Streamlined genome engineering with a self-excising drug selection cassette

Genetics

Volumn 200, Issue 4, 2015, Pages 1035-1049

  Dickinson, Daniel J ^a   Pani, Ariel M ^a   Heppert, Jennifer K ^a   Higgins, Christopher D ^a   Goldstein, Bob ^a  

^a UNIVERSITY OF NORTH CAROLINA   (United States)

Author keywords

Caenorhabditis elegans; CRISPR Cas9; Gene tagging; Homologous recombination; Self excising cassette

Indexed keywords

CRE RECOMBINASE; PHOTOPROTEIN;

ALLELE; ARTICLE; CAENORHABDITIS ELEGANS; CRISPR CAS SYSTEM; GENE CASSETTE; GENE INSERTION; GENETIC ENGINEERING; HEAT SHOCK; HOMOLOGOUS RECOMBINATION; INTRON; LOXP SITE; MARKER GENE; NONHUMAN; PHENOTYPE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; ANIMAL; GENE EXPRESSION REGULATION; GENE FUSION; GENE LOCUS; GENE TARGETING; GENETICS; GENOMICS; INTERSPERSED REPEAT; PROCEDURES; PROMOTER REGION; SEQUENCE HOMOLOGY;

CAENORHABDITIS ELEGANS;

ALLELES; ANIMALS; CAENORHABDITIS ELEGANS; GENE FUSION; GENE KNOCK-IN TECHNIQUES; GENETIC LOCI; GENOMICS; INTERSPERSED REPETITIVE SEQUENCES; LUMINESCENT PROTEINS; MUTAGENESIS, INSERTIONAL; PROMOTER REGIONS, GENETIC; SEQUENCE HOMOLOGY, NUCLEIC ACID;

EID: 84939433336     PISSN: 00166731     EISSN: 19432631     Source Type: Journal    
DOI: 10.1534/genetics.115.178335     Document Type: Article

References (42)

