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Items: 1 to 50 of 170

1.

68Ga-PSMA PET/CT compared with MRI/CT and diffusion-weighted MRI for primary lymph node staging prior to definitive radiotherapy in prostate cancer: a prospective diagnostic test accuracy study.

Petersen LJ, Nielsen JB, Langkilde NC, Petersen A, Afshar-Oromieh A, De Souza NM, De Paepe K, Fisker RV, Arp DT, Carl J, Haberkorn U, Zacho HD.

World J Urol. 2019 Jun 12. doi: 10.1007/s00345-019-02846-z. [Epub ahead of print]

PMID:
31190153
2.

Prospective comparison of 68Ga-PSMA PET/CT, 18F-sodium fluoride PET/CT and diffusion weighted-MRI at for the detection of bone metastases in biochemically recurrent prostate cancer.

Zacho HD, Nielsen JB, Afshar-Oromieh A, Haberkorn U, deSouza N, De Paepe K, Dettmann K, Langkilde NC, Haarmark C, Fisker RV, Arp DT, Carl J, Jensen JB, Petersen LJ.

Eur J Nucl Med Mol Imaging. 2018 Oct;45(11):1884-1897. doi: 10.1007/s00259-018-4058-4. Epub 2018 Jun 6.

PMID:
29876619
3.

Stress response of a marine ammonia-oxidizing archaeon informs physiological status of environmental populations.

Qin W, Amin SA, Lundeen RA, Heal KR, Martens-Habbena W, Turkarslan S, Urakawa H, Costa KC, Hendrickson EL, Wang T, Beck DA, Tiquia-Arashiro SM, Taub F, Holmes AD, Vajrala N, Berube PM, Lowe TM, Moffett JW, Devol AH, Baliga NS, Arp DJ, Sayavedra-Soto LA, Hackett M, Armbrust EV, Ingalls AE, Stahl DA.

ISME J. 2018 Feb;12(2):508-519. doi: 10.1038/ismej.2017.186. Epub 2017 Oct 20.

4.

Nitrobacter winogradskyi transcriptomic response to low and high ammonium concentrations.

Sayavedra-Soto L, Ferrell R, Dobie M, Mellbye B, Chaplen F, Buchanan A, Chang J, Bottomley P, Arp D.

FEMS Microbiol Lett. 2015 Jan;362(3):1-7. doi: 10.1093/femsle/fnu040. Epub 2014 Dec 4.

5.

Interactions of Nitrosomonas europaea and Nitrobacter winogradskyi grown in co-culture.

Pérez J, Buchanan A, Mellbye B, Ferrell R, Chang JH, Chaplen F, Bottomley PJ, Arp DJ, Sayavedra-Soto LA.

Arch Microbiol. 2015 Jan;197(1):79-89. doi: 10.1007/s00203-014-1056-1. Epub 2014 Nov 2.

PMID:
25362506
6.

Cycloheximide prevents the de novo polypeptide synthesis required to recover from acetylene inhibition in Nitrosopumilus maritimus.

Vajrala N, Bottomley PJ, Stahl DA, Arp DJ, Sayavedra-Soto LA.

FEMS Microbiol Ecol. 2014 Jun;88(3):495-502. doi: 10.1111/1574-6941.12316. Epub 2014 Mar 24.

7.

Complete genome sequence of Nitrosomonas sp. Is79, an ammonia oxidizing bacterium adapted to low ammonium concentrations.

Bollmann A, Sedlacek CJ, Norton J, Laanbroek HJ, Suwa Y, Stein LY, Klotz MG, Arp D, Sayavedra-Soto L, Lu M, Bruce D, Detter C, Tapia R, Han J, Woyke T, Lucas SM, Pitluck S, Pennacchio L, Nolan M, Land ML, Huntemann M, Deshpande S, Han C, Chen A, Kyrpides N, Mavromatis K, Markowitz V, Szeto E, Ivanova N, Mikhailova N, Pagani I, Pati A, Peters L, Ovchinnikova G, Goodwin LA.

Stand Genomic Sci. 2013 Feb 25;7(3):469-82. doi: 10.4056/sigs.3517166. eCollection 2013.

8.

Use of aliphatic n-alkynes to discriminate soil nitrification activities of ammonia-oxidizing thaumarchaea and bacteria.

