Cited by ..

Evolutionary conservation of sequence and secondary structures in CRISPR repeats

Victor Kunin, Rotem Sorek, Philip Hugenholtz

Genome Biol. 2007; 8(4): R61. Published online 2007 April 18. doi: 10.1186/gb-2007-8-4-r61

PMCID:: PMC1896005

Abstract Full Text PDF–1.0M Supplementary Material

Is Cited by the Following 33 Articles in this Archive:

Identification of CRISPR and riboswitch related RNAs among novel noncoding RNAs of the euryarchaeon Pyrococcus abyssi

Kounthéa Phok, Annick Moisan, Dana Rinaldi, Nicolas Brucato, Agamemnon J Carpousis, Christine Gaspin, Béatrice Clouet-d'Orval

BMC Genomics. 2011; 12: 312. Published online 2011 June 13. doi: 10.1186/1471-2164-12-312

PMCID:: PMC3124441

Abstract Full Text PDF–1.4M Supplementary Material

Diversity, Evolution, and Functionality of Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Regions in the Fire Blight Pathogen Erwinia amylovora

Fabio Rezzonico, Theo H. M. Smits, Brion Duffy

Appl Environ Microbiol. 2011 June; 77(11): 3819–3829. doi: 10.1128/AEM.00177-11

PMCID:: PMC3127596

Abstract Full Text PDF–1.9M Supplementary Material

CRISPR Inhibition of Prophage Acquisition in Streptococcus pyogenes

Takashi Nozawa, Nayuta Furukawa, Chihiro Aikawa, Takayasu Watanabe, Bijaya Haobam, Ken Kurokawa, Fumito Maruyama, Ichiro Nakagawa

PLoS One. 2011; 6(5): e19543. Published online 2011 May 6. doi: 10.1371/journal.pone.0019543

PMCID:: PMC3089615

Abstract Full Text PDF–447K Supplementary Material

RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions

Blake Wiedenheft, Esther van Duijn, Jelle B. Bultema, Sakharam P. Waghmare, Kaihong Zhou, Arjan Barendregt, Wiebke Westphal, Albert J. R. Heck, Egbert J. Boekema, Mark J. Dickman, Jennifer A. Doudna

Proc Natl Acad Sci U S A. 2011 June 21; 108(25): 10092-10097. Published online 2011 May 2. doi: 10.1073/pnas.1102716108

Correction in:: Proc Natl Acad Sci U S A. 2011 September 6; 108(36): 15010.

PMCID:: PMC3121849

Abstract Full Text PDF–1.0M Supplementary Material Correction

CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III

Elitza Deltcheva, Krzysztof Chylinski, Cynthia M. Sharma, Karine Gonzales, Yanjie Chao, Zaid A. Pirzada, Maria R. Eckert, Jörg Vogel, Emmanuelle Charpentier

Nature. Author manuscript; available in PMC 2011 September 30.

Published in final edited form as: Nature. 2011 March 31; 471(7340): 602–607. doi: 10.1038/nature09886

PMCID:: PMC3070239

Abstract Full Text PDF–1.0M Supplementary Material

The Genome of Akkermansia muciniphila, a Dedicated Intestinal Mucin Degrader, and Its Use in Exploring Intestinal Metagenomes

Mark W. J. van Passel, Ravi Kant, Erwin G. Zoetendal, Caroline M. Plugge, Muriel Derrien, Stephanie A. Malfatti, Patrick S. G. Chain, Tanja Woyke, Airi Palva, Willem M. de Vos, Hauke Smidt

PLoS One. 2011; 6(3): e16876. Published online 2011 March 3. doi: 10.1371/journal.pone.0016876

PMCID:: PMC3048395

Abstract Full Text PDF–249K Supplementary Material

Interaction of the Cas6 riboendonuclease with CRISPR RNAs: recognition and cleavage

Ruiying Wang, Gan Preamplume, Michael P. Terns, Rebecca M. Terns, Hong Li

Structure. Author manuscript; available in PMC 2012 February 9.

Published in final edited form as: Structure. 2011 February 9; 19(2): 257–264. doi: 10.1016/j.str.2010.11.014

PMCID:: PMC3154685

Abstract Full Text PDF–1.5M Supplementary Material

Comparative analysis and supragenome modeling of twelve Moraxella catarrhalis clinical isolates

Jeremiah J Davie, Josh Earl, Stefan PW de Vries, Azad Ahmed, Fen Z Hu, Hester J Bootsma, Kim Stol, Peter WM Hermans, Robert M Wadowsky, Garth D Ehrlich, John P Hays, Anthony A Campagnari

BMC Genomics. 2011; 12: 70. Published online 2011 January 26. doi: 10.1186/1471-2164-12-70

PMCID:: PMC3045334

Abstract Full Text PDF–1.6M Supplementary Material

The phage-host arms-race: Shaping the evolution of microbes

Adi Stern, Rotem Sorek

Bioessays. Author manuscript; available in PMC 2012 February 8.

