spatial genetics
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BMC Biology ◽  
2020 ◽  
Vol 18 (1) ◽  
Author(s):  
Igor Filipović ◽  
Hapuarachchige Chanditha Hapuarachchi ◽  
Wei-Ping Tien ◽  
Muhammad Aliff Bin Abdul Razak ◽  
Caleb Lee ◽  
...  

2020 ◽  
Author(s):  
I Filipović ◽  
HC Hapuarachchi ◽  
WP Tien ◽  
ABAR Muhammed ◽  
C Lee ◽  
...  

AbstractBackgroundHundreds of millions of people get a mosquito-borne disease every year, of which nearly one million die. Mosquito-borne diseases are primarily controlled and mitigated through the control of mosquito vectors. Accurately quantified mosquito dispersal in a given landscape is critical for the design and optimization of the control programs, yet the field experiments that measure dispersal of mosquitoes recaptured at certain distances from the release point (mark-release-recapture MRR studies) are challenging for such small insects and often unrepresentative of the insect’s true field behavior. Using Singapore as a study site, we show how mosquito dispersal patterns can be characterized from the spatial analyses of genetic relatedness among individuals sampled over a short time span without interruption of their natural behaviors.Methods and FindingsWe captured ovipositing females of Aedes aegypti, a major arboviral disease vector, across floors of high-rise apartment blocks and genotyped them using thousands of genome-wide SNP markers. We developed a methodology that produces a dispersal kernel for distance that results from one generation of successful breeding (effective dispersal), using the distances separating full siblings, 2nd and 3rd degree relatives (close kin). In Singapore, the estimated dispersal distance kernel was exponential (Laplacian), giving the mean effective dispersal distance (and dispersal kernel spread σ) of 45.2 m (95%CI: 39.7-51.3 m), and 10% probability of dispersal >100 m (95%CI: 92-117 m). Our genetic-based estimates matched the parametrized dispersal kernels from the previously reported MRR experiments. If few close-kin are captured, a conventional genetic isolation-by-distance analysis can be used, and we show that it can produce σ estimates congruent with the close-kin method, conditioned on the accurate estimation of effective population density. We also show that genetic patch size, estimated with the spatial autocorrelation analysis, reflects the spatial extent of the dispersal kernel ‘tail’ that influences e.g. predictions of critical radii of release zones and Wolbachia wave speed in mosquito replacement programs.ConclusionsWe demonstrate that spatial genetics (the newly developed close-kin analysis, and conventional IBD and spatial autocorrelation analyses) can provide a detailed and robust characterization of mosquito dispersal that can guide operational vector control decisions. With the decreasing cost of next generation sequencing, acquisition of spatial genetic data will become increasingly accessible, and given the complexities and criticisms of conventional MRR methods, but the central role of dispersal measures in vector control programs, we recommend genetic-based dispersal characterization as the more desirable means of parameterization.


2019 ◽  
Vol 39 (3) ◽  
pp. 280-289 ◽  
Author(s):  
Elizabeth E. Daly ◽  
Kathleen J. Walker ◽  
Mary Morgan-Richards ◽  
Steven A. Trewick

2019 ◽  
Vol 94 ◽  
pp. 77-85 ◽  
Author(s):  
Yasin Demirbaş ◽  
İrfan Albayrak ◽  
Ayça Özkan Koca ◽  
Milomir Stefanović ◽  
Felix Knauer ◽  
...  

2018 ◽  
Author(s):  
Leandro Duarte ◽  
Jacqueline Souza Lima ◽  
Renan Maestri ◽  
Vanderlei Debastiani ◽  
Rosane Garcia Collevatti

AbstractMetapopulations are sets of local populations connected by dispersal. While genetic turnover informs about the number of alleles shared by (meta)populations, a set of populations that do not share alleles with a second set may still show low genetic divergence to it. Recent secondary contact driven by anthropogenic habitat fragmentation and/or current climate change, for instance, may erase the historical track of genetic turnover. On the other hand, genetic turnover among sets of populations is expected to be related to the degree of genetic divergence among them if metapopulations become isolated from others due to vicariance or ancient dispersal. Yet, current analytical tools do not permit direct inference about alternative processes underlying spatial, environmental and/or biogeographic correlates of genetic turnover among populations. We introduce GenVectors, a new R package that offers flexible analytical tools that allow evaluating biogeographic or environmental correlates of genetic turnover among sets of local populations based on fuzzy set theory. Analyses implemented in GenVectors allow exploring the distribution of haplotypes or SNPs across sets of local populations. Moreover, GenVectors provides tools to analyze environmental or biogeographic correlates of haplotype or SNP turnover among sets of local populations by applying appropriate null models, which enable to discriminate history-driven genetic turnover (vicariance, ancient dispersal) from non-historical ones (recent secondary contact). Finally, we demonstrate the application of GenVectors in two empirical datasets, one based on single-locus marker (haplotypes) and other based on multi-loci marker (SNPs).


2018 ◽  
Vol 8 (11) ◽  
pp. 5336-5354 ◽  
Author(s):  
Norah Saarman ◽  
Mary Burak ◽  
Robert Opiro ◽  
Chaz Hyseni ◽  
Richard Echodu ◽  
...  

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