterization of RNA from low-biomass deep-subsurface sediments.

Ogram A, Sun W, Brockman FJ, Fredrickson JK.

Appl Environ Microbiol. 1995 Feb;61(2):763-8.

40.

Microbial abundance and activities in relation to water potential in the vadose zones of arid and semiarid sites.

Kieft TL, Amy PS, Brockman FJ, Fredrickson JK, Bjornstad BN, Rosacker LL.

Microb Ecol. 1993 Jul;26(1):59-78. doi: 10.1007/BF00166030.

PMID:
24189989
41.

Effect of starvation on induction of quinoline degradation for a subsurface bacterium in a continuous-flow column.

Truex MJ, Brockman FJ, Johnstone DL, Fredrickson JK.

Appl Environ Microbiol. 1992 Aug;58(8):2386-92.

42.

Microbiology of vadose zone paleosols in south-central Washington State.

Brockman FJ, Kieft TL, Fredrickson JK, Bjornstad BN, Li SM, Spangenburg W, Long PE.

Microb Ecol. 1992 May;23(3):279-301. doi: 10.1007/BF00164101.

PMID:
24192936
43.

Isolation and characterization of a subsurface bacterium capable of growth on toluene, naphthalene, and other aromatic compounds.

Fredrickson JK, Brockman FJ, Workman DJ, Li SW, Stevens TO.

Appl Environ Microbiol. 1991 Mar;57(3):796-803.

44.

Physiological diversity and distributions of heterotrophic bacteria in deep cretaceous sediments of the atlantic coastal plain.

Fredrickson JK, Balkwill DL, Zachara JM, Li SM, Brockman FJ, Simmons MA.

Appl Environ Microbiol. 1991 Feb;57(2):402-11.

45.

Isolation and characterization of quinoline-degrading bacteria from subsurface sediments.

Brockman FJ, Denovan BA, Hicks RJ, Fredrickson JK.

Appl Environ Microbiol. 1989 Apr;55(4):1029-32.

47.

Plasmid incidence in bacteria from deep subsurface sediments.

Fredrickson JK, Hicks RJ, Li SW, Brockman FJ.

Appl Environ Microbiol. 1988 Dec;54(12):2916-23.

48.

Enumeration of Tn5 mutant bacteria in soil by using a most- probable-number-DNA hybridization procedure and antibiotic resistance.

Fredrickson JK, Bezdicek DF, Brockman FJ, Li SW.

Appl Environ Microbiol. 1988 Feb;54(2):446-53.

49.

Nitrolysis of hexamethylenetetramine; preparation of pure cyclonite.

BROCKMAN FJ, DOWNING DC, WRIGHT GF.

Can J Res. 1949 May;Sect. B 27(5):469-74. No abstract available.

PMID:
18153143

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