Published in final edited form as: Bioessays. 2011 January; 33(1): 43–51. doi: 10.1002/bies.201000071

PMCID:: PMC3274958

Abstract Full Text PDF–746K

Envelope stress is a trigger of CRISPR RNA-mediated DNA silencing in Escherichia coli

Ritsdeliz Perez-Rodriguez, Charles Haitjema, Qingqiu Huang, Ki Hyun Nam, Sarah Bernardis, Ailong Ke, Matthew P. DeLisa

Mol Microbiol. Author manuscript; available in PMC 2012 February 1.

Published in final edited form as: Mol Microbiol. 2011 February; 79(3): 584–599. Published online 2010 December 13. doi: 10.1111/j.1365-2958.2010.07482.x

PMCID:: PMC3040579

Abstract Full Text PDF–2.9M Supplementary Material

A dual function of the CRISPR-Cas system in bacterial antivirus immunity and DNA repair

Mohan Babu, Natalia Beloglazova, Robert Flick, Chris Graham, Tatiana Skarina, Boguslaw Nocek, Alla Gagarinova, Oxana Pogoutse, Greg Brown, Andrew Binkowski, Sadhna Phanse, Andrzej Joachimiak, Eugene V. Koonin, Alexei Savchenko, Andrew Emili, Jack Greenblatt, Aled M. Edwards, Alexander F. Yakunin

Mol Microbiol. Author manuscript; available in PMC 2012 January 1.

Published in final edited form as: Mol Microbiol. 2011 January; 79(2): 484–502. Published online 2010 December 7. doi: 10.1111/j.1365-2958.2010.07465.x

PMCID:: PMC3071548

Abstract Full Text PDF–2.6M Supplementary Material

Binding and cleavage of CRISPR RNA by Cas6

Jason Carte, Neil T. Pfister, Mark M. Compton, Rebecca M. Terns, Michael P. Terns

RNA. 2010 November; 16(11): 2181–2188. doi: 10.1261/rna.2230110

PMCID:: PMC2957057

Abstract Full Text PDF–473K

Use of Cellular CRISPR (Clusters of Regularly Interspaced Short Palindromic Repeats) Spacer-Based Microarrays for Detection of Viruses in Environmental Samples

Jamie C. Snyder, Mary M. Bateson, Matthew Lavin, Mark J. Young

Appl Environ Microbiol. 2010 November; 76(21): 7251–7258. Published online 2010 September 17. doi: 10.1128/AEM.01109-10

PMCID:: PMC2976250

Abstract Full Text PDF–323K Supplementary Material

Sequence- and structure-specific RNA processing by a CRISPR endonuclease

Rachel E. Haurwitz, Martin Jinek, Blake Wiedenheft, Kaihong Zhou, Jennifer A. Doudna

Science. Author manuscript; available in PMC 2011 July 12.

Published in final edited form as: Science. 2010 September 10; 329(5997): 1355–1358. doi: 10.1126/science.1192272

PMCID:: PMC3133607

Abstract Full Text PDF–7.3M Supplementary Material

Interference with histidyl-tRNA synthetase by a CRISPR spacer sequence as a factor in the evolution of Pelobacter carbinolicus

Muktak Aklujkar, Derek R Lovley

BMC Evol Biol. 2010; 10: 230. Published online 2010 July 28. doi: 10.1186/1471-2148-10-230

PMCID:: PMC2923632

Abstract Full Text PDF–578K Supplementary Material

A versatile palindromic amphipathic repeat coding sequence horizontally distributed among diverse bacterial and eucaryotic microbes

Kerstin Röske, Mark F Foecking, Shibu Yooseph, John I Glass, Michael J Calcutt, Kim S Wise

BMC Genomics. 2010; 11: 430. Published online 2010 July 13. doi: 10.1186/1471-2164-11-430

PMCID:: PMC2996958

Abstract Full Text PDF–1.3M Supplementary Material

Self-targeting by CRISPR: gene regulation or autoimmunity?

Adi Stern, Leeat Keren, Omri Wurtzel, Gil Amitai, Rotem Sorek

Trends Genet. Author manuscript; available in PMC 2011 August 1.

Published in final edited form as: Trends Genet. 2010 August; 26(8): 335–340. Published online 2010 July 1. doi: 10.1016/j.tig.2010.05.008

PMCID:: PMC2910793

Abstract Full Text PDF–133K Supplementary Material

The Small, Slow and Specialized CRISPR and Anti-CRISPR of Escherichia and Salmonella

Marie Touchon, Eduardo P. C. Rocha

PLoS One. 2010; 5(6): e11126. Published online 2010 June 15. doi: 10.1371/journal.pone.0011126

PMCID:: PMC2886076

Abstract Full Text PDF–1.8M Supplementary Material

Genome Sequence of the Plant Growth Promoting Endophytic Bacterium Enterobacter sp. 638

