Katje's library 97 articles Export

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	Metatranscriptomics reveals unique microbial small RNAs in the ocean/'s water column [My Copy] Nature, Vol. 459, No. 7244. (14 May 2009), pp. 266-269. by Yanmei Shi, Gene W. Tyson, Edward F. Delong posted to diversity marine transcriptomics by Katje on 2009-05-17 17:50:28 as along with 12 people and 4 groups kinestetika gdb michaelbarton samgj vaulot absterga jmeppley Thaverkamp pengchy djkt skembel jbhiatt Papers recommended by the Roscoff Plankton Group Microbial-Ecology microbiology_nijmegen iSEEM
	Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world [My Copy] Nucl. Acids Res., Vol. 36, No. 21. (1 December 2008), pp. 6688-6719. by Eugene V. Koonin, Yuri I. Wolf posted to genome review by Katje on 2008-11-28 17:11:30 as along with 10 people and 2 groups pkm skembel Huub_odc druvus johanviklund sbottani nklee barriot neils aramata Centre de Recherches Interdisciplinaires microbiology_nijmegen
	Identifying the fundamental units of bacterial diversity: A paradigm shift to incorporate ecology into bacterial systematics [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 7. (19 February 2008), pp. 2504-2509. by Alexander Koeppel, Elizabeth B. Perry, Johannes Sikorski, et al.Danny Krizanc, Andrew Warner, David M. Ward, Alejandro P. Rooney, Evelyne Brambilla, Nora Connor, Rodney M. Ratcliff, Eviatar Nevo, Frederick M. Cohan posted to diversity ecology evolution phylogeny by Katje on 2008-11-17 15:49:11 as along with 2 people and 1 group druvus vrich microbiology_nijmegen
	Was nitric oxide the first deep electron sink? [My Copy] Trends in Biochemical Sciences (12 November 2008) by A. Ducluzeau, R. Vanlis, S. Duval, B. Schoeppcothenet, M. Russell, W. Nitschke posted to biochemistry cytochromes early_earth evolution no oxidase by Katje on 2008-11-17 10:34:55 as along with 1 group microbiology_nijmegen
	The rational exploration of microbial diversity. [My Copy] The ISME journal (24 July 2008) by Christopher Quince, Thomas P P. Curtis, William T T. Sloan posted to diversity metagenome theory by Katje on 2008-10-07 18:47:34 as along with 4 people and 1 group druvus skembel madhadron skato_toyaku microbiology_nijmegen
	Microbial diversity - insights from population genetics [My Copy] Environmental Microbiology, Vol. 0, No. 0. (0000), pp. ???-???. by Ted H. Mes posted to diversity theory by Katje on 2008-01-16 19:20:54 as along with 7 people and 3 groups skembel adgrativol jonathaneisen jmeppley kinestetika Thaverkamp Olaf_Ilzins iSEEM Microbial-Ecology microbiology_nijmegen
	Crude-oil biodegradation via methanogenesis in subsurface petroleum reservoirs : Article : Nature [My Copy] posted to alkane anaerobic marine methanogenesis by Katje on 2007-12-16 12:59:06 as
	Simultaneous analysis of microbial identity and function using NanoSIMS [My Copy] Environmental Microbiology, Vol. 0, No. 0. (0), pp. ???-???. by Tianlun Li, Ting Di Wu, Laurent Mazeas, et al.Laurent Toffin, Jean, Gerard Leblon, Theodore Bouchez posted to fish sims stable_isotopes by Katje on 2007-11-28 23:04:11 as along with 2 people and 1 group jessec Olaf_Ilzins microbiology_nijmegen
	Sustainable and efficient biohydrogen production via electrohydrogenesis [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 47. (20 November 2007), pp. 18871-18873. by Shaoan Cheng, Bruce E. Logan posted to anaerobic fuel_cells hydrogen nanowires by Katje on 2007-11-17 11:48:22 as along with 5 people wmilenka kristgy etas sidkshatriya aheilbut
