The DOI matches its Crossref record; 57 of the 57 references it cites were found in a registry or an index.
Design, synthesis, and testing toward a 57-codon genome
Abstract
Recoding and repurposing genetic codons: By recoding bacterial genomes, it is possible to create organisms that can potentially synthesize products not commonly found in nature. By systematic replacement of seven codons with synonymous alternatives for all protein-coding genes, Ostrov et al. recoded the Escherichia coli genome. The number of codons in the E. coli genetic code was reduced from 64 to 57 by removing instances of the UAG stop codon and excising two arginine codons, two leucine codons, and two serine codons. Over 90% functionality was successfully retained. In 10 cases, reconstructed bacteria were not viable, but these few failures offered interesting insights into genome-design challenges and what is needed for a viable genome. Science , this issue p. 819
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The Sequence Alignment/Map format and SAMtools
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp352 · Cited by 62,041
Fast and accurate short read alignment with Burrows-Wheeler transform
Li, H., & Durbin, R. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp324 · Cited by 58,607
Differential expression analysis for sequence count data
Anders, S., & Huber, W. (2010) · Genome Biology · doi:10.1186/gb-2010-11-10-r106 · Cited by 15,581
One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products
Datsenko, K. A., & Wanner, B. L. (2000) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.120163297 · Cited by 14,782
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Gibson, D. G., Glass, J. I., Lartigue, C., Noskov, V. N., Chuang, R.-Y., Algire, M. A., Benders, G. A., Montague, M. G., Ma, L., Moodie, M. M., et al. (2010) · Science · doi:10.1126/science.1190719 · Cited by 2,638
Adding New Chemistries to the Genetic Code
Liu, C. C., & Schultz, P. G. (2010) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.052308.105824 · Cited by 1,725
Synonymous but not the same: the causes and consequences of codon bias
Plotkin, J. B., & Kudla, G. (2011) · Nature Reviews Genetics · doi:10.1038/nrg2899 · Cited by 1,685
Cannone, J. J., Subramanian, S., Schnare, M. N., Collett, J. R., D'Souza, L. M., Du, Y., Feng, B., Lin, N., Madabusi, L. V., Müller, K. M., et al. (2002) · BMC Bioinformatics · doi:10.1186/1471-2105-3-2 · Cited by 1,612
Deatherage, D. E., & Barrick, J. E. (2014) · Methods in Molecular Biology · doi:10.1007/978-1-4939-0554-6_12 · Cited by 1,609
Programming cells by multiplex genome engineering and accelerated evolution
Wang, H. H., Isaacs, F. J., Carr, P. A., Sun, Z. Z., Xu, G., Forest, C. R., & Church, G. M. (2009) · Nature · doi:10.1038/nature08187 · Cited by 1,529
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Total synthesis of Escherichia coli with a recoded genome
Fredens, J., Wang, K., de la Torre, D., Funke, L. F. H., Robertson, W. E., Christova, Y., Chia, T., Schmied, W. H., Dunkelmann, D. L., Beránek, V., et al. (2019) · Nature · doi:10.1038/s41586-019-1192-5 · Cited by 526
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Riglar, D. T., & Silver, P. A. (2018) · Nature Reviews Microbiology · doi:10.1038/nrmicro.2017.172 · Cited by 460
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Kohman, R. E., Kunjapur, A. M., Hysolli, E., Wang, Y., & Church, G. M. (2018) · Angewandte Chemie International Edition · doi:10.1002/anie.201707976 · Cited by 33
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Metadata
- Authors
- Ostrov, N., Landon, M., Guell, M., Kuznetsov, G., Teramoto, J., Cervantes, N., Zhou, M., Singh, K., Napolitano, M. G., Moosburner, M., Shrock, E., Pruitt, B. W., Conway, N., Goodman, D. B., Gardner, C. L., Tyree, G., Gonzales, A., Wanner, B. L., Norville, J. E., Lajoie, M. J., & Church, G. M.
- Venue
- Science
- Published
- 2016-08-19
- Volume
- 353
- Issue
- 6301
- Pages
- 819-822
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W2514783055
- Cited by
- 286
- References
- 57
- FWCI
- 18.51
- Type
- journal article
- Language
- en
- Open access
- closed
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- Ostrov, N., Landon, M., Guell, M., Kuznetsov, G., Teramoto, J., Cervantes, N., Zhou, M., Singh, K., Napolitano, M. G., Moosburner, M., Shrock, E., Pruitt, B. W., Conway, N., Goodman, D. B., Gardner, C. L., Tyree, G., Gonzales, A., Wanner, B. L., Norville, J. E., . . . Church, G. M. (2016). Design, synthesis, and testing toward a 57-codon genome. Science. https://doi.org/10.1126/science.aaf3639
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