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Correction to: Genomic and metatranscriptomic analyses of carbon remineralization in an Antarctic polynya.

Kim SJ, Kim JG, Lee SH, Park SJ, Gwak JH, Jung MY, Chung WH, Yang EJ, Park J, Jung J, Hahn Y, Cho JC, Madsen EL, Rodriguez-Valera F, Hyun JH, Rhee SK.

Microbiome. 2019 Mar 11;7(1):38. doi: 10.1186/s40168-019-0655-0.


Genomic and metatranscriptomic analyses of carbon remineralization in an Antarctic polynya.

Kim SJ, Kim JG, Lee SH, Park SJ, Gwak JH, Jung MY, Chung WH, Yang EJ, Park J, Jung J, Hahn Y, Cho JC, Madsen EL, Rodriguez-Valera F, Hyun JH, Rhee SK.

Microbiome. 2019 Feb 20;7(1):29. doi: 10.1186/s40168-019-0643-4. Erratum in: Microbiome. 2019 Mar 11;7(1):38.


Benzene Degradation by a Variovorax Species within a Coal Tar-Contaminated Groundwater Microbial Community.

Posman KM, DeRito CM, Madsen EL.

Appl Environ Microbiol. 2017 Feb 1;83(4). pii: e02658-16. doi: 10.1128/AEM.02658-16. Print 2017 Feb 15.


A hydrophobic ammonia-oxidizing archaeon of the Nitrosocosmicus clade isolated from coal tar-contaminated sediment.

Jung MY, Kim JG, Sinninghe Damsté JS, Rijpstra WI, Madsen EL, Kim SJ, Hong H, Si OJ, Kerou M, Schleper C, Rhee SK.

Environ Microbiol Rep. 2016 Dec;8(6):983-992. doi: 10.1111/1758-2229.12477. Epub 2016 Oct 24.


Hydrogen peroxide detoxification is a key mechanism for growth of ammonia-oxidizing archaea.

Kim JG, Park SJ, Sinninghe Damsté JS, Schouten S, Rijpstra WI, Jung MY, Kim SJ, Gwak JH, Hong H, Si OJ, Lee S, Madsen EL, Rhee SK.

Proc Natl Acad Sci U S A. 2016 Jul 12;113(28):7888-93. doi: 10.1073/pnas.1605501113. Epub 2016 Jun 23.


Role of Glyoxylate Shunt in Oxidative Stress Response.

Ahn S, Jung J, Jang IA, Madsen EL, Park W.

J Biol Chem. 2016 May 27;291(22):11928-38. doi: 10.1074/jbc.M115.708149. Epub 2016 Apr 1.


Genome-wide transcriptional responses of Alteromonas naphthalenivorans SN2 to contaminated seawater and marine tidal flat sediment.

Jin HM, Jeong HI, Kim KH, Hahn Y, Madsen EL, Jeon CO.

Sci Rep. 2016 Feb 18;6:21796. doi: 10.1038/srep21796.


High resolution depth distribution of Bacteria, Archaea, methanotrophs, and methanogens in the bulk and rhizosphere soils of a flooded rice paddy.

Lee HJ, Jeong SE, Kim PJ, Madsen EL, Jeon CO.

Front Microbiol. 2015 Jun 25;6:639. doi: 10.3389/fmicb.2015.00639. eCollection 2015.


Defining motivational intensity of need for family planning in Africa.

Kuang B, Ross J, Madsen EL.

Afr J Reprod Health. 2014 Sep;18(3):57-66.


Recovery of plasmid pEMB1, whose toxin-antitoxin system stabilizes an ampicillin resistance-conferring β-lactamase gene in Escherichia coli, from natural environments.

Lee HJ, Jin HM, Park MS, Park W, Madsen EL, Jeon CO.

Appl Environ Microbiol. 2015 Jan;81(1):40-7. doi: 10.1128/AEM.02691-14. Epub 2014 Oct 10.


Genomes of two new ammonia-oxidizing archaea enriched from deep marine sediments.

Park SJ, Ghai R, Martín-Cuadrado AB, Rodríguez-Valera F, Chung WH, Kwon K, Lee JH, Madsen EL, Rhee SK.

PLoS One. 2014 May 5;9(5):e96449. doi: 10.1371/journal.pone.0096449. eCollection 2014.


Low-echo sphere phantoms and methods for assessing imaging performance of medical ultrasound scanners.

Madsen EL, Song C, Frank GR.