	The Rough Guide to In Silico Function Prediction, or How To Use Sequence and Structure Information To Predict Protein Function [My Copy] PLoS Comput Biol, Vol. 4, No. 10. (31 October 2008), e1000160. by Marco Punta, Yanay Ofran posted to genome methods proteomics by Katje on 2008-11-25 22:11:14 as along with 19 people and 1 group pansapiens kiekyon Thaverkamp niallhaslam daforerog Zalanszabo bpcusack joseph_x_zhou taguchi sjcockell markchen ptrobajo chad_davis druvus mdstobbe giovenko nilanjanroy reyez GeeSharpMinor microbiology_nijmegen
	Impacts of Atmospheric Anthropogenic Nitrogen on the Open Ocean [My Copy] Science, Vol. 320, No. 5878. (16 May 2008), pp. 893-897. by R. A. Duce, J. Laroche, K. Altieri, et al.K. R. Arrigo, A. R. Baker, D. G. Capone, S. Cornell, F. Dentener, J. Galloway, R. S. Ganeshram, R. J. Geider, T. Jickells, M. M. Kuypers, R. Langlois, P. S. Liss, S. M. Liu, J. J. Middelburg, C. M. Moore, S. Nickovic, A. Oschlies, T. Pedersen, J. Prospero, R. Schlitzer, S. Seitzinger, L. L. Sorensen, M. Uematsu, O. Ulloa, M. Voss, B. Ward, L. Zamora posted to marine n-cycle review by Katje on 2008-05-16 10:08:23 as along with 2 people and 1 group nurban rdsaylor microbiology_nijmegen
	The biochemistry of methane oxidation. [My Copy] Annu Rev Biochem, Vol. 76 (2007), pp. 223-241. by A. S. Hakemian, A. C. Rosenzweig posted to biochemistry genome methanotrophy methylotrophy physiology review by Katje on 2007-10-28 21:47:17 as along with 1 group microbiology_nijmegen
	Microbial nanowires: Is the subsurface “hardwired”? [My Copy] Geophysical Research Letters, Vol. 34 (12 September 2007), L17305. by Dimitrios Ntarlagiannis, Estella A. Atekwana, Eric A. Hill, Yuri Gorby posted to nanowires by Katje on 2007-10-28 21:24:19 as along with 1 group microbiology_nijmegen
	Oxygen exchange between (de)nitrification intermediates and H<SUB><FONT SIZE='-1'>2</FONT></SUB>O and its implications for source determination of NO<SUB><FONT SIZE='-1'>3</FONT></SUB><SUP><FONT SIZE='-1'>-</FONT></SUP> and N<SUB><FONT SIZE='-1'>2</FONT></SUB>O: a review [My Copy] Rapid Communications in Mass Spectrometry, Vol. 21, No. 22. (2007), pp. 3569-3578. by D. M. Kool, N. Wrage, O. Oenema, J. Dolfing, J. W. Van Groenigen posted to 18o denitrification by Katje on 2007-10-28 13:03:38 as along with 1 person and 1 group kinestetika microbiology_nijmegen
	Genes encoding the candidate enzyme for anaerobic activation of n-alkanes in the denitrifying bacterium, strain HxN1. [My Copy] Environ Microbiol (24 October 2007) by Olav Grundmann, Astrid Behrends, Ralf Rabus, et al.Judith Amann, Thomas Halder, Johann Heider, Friedrich Widdel posted to alkane anaerobic denitrification glycyl-radical by Katje on 2007-10-28 12:18:09 as along with 1 group microbiology_nijmegen
	Windshield splatter analysis with the Galaxy metagenomic pipeline [My Copy] Genome Research, Vol. 19, No. 11. (9 November 2009), pp. 2144-2153. by Sergei Kosakovsky Pond, Samir Wadhawan, Francesca Chiaromonte, et al.Guruprasad Ananda, Wen-Yu Chung, James Taylor, Anton Nekrutenko posted to methods metagenome by Katje on 2009-11-09 14:50:43 as along with 8 people and 2 groups jmeppley seb1 djkt operon neils idonaldson jgill kshameer microbiology_nijmegen iSEEM
	Seasonal Dynamics and Metagenomic Characterization of Estuarine Viriobenthos Assemblages by Randomly Amplified Polymorphic DNA PCR [My Copy] Appl. Environ. Microbiol., Vol. 75, No. 8. (15 April 2009), pp. 2259-2265. by Rebekah R. Helton, K. Eric Wommack posted to virus methods by Katje on 2009-11-09 13:57:26 as
