In vivo hypermutation and continuous evolution

Rosana S Molina; Gordon Rix; Amanuella A Mengiste; Beatriz Alvarez; Daeje Seo; Haiqi Chen; Juan Hurtado; Qiong Zhang; Jorge Donato García-García; Zachary J Heins; Patrick J Almhjell; Frances H Arnold; Ahmad S Khalil; Andrew D Hanson; John E Dueber; David V Schaffer; Fei Chen; Seokhee Kim; Luis Ángel Fernández; Matthew D Shoulders; Chang C Liu

doi:10.1038/s43586-022-00130-w

In vivo hypermutation and continuous evolution

Nat Rev Methods Primers. 2022:2:37. doi: 10.1038/s43586-022-00130-w. Epub 2022 May 19.

Authors

Rosana S Molina¹, Gordon Rix², Amanuella A Mengiste³, Beatriz Alvarez⁴, Daeje Seo⁵, Haiqi Chen⁶, Juan Hurtado⁷, Qiong Zhang⁷, Jorge Donato García-García⁸, Zachary J Heins^{9

10}, Patrick J Almhjell¹¹, Frances H Arnold^{11

12}, Ahmad S Khalil^{9

10

13}, Andrew D Hanson¹⁴, John E Dueber^{7

15

16}, David V Schaffer^{7

15

17

18

19}, Fei Chen⁶, Seokhee Kim⁵, Luis Ángel Fernández⁴, Matthew D Shoulders³, Chang C Liu^{1

2

20}

Affiliations

¹ Department of Biomedical Engineering, University of California, Irvine, CA 92617, USA.
² Department of Molecular Biology and Biochemistry, University of California, Irvine, CA 92697, USA.
³ Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, USA.
⁴ Department of Microbial Biotechnology, Centro Nacional de Biotecnología, Consejo Superior de Investigaciones Científicas (CNB-CSIC), Darwin 3, Campus UAM Cantoblanco, 28049 Madrid, Spain.
⁵ Department of Chemistry, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 08826, South Korea.
⁶ Broad Institute of MIT and Harvard, Cambridge, MA, USA.
⁷ Department of Bioengineering, University of California, Berkeley, Berkeley, CA, USA.
⁸ Tecnologico de Monterrey, Escuela de Ingenieria y Ciencias, Av. General Ramon Corona 2514, Nuevo Mexico, C.P. 45138, Zapopan, Jalisco, Mexico.
⁹ Biological Design Center, Boston University, Boston, Massachusetts, USA.
¹⁰ Department of Biomedical Engineering, Boston University, Boston, Massachusetts, USA.
¹¹ Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA.
¹² Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA, USA.
¹³ Wyss Institute for Biologically Inspired Engineering, Harvard University, Boston, Massachusetts, USA.
¹⁴ Horticultural Sciences Department, University of Florida, Gainesville, FL 32611, USA.
¹⁵ Innovative Genomics Institute, University of California Berkeley and San Francisco, Berkeley, CA, USA.
¹⁶ Biological Systems & Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
¹⁷ Department of Chemical and Biomolecular Engineering, University of California Berkeley, Berkeley, CA, USA.
¹⁸ Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.
¹⁹ Helen Wills Neuroscience Institute, University of California, Berkeley, Berkeley, CA, USA.
²⁰ Department of Chemistry, University of California, Irvine, CA 92617, USA.

No abstract available

Keywords: Cheater mutations; Clonal interference; Consensus sequencing; Directed evolution; Greedy mutations; Hypermutation; Integration cassette; Processivity; Sign epistasis; Unique molecular identifier.

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