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Items: 1 to 50 of 69

1.

Soil aggregate microbial communities: Towards understanding microbiome interactions at biologically relevant scales.

Wilpiszeski RL, Aufrecht JA, Retterer ST, Sullivan MB, Graham DE, Pierce EM, Zablocki OD, Palumbo AV, Elias DA.

Appl Environ Microbiol. 2019 May 10. pii: AEM.00324-19. doi: 10.1128/AEM.00324-19. [Epub ahead of print] Review.

2.

Carbon Amendments Alter Microbial Community Structure and Net Mercury Methylation Potential in Sediments.

Christensen GA, Somenahally AC, Moberly JG, Miller CM, King AJ, Gilmour CC, Brown SD, Podar M, Brandt CC, Brooks SC, Palumbo AV, Wall JD, Elias DA.

Appl Environ Microbiol. 2018 Jan 17;84(3). pii: e01049-17. doi: 10.1128/AEM.01049-17. Print 2018 Feb 1.

3.

Temporal Dynamics of In-Field Bioreactor Populations Reflect the Groundwater System and Respond Predictably to Perturbation.

King AJ, Preheim SP, Bailey KL, Robeson MS 2nd, Roy Chowdhury T, Crable BR, Hurt RA Jr, Mehlhorn T, Lowe KA, Phelps TJ, Palumbo AV, Brandt CC, Brown SD, Podar M, Zhang P, Lancaster WA, Poole F, Watson DB, W Fields M, Chandonia JM, Alm EJ, Zhou J, Adams MW, Hazen TC, Arkin AP, Elias DA.

Environ Sci Technol. 2017 Mar 7;51(5):2879-2889. doi: 10.1021/acs.est.6b04751. Epub 2017 Feb 10.

4.

Development and Validation of Broad-Range Qualitative and Clade-Specific Quantitative Molecular Probes for Assessing Mercury Methylation in the Environment.

Christensen GA, Wymore AM, King AJ, Podar M, Hurt RA Jr, Santillan EU, Soren A, Brandt CC, Brown SD, Palumbo AV, Wall JD, Gilmour CC, Elias DA.

Appl Environ Microbiol. 2016 Sep 16;82(19):6068-78. doi: 10.1128/AEM.01271-16. Print 2016 Oct 1.

5.

Global prevalence and distribution of genes and microorganisms involved in mercury methylation.

Podar M, Gilmour CC, Brandt CC, Soren A, Brown SD, Crable BR, Palumbo AV, Somenahally AC, Elias DA.

Sci Adv. 2015 Oct 9;1(9):e1500675. doi: 10.1126/sciadv.1500675. eCollection 2015 Oct.

6.

Changes in northern Gulf of Mexico sediment bacterial and archaeal communities exposed to hypoxia.

Devereux R, Mosher JJ, Vishnivetskaya TA, Brown SD, Beddick DL Jr, Yates DF, Palumbo AV.

Geobiology. 2015 Sep;13(5):478-93. doi: 10.1111/gbi.12142. Epub 2015 May 5.

PMID:
25939270
7.

Community analysis of plant biomass-degrading microorganisms from Obsidian Pool, Yellowstone National Park.

Vishnivetskaya TA, Hamilton-Brehm SD, Podar M, Mosher JJ, Palumbo AV, Phelps TJ, Keller M, Elkins JG.

Microb Ecol. 2015 Feb;69(2):333-45. doi: 10.1007/s00248-014-0500-8. Epub 2014 Oct 16.

PMID:
25319238
8.

Hexavalent chromium reduction under fermentative conditions with lactate stimulated native microbial communities.

Somenahally AC, Mosher JJ, Yuan T, Podar M, Phelps TJ, Brown SD, Yang ZK, Hazen TC, Arkin AP, Palumbo AV, Van Nostrand JD, Zhou J, Elias DA.

PLoS One. 2013 Dec 23;8(12):e83909. doi: 10.1371/journal.pone.0083909. eCollection 2013.

9.

Draft Genome Sequence for Caulobacter sp. Strain OR37, a Bacterium Tolerant to Heavy Metals.

