** 2019 **

 

Alkhnbashi OS, Meier T,  Mitrofanov A, Backofen R and Voß B. (2019). CRISPR-Cas bioinformatics. Methods. 172:3-11. doi: 10.1016/j.ymeth.2019.07.013. Epub 2019 Jul 19.

Charpentier E, Elsholz A, Marchfelder A. (2019) CRISPR-Cas: more than ten years and still full of mysteries. RNA Biol. 16: 377-379. doi: 10.1080/15476286.2019.1591659.

Collias D, Marshall R, Collins SP, Beisel CL, Noireaux V. (2019) An educational module to explore CRISPR technologies with a cell-free transcription-translation system. Synth Biol (Oxf). 4:ysz005. doi: 10.1093/synbio/ysz005.

Gleditzsch D, Pausch P, Müller-Esparza H, Özcan A, Guo X, Bange G, Randau L. (2019) PAM identification by CRISPR-Cas effector complexes: diversified mechanisms and structures. RNA Biol. 16:504-517. doi: 10.1080/15476286.2018.1504546.

Heidrich N, Bauriedl S, Schoen C. (2019). Investigating RNA-Protein Interactions in Neisseria meningitidis by RIP-Seq Analysis. Methods Mol Biol. 1969: 33-49. doi: 10.1007/978-1-4939-9202-7_3. 

Heidrich N, Hagmann A, Bauriedl S, Vogel J, Schoen C. (2019). The CRISPR/Cas system in Neisseria meningitidis affects bacterial adhesion to human nasopharyngeal epithelial cells. RNA Biol. 16: 390-396. doi: 10.1080/15476286.2018.1486660.

Hou S, Brenes-Álvarez M, Reimann V, Alkhnbashi OS, Backofen R, Muro-Pastor AM, Hess WR. (2019) CRISPR-Cas systems in multicellular cyanobacteria. RNA Biol. 16:518-529. doi: 10.1080/15476286.2018.1493330.

Jacobsen T, Liao C, Beisel CL. (2019) The Acidaminococcus sp. Cas12a nuclease recognizes GTTV and GCTV as non-canonical PAMs. FEMS Microbiol Lett. 366. pii: fnz085. doi: 10.1093/femsle/fnz085.

Jesser R, Behler J, Benda C, Reimann V, Hess WR. (2019) Biochemical analysis of the Cas6-1 RNA endonuclease associated with the subtype I-D CRISPR-Cas system in Synechocystis sp. PCC 6803. RNA Biol. 16:481-491. doi: 10.1080/15476286.2018.1447742.

Leenay RT, Vento JM, Shah M, Martino ME, Leulier F, Beisel CL. (2019) Genome Editing with CRISPR-Cas9 in Lactobacillus plantarum Revealed That Editing Outcomes Can Vary Across Strains and Between Methods. Biotechnol J. 14:e1700583. doi: 10.1002/biot.201700583.

Liao C, Ttofali F, Slotkowski RA, Denny SR, Cecil TD, Leenay RT, Keung AJ, Beisel CL. (2019) Modular one-pot assembly of CRISPR arrays enables library generation and reveals factors influencing crRNA biogenesis. Nat Commun. 10:2948. doi: 10.1038/s41467-019-10747-3.

Liao C, Slotkowski RA, Achmedov T, Beisel CL. (2019) The Francisella novicida Cas12a is sensitive to the structure downstream of the terminal repeat in CRISPR arrays. RNA Biol. 16: 404-412. doi: 10.1080/15476286.2018.1526537.

Liao C, Slotkowski RA, Beisel CL. (2019) CRATES: A one-step assembly method for Class 2 CRISPR arrays. Methods Enzymol. 629:493-511. doi: 10.1016/bs.mie.2019.04.011.

Maier LK, Stachler AE, Brendel J, Stoll B, Fischer S, Haas KA, Schwarz TS, Alkhnbashi OS, Sharma K, Urlaub H, Backofen R, Gophna U, Marchfelder A. (2019) The nuts and bolts of the Haloferax CRISPR-Cas system I-B. RNA Biol. 16:469-480. doi: 10.1080/15476286.2018.1460994.