Taylor AE, Vajrala N, Giguere AT, Gitelman AI, Arp DJ, Myrold DD, Sayavedra-Soto L, Bottomley PJ.

Appl Environ Microbiol. 2013 Nov;79(21):6544-51. doi: 10.1128/AEM.01928-13. Epub 2013 Aug 16.

9.

Characterization of a nitrite reductase involved in nitrifier denitrification.

Lawton TJ, Bowen KE, Sayavedra-Soto LA, Arp DJ, Rosenzweig AC.

J Biol Chem. 2013 Aug 30;288(35):25575-83. doi: 10.1074/jbc.M113.484543. Epub 2013 Jul 15.

10.

The Draft Genome Sequence of Nocardioides sp. Strain CF8 Reveals the Scope of Its Metabolic Capabilities.

Kimbrel JA, Chang J, Arp DJ, Sayavedra-Soto LA.

Genome Announc. 2013 Jul 5;1(4). pii: e00439-13. doi: 10.1128/genomeA.00439-13.

11.

Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments.

Zhalnina K, de Quadros PD, Gano KA, Davis-Richardson A, Fagen JR, Brown CT, Giongo A, Drew JC, Sayavedra-Soto LA, Arp DJ, Camargo FA, Daroub SH, Clark IM, McGrath SP, Hirsch PR, Triplett EW.

Front Microbiol. 2013 May 1;4:104. doi: 10.3389/fmicb.2013.00104. eCollection 2013.

12.

Hydroxylamine as an intermediate in ammonia oxidation by globally abundant marine archaea.

Vajrala N, Martens-Habbena W, Sayavedra-Soto LA, Schauer A, Bottomley PJ, Stahl DA, Arp DJ.

Proc Natl Acad Sci U S A. 2013 Jan 15;110(3):1006-11. doi: 10.1073/pnas.1214272110. Epub 2012 Dec 31.

13.

Urethra sparing - potential of combined Nickel-Titanium stent and intensity modulated radiation therapy in prostate cancer.

Thomsen JB, Arp DT, Carl J.

Radiother Oncol. 2012 May;103(2):256-60. doi: 10.1016/j.radonc.2011.11.015. Epub 2011 Dec 24.

PMID:
22197354
14.

Global analysis of the Nitrosomonas europaea iron starvation stimulon.

Vajrala N, Sayavedra-Soto LA, Bottomley PJ, Arp DJ.

Arch Microbiol. 2012 Apr;194(4):305-13. doi: 10.1007/s00203-011-0778-6. Epub 2011 Dec 16.

PMID:
22173827
15.

Symerythrin structures at atomic resolution and the origins of rubrerythrins and the ferritin-like superfamily.

Cooley RB, Arp DJ, Karplus PA.

J Mol Biol. 2011 Oct 14;413(1):177-94. doi: 10.1016/j.jmb.2011.08.019. Epub 2011 Aug 19.

16.

Genome sequence of Nitrosomonas sp. strain AL212, an ammonia-oxidizing bacterium sensitive to high levels of ammonia.

Suwa Y, Norton JM, Bollmann A, Klotz MG, Stein LY, Laanbroek HJ, Arp DJ, Goodwin LA, Chertkov O, Held B, Bruce D, Detter JC, Detter JC, Tapia R, Han CS.

J Bacteriol. 2011 Sep;193(18):5047-8. doi: 10.1128/JB.05521-11. Erratum in: J Bacteriol. 2011 Nov;193(21):6112. Yuichi, Suwa [corrected to Suwa, Yuichi].

17.

The membrane-associated monooxygenase in the butane-oxidizing Gram-positive bacterium Nocardioides sp. strain CF8 is a novel member of the AMO/PMO family.

Sayavedra-Soto LA, Hamamura N, Liu CW, Kimbrel JA, Chang JH, Arp DJ.

Environ Microbiol Rep. 2011 Jun;3(3):390-6. doi: 10.1111/j.1758-2229.2010.00239.x. Epub 2011 Jan 26.

PMID:
23761285
18.

A diiron protein autogenerates a valine-phenylalanine cross-link.

Cooley RB, Rhoads TW, Arp DJ, Karplus PA.

Science. 2011 May 20;332(6032):929. doi: 10.1126/science.1205687.

19.

Role of a Fur homolog in iron metabolism in Nitrosomonas europaea.

