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RNA-guided editing of bacterial genomes using CRISPR-Cas systems
Open accessAbstract
Here we use the clustered, regularly interspaced, short palindromic repeats (CRISPR)-associated Cas9 endonuclease complexed with dual-RNAs to introduce precise mutations in the genomes of Streptococcus pneumoniae and Escherichia coli. The approach relies on dual-RNA:Cas9-directed cleavage at the targeted genomic site to kill unmutated cells and circumvents the need for selectable markers or counter-selection systems. We reprogram dual-RNA:Cas9 specificity by changing the sequence of short CRISPR RNA (crRNA) to make single- and multinucleotide changes carried on editing templates. Simultaneous use of two crRNAs enables multiplex mutagenesis. In S. pneumoniae, nearly 100% of cells that were recovered using our approach contained the desired mutation, and in E. coli, 65% that were recovered contained the mutation, when the approach was used in combination with recombineering. We exhaustively analyze dual-RNA:Cas9 target requirements to define the range of targetable sequences and show strategies for editing sites that do not meet these requirements, suggesting the versatility of this technique for bacterial genome engineering.
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“As an example, the most common Cas9 system, SpCas9, recognises NGG motifs and therefore only sequences adjacent to that motif can be targeted [60].”
From CRISPR-Cas: Converting A Bacterial Defence Mechanism into A State-of-the-Art Genetic Manipulation Tool (2019) · cites this paper as [60]
Experimental — accuracy not yet measuredThe source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“CRISPR systems might be an alternative or a tool to use together with conventional antibiotics, either by disabling antibiotic-resistance genes or by developing toxicity in bacteria through the cleavage of crucial domains of their genome, exerting a bactericidal effect [60].”
From CRISPR-Cas: Converting A Bacterial Defence Mechanism into A State-of-the-Art Genetic Manipulation Tool (2019) · cites this paper as [60]
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“In early 2013, Jiang et al. used the CRISPR-Cas9 system to induce targeted mutations (insertions, deletions, and single-nucleotide substitutions) in the genome of Streptococcus pneumoniae and E. coli strains [60].”
From CRISPR-Cas: Converting A Bacterial Defence Mechanism into A State-of-the-Art Genetic Manipulation Tool (2019) · cites this paper as [60]
In the citing paper
“The type II CRISPR/Cas9 system has been exploited for high-efficiency gene editing in model microorganisms such as E. coli (Jiang et al., 2015), S. cerevisiae (DiCarlo et al., 2013), and Streptococcus pneumoniae (Jiang et al., 2013).”
From Gas Fermentation—A Flexible Platform for Commercial Scale Production of Low-Carbon-Fuels and Chemicals from Waste and Renewable Feedstocks (2016) · cites this paper as Jiang et al., 2013
In the citing paper
“Collectively, these studies indicate that although each base within the 20 nt guide sequence contributes to overall specificity”
From Newer Gene Editing Technologies toward HIV Gene Therapy (2013) · cites this paper as [93]
In the citing paper
“multiple mismatches between the guide RNA and its complementary target DNA sequence can be tolerated depending on the quantity, position, and base identity of mismatches [87,90,91,93], all of which contribute to potential off-target activity.”