	Shifting the genomic gold standard for the prokaryotic species definition [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 45. (10 November 2009), pp. 19126-19131. by Michael Richter, Ramon RossellÃ³-MÃ³ra posted to no-tag by Katje on 2009-11-04 16:50:23 as along with 2 people and 1 group skato_toyaku pyilmaz microbiology_nijmegen
	Systematic artifacts in metagenomes from complex microbial communities [My Copy] The ISME Journal, Vol. 3, No. 11. (09 July 2009), pp. 1314-1317. by Vicente Gomez-Alvarez, Tracy K. Teal, Thomas M. Schmidt posted to methods metagenome by Katje on 2009-10-20 21:57:15 as along with 1 person jgill
	<i>Methylophilaceae</i> link methanol oxidation to denitrification in freshwater lake sediment as suggested by stable isotope probing and pure culture analysis [My Copy] Environmental Microbiology Reports, Vol. 1, No. 5. (2009), pp. 385-392. by Marina G. Kalyuhznaya, Willm Martens-Habbena, Tiansong Wang, et al.Murray Hackett, Sergey M. Stolyar, David A. Stahl, Mary E. Lidstrom, Ludmila Chistoserdova posted to methylotrophy denitrification by Katje on 2009-10-20 13:08:19 as
	Explaining microbial population genomics through phage predation [My Copy] Nature Reviews Microbiology, Vol. 7, No. 11. (01 November 2009), pp. 828-836. by Francisco Rodriguez-Valera, Ana-Belen Martin-Cuadrado, Beltran Rodriguez-Brito, et al.Lejla Pasic, T. Frede Thingstad, Forest Rohwer, Alex Mira posted to virus theory species_concept metagenome horizontal_gene_transfer diversity by Katje on 2009-10-20 13:05:54 as along with 3 people michaelbarton kinestetika maren
	An obligately photosynthetic bacterial anaerobe from a deep-sea hydrothermal vent [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 26. (28 June 2005), pp. 9306-9310. by J. Thomas Beatty, JÃ¶rg Overmann, Michael T. Lince, et al.Ann K. Manske, Andrew S. Lang, Robert E. Blankenship, Cindy L. Van Dover, Tracey A. Martinson, F. Gerald Plumley posted to novel_guilds marine anaerobic by Katje on 2009-10-02 13:22:32 as along with 2 people and 2 groups jwm ms609 Radiation_Damage Stressosome
	Microbial fixation of methane carbon at 2.7 Ga: Was an anaerobic mechanism possible? [My Copy] Geochemistry Geophysics Geosystems, Vol. 3, No. 7. (24 July 2002), 1042. by Kai-Uwe Hinrichs posted to methanotrophy early_earth by Katje on 2009-09-17 15:15:51 as
	Microbial community proteomics: elucidating the catalysts and metabolic mechanisms that drive the Earth's biogeochemical cycles [My Copy] Current Opinion in Microbiology (04 May 2009) by Paul Wilmes, Philip L. Bond posted to metagenome proteomics by Katje on 2009-06-09 16:08:10 as along with 1 group microbiology_nijmegen
	Catalytic removal of NO [My Copy] Catalysis Today, Vol. 46, No. 4. (18 December 1998), pp. 233-316. by V. I. Pârvulescu, P. Grange, B. Delmon posted to no by Katje on 2009-05-01 16:37:43 as along with 1 person apulido
	Biogenic Methane, Hydrogen Escape, and the Irreversible Oxidation of Early Earth [My Copy] Science, Vol. 293, No. 5531. (3 August 2001), pp. 839-843. by David C. Catling, Kevin J. Zahnle, Christopher Mckay posted to early_earth methanogenesis oxygen by Katje on 2009-04-29 17:27:38 as
	Methanotrophs regulated atmospheric sulfur isotope anomalies during the Mesoarchean (Tumbiana Formation, Western Australia) [My Copy] Earth and Planetary Science Letters, Vol. 279, No. 1-2. (15 March 2009), pp. 65-75. by Christophe Thomazo, M. Ader, J. Farquhar, P. Philippot posted to early_earth methanotrophy oxygen by Katje on 2009-04-29 16:19:33 as
