Phage-assisted evolution of an adenine base editor with improved Cas domain compatibility and activity.

Nat Biotechnol
Authors
Abstract

Applications of adenine base editors (ABEs) have been constrained by the limited compatibility of the deoxyadenosine deaminase component with Cas homologs other than SpCas9. We evolved the deaminase component of ABE7.10 using phage-assisted non-continuous and continuous evolution (PANCE and PACE), which resulted in ABE8e. ABE8e contains eight additional mutations that increase activity (k) 590-fold compared with that of ABE7.10. ABE8e offers substantially improved editing efficiencies when paired with a variety of Cas9 or Cas12 homologs. ABE8e is more processive than ABE7.10, which could benefit screening, disruption of regulatory regions and multiplex base editing applications. A modest increase in Cas9-dependent and -independent DNA off-target editing, and in transcriptome-wide RNA off-target editing can be ameliorated by the introduction of an additional mutation in the TadA-8e domain. Finally, we show that ABE8e can efficiently install natural mutations that upregulate fetal hemoglobin expression in the BCL11A enhancer or in the the HBG promoter in human cells, targets that were poorly edited with ABE7.10. ABE8e augments the effectiveness and applicability of adenine base editing.

Year of Publication
2020
Journal
Nat Biotechnol
Date Published
2020 Mar 16
ISSN
1546-1696
DOI
10.1038/s41587-020-0453-z
PubMed ID
32433547
Links
Grant list
P01HL053749 / U.S. Department of Health & Human Services | NIH | National Heart, Lung, and Blood Institute (NHLBI)
U01 AI142756 / AI / NIAID NIH HHS / United States
RM1 HG009490 / HG / NHGRI NIH HHS / United States
R01 EB022376 / EB / NIBIB NIH HHS / United States
R35 GM118062 / GM / NIGMS NIH HHS / United States