Utturkar SM, Bollmann A, Brzoska RM, Klingeman DM, Epstein SE, Palumbo AV, Brown SD.

Genome Announc. 2013 Jun 27;1(3). pii: e00322-13. doi: 10.1128/genomeA.00322-13.

10.

Draft Genome Sequence for Ralstonia sp. Strain OR214, a Bacterium with Potential for Bioremediation.

Utturkar SM, Bollmann A, Brzoska RM, Klingeman DM, Epstein SE, Palumbo AV, Brown SD.

Genome Announc. 2013 Jun 27;1(3). pii: e00321-13. doi: 10.1128/genomeA.00321-13.

11.

The genetic basis for bacterial mercury methylation.

Parks JM, Johs A, Podar M, Bridou R, Hurt RA Jr, Smith SD, Tomanicek SJ, Qian Y, Brown SD, Brandt CC, Palumbo AV, Smith JC, Wall JD, Elias DA, Liang L.

Science. 2013 Mar 15;339(6125):1332-5. doi: 10.1126/science.1230667. Epub 2013 Feb 7.

12.

Draft genome sequences for two metal-reducing Pelosinus fermentans strains isolated from a Cr(VI)-contaminated site and for type strain R7.

Brown SD, Podar M, Klingeman DM, Johnson CM, Yang ZK, Utturkar SM, Land ML, Mosher JJ, Hurt RA Jr, Phelps TJ, Palumbo AV, Arkin AP, Hazen TC, Elias DA.

J Bacteriol. 2012 Sep;194(18):5147-8. doi: 10.1128/JB.01174-12.

13.

Gene Expression Correlates with Process Rates Quantified for Sulfate- and Fe(III)-Reducing Bacteria in U(VI)-Contaminated Sediments.

Akob DM, Lee SH, Sheth M, Küsel K, Watson DB, Palumbo AV, Kostka JE, Chin KJ.

Front Microbiol. 2012 Aug 9;3:280. doi: 10.3389/fmicb.2012.00280. eCollection 2012.

14.

Sequencing intractable DNA to close microbial genomes.

Hurt RA Jr, Brown SD, Podar M, Palumbo AV, Elias DA.

PLoS One. 2012;7(7):e41295. doi: 10.1371/journal.pone.0041295. Epub 2012 Jul 31.

15.

Genome sequences for six Rhodanobacter strains, isolated from soils and the terrestrial subsurface, with variable denitrification capabilities.

Kostka JE, Green SJ, Rishishwar L, Prakash O, Katz LS, Mariño-Ramírez L, Jordan IK, Munk C, Ivanova N, Mikhailova N, Watson DB, Brown SD, Palumbo AV, Brooks SC.

J Bacteriol. 2012 Aug;194(16):4461-2. doi: 10.1128/JB.00871-12.

16.

Host genetic and environmental effects on mouse intestinal microbiota.

Campbell JH, Foster CM, Vishnivetskaya T, Campbell AG, Yang ZK, Wymore A, Palumbo AV, Chesler EJ, Podar M.

ISME J. 2012 Nov;6(11):2033-44. doi: 10.1038/ismej.2012.54. Epub 2012 Jun 14.

17.

Draft genome sequence for Microbacterium laevaniformans strain OR221, a bacterium tolerant to metals, nitrate, and low pH.

Brown SD, Palumbo AV, Panikov N, Ariyawansa T, Klingeman DM, Johnson CM, Land ML, Utturkar SM, Epstein SS.

J Bacteriol. 2012 Jun;194(12):3279-80. doi: 10.1128/JB.00474-12.

18.

Role of morphological growth state and gene expression in Desulfovibrio africanus strain Walvis Bay mercury methylation.

Moberly JG, Miller CL, Brown SD, Biswas A, Brandt CC, Palumbo AV, Elias DA.

Environ Sci Technol. 2012 May 1;46(9):4926-32. doi: 10.1021/es3000933. Epub 2012 Apr 20.

PMID:
22500779
19.

Microbial community succession during lactate amendment and electron acceptor limitation reveals a predominance of metal-reducing Pelosinus spp.