1. Arribere, J. A., R. T. Bell, B. X. H. Fu, K. L. Artiles, P. S. Hartman et al., 2014 Efficient marker-free recovery of custom genetic modifications with CRISPR/Cas9 in Caenorhabditis elegans. Genetics 198: 837-846.
2. Berezikov, E., C. I. Bargmann, and R. H. A. Plasterk, 2004 Homologous gene targeting in Caenorhabditis elegans by biolistic transformation. Nucleic Acids Res. 32: e40.
3. Chen, C., L. A. Fenk, and M. de Bono, 2013 Efficient genome editing in Caenorhabditis elegans by CRISPR-targeted homologous recombination. Nucleic Acids Res. 41: e193.
4. Chiu, H., H. T. Schwartz, I. Antoshechkin, and P. W. Sternberg, 2013 Transgene-free genome editing in Caenorhabditis elegans using CRISPR-Cas. Genetics 195: 1167-1171.
5. Cho, S. W., J. Lee, D. Carroll, J.-S. Kim, and J. Lee, 2013 Heritable gene knockout in Caenorhabditis elegans by direct injection of Cas9-sgRNA ribonucleoproteins. Genetics 195: 1177-1180.
6. Detwiler, M. R., M. Reuben, X. Li, E. Rogers, and R. Lin, 2001 Two zinc finger proteins, OMA-1 and OMA-2, are redundantly required for oocyte maturation in C. elegans. Dev. Cell 1: 187-199.
7. Dickinson, D. J., J. D. Ward, D. J. Reiner, and B. Goldstein, 2013 Engineering the Caenorhabditis elegans genome using Cas9-triggered homologous recombination. Nat. Methods 10: 1028-1034.
8. Doench, J. G., E. Hartenian, D. B. Graham, Z. Tothova, M. Hegde et al., 2014 Rational design of highly active sgRNAs for CRISPR-Cas9-mediated gene inactivation. Nat. Biotechnol. 32: 1262-1267.
9. Farboud, B., and B. J. Meyer, 2015 Dramatic enhancement of genome editing by CRISPR/Cas9 through improved guide RNA design. Genetics 199: 959-971.
10. Finney, M., and G. Ruvkun, 1990 The unc-86 gene product couples cell lineage and cell identity in C. elegans. Cell 63: 895-905.
11. Friedland, A. E., Y. B. Tzur, K. M. Esvelt, M. P. Colaiácovo, G. M. Church et al., 2013 Heritable genome editing in C. elegans via a CRISPR-Cas9 system. Nat. Methods 10: 741-743.
12. Frøkjaer-Jensen, C., M. W. Davis, M. Ailion, and E. M. Jorgensen, 2012 Improved Mos1-mediated transgenesis in C. elegans. Nat. Methods 9: 117-118.
13. Frøkjaer-Jensen, C., M. W. Davis, C. E. Hopkins, B. J. Newman, J. M. Thummel et al., 2008 Single-copy insertion of transgenes in Caenorhabditis elegans. Nat. Genet. 40: 1375-1383.
14. Greiss, S., and J. W. Chin, 2011 Expanding the genetic code of an animal. J. Am. Chem. Soc. 133: 14196-14199.
15. Guo, S., and K. J. Kemphues, 1996 A non-muscle myosin required for embryonic polarity in Caenorhabditis elegans. Nature 382: 455-458.
16. Hajdu-Cronin, Y. M., W. J. Chen, and P. W. Sternberg, 2004 The L-type cyclin CYL-1 and the heat-shock-factor HSF-1 are required for heat-shock-induced protein expression in Caenorhabditis elegans. Genetics 168: 1937-1949.
17. Hoogewijs, D., K. Houthoofd, F. Matthijssens, J. Vandesompele, and J. R. Vanfleteren, 2008 Selection and validation of a set of reliable reference genes for quantitative sod gene expression analysis in C. elegans. BMC Mol. Biol. 9: 9.
18. Kamath, R. S., and J. Ahringer, 2003 Genome-wide RNAi screening in Caenorhabditis elegans. Methods 30: 313-321.
19. Katic, I., and H. Großhans, 2013 Targeted heritable mutation and gene conversion by Cas9-CRISPR in Caenorhabditis elegans. Genetics 195: 1173-1176.
20. Kim, H., T. Ishidate, K. S. Ghanta, M. Seth, D. Conte et al., 2014 A Co-CRISPR strategy for efficient genome editing in Caenorhabditis elegans. Genetics 197: 1069-1080.
21. Lee, H.-C., W. Gu, M. Shirayama, E. Youngman, D. Conte et al., 2012 C. elegans piRNAs mediate the genome-wide surveillance of germline transcripts. Cell 150: 78-87.
22. Leopold, L. E., B. N. Heestand, S. Seong, L. Shtessel, and S. Ahmed, 2015 Lack of pairing during meiosis triggers multigenerational transgene silencing in Caenorhabditis elegans. Proc. Natl. Acad. Sci. USA 112(20): E2667-76.