	Isotopic evidence for Mesoarchaean anoxia and changing atmospheric sulphur chemistry [My Copy] Nature, Vol. 449, No. 7163. (11 October 2007), pp. 706-709. by James Farquhar, Marc Peters, David T. Johnston, et al.Harald Strauss, Andrew Masterson, Uwe Wiechert, Alan J. Kaufman posted to early_earth oxygen by Katje on 2009-04-29 16:15:28 as
	Late Archean molecular fossils from the Transvaal Supergroup record the antiquity of microbial diversity and aerobiosis [My Copy] Precambrian Research, Vol. 169, No. 1-4. (March 2009), pp. 28-47. by Jacob R. Waldbauer, Laura S. Sherman, Dawn Y. Sumner, Roger E. Summons posted to diversity early_earth by Katje on 2009-04-28 20:55:06 as
	Proterozoic Ocean Chemistry and Evolution: A Bioinorganic Bridge? [My Copy] Science, Vol. 297, No. 5584. (16 August 2002), pp. 1137-1142. by A. D. Anbar, A. H. Knoll posted to early_earth n-cycle by Katje on 2009-04-15 17:48:54 as
	Protein function prediction--the power of multiplicity. [My Copy] Trends in biotechnology, Vol. 27, No. 4. (27 April 2009), pp. 210-219. by Robert Rentzsch, Christine A. Orengo posted to annotation genome proteomics review by Katje on 2009-03-31 10:34:31 as along with 5 people and 1 group dxlmm robertrentzsch Keywan daforerog idoerg Orengo Group Journal Picks
	Plant biologyDesigns on Rubisco [My Copy] Nature, Vol. 441, No. 7096. (21 June 2006), pp. 940-941. by Howard Griffiths posted to rubisco by Katje on 2009-03-02 23:20:40 as along with 4 people and 3 groups dpater dayjm kmcolo dylan77 cliamte_change instaar_graduate_students climate_change
	The Bacterial Species Challenge: Making Sense of Genetic and Ecological Diversity [My Copy] Science, Vol. 323, No. 5915. (6 February 2009), pp. 741-746. by Christophe Fraser, Eric J. Alm, Martin F. Polz, Brian G. Spratt, William P. Hanage posted to diversity evolution species_concept theory by Katje on 2009-02-28 23:01:25 as along with 16 people and 1 group marinard pkm kinestetika katholt jlgreen dbikard anphony provero pkapoorvijay druvus kshundyak skembel balabu ellakat jjray yonatanf iSEEM
	Isotopic Evidence for an Aerobic Nitrogen Cycle in the Latest Archean [My Copy] Science, Vol. 323, No. 5917. (20 February 2009), pp. 1045-1048. by Jessica Garvin, Roger Buick, Ariel D. Anbar, Gail L. Arnold, Alan J. Kaufman posted to early_earth n-cycle nitrification stable_isotopes by Katje on 2009-02-24 11:12:01 as along with 1 person and 1 group kinestetika microbiology_nijmegen
	Systems Biology: Functional analysis of natural microbial consortia using community proteomics [My Copy] Nat Rev Micro, Vol. 7, No. 3. (March 2009), pp. 196-205. by Nathan C. Verberkmoes, Vincent J. Denef, Robert L. Hettich, Jillian F. Banfield posted to diversity ecology metagenome methods proteomics by Katje on 2009-02-16 15:43:40 as along with 2 people and 1 group kinestetika behindtherabbit microbiology_nijmegen
	Advantages and limitations of quantitative PCR (Q-PCR)-based approaches in microbial ecology [My Copy] FEMS Microbiology Ecology, Vol. 67, No. 1. (2009), pp. 6-20. by Cindy J. Smith, Mark A. Osborn posted to methods qpcr by Katje on 2008-12-11 17:36:58 as along with 1 person and 1 group skato_toyaku microbiology_nijmegen