Mosher JJ, Phelps TJ, Podar M, Hurt RA Jr, Campbell JH, Drake MM, Moberly JG, Schadt CW, Brown SD, Hazen TC, Arkin AP, Palumbo AV, Faybishenko BA, Elias DA.

Appl Environ Microbiol. 2012 Apr;78(7):2082-91. doi: 10.1128/AEM.07165-11. Epub 2012 Jan 20.

20.

Linking specific heterotrophic bacterial populations to bioreduction of uranium and nitrate in contaminated subsurface sediments by using stable isotope probing.

Akob DM, Kerkhof L, Küsel K, Watson DB, Palumbo AV, Kostka JE.

Appl Environ Microbiol. 2011 Nov;77(22):8197-200. doi: 10.1128/AEM.05247-11. Epub 2011 Sep 23.

21.

Complete genome sequence and updated annotation of Desulfovibrio alaskensis G20.

Hauser LJ, Land ML, Brown SD, Larimer F, Keller KL, Rapp-Giles BJ, Price MN, Lin M, Bruce DC, Detter JC, Tapia R, Han CS, Goodwin LA, Cheng JF, Pitluck S, Copeland A, Lucas S, Nolan M, Lapidus AL, Palumbo AV, Wall JD.

J Bacteriol. 2011 Aug;193(16):4268-9. doi: 10.1128/JB.05400-11. Epub 2011 Jun 17.

22.

Genome sequence of the mercury-methylating and pleomorphic Desulfovibrio africanus Strain Walvis Bay.

Brown SD, Wall JD, Kucken AM, Gilmour CC, Podar M, Brandt CC, Teshima H, Detter JC, Han CS, Land ML, Lucas S, Han J, Pennacchio L, Nolan M, Pitluck S, Woyke T, Goodwin L, Palumbo AV, Elias DA.

J Bacteriol. 2011 Aug;193(15):4037-8. doi: 10.1128/JB.05223-11. Epub 2011 Jun 3.

23.

Sulfate-reducing bacterium Desulfovibrio desulfuricans ND132 as a model for understanding bacterial mercury methylation.

Gilmour CC, Elias DA, Kucken AM, Brown SD, Palumbo AV, Schadt CW, Wall JD.

Appl Environ Microbiol. 2011 Jun;77(12):3938-51. doi: 10.1128/AEM.02993-10. Epub 2011 Apr 22.

24.

Genome sequence of the mercury-methylating strain Desulfovibrio desulfuricans ND132.

Brown SD, Gilmour CC, Kucken AM, Wall JD, Elias DA, Brandt CC, Podar M, Chertkov O, Held B, Bruce DC, Detter JC, Tapia R, Han CS, Goodwin LA, Cheng JF, Pitluck S, Woyke T, Mikhailova N, Ivanova NN, Han J, Lucas S, Lapidus AL, Land ML, Hauser LJ, Palumbo AV.

J Bacteriol. 2011 Apr;193(8):2078-9. doi: 10.1128/JB.00170-11. Epub 2011 Feb 25.

25.

Mercury and other heavy metals influence bacterial community structure in contaminated Tennessee streams.

Vishnivetskaya TA, Mosher JJ, Palumbo AV, Yang ZK, Podar M, Brown SD, Brooks SC, Gu B, Southworth GR, Drake MM, Brandt CC, Elias DA.

Appl Environ Microbiol. 2011 Jan;77(1):302-11. doi: 10.1128/AEM.01715-10. Epub 2010 Nov 5.

26.

Isolation and physiology of bacteria from contaminated subsurface sediments.

Bollmann A, Palumbo AV, Lewis K, Epstein SS.

Appl Environ Microbiol. 2010 Nov;76(22):7413-9. doi: 10.1128/AEM.00376-10. Epub 2010 Sep 24.

27.

Complete genome sequence of the cellulolytic thermophile Caldicellulosiruptor obsidiansis OB47T.