From Newer Gene Editing Technologies toward HIV Gene Therapy (2013) · cites this paper as [93]
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Cites
A Programmable Dual-RNA–Guided DNA Endonuclease in Adaptive Bacterial Immunity
Jinek, M., Chylinski, K., Fonfara, I., Hauer, M., Doudna, J. A., & Charpentier, E. (2012) · Science · doi:10.1126/science.1225829 · Cited by 17,116
Multiplex Genome Engineering Using CRISPR/Cas Systems
Cong, L., Ran, F. A., Cox, D., Lin, S., Barretto, R., Habib, N., Hsu, P. D., Wu, X., Jiang, W., Marraffini, L. A., et al. (2013) · Science · doi:10.1126/science.1231143 · Cited by 15,339
Self-citationEnzymatic assembly of DNA molecules up to several hundred kilobases
Gibson, D. G., Young, L., Chuang, R.-Y., Venter, J. C., Hutchison, C. A., & Smith, H. O. (2009) · Nature Methods · doi:10.1038/nmeth.1318 · Cited by 10,088
RNA-Guided Human Genome Engineering via Cas9
Mali, P., Yang, L., Esvelt, K. M., Aach, J., Guell, M., DiCarlo, J. E., Norville, J. E., & Church, G. M. (2013) · Science · doi:10.1126/science.1232033 · Cited by 9,210
CRISPR-Cas systems for editing, regulating and targeting genomes
Sander, J. D., & Joung, J. K. (2014) · Nature Biotechnology · doi:10.1038/nbt.2842 · Cited by 3,153
Efficient genome editing in zebrafish using a CRISPR-Cas system
Hwang, W. Y., Fu, Y., Reyon, D., Maeder, M. L., Tsai, S. Q., Sander, J. D., Peterson, R. T., Yeh, J.-R. J., & Joung, J. K. (2013) · Nature Biotechnology · doi:10.1038/nbt.2501 · Cited by 2,937
Gasiunas, G., Barrangou, R., Horvath, P., & Siksnys, V. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1208507109 · Cited by 2,769
CRISPR RNA Maturation by Trans-Encoded Small RNA and Host Factor RNase III
Deltcheva, E., Chylinski, K., Sharma, C. M., Gonzales, K., Chao, Y., Pirzada, Z. A., Eckert, M. R., Vogel, J., & Charpentier, E. (2011) · Nature · doi:10.1038/nature09886 · Cited by 2,563
CRISPR/Cas, the Immune System of Bacteria and Archaea
Horvath, P., & Barrangou, R. (2010) · Science · doi:10.1126/science.1179555 · Cited by 2,471
Small CRISPR RNAs Guide Antiviral Defense in Prokaryotes
Brouns, S. J. J., Jore, M. M., Lundgren, M., Westra, E. R., Slijkhuis, R. J. H., Snijders, A. P. L., Dickman, M. J., Makarova, K. S., Koonin, E. V., & van der Oost, J. (2008) · Science · doi:10.1126/science.1159689 · Cited by 2,460
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Matei, N., Camara, J. R., McBride, D. W., Câmara, R., Xu, N., Tang, J., & Zhang, J. H. (2018) · Journal of Neuroscience · doi:10.1523/jneurosci.2352-17.2018 · Cited by 62
Genetic Engineering of Resident Bacteria in the Gut Microbiome
Arnold, J. H., Glazier, J., & Mimee, M. (2023) · Journal of Bacteriology · doi:10.1128/jb.00127-23 · Cited by 64
Genomic impact of CRISPR immunization against bacteriophages
Barrangou, R., Coûté-Monvoisin, A.-C., Stahl, B., Chavichvily, I., Damange, F., Romero, D. A., Boyaval, P., Fremaux, C., & Horvath, P. (2013) · Biochemical Society Transactions · doi:10.1042/bst20130160 · Cited by 62
CRISPR-Cas-Mediated Targeted Genome Editing in Human Cells
Yang, L., Mali, P., Kim-Kiselak, C., & Church, G. M. (2014) · Methods in molecular biology · doi:10.1007/978-1-62703-761-7_16 · Cited by 58
Orthogonal Modular Gene Repression in Escherichia coli Using Engineered CRISPR/Cas9
Didovyk, A., Borek, B., Hasty, J., & Tsimring, L. S. (2015) · ACS Synthetic Biology · doi:10.1021/acssynbio.5b00147 · Cited by 62
CRISPR/Cas9 Assisted Multiplex Genome Editing Technique in Escherichia coli
Xu, F., Zhao, D., Zhang, X., Ding, X., & Bi, C. (2018) · Biotechnology Journal · doi:10.1002/biot.201700604 · Cited by 61
Development of a CRISPR/Cas9 System for Methylococcus capsulatus In Vivo Gene Editing
Tapscott, T., Guarnieri, M. T., & Henard, C. A. (2019) · Applied and Environmental Microbiology · doi:10.1128/aem.00340-19 · Cited by 65
Valderrama, J. A., Kulkarni, S. S., Nizet, V., & Bier, E. (2019) · Nature Communications · doi:10.1038/s41467-019-13649-6 · Cited by 61
Staying on target with CRISPR-Cas
Carroll, D. (2013) · Nature Biotechnology · doi:10.1038/nbt.2684 · Cited by 60
Endonucleases: new tools to edit the mouse genome
Wijshake, T., Baker, D. J., & van de Sluis, B. (2014) · Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease · doi:10.1016/j.bbadis.2014.04.020 · Cited by 61
The Association Between Intestinal Bacteria and Allergic Diseases—Cause or Consequence?