Vajrala N, Sayavedra-Soto LA, Bottomley PJ, Arp DJ.

BMC Microbiol. 2011 Feb 21;11:37. doi: 10.1186/1471-2180-11-37.

20.

Dissecting iron uptake and homeostasis in Nitrosomonas europaea.

Sayavedra-Soto LA, Vajrala N, Arp DJ.

Methods Enzymol. 2011;486:403-28. doi: 10.1016/B978-0-12-381294-0.00018-3.

PMID:
21185446
21.

Evolutionary origin of a secondary structure: π-helices as cryptic but widespread insertional variations of α-helices that enhance protein functionality.

Cooley RB, Arp DJ, Karplus PA.

J Mol Biol. 2010 Nov 26;404(2):232-46. doi: 10.1016/j.jmb.2010.09.034. Epub 2010 Oct 1.

22.

Computational prediction and transcriptional analysis of sRNAs in Nitrosomonas europaea.

Gvakharia BO, Tjaden B, Vajrala N, Sayavedra-Soto LA, Arp DJ.

FEMS Microbiol Lett. 2010 Nov;312(1):46-54. doi: 10.1111/j.1574-6968.2010.02095.x. Epub 2010 Sep 14.

23.

Role of Nitrosomonas europaea NitABC iron transporter in the uptake of Fe3+-siderophore complexes.

Vajrala N, Sayavedra-Soto LA, Bottomley PJ, Arp DJ.

Arch Microbiol. 2010 Nov;192(11):899-908. doi: 10.1007/s00203-010-0620-6. Epub 2010 Aug 25.

PMID:
20737137
24.

Extending the alkene substrate range of vinyl chloride utilizing Nocardioides sp. strain JS614 with ethene oxide.

Taylor AE, Arp DJ, Bottomley PJ, Semprini L.

Appl Microbiol Biotechnol. 2010 Aug;87(6):2293-302. doi: 10.1007/s00253-010-2719-8. Epub 2010 Jun 27.

PMID:
20582588
25.

Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea.

Walker CB, de la Torre JR, Klotz MG, Urakawa H, Pinel N, Arp DJ, Brochier-Armanet C, Chain PS, Chan PP, Gollabgir A, Hemp J, Hügler M, Karr EA, Könneke M, Shin M, Lawton TJ, Lowe T, Martens-Habbena W, Sayavedra-Soto LA, Lang D, Sievert SM, Rosenzweig AC, Manning G, Stahl DA.

Proc Natl Acad Sci U S A. 2010 May 11;107(19):8818-23. doi: 10.1073/pnas.0913533107. Epub 2010 Apr 26.

26.

Nitrification and degradation of halogenated hydrocarbons--a tenuous balance for ammonia-oxidizing bacteria.

Sayavedra-Soto LA, Gvakharia B, Bottomley PJ, Arp DJ, Dolan ME.

Appl Microbiol Biotechnol. 2010 Mar;86(2):435-44. doi: 10.1007/s00253-010-2454-1. Epub 2010 Feb 10. Review.

PMID:
20146060
27.

Growth of a non-methanotroph on natural gas: ignoring the obvious to focus on the obscure.

Cooley RB, Bottomley PJ, Arp DJ.

Environ Microbiol Rep. 2009 Oct;1(5):408-13. doi: 10.1111/j.1758-2229.2009.00060.x. Epub 2009 Aug 13.

PMID:
23765894
28.

Thauera butanivorans sp. nov., a C2-C9 alkane-oxidizing bacterium previously referred to as 'Pseudomonas butanovora'.

Dubbels BL, Sayavedra-Soto LA, Bottomley PJ, Arp DJ.

Int J Syst Evol Microbiol. 2009 Jul;59(Pt 7):1576-8. doi: 10.1099/ijs.0.000638-0. Epub 2009 Jun 15.

29.

Kinetic characterization of the soluble butane monooxygenase from Thauera butanivorans, formerly 'Pseudomonas butanovora'.

Cooley RB, Dubbels BL, Sayavedra-Soto LA, Bottomley PJ, Arp DJ.

Microbiology. 2009 Jun;155(Pt 6):2086-96. doi: 10.1099/mic.0.028175-0. Epub 2009 Apr 21.

30.

Construction of recombinant Nitrosomonas europaea expressing green fluorescent protein in response to co-oxidation of chloroform.