Elkins JG, Lochner A, Hamilton-Brehm SD, Davenport KW, Podar M, Brown SD, Land ML, Hauser LJ, Klingeman DM, Raman B, Goodwin LA, Tapia R, Meincke LJ, Detter JC, Bruce DC, Han CS, Palumbo AV, Cottingham RW, Keller M, Graham DE.

J Bacteriol. 2010 Nov;192(22):6099-100. doi: 10.1128/JB.00950-10. Epub 2010 Sep 17.

28.

Characterization of archaeal community in contaminated and uncontaminated surface stream sediments.

Porat I, Vishnivetskaya TA, Mosher JJ, Brandt CC, Yang ZK, Brooks SC, Liang L, Drake MM, Podar M, Brown SD, Palumbo AV.

Microb Ecol. 2010 Nov;60(4):784-95. doi: 10.1007/s00248-010-9734-2. Epub 2010 Aug 20.

29.

Microbial community changes in response to ethanol or methanol amendments for U(VI) reduction.

Vishnivetskaya TA, Brandt CC, Madden AS, Drake MM, Kostka JE, Akob DM, Küsel K, Palumbo AV.

Appl Environ Microbiol. 2010 Sep;76(17):5728-35. doi: 10.1128/AEM.00308-10. Epub 2010 Jul 2.

30.

Establishment and metabolic analysis of a model microbial community for understanding trophic and electron accepting interactions of subsurface anaerobic environments.

Miller LD, Mosher JJ, Venkateswaran A, Yang ZK, Palumbo AV, Phelps TJ, Podar M, Schadt CW, Keller M.

BMC Microbiol. 2010 May 24;10:149. doi: 10.1186/1471-2180-10-149.

31.

Denitrifying bacteria isolated from terrestrial subsurface sediments exposed to mixed-waste contamination.

Green SJ, Prakash O, Gihring TM, Akob DM, Jasrotia P, Jardine PM, Watson DB, Brown SD, Palumbo AV, Kostka JE.

Appl Environ Microbiol. 2010 May;76(10):3244-54. doi: 10.1128/AEM.03069-09. Epub 2010 Mar 19.

32.

Adhesion of spores of Bacillus thuringiensis on a planar surface.

Chung E, Kweon H, Yiacoumi S, Lee I, Joy DC, Palumbo AV, Tsouris C.

Environ Sci Technol. 2010 Jan 1;44(1):290-6. doi: 10.1021/es902070b.

PMID:
19928904
33.

Functional gene array-based analysis of microbial community structure in groundwaters with a gradient of contaminant levels.

Waldron PJ, Wu L, Van Nostrand JD, Schadt CW, He Z, Watson DB, Jardine PM, Palumbo AV, Hazen TC, Zhou J.

Environ Sci Technol. 2009 May 15;43(10):3529-34.

PMID:
19544850
34.

Snapshot of iron response in Shewanella oneidensis by gene network reconstruction.

Yang Y, Harris DP, Luo F, Xiong W, Joachimiak M, Wu L, Dehal P, Jacobsen J, Yang Z, Palumbo AV, Arkin AP, Zhou J.

BMC Genomics. 2009 Mar 25;10:131. doi: 10.1186/1471-2164-10-131.

35.

Transcriptomic and metabolomic profiling of Zymomonas mobilis during aerobic and anaerobic fermentations.

Yang S, Tschaplinski TJ, Engle NL, Carroll SL, Martin SL, Davison BH, Palumbo AV, Rodriguez M Jr, Brown SD.

BMC Genomics. 2009 Jan 20;10:34. doi: 10.1186/1471-2164-10-34.

36.

Donor-dependent extent of uranium reduction for bioremediation of contaminated sediment microcosms.

Madden AS, Palumbo AV, Ravel B, Vishnivetskaya TA, Phelps TJ, Schadt CW, Brandt CC.

J Environ Qual. 2009 Jan 13;38(1):53-60. doi: 10.2134/jeq2008.0071. Print 2009 Jan-Feb.

PMID:
19141795
37.

Characterization of the Shewanella oneidensis Fur gene: roles in iron and acid tolerance response.

Yang Y, Harris DP, Luo F, Wu L, Parsons AB, Palumbo AV, Zhou J.