Han, P., Gu, J., Li, L., Wang, X., Wang, H., Wang, Y., Chang, C. C.-C., & Sun, J. (2021) · Frontiers in Cellular and Infection Microbiology · doi:10.3389/fcimb.2021.650893 · Cited by 65
Novel fermentation processes for manufacturing plant natural products
Zhou, J., Du, G., & Chen, J. (2013) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2013.08.009 · Cited by 60
Exploiting CRISPR-Cas to manipulate Enterococcus faecalis populations
Hullahalli, K., Rodrigues, M., & Palmer, K. L. (2017) · eLife · doi:10.7554/elife.26664 · Cited by 60
Evolution and Application of Genome Editing Techniques for Achieving Food and Nutritional Security
Fiaz, S., Ahmar, S., Saeed, S., Riaz, A., Mora, F., & Jung, K. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms22115585 · Cited by 61
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Ashraf, K. U., Nygaard, R., Vickery, O. N., Erramilli, S. K., Herrera, C. M., McConville, T. H., Petrou, V. I., Giacometti, S. I., Dufrisne, M. B., Nosol, K., et al. (2022) · Nature · doi:10.1038/s41586-022-04555-x · Cited by 59
CRISPR/Cas9 system: a reliable and facile genome editing tool in modern biology
Javaid, D., Ganie, S. Y., Hajam, Y. A., & Reshi, M. S. (2022) · Molecular Biology Reports · doi:10.1007/s11033-022-07880-6 · Cited by 65
Microbial Genome Editing with CRISPR–Cas9: Recent Advances and Emerging Applications Across Sectors
Dudeja, C., Mishra, A., Ali, A., Singh, P. P., & Jaiswal, A. K. (2025) · Fermentation · doi:10.3390/fermentation11070410 · Cited by 70
Heler, R., Wright, A. V., Vucelja, M., Bikard, D., Doudna, J. A., & Marraffini, L. A. (2016) · Molecular Cell · doi:10.1016/j.molcel.2016.11.031 · Cited by 57
Umenhoffer, K., Draskovits, G., Nyerges, Á., Karcagi, I., Bogos, B., Tímár, E., Csörgő, B., Herczeg, R., Nagy, I., Fehér, T., et al. (2017) · ACS Synthetic Biology · doi:10.1021/acssynbio.6b00378 · Cited by 58
Yi, Y., Li, Z., Song, C., & Kuipers, O. P. (2018) · Environmental Microbiology · doi:10.1111/1462-2920.14305 · Cited by 65
High-fidelity SaCas9 identified by directional screening in human cells
Xie, H., Ge, X., Yang, F., Wang, B., Li, S., Duan, J., Lv, X., Cheng, C., Song, Z., Liu, C., et al. (2020) · PLoS Biology · doi:10.1371/journal.pbio.3000747 · Cited by 59
Zhang, Y., & Showalter, A. M. (2020) · Frontiers in Plant Science · doi:10.3389/fpls.2020.589517 · Cited by 60
Characterizing Endogenous Protein Complexes with Biological Mass Spectrometry
Rogawski, R., & Sharon, M. (2021) · Chemical Reviews · doi:10.1021/acs.chemrev.1c00217 · Cited by 59
Continuous synthesis of E. coli genome sections and Mb-scale human DNA assembly
Zürcher, J. F., Kleefeldt, A. A., Funke, L. F. H., Birnbaum, J., Fredens, J., Grazioli, S., Liu, K. C., Spinck, M., Petris, G., Murat, P., et al. (2023) · Nature · doi:10.1038/s41586-023-06268-1 · Cited by 58
Bacterial Cellular Engineering by Genome Editing and Gene Silencing
Nakashima, N., & Miyazaki, K. (2014) · International Journal of Molecular Sciences · doi:10.3390/ijms15022773 · Cited by 63
Chen, L., Tang, L., Xiang, H., Jin, L., Li, Q., Dong, Y., Wang, W., & Zhang, G. (2014) · GigaScience · doi:10.1186/2047-217x-3-24 · Cited by 62