Ultrasound Med Biol. 2014 Jul;40(7):1697-717. doi: 10.1016/j.ultrasmedbio.2014.02.011. Epub 2014 Apr 24.


Tracking changes in states of contraceptive use over time in sub-Saharan Africa through cohort and period analyses.

Madsen EL, Kuang B, Ross J.

J Biosoc Sci. 2015 May;47(3):329-44. doi: 10.1017/S0021932014000108. Epub 2014 Mar 27.


Microbial community dynamics and stability during an ammonia-induced shift to syntrophic acetate oxidation.

Werner JJ, Garcia ML, Perkins SD, Yarasheski KE, Smith SR, Muegge BD, Stadermann FJ, DeRito CM, Floss C, Madsen EL, Gordon JI, Angenent LT.

Appl Environ Microbiol. 2014 Jun;80(11):3375-83. doi: 10.1128/AEM.00166-14. Epub 2014 Mar 21.


An uncultivated nitrate-reducing member of the genus Herminiimonas degrades toluene.

Kim SJ, Park SJ, Jung MY, Kim JG, Madsen EL, Rhee SK.

Appl Environ Microbiol. 2014 May;80(10):3233-43. doi: 10.1128/AEM.03975-13. Epub 2014 Mar 14.


Metaproteomic survey of six aquatic habitats: discovering the identities of microbial populations active in biogeochemical cycling.

Hanson BT, Hewson I, Madsen EL.

Microb Ecol. 2014 Apr;67(3):520-39. doi: 10.1007/s00248-013-0346-5. Epub 2014 Jan 15.


Methane emission and dynamics of methanotrophic and methanogenic communities in a flooded rice field ecosystem.

Lee HJ, Kim SY, Kim PJ, Madsen EL, Jeon CO.

FEMS Microbiol Ecol. 2014 Apr;88(1):195-212. doi: 10.1111/1574-6941.12282. Epub 2014 Feb 5.


Evaluation of the impact of backscatter intensity variations on ultrasound attenuation estimation.

Omari EA, Varghese T, Madsen EL, Frank G.

Med Phys. 2013 Aug;40(8):082904. doi: 10.1118/1.4816305.


Metatranscriptomic analysis of lactic acid bacterial gene expression during kimchi fermentation.

Jung JY, Lee SH, Jin HM, Hahn Y, Madsen EL, Jeon CO.

Int J Food Microbiol. 2013 May 15;163(2-3):171-9. doi: 10.1016/j.ijfoodmicro.2013.02.022. Epub 2013 Mar 6.


Comparison of ultrasound attenuation and backscatter estimates in layered tissue-mimicking phantoms among three clinical scanners.

Nam K, Rosado-Mendez IM, Wirtzfeld LA, Ghoshal G, Pawlicki AD, Madsen EL, Lavarello RJ, Oelze ML, Zagzebski JA, O'Brien WD Jr, Hall TJ.

Ultrason Imaging. 2012 Oct;34(4):209-21. doi: 10.1177/0161734612464451.


Comparative genomic analysis and benzene, toluene, ethylbenzene, and o-, m-, and p-xylene (BTEX) degradation pathways of Pseudoxanthomonas spadix BD-a59.

Choi EJ, Jin HM, Lee SH, Math RK, Madsen EL, Jeon CO.

Appl Environ Microbiol. 2013 Jan;79(2):663-71. doi: 10.1128/AEM.02809-12. Epub 2012 Nov 16.


In situ microbial metabolism of aromatic-hydrocarbon environmental pollutants.

Jeon CO, Madsen EL.

Curr Opin Biotechnol. 2013 Jun;24(3):474-81. doi: 10.1016/j.copbio.2012.09.001. Epub 2012 Sep 19. Review.


Cross-imaging system comparison of backscatter coefficient estimates from a tissue-mimicking material.

Nam K, Rosado-Mendez IM, Wirtzfeld LA, Kumar V, Madsen EL, Ghoshal G, Pawlicki AD, Oelze ML, Lavarello RJ, Bigelow TA, Zagzebski JA, O'Brien WD Jr, Hall TJ.

J Acoust Soc Am. 2012 Sep;132(3):1319-24. doi: 10.1121/1.4742725.


A nonlinear elasticity phantom containing spherical inclusions.

Pavan TZ, Madsen EL, Frank GR, Jiang J, Carneiro AA, Hall TJ.

Phys Med Biol. 2012 Aug 7;57(15):4787-804. doi: 10.1088/0031-9155/57/15/4787. Epub 2012 Jul 6.


Alteromonas as a key agent of polycyclic aromatic hydrocarbon biodegradation in crude oil-contaminated coastal sediment.