Gvakharia BO, Bottomley PJ, Arp DJ, Sayavedra-Soto LA.

Appl Microbiol Biotechnol. 2009 Apr;82(6):1179-85. doi: 10.1007/s00253-009-1914-y. Epub 2009 Feb 27.

PMID:
19247648
31.

Crystal structure of a two-domain multicopper oxidase: implications for the evolution of multicopper blue proteins.

Lawton TJ, Sayavedra-Soto LA, Arp DJ, Rosenzweig AC.

J Biol Chem. 2009 Apr 10;284(15):10174-80. doi: 10.1074/jbc.M900179200. Epub 2009 Feb 17.

32.

Expression of a putative nitrite reductase and the reversible inhibition of nitrite-dependent respiration by nitric oxide in Nitrobacter winogradskyi Nb-255.

Starkenburg SR, Arp DJ, Bottomley PJ.

Environ Microbiol. 2008 Nov;10(11):3036-42. doi: 10.1111/j.1462-2920.2008.01763.x.

PMID:
18973623
33.

D-Lactate metabolism and the obligate requirement for CO2 during growth on nitrite by the facultative lithoautotroph Nitrobacter hamburgensis.

Starkenburg SR, Arp DJ, Bottomley PJ.

Microbiology. 2008 Aug;154(Pt 8):2473-81. doi: 10.1099/mic.0.2008/018085-0.

PMID:
18667580
34.

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.

35.

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.

36.

Evidence for involvement of copper ions and redox state in regulation of butane monooxygenase in Pseudomonas butanovora.

Doughty DM, Kurth EG, Sayavedra-Soto LA, Arp DJ, Bottomley PJ.

J Bacteriol. 2008 Apr;190(8):2933-8. doi: 10.1128/JB.01409-07. Epub 2008 Feb 15.

37.

Involvement of BmoR and BmoG in n-alkane metabolism in 'Pseudomonas butanovora'.

Kurth EG, Doughty DM, Bottomley PJ, Arp DJ, Sayavedra-Soto LA.

Microbiology. 2008 Jan;154(Pt 1):139-47. doi: 10.1099/mic.0.2007/012724-0.

PMID:
18174133
38.

Characterization of the ferrioxamine uptake system of Nitrosomonas europaea.

Wei X, Sayavedra-Soto LA, Arp DJ.

Microbiology. 2007 Dec;153(Pt 12):3963-72.

PMID:
18048911
39.

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
40.

Propionate inactivation of butane monooxygenase activity in 'Pseudomonas butanovora': biochemical and physiological implications.

Doughty DM, Halsey KH, Vieville CJ, Sayavedra-Soto LA, Arp DJ, Bottomley PJ.

Microbiology. 2007 Nov;153(Pt 11):3722-9.

PMID:
17975080
41.
42.

The impact of genome analyses on our understanding of ammonia-oxidizing bacteria.

Arp DJ, Chain PS, Klotz MG.

Annu Rev Microbiol. 2007;61:503-28. Review.

PMID:
17506671
43.
44.

Global transcriptional response of Nitrosomonas europaea to chloroform and chloromethane.

Gvakharia BO, Permina EA, Gelfand MS, Bottomley PJ, Sayavedra-Soto LA, Arp DJ.

Appl Environ Microbiol. 2007 May;73(10):3440-5. Epub 2007 Mar 16.

45.

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.

46.

Iron nutrition and physiological responses to iron stress in Nitrosomonas europaea.

Wei X, Vajrala N, Hauser L, Sayavedra-Soto LA, Arp DJ.

Arch Microbiol. 2006 Aug;186(2):107-18. Epub 2006 Jun 21.

PMID:
16802173
48.

Transcript profiles of Nitrosomonas europaea during growth and upon deprivation of ammonia and carbonate.

Wei X, Yan T, Hommes NG, Liu X, Wu L, McAlvin C, Klotz MG, Sayavedra-Soto LA, Zhou J, Arp DJ.

FEMS Microbiol Lett. 2006 Apr;257(1):76-83.

49.

Product repression of alkane monooxygenase expression in Pseudomonas butanovora.

Doughty DM, Sayavedra-Soto LA, Arp DJ, Bottomley PJ.

J Bacteriol. 2006 Apr;188(7):2586-92.

50.

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