	Transcription of nitrification genes by the methane-oxidizing bacterium, Methylococcus capsulatus strain Bath [My Copy] ISME J, Vol. 2, No. 12. (24 July 2008), pp. 1213-1220. by Amisha T. Poret-Peterson, James E. Graham, Jay Gulledge, Martin G. Klotz posted to evolution hao methanotrophy methylococcus nitrification qpcr by Katje on 2008-12-09 14:46:54 as along with 1 group microbiology_nijmegen
	A bioinformatician's guide to metagenomics. [My Copy] Microbiology and molecular biology reviews : MMBR, Vol. 72, No. 4. (1 December 2008), pp. 557-578. by Victor Kunin, Alex Copeland, Alla Lapidus, Konstantinos Mavromatis, Philip Hugenholtz posted to annotation genome metagenome review by Katje on 2008-12-04 18:30:34 as along with 38 people and 7 groups sconlan jasontsai halinat hwright michaelbarton taylor73 esyoun bluto idoerg hpaces skembel inquil EKotlarska anphony stajich sharpton vrich vaulot adgrativol jakechen balicea dbk GustavoLacerda guhjy hessec fhalbrit Zephyrus anazhu dswan sjcockell Borelli druvus azazello kinestetika jmeppley neils allysonlister skato_toyaku Shared Literature Resource of the Microbial Fitness Group - MPI Bremen iSEEM Papers recommended by the Roscoff Plankton Group Microbial-Ecology Translational Bioinformatics Roswell Cancer Crosstalk microbiology_nijmegen
	A simple, fast, and accurate method of phylogenomic inference [My Copy] Genome Biology, Vol. 9, No. 10. (13 October 2008), R151. by Martin Wu, Jonathan A. Eisen posted to methods phylogeny by Katje on 2008-11-20 12:17:27 as along with 12 people and 2 groups dakelley jeargle AaronDarling zwang cgaugain treangen operon ellakat scryrps djkt aramata druvus microbiology_nijmegen iSEEM
	Methane emissions by alpine plant communities in the Qinghai-Tibet Plateau [My Copy] Biology Letters by Guangmin Cao, Xingliang Xu, Ruijun Long, et al.Qilan Wang, Changting Wang, Yangong Du, Xinquan Zhao posted to methane_cycle methanogenesis by Katje on 2008-11-05 10:48:28 as
	Protein-based stable isotope probing (Protein-SIP) reveals active species within anoxic mixed cultures [My Copy] ISME J, Vol. 2, No. 11. (19 June 2008), pp. 1122-1133. by Nico Jehmlich, Frank Schmidt, Martin von Bergen, Hans-Hermann Richnow, Carsten Vogt posted to methods proteomics sip stable_isotopes by Katje on 2008-11-04 17:26:27 as along with 1 group microbiology_nijmegen
	Anoxic oxidation of arsenite linked to denitrification in sludges and sediments [My Copy] Water Research, Vol. 42, No. 17. (November 2008), pp. 4569-4577. by W. Sun, R. Sierra, J. Field posted to denitrification introduction novel_guilds by Katje on 2008-10-24 16:35:06 as
	A procedure for highly specific, sensitive, and unbiased whole-genome amplification [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 40. (7 October 2008), pp. 15499-15504. by Xinghua Pan, Alexander E. Urban, Dean Palejev, et al.Vincent Schulz, Fabian Grubert, Yiping Hu, Michael Snyder, Sherman M. Weissman posted to wga by Katje on 2008-10-08 11:15:33 as along with 3 people pkonings jsatkosk lusk
	Genomic patterns of recombination, clonal divergence and environment in marine microbial populations [My Copy] ISME J, Vol. 2, No. 10. (26 June 2008), pp. 1052-1065. by Konstantinos T. Konstantinidis, Edward F. Delong posted to diversity evolution marine metagenome theory by Katje on 2008-10-07 19:15:53 as along with 1 group microbiology_nijmegen
	The All-Species Living Tree project: A 16S rRNA-based phylogenetic tree of all sequenced type strains [My Copy] Systematic and Applied Microbiology, Vol. 31, No. 4. (September 2008), pp. 241-250. by P. Yarza, M. Richter, J. Peplies, et al.J. Euzeby, R. Amann, K. Schleifer, W. Ludwig, F. Glockner, R. Rossellomora posted to 16s diversity phylogeny by Katje on 2008-10-02 16:35:54 as along with 1 group microbiology_nijmegen