Jin HM, Kim JM, Lee HJ, Madsen EL, Jeon CO.

Environ Sci Technol. 2012 Jul 17;46(14):7731-40. doi: 10.1021/es3018545. Epub 2012 Jun 27.


Comparative survey of rumen microbial communities and metabolites across one caprine and three bovine groups, using bar-coded pyrosequencing and ¹H nuclear magnetic resonance spectroscopy.

Lee HJ, Jung JY, Oh YK, Lee SS, Madsen EL, Jeon CO.

Appl Environ Microbiol. 2012 Sep;78(17):5983-93. doi: 10.1128/AEM.00104-12. Epub 2012 Jun 15.


Comparative genomics reveals adaptation by Alteromonas sp. SN2 to marine tidal-flat conditions: cold tolerance and aromatic hydrocarbon metabolism.

Math RK, Jin HM, Kim JM, Hahn Y, Park W, Madsen EL, Jeon CO.

PLoS One. 2012;7(4):e35784. doi: 10.1371/journal.pone.0035784. Epub 2012 Apr 26.


Ultrasound attenuation measurements using a reference phantom with sound speed mismatch.

Nam K, Rosado-Mendez IM, Rubert NC, Madsen EL, Zagzebski JA, Hall TJ.

Ultrason Imaging. 2011 Oct;33(4):251-63.


Ultrasonic attenuation and backscatter coefficient estimates of rodent-tumor-mimicking structures: comparison of results among clinical scanners.

Nam K, Rosado-Mendez IM, Wirtzfeld LA, Pawlicki AD, Kumar V, Madsen EL, Ghoshal G, Lavarello RJ, Oelze ML, Bigelow TA, Zagzebski JA, O'Brien WD Jr, Hall TJ.

Ultrason Imaging. 2011 Oct;33(4):233-50.


Cultivation of a highly enriched ammonia-oxidizing archaeon of thaumarchaeotal group I.1b from an agricultural soil.

Kim JG, Jung MY, Park SJ, Rijpstra WI, Sinninghe Damsté JS, Madsen EL, Min D, Kim JS, Kim GJ, Rhee SK.

Environ Microbiol. 2012 Jun;14(6):1528-43. doi: 10.1111/j.1462-2920.2012.02740.x. Epub 2012 Apr 20.


Analysis of shear strain imaging for classifying breast masses: finite element and phantom results.

Xu H, Varghese T, Madsen EL.

Med Phys. 2011 Nov;38(11):6119-27. doi: 10.1118/1.3651461.


Enrichment and characterization of an autotrophic ammonia-oxidizing archaeon of mesophilic crenarchaeal group I.1a from an agricultural soil.

Jung MY, Park SJ, Min D, Kim JS, Rijpstra WI, Sinninghe Damsté JS, Kim GJ, Madsen EL, Rhee SK.

Appl Environ Microbiol. 2011 Dec;77(24):8635-47. doi: 10.1128/AEM.05787-11. Epub 2011 Oct 14.


Absolute backscatter coefficient estimates of tissue-mimicking phantoms in the 5-50 MHz frequency range.

McCormick MM, Madsen EL, Deaner ME, Varghese T.

J Acoust Soc Am. 2011 Aug;130(2):737-43. doi: 10.1121/1.3605669.


Comparative genomic analysis of Acinetobacter oleivorans DR1 to determine strain-specific genomic regions and gentisate biodegradation.

Jung J, Madsen EL, Jeon CO, Park W.

Appl Environ Microbiol. 2011 Oct;77(20):7418-24. doi: 10.1128/AEM.05231-11. Epub 2011 Aug 19.


Gentisate 1,2-dioxygenase, in the third naphthalene catabolic gene cluster of Polaromonas naphthalenivorans CJ2, has a role in naphthalene degradation.

Lee HJ, Kim JM, Lee SH, Park M, Lee K, Madsen EL, Jeon CO.

Microbiology. 2011 Oct;157(Pt 10):2891-903. doi: 10.1099/mic.0.049387-0. Epub 2011 Jul 7.


Properties of phantom tissuelike polymethylpentene in the frequency range 20-70 MHZ.

Madsen EL, Deaner ME, Mehi J.

Ultrasound Med Biol. 2011 Aug;37(8):1327-39. doi: 10.1016/j.ultrasmedbio.2011.05.023.


EHPC 2010: sharing knowledge on environmental health for risk mitigation.