Makarova, KS, Wolf, YI, Iranzo, J, Shmakov, SA, Alkhnbashi, OS, Brouns, SJJ, Charpentier, E,  Cheng, D,  Haft, DH,  Horvath, P,  Moineau, S,  Mojica, FJM,  Scott, D,  Shah, SA,  Siksnys, V,  MP,  Venclovas, C, White, MF,  Yakunin, AF, Yan, W,  Zhang, F,  Garrett, RA, Backofen, R, Oost, J, Barrangou, R, Koonin, EV. (2019). Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants. Nat Rev Microbiol. 18:67-83. doi: 10.1038/s41579-019-0299-x

Nickel L, Ulbricht A, Alkhnbashi OS, Förstner KU, Cassidy L, Weidenbach K, Backofen R, Schmitz RA. (2019) Cross-cleavage activity of Cas6b in crRNA processing of two different CRISPR-Cas systems in Methanosarcina mazei Gö1. RNA Biol. 16: 492-503. doi: 10.1080/15476286.2018.1514234.

Özcan A, Pausch P, Linden A, Wulf A, Schühle K, Heider J, Urlaub H, Heimerl T, Bange G, Randau L. (2019) Type IV CRISPR RNA processing and effector complex formation in Aromatoleum aromaticum. Nat Microbiol. 4:89-96. doi: 10.1038/s41564-018-0274-8.

Papathanasiou P, Erdmann S, Leon-Sobrino C, Sharma K, Urlaub H, Garrett RA, Peng X. (2019) Stable maintenance of the rudivirus SIRV3 in a carrier state in Sulfolobus islandicus despite activation of the CRISPR-Cas immune response by a second virus SMV1. RNA Biol. 16: 557-565. doi: 10.1080/15476286.2018.1511674.

Pickar-Oliver A, Black JB, Lewis MM, Mutchnick KJ, Klann TS, Gilcrest KA, Sitton MJ, Nelson CE, Barrera A, Bartelt LC, Reddy TE, Beisel CL, Barrangou R, Gersbach CA. (2019) Targeted transcriptional modulation with type I CRISPR-Cas systems in human cells. Nat Biotechnol. 37:1493-1501. doi: 10.1038/s41587-019-0235-7.

Scholz I, Lott SC, Behler J, Gärtner K, Hagemann M, Hess WR. (2019) Divergent methylation of CRISPR repeats and cas genes in a subtype I-D CRISPR-Cas-system. BMC Microbiol. 19:147. doi: 10.1186/s12866-019-1526-3.

Shah SA, Alkhnbashi OS, Behler J, Han W, She Q, Hess WR, Garrett RA, Backofen R. (2019) Comprehensive search for accessory proteins encoded with archaeal and bacterial type III CRISPR-cas gene cassettes reveals 39 new cas gene families. RNA Biol. 16: 530-542. doi: 10.1080/15476286.2018.1483685.

Songailiene I, Rutkauskas M, Sinkunas T, Manakova E, Wittig S, Schmidt C, Siksnys V, Seidel R. (2019) Decision-Making in Cascade Complexes Harboring crRNAs of Altered Length. Cell Rep. 28:3157-3166.e4. doi: 10.1016/j.celrep.2019.08.033.

Turgeman-Grott, I, Joseph, S, Marton, S, Eizenshtein, K, Naor, A, Soucy, S, Stachler, A-E, Shalev, Y, Zarkor, M, Reshef, L, Altman-Price, N, Marchfelder, A, and Gophna, U (2019) Pervasive acquisition of CRISPR memory driven by inter-species mating of archaea can limit gene transfer and influence speciation, Nat Microbiol. 4:177-186. doi: 10.1038/s41564-018-0302-8.

Turkowyd B, Müller-Esparza H, Climenti V, Steube N, Endesfelder U, Randau L. (2019) Live-cell single-particle tracking photoactivated localization microscopy of Cascade-mediated DNA surveillance. Methods Enzymol. 616:133-171. doi: 10.1016/bs.mie.2018.11.001.

Vento JM, Crook N, Beisel CL. (2019) Barriers to genome editing with CRISPR in bacteria. J Ind Microbiol Biotechnol. 46:1327-1341. doi: 10.1007/s10295-019-02195-1.

Wolf S, Fischer MA, Kupczok A, Reetz J, Kern T, Schmitz RA, Rother M. (2019) Characterization of the lytic archaeal virus Drs3 infecting Methanobacterium formicicum. Arch Virol. 164:667-674. doi: 10.1007/s00705-018-04120-w.

Yair Y, Gophna U. (2019) Repeat modularity as a beneficial property of multiple CRISPR-Cas systems. RNA Biol. 16: 585-587. doi: 10.1080/15476286.2018.1474073.