	The "Cheshire Cat" escape strategy of the coccolithophore Emiliania huxleyi in response to viral infection. [My Copy] Proceedings of the National Academy of Sciences of the United States of America (29 September 2008) by Miguel Frada, Ian Probert, Michael J J. Allen, William H H. Wilson, Colomban de Vargas posted to marine virus by Katje on 2008-10-02 11:02:18 as
	Real-time detection of actively metabolizing microbes by redox sensing as applied to methylotroph populations in Lake Washington [My Copy] ISME J, Vol. 2, No. 7. (27 March 2008), pp. 696-706. by Marina G. Kalyuzhnaya, Mary E. Lidstrom, Ludmila Chistoserdova posted to ecology methanotrophy methods methylotrophy related_sequence by Katje on 2008-10-02 10:18:58 as along with 3 people and 1 group kinestetika ax Huub_odc microbiology_nijmegen
	High-resolution metagenomics targets specific functional types in complex microbial communities [My Copy] Nature Biotechnology, Vol. 26, No. 9. (17 August 2008), pp. 1029-1034. by Marina G. Kalyuzhnaya, Alla Lapidus, Natalia Ivanova, et al.Alex C. Copeland, Alice C. Mchardy, Ernest Szeto, Asaf Salamov, Igor V. Grigoriev, Dominic Suciu, Samuel R. Levine, Victor M. Markowitz, Isidore Rigoutsos, Susannah G. Tringe, David C. Bruce, Paul M. Richardson, Mary E. Lidstrom, Ludmila Chistoserdova posted to genome methanotrophy methylotrophy by Katje on 2008-10-02 10:17:56 as along with 10 people and 2 groups sameersoi Thaverkamp EKotlarska jbhiatt jmeppley sriesenfeld skembel apostola Huub_odc zwang Microbial-Ecology microbiology_nijmegen
	Gene-Boosted Assembly of a Novel Bacterial Genome from Very Short Reads [My Copy] PLoS Comput Biol, Vol. 4, No. 9. (26 September 2008), e1000186. by Steven L. Salzberg, Daniel D. Sommer, Daniela Puiu, Vincent T. Lee posted to annotation genome methods by Katje on 2008-09-26 16:32:38 as along with 16 people and 5 groups n00c operon michaelbarton azazello Thaverkamp dakelley sconlan GustavoLacerda treangen natstreet antonkratz druvus vaulot djkt stajich semrich BergmanLab Papers recommended by the Roscoff Plankton Group iSEEM microbiology_nijmegen Mycology
	Direct Nitric Oxide Detection in Aqueous Solution by Copper(II) Fluorescein Complexes [My Copy] J. Am. Chem. Soc., Vol. 128, No. 44. (8 November 2006), pp. 14364-14373. by M. H. Lim, B. A. Wong, W. H. Pitcock, D. Mokshagundam, M. H. Baik, S. J. Lippard posted to biochemistry methods no by Katje on 2008-09-24 16:05:20 as along with 1 group microbiology_nijmegen

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diversity	17
evolution	17
methods	17
genome	16
methanotrophy	13
anaerobic	12
ecology	12
marine	12
theory	12
metagenome	11
denitrification	8
early_earth	8
biochemistry	7
methanogenesis	7
methylotrophy	7
phylogeny	7
alkane	6
review	6
stable_isotopes	6
annotation	5
n-cycle	5
proteomics	5
virus	5
horizontal_gene_transfer	4
no	4
qpcr	4
anme	3
fish	3
glycyl-radical	3
nitrification	3
oxygen	3
wga	3
16s	2
aquifer	2
cytochromes	2
damo	2
fuel_cells	2
nanowires	2
novel_guilds	2
physiology	2
pmmo	2
related_sequence	2
sims	2
species_concept	2
srb	2
succession	2
18o	1
autotrophy	1
carbon_fixation	1
deep_biosphere	1
global_ocean	1
hao	1
hydrogen	1
introduction	1
methane_cycle	1
methylococcus	1
microcosms	1
nc10	1
nirk	1
nirs	1
oxidase	1
phage	1
rubisco	1
sip	1
sociology	1
sulfate	1
transcriptomics	1

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