BMC Genomics. 2008;9 Suppl 1:S11. doi: 10.1186/1471-2164-9-S1-S11.

38.

Functional diversity and electron donor dependence of microbial populations capable of U(VI) reduction in radionuclide-contaminated subsurface sediments.

Akob DM, Mills HJ, Gihring TM, Kerkhof L, Stucki JW, Anastácio AS, Chin KJ, Küsel K, Palumbo AV, Watson DB, Kostka JE.

Appl Environ Microbiol. 2008 May;74(10):3159-70. doi: 10.1128/AEM.02881-07. Epub 2008 Mar 31.

39.

Micron-pore-sized metallic filter tube membranes for filtration of particulates and water purification.

Phelps TJ, Palumbo AV, Bischoff BL, Miller CJ, Fagan LA, McNeilly MS, Judkins RR.

J Microbiol Methods. 2008 Jul;74(1):10-6. Epub 2007 Aug 24.

PMID:
17884208
40.

Application of nonlinear analysis methods for identifying relationships between microbial community structure and groundwater geochemistry.

Schryver JC, Brandt CC, Pfiffner SM, Palumbo AV, Peacock AD, White DC, McKinley JP, Long PE.

Microb Ecol. 2006 Feb;51(2):177-88. Epub 2006 Jan 31.

PMID:
16435170
41.

Confidence intervals of similarity values determined for cloned SSU rRNA genes from environmental samples.

Fields MW, Schryver JC, Brandt CC, Yan T, Zhou JZ, Palumbo AV.

J Microbiol Methods. 2006 Apr;65(1):144-52. Epub 2005 Aug 3.

PMID:
16083982
42.

Coupling of functional gene diversity and geochemical data from environmental samples.

Palumbo AV, Schryver JC, Fields MW, Bagwell CE, Zhou JZ, Yan T, Liu X, Brandt CC.

Appl Environ Microbiol. 2004 Nov;70(11):6525-34.

43.

Microbial diversity and heterogeneity in sandy subsurface soils.

Zhou J, Xia B, Huang H, Palumbo AV, Tiedje JM.

Appl Environ Microbiol. 2004 Mar;70(3):1723-34.

44.

Molecular diversity of denitrifying genes in continental margin sediments within the oxygen-deficient zone off the Pacific coast of Mexico.

Liu X, Tiquia SM, Holguin G, Wu L, Nold SC, Devol AH, Luo K, Palumbo AV, Tiedje JM, Zhou J.

Appl Environ Microbiol. 2003 Jun;69(6):3549-60.

45.

Laser-induced breakdown spectroscopy for the environmental determination of total carbon and nitrogen in soils.

Martin MZ, Wullschleger SD, Garten CT Jr, Palumbo AV.

Appl Opt. 2003 Apr 20;42(12):2072-7.

PMID:
12716147
46.

Introduction of a plasmid-encoded phoA gene for constitutive overproduction of alkaline phosphatase in three subsurface Pseudomonas isolates.

Powers LG, Mills HJ, Palumbo AV, Zhang C, Delaney K, Sobecky PA.

FEMS Microbiol Ecol. 2002 Aug 1;41(2):115-23. doi: 10.1111/j.1574-6941.2002.tb00972.x.

47.
48.

Spatial and resource factors influencing high microbial diversity in soil.

Zhou J, Xia B, Treves DS, Wu LY, Marsh TL, O'Neill RV, Palumbo AV, Tiedje JM.

Appl Environ Microbiol. 2002 Jan;68(1):326-34.

49.

Simultaneous recovery of RNA and DNA from soils and sediments.

Hurt RA, Qiu X, Wu L, Roh Y, Palumbo AV, Tiedje JM, Zhou J.

Appl Environ Microbiol. 2001 Oct;67(10):4495-503.

50.

Evaluation of PCR-generated chimeras, mutations, and heteroduplexes with 16S rRNA gene-based cloning.

Qiu X, Wu L, Huang H, McDonel PE, Palumbo AV, Tiedje JM, Zhou J.

Appl Environ Microbiol. 2001 Feb;67(2):880-7.

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