Hu, J. H., Davis, K. M., & Liu, D. R. (2016) · Cell chemical biology · doi:10.1016/j.chembiol.2015.12.009 · Cited by 61
Comparative analysis of CRISPR‐Cas systems in Klebsiella genomes
Shen, J., Lv, L., Wang, X., Xiu, Z., & Chen, G. (2017) · Journal of Basic Microbiology · doi:10.1002/jobm.201600589 · Cited by 58
CRISPR /Cas9‐mediated mutagenesis of the white gene in the tephritid pest Bactrocera tryoni
Choo, A., Crisp, P., Saint, R. B., O’Keefe, L. V., & Baxter, S. W. (2017) · Journal of Applied Entomology · doi:10.1111/jen.12411 · Cited by 58
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Xia, P., Ling, H., Foo, J. L., & Chang, M. W. (2019) · Biotechnology Journal · doi:10.1002/biot.201800496 · Cited by 57
Veillet, F., Perrot, L., Guyon‐Debast, A., Kermarrec, M.-P., Chauvin, L., Chauvin, J.-É., Gallois, J., Mazier, M., & Nogué, F. (2020) · International Journal of Molecular Sciences · doi:10.3390/ijms21031024 · Cited by 59
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Fels, U., Gevaert, K., & Damme, P. V. (2020) · Frontiers in Microbiology · doi:10.3389/fmicb.2020.548410 · Cited by 58
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Pan, M., Morovic, W., Hidalgo-Cantabrana, C., Roberts, A., Walden, K. K. O., Goh, Y. J., & Barrangou, R. (2022) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2205068119 · Cited by 57
Fan, X.-B., Mo, B., Li, G., Huang, L., Guo, H., Gong, X.-L., & Wang, C. (2022) · BMC Biology · doi:10.1186/s12915-022-01411-2 · Cited by 64
Rütering, M., Schmid, J., Rühmann, B., Schilling, M., & Sieber, V. (2016) · Carbohydrate Polymers · doi:10.1016/j.carbpol.2016.04.074 · Cited by 58
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Cheng, F., Gong, L., Zhao, D., Yang, H., Zhou, J. B., Li, M., & Xiang, H. (2017) · Journal of genetics and genomics/Journal of Genetics and Genomics · doi:10.1016/j.jgg.2017.09.010 · Cited by 60
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Meng, X., Hu, X., Liu, Q., Song, X., Gao, C., Li, J., & Wang, K. (2017) · Science China Life Sciences · doi:10.1007/s11427-017-9247-9 · Cited by 57
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Lazarus, J. E., Warr, A. R., Kuehl, C. J., Giorgio, R. T., Davis, B. M., & Waldor, M. K. (2019) · Applied and Environmental Microbiology · doi:10.1128/aem.00990-19 · Cited by 56
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Zhang, G., Zeng, T., Dai, Z., & Dai, X. (2021) · Computational and Structural Biotechnology Journal · doi:10.1016/j.csbj.2021.03.001 · Cited by 64
Sachdeva, M., Sachdeva, N., Pal, M., Gupta, N., Khan, I. A., Majumdar, M., & Tiwari, A. (2015) · Cancer Gene Therapy · doi:10.1038/cgt.2015.54 · Cited by 56
Codon Compression Algorithms for Saturation Mutagenesis
Pines, G., Pines, A., Garst, A. D., Zeitoun, R. I., Lynch, S. A., & Gill, R. T. (2014) · ACS Synthetic Biology · doi:10.1021/sb500282v · Cited by 54
Resistance to nonribosomal peptide antibiotics mediated by d-stereospecific peptidases
Li, Y., Zhong, Z., Hou, P., Zhang, W., & Qian, P. (2018) · Nature Chemical Biology · doi:10.1038/s41589-018-0009-4 · Cited by 54
