Phenomenal progress in gene drive-based pest eradication

Credit: PNAS
Credit: PNAS
Gene drives are selfish genetic elements that are transmitted to progeny at super-Mendelian (>50%) frequencies.

Recently developed CRISPR–Cas9-based gene-drive systems are highly efficient in laboratory settings, offering the potential to reduce the prevalence of vector-borne diseases, crop pests and non-native invasive species.

However, concerns have been raised regarding the potential unintended impacts of gene-drive systems.

This Review summarizes the phenomenal progress in this field, focusing on optimal design features for full-drive elements (drives with linked Cas9 and guide RNA components) that either suppress target mosquito populations or modify them to prevent pathogen transmission, allelic drives for updating genetic elements, mitigating strategies including trans-complementing split-drives and genetic neutralizing elements, and the adaptation of drive technology to other organisms.

These scientific advances, combined with ethical and social considerations, will facilitate the transparent and responsible advancement of these technologies towards field implementation.

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Since getting on the road, gene-drives have sped a long way. New high-performance vehicles offer great promise for delivering anti-malarial effectors or driving down the numbers of mosquitoes. Flexible add-on trailers (for example, CHACRs) could also update or expand the range of the original drives and, should a drive go errant, strategies for forcing them to pull-over (e-CHACRs) or exit (ERACRs) are now available. Such technologies should be portable to other insects and, with further development, perhaps transferred to other organisms, including vertebrates, plants and even bacteria. So, what is next?

Gene-drive scheme68. The bipartite synthetic CRISPR system (part a). A guide RNA (gRNA; green) binds Cas9 (cyan) directing it to bind and cleave DNA at complementary sites 20 nucleotides in length. The protospacer-adjacent motif (PAM) site (NGG; red) is required for Cas9 binding to genomic targets. In eukaryotic cells, double-stranded breaks are repaired either by the error-prone non-homologous end-joining or by homology-directed repair (HDR), the pathway acting in the germline (part b). Insertion of a cassette encoding Cas9 (cyan) and a gRNA (green) flanked by homology arms (HAs) results in HDR-mediated copying of the cassette from the plasmid into the genomic cut site (part c). The HAs directly flank the gRNA-directed cleavage site. Once inserted into the genome, the Cas9 + gRNA cassette directs cleavage of the homologous chromosome in the germline and is copied into the DNA break by HDR resulting in nearly all progeny (~99%) inheriting the ‘gene-drive’ cassette (part d). Comparison of Mendelian versus gene-drive inheritance patterns. In each case, a few transgenic individuals (blue) are introduced to a large wild-type (WT) population (white) (part e). Predicted logistic growth curve for seeding 1% gene-drive individuals into a WT population (part f). This logistic growth curve is defined by the second-order recursion formula: fn+1 = fn + fn(1 – fn) = 2fn – fn2, where fn is the frequency of the gene drive in the population at generation n. This formula has the closed-form solution f(n)=1−(1−c0)(2n), where c0 is the seeding frequency of the gene drive68. Such optimal drives should reach nearly full introduction by ~10 generations when seeded at a ratio of 1:100. Foundational modelling by Curtis2 for drive of a translocation (T), which is fertile as a homozygote, as is the WT (+) allele, but gives rise to sterile heterozygotes T/+ (part g). This seminal example of a high-threshold drive reveals that, if the T allele is present at >50% prevalence, it takes over the population but, when present at <50%, it disappears over time (solid lines). If the T allele carries a heterozygous fitness cost (dotted lines) the drive must be seeded at a higher percentage to take over. Modelling of a homing endonuclease gene (HEG) gene drive inserted into an essential gene and expressed in a strictly germline-specific fashion63 (part h). Assuming an infinite population and no cleavage-resistant alleles, this drive should attain an equilibrium prevalence determined by its allelic conversion probability (e). For e = 0.9, the drive equilibrates at 90%, at which point the greater reproductive fitness of the WT allele balances the drive potential of the HEG. Parts a–d are adapted with permission from ref.68, Wiley. Part g is adapted from ref.2, Springer Nature Limited. Part h is adapted with permission of The Royal Society, from Proc. Biol. Sci. Burt, A. 270, 1518 (2003); permission conveyed through Copyright Clearance Center, Inc. (ref.63).

Beyond the several technical and ethical challenges described in this Review and elsewhere, I would like to highlight two main challenges facing the gene-drive field.

The first is to obtain both regulatory and community approval to test these systems in natural confined environments such as isolated islands (phase 2 trials) or other controlled contexts.

These trials are essential for obtaining data to evaluate the future potential of candidate drive systems. There is no other way to know how drives will perform in nature under conditions where they must compete with native mosquitoes, which may be much more extreme than in the laboratory. Approval for such phase 2 trials may take time and will depend greatly on efforts such as those already well under way to engage local communities in an open and transparent fashion regarding scientific and ethical issues163,166.

The second challenge, which in many ways rests on the results of the first, is to delineate when and where such drives could be released in phase 3 efforts to reduce disease prevalence. Each drive system will need to develop a detailed target–product profile, which should be evaluated on a case-by-case basis. It will also be important to consider how new drive systems might interact with those already in the environment to avoid potential clashes analogous to those arising from space junk.

In summary, so far, it has been a remarkable drive, through an incredible landscape. The big question is what lies on the road ahead and will the promise of gene-drives deliver the potential they seem to hold?

Ethan Bier is a professor in the section of Cell and Developmental Biology at UC San Diego. He has been engaged in analysis of developmental pathways that establish the primary axes of the fruit fly embryo and larva in Drosophila. 

A version of this article was originally posted at Nature Reviews Genetics and is reposted here with permission. Nature can be found on Twitter @Nature

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