Safiyh Taghavi, Daniel van der Lelie, Adam Hoffman, Yian-Biao Zhang, Michael D. Walla, Jaco Vangronsveld, Lee Newman, Sébastien Monchy

PLoS Genet. 2010 May; 6(5): e1000943. Published online 2010 May 13. doi: 10.1371/journal.pgen.1000943

PMCID:: PMC2869309

Abstract Full Text PDF–2.0M Supplementary Material

Replacing Reverse Line Blot Hybridization Spoligotyping of the Mycobacterium tuberculosis Complex

Christiane Honisch, Michael Mosko, Catherine Arnold, Saheer E. Gharbia, Roland Diel, Stefan Niemann

J Clin Microbiol. 2010 May; 48(5): 1520–1526. Published online 2010 March 3. doi: 10.1128/JCM.02299-09

PMCID:: PMC2863940

Abstract Full Text PDF–897K

CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea

Luciano A. Marraffini, Erik J. Sontheimer

Nat Rev Genet. Author manuscript; available in PMC 2011 April 13.

Published in final edited form as: Nat Rev Genet. 2010 March; 11(3): 181–190. doi: 10.1038/nrg2749

PMCID:: PMC2928866

Abstract Full Text PDF–397K

Evolutionary Dynamics of Clustered Irregularly Interspaced Short Palindromic Repeat Systems in the Ocean Metagenome

Valery A. Sorokin, Mikhail S. Gelfand, Irena I. Artamonova

Appl Environ Microbiol. 2010 April; 76(7): 2136–2144. Published online 2010 January 29. doi: 10.1128/AEM.01985-09

PMCID:: PMC2849227

Abstract Full Text PDF–1.0M

The CRISPR system: small RNA-guided defense in bacteria and archaea

Fedor V. Karginov, Gregory J. Hannon

Mol Cell. Author manuscript; available in PMC 2010 July 15.

Published in final edited form as: Mol Cell. 2010 January 15; 37(1): 7. doi: 10.1016/j.molcel.2009.12.033

PMCID:: PMC2819186

Abstract Full Text PDF–1.3M

Central Role of the Cell in Microbial Ecology

Karsten Zengler

Microbiol Mol Biol Rev. 2009 December; 73(4): 712–729. doi: 10.1128/MMBR.00027-09

PMCID:: PMC2786577

Abstract Full Text PDF–1.0M

RNA-Guided RNA Cleavage by a CRISPR RNA-Cas Protein Complex

Caryn R. Hale, Peng Zhao, Sara Olson, Michael O. Duff, Brenton R. Graveley, Lance Wells, Rebecca M. Terns, Michael P. Terns

Cell. Author manuscript; available in PMC 2010 November 25.

Published in final edited form as: Cell. 2009 November 25; 139(5): 945–956. doi: 10.1016/j.cell.2009.07.040

PMCID:: PMC2951265

Abstract Full Text PDF–3.3M Supplementary Material

CRISPI: a CRISPR interactive database

Christine Rousseau, Mathieu Gonnet, Marc Le Romancer, Jacques Nicolas

Bioinformatics. 2009 December 15; 25(24): 3317–3318. Published online 2009 October 21. doi: 10.1093/bioinformatics/btp586

PMCID:: PMC2788928

Abstract Full Text PDF–167K

The Complete Genome of Teredinibacter turnerae T7901: An Intracellular Endosymbiont of Marine Wood-Boring Bivalves (Shipworms)

Joyce C. Yang, Ramana Madupu, A. Scott Durkin, Nathan A. Ekborg, Chandra S. Pedamallu, Jessica B. Hostetler, Diana Radune, Bradley S. Toms, Bernard Henrissat, Pedro M. Coutinho, Sandra Schwarz, Lauren Field, Amaro E. Trindade-Silva, Carlos A. G. Soares, Sherif Elshahawi, Amro Hanora, Eric W. Schmidt, Margo G. Haygood, Janos Posfai, Jack Benner, Catherine Madinger, John Nove, Brian Anton, Kshitiz Chaudhary, Jeremy Foster, Alex Holman, Sanjay Kumar, Philip A. Lessard, Yvette A. Luyten, Barton Slatko, Nicole Wood, Bo Wu, Max Teplitski, Joseph D. Mougous, Naomi Ward, Jonathan A. Eisen, Jonathan H. Badger, Daniel L. Distel

PLoS One. 2009; 4(7): e6085. Published online 2009 July 1. doi: 10.1371/journal.pone.0006085

PMCID:: PMC2699552

Abstract Full Text PDF–751K Supplementary Material

Genome Analysis of the Anaerobic Thermohalophilic Bacterium Halothermothrix orenii

Konstantinos Mavromatis, Natalia Ivanova, Iain Anderson, Athanasios Lykidis, Sean D. Hooper, Hui Sun, Victor Kunin, Alla Lapidus, Philip Hugenholtz, Bharat Patel, Nikos C. Kyrpides

PLoS ONE. 2009; 4(1): e4192. Published online 2009 January 15. doi: 10.1371/journal.pone.0004192