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Liu, R., Liang, L., Freed, E. F., & Gill, R. T. (2020) · Trends in biotechnology · doi:10.1016/j.tibtech.2020.07.005 · Cited by 58
Whitford, C. M., Dymek, S., Kerkhoff, D., März, C., Schmidt, O., Edich, M., Droste, J., Pucker, B., Rückert, C., & Kalinowski, J. (2018) · Journal of Biological Engineering · doi:10.1186/s13036-018-0105-8 · Cited by 58
Fokum, E., Zabed, H. M., Guo, Q. J., Yun, J., Yang, M., Pang, H., An, Y., Li, W., & Qi, X. (2019) · Food Bioscience · doi:10.1016/j.fbio.2019.01.003 · Cited by 55
Applications of CRISPR technology in studying plant-pathogen interactions: overview and perspective
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Ma, R., Hu, X., Zhang, X., Wang, W., Sun, J., Su, Z., & Zhu, C. (2022) · Frontiers in Cellular and Infection Microbiology · doi:10.3389/fcimb.2022.1003033 · Cited by 64
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Yu, K., Natanson, H., & Dunbar, C. E. (2016) · Human Gene Therapy · doi:10.1089/hum.2016.107 · Cited by 59
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Waller, M. C., Bober, J. R., Nair, N. U., & Beisel, C. L. (2017) · Current Opinion in Microbiology · doi:10.1016/j.mib.2017.05.006 · Cited by 55
Numamoto, M., Maekawa, H., & Kaneko, Y. (2017) · Journal of Bioscience and Bioengineering · doi:10.1016/j.jbiosc.2017.06.001 · Cited by 54
Jung, Y. J., Lee, H. J., Kim, J. H., Kim, D. H., Kim, H. K., Cho, Y., Bae, S., & Kang, K.-K. (2019) · Plant Biotechnology Reports · doi:10.1007/s11816-019-00579-4 · Cited by 55
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Sequence-independent RNA sensing and DNA targeting by a split domain CRISPR–Cas12a gRNA switch
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Current advancement in the application of prime editing
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Parikh, B. A., Beckman, D. L., Patel, S. J., White, J. M., & Yokoyama, W. M. (2015) · PLoS ONE · doi:10.1371/journal.pone.0116484 · Cited by 55
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Hayes, C. A., Dalia, T. N., & Dalia, A. B. (2017) · Molecular Microbiology · doi:10.1111/mmi.13646 · Cited by 49
Gene Drive Strategies for Population Replacement
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Guzmán-Zapata, D., Sandoval-Vargas, J. M., Macedo-Osorio, K. S., Salgado, E., Castrejón-Flores, J. L., Oliver-Salvador, M. D. C., Durán‐Figueroa, N., Nogué, F., & Badillo-Corona, J. A. (2019) · International Journal of Molecular Sciences · doi:10.3390/ijms20051247 · Cited by 57
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Zhang, Y., Zhang, H., Xu, X., Wang, Y., Chen, W., Wang, Y., Wu, Z., Tang, N., Wang, Y., Zhao, S., et al. (2020) · Nature Catalysis · doi:10.1038/s41929-020-00506-9 · Cited by 49
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Wu, W. Y., Adiego-Pérez, B., & John van der, O. O. S. T. (2024) · Nature Biotechnology · doi:10.1038/s41587-024-02485-9 · Cited by 58
Briner, A. E., & Barrangou, R. (2013) · Applied and Environmental Microbiology · doi:10.1128/aem.03015-13 · Cited by 55