23. Lo, T.-W., C. S. Pickle, S. Lin, E. J. Ralston, M. Gurling et al., 2013 Heritable genome editing using TALENs and CRISPR/ Cas9 to engineer precise insertions and deletions in evolutionarily diverse nematode species. Genetics 195: 331-348.
24. Mello, C. C., J. M. Kramer, D. Stinchcomb, and V. Ambros, 1991 Efficient gene transfer in C. elegans: extrachromosomal maintenance and integration of transforming sequences. EMBO J. 10: 3959-3970.
25. Munro, E., J. Nance, and J. R. Priess, 2004 Cortical flows powered by asymmetrical contraction transport PAR proteins to establish and maintain anterior-posterior polarity in the early C. elegans embryo. Dev. Cell 7: 413-424.
26. Ooi, S. L., J. R. Priess, and S. Henikoff, 2006 Histone H3.3 variant dynamics in the germline of Caenorhabditis elegans. PLoS Genet. 2: e97.
27. Paix, A., Y. Wang, H. E. Smith, C.-Y. S. Lee, D. Calidas et al., 2014 Scalable and versatile genome editing using linear DNAs with microhomology to Cas9 Sites in Caenorhabditis elegans. Genetics 198: 1347-1356.
28. Praitis, V., E. Casey, D. Collar, and J. Austin, 2001 Creation of low-copy integrated transgenic lines in Caenorhabditis elegans. Genetics 157: 1217-1226.
29. Radman, I., S. Greiss, and J. W. Chin, 2013 Efficient and rapid C. elegans transgenesis by bombardment and hygromycin B selection. PLoS ONE 8: e76019.
30. Sarov, M., J. I. Murray, K. Schanze, A. Pozniakovski, W. Niu et al., 2012 A genome-scale resource for in vivo tag-based protein function exploration in C. elegans. Cell 150: 855-866.
31. Schubert, C. M., R. Lin, C. J. de Vries, R. H. Plasterk, and J. R. Priess, 2000 MEX-5 and MEX-6 function to establish soma/ germline asymmetry in early C. elegans embryos. Mol. Cell 5: 671-682.
32. Shalem, O., N. E. Sanjana, E. Hartenian, X. Shi, D. A. Scott et al., 2014 Genome-scale CRISPR-Cas9 knockout screening in human cells. Science 343: 84-87.
33. Shirayama, M., M. Seth, H.-C. Lee, W. Gu, T. Ishidate et al., 2012 PiRNAs initiate an epigenetic memory of nonself RNA in the C. elegans germline. Cell 150: 65-77.
34. Soto, M. C., H. Qadota, K. Kasuya, M. Inoue, D. Tsuboi et al., 2002 The GEX-2 and GEX-3 proteins are required for tissue morphogenesis and cell migrations in C. elegans. Genes Dev. 16: 620-632.
35. Srayko, M., A. Kaya, J. Stamford, and A. A. Hyman, 2005 Identification and characterization of factors required for microtubule growth and nucleation in the early C. elegans embryo. Dev. Cell 9: 223-236.
36. Tenlen, J. R., J. N. Molk, N. London, B. D. Page, and J. R. Priess, 2008 MEX-5 asymmetry in one-cell C. elegans embryos requires PAR-4- and PAR-1-dependent phosphorylation. Development 135: 3665-3675.
37. Tzur, Y. B., A. E. Friedland, S. Nadarajan, G. M. Church, J. A. Calarco et al., 2013 Heritable custom genomic modifications in Caenorhabditis elegans via a CRISPR-Cas9 system. Genetics 195: 1181-1185.
38. Waaijers, S., V. Portegijs, J. Kerver, B. B. L. G. Lemmens, M. Tijsterman et al., 2013 CRISPR/Cas9-targeted mutagenesis in Caenorhabditis elegans. Genetics 195: 1187-1191.
39. Wang, T., J. J. Wei, D. M. Sabatini, and E. S. Lander, 2014 Genetic screens in human cells using the CRISPR-Cas9 system. Science 343: 80-84.
40. Ward, J. D., 2015 Rapid and precise engineering of the Caenorhabditis elegans genome with lethal mutation co-conversion and inactivation of NHEJ repair. Genetics 199: 363-377.
41. Zhang, Y., D. Chen, M. A. Smith, B. Zhang, and X. Pan, 2012 Selection of reliable reference genes in Caenorhabditis elegans for analysis of nanotoxicity. PLoS ONE 7: e31849.
42. Zhao, P., Z. Zhang, H. Ke, Y. Yue, and D. Xue, 2014 Oligonucleotide-based targeted gene editing in C. elegans via the CRISPR/Cas9 system. Cell Res. 24: 247-250.