Ford TE, Bass AL, Cheng S, Cherr GN, Cole B, Fairbairn E, Gu JD, Halbrook RS, Löffler FE, Madsen EL, McGinn NA.

Ecotoxicology. 2011 Jul;20(5):937-9. doi: 10.1007/s10646-011-0656-7. Epub 2011 Mar 30. No abstract available.


Microorganisms and their roles in fundamental biogeochemical cycles.

Madsen EL.

Curr Opin Biotechnol. 2011 Jun;22(3):456-64. doi: 10.1016/j.copbio.2011.01.008. Epub 2011 Feb 16. Review.


Metagenomic analysis of kimchi, a traditional Korean fermented food.

Jung JY, Lee SH, Kim JM, Park MS, Bae JW, Hahn Y, Madsen EL, Jeon CO.

Appl Environ Microbiol. 2011 Apr;77(7):2264-74. doi: 10.1128/AEM.02157-10. Epub 2011 Feb 11.


Shear wave velocity imaging using transient electrode perturbation: phantom and ex vivo validation.

DeWall RJ, Varghese T, Madsen EL.

IEEE Trans Med Imaging. 2011 Mar;30(3):666-78. doi: 10.1109/TMI.2010.2091412. Epub 2010 Nov 11.


Ultrasonic backscatter coefficients for weakly scattering, agar spheres in agar phantoms.

King MR, Anderson JJ, Herd MT, Ma D, Haak A, Wirtzfeld LA, Madsen EL, Zagzebski JA, Oelze ML, Hall TJ, O'Brien WD Jr.

J Acoust Soc Am. 2010 Aug;128(2):903-8. doi: 10.1121/1.3460109.


Interlaboratory comparison of backscatter coefficient estimates for tissue-mimicking phantoms.

Anderson JJ, Herd MT, King MR, Haak A, Hafez ZT, Song J, Oelze ML, Madsen EL, Zagzebski JA, O'Brien WD Jr, Hall TJ.

Ultrason Imaging. 2010 Jan;32(1):48-64.


Supraclavicular recurrence after early breast cancer: a curable condition?

Pedersen AN, Møller S, Steffensen KD, Haahr V, Jensen M, Kempel MM, Jepsen SL, Madsen EL, Roslind A, Sandberg E, Schöllkopf C, Sørensen PG, Windfeldt KM, Andersson M.

Breast Cancer Res Treat. 2011 Feb;125(3):815-22. doi: 10.1007/s10549-010-0918-8. Epub 2010 May 8.


Nonlinear elastic behavior of phantom materials for elastography.

Pavan TZ, Madsen EL, Frank GR, Adilton O Carneiro A, Hall TJ.

Phys Med Biol. 2010 May 7;55(9):2679-92. doi: 10.1088/0031-9155/55/9/017. Epub 2010 Apr 19.


Investigating the biodegradability of perfluorooctanoic acid.

Liou JS, Szostek B, DeRito CM, Madsen EL.

Chemosphere. 2010 Jun;80(2):176-83. doi: 10.1016/j.chemosphere.2010.03.009. Epub 2010 Apr 3.


Subsurface cycling of nitrogen and anaerobic aromatic hydrocarbon biodegradation revealed by nucleic Acid and metabolic biomarkers.

Yagi JM, Suflita JM, Gieg LM, DeRito CM, Jeon CO, Madsen EL.

Appl Environ Microbiol. 2010 May;76(10):3124-34. doi: 10.1128/AEM.00172-10. Epub 2010 Mar 26.


Subsurface ecosystem resilience: long-term attenuation of subsurface contaminants supports a dynamic microbial community.

Yagi JM, Neuhauser EF, Ripp JA, Mauro DM, Madsen EL.

ISME J. 2010 Jan;4(1):131-43. doi: 10.1038/ismej.2009.101. Epub 2009 Sep 24.


Diversity, abundance, and consistency of microbial oxygenase expression and biodegradation in a shallow contaminated aquifer.

Yagi JM, Madsen EL.

Appl Environ Microbiol. 2009 Oct;75(20):6478-87. doi: 10.1128/AEM.01091-09. Epub 2009 Aug 21.


The genome of Polaromonas naphthalenivorans strain CJ2, isolated from coal tar-contaminated sediment, reveals physiological and metabolic versatility and evolution through extensive horizontal gene transfer.

Yagi JM, Sims D, Brettin T, Bruce D, Madsen EL.

Environ Microbiol. 2009 Sep;11(9):2253-70. doi: 10.1111/j.1462-2920.2009.01947.x. Epub 2009 May 18.


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