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Aouida, M., Eid, A., Ali, Z., Cradick, T. J., Lee, C. M., Deshmukh, H., Atef, A., AbuSamra, D. B., Gadhoum, S. Z., Merzaban, J. S., et al. (2015) · PLoS ONE · doi:10.1371/journal.pone.0133373 · Cited by 55
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Li, S., & Xia, L. (2019) · aBIOTECH · doi:10.1007/s42994-019-00009-7 · Cited by 55
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Control of gene expression by CRISPR-Cas systems
Bikard, D., & Marraffini, L. A. (2013) · F1000Prime Reports · doi:10.12703/p5-47 · Cited by 53
Reisch, C. R., & Prather, K. L. J. (2017) · Current Protocols in Molecular Biology · doi:10.1002/cpmb.29 · Cited by 52
Genetic redundancy of senescence-associated transcription factors in Arabidopsis
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Li, Z., Ding, D., Wang, H., Liu, L., Fang, H., Chen, T., & Zhang, D. (2020) · Synthetic and Systems Biotechnology · doi:10.1016/j.synbio.2020.06.009 · Cited by 52
Aðalsteinsson, B. Þ., Kristjansdottir, T., Merré, W., Helleux, A., Dusaucy, J., Tourigny, M., Friðjónsson, Ó. H., & Hreggviðsson, G. Ó. (2021) · Scientific Reports · doi:10.1038/s41598-021-89029-2 · Cited by 56
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Metadata
- Authors
- Jiang, W., Bikard, D., Cox, D., Zhang, F., & Marraffini, L. A.
- Affiliations
- Rockefeller University (US)
- Broad Institute (US)
- Corresponding author
- Bikard, David
- Marraffini, Luciano A
- Venue
- Nature Biotechnology
- Published
- 2013-01-29
- Volume
- 31
- Issue
- 3
- Pages
- 233-239
- ISSN
- 0733-222X (ISSN-L)
- 1087-0156
- 1546-1696
- PMC
- PMC3748948
- OpenAlex
- W2000046950
- Cited by
- 2,429
- References
- 51
- Citations by year
- 2026: 84 · 2025: 124 · 2024: 151 · 2023: 162 · 2022: 199 · 2021: 203 · 2020: 245 · 2019: 185 · 2018: 206 · 2017: 208 · 2016: 203 · 2015: 174 · 2014: 183 · 2013: 98
- FWCI
- 98.32
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Nature Biotechnology (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- DSpace@MIT (Massachusetts Institute of Technology) (submittedVersion, cc-by-nc-sa)
- PMC
- Funders
- U.S. Public Health Service
- National Institute of Mental Health (DP1MH100706)
- National Institute of General Medical Sciences (T32GM007753)
- National Institute of Allergy and Infectious Diseases (DP2AI104556)
- National Center for Chronic Disease Prevention and Health Promotion (DP1‑MH100706)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › CRISPR and Genetic Engineering
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Bacterial Genetics and Biotechnology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA regulation and disease
- Keywords
- CRISPR/Cas9, bacterial genome editing, Streptococcus pneumoniae, Escherichia coli, targeted mutagenesis, recombineering, genome editing
- MeSH terms
- Base Sequence, Endonucleases, Escherichia coli, Genetic Engineering, Molecular Sequence Data, Streptococcus pneumoniae, Mutagenesis, Site-Directed, Genome, Bacterial, DNA Cleavage, RNA, Small Untranslated
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