Radiation with reticulation marks the origin of a major malaria vector

Small, Scott T.; Labbé, Frédéric; Lobo, Neil F.; Koekemoer, Lizette L.; Sikaala, Chadwick H.; Neafsey, Daniel E.; Hahn, Matthew W.; Fontaine, Michaël C.; Besansky, Nora J.

doi:10.1073/pnas.2018142117

Cited by 36 publications

(43 citation statements)

References 68 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…researchers must either shift their focus from taxa-centric studies of introgression to more clade-centric studies (e.g. Malinsky, et al (2018); Hamlin, et al (2020);Small, et al (2020);Suvorov, et al (2021)), however, we recognize that this may not always be possible or feasible. Alternatively, we suggest the following unified reporting standard, to further advance the field's abilities to perform comparative analyses of introgression across the tree of life.…”

Section: Directions For the Fieldmentioning

confidence: 99%

15 years of introgression studies: quantifying gene flow across Eukaryotes

Peede

et al. 2021

Preprint

View full text Add to dashboard Cite

With the rise of affordable next generation sequencing technology, introgression - or the exchange of genetic materials between taxa - is widely perceived to be a ubiquitous phenomenon in nature. Although this claim is supported by several keystone studies, no thorough assessment on the frequency of introgression in nature has been performed to date. In this manuscript, we aim to address this knowledge gap by providing a meta-analysis of the most comprehensive survey of introgression studies in Eukaryotes to date (724 papers with claims of introgression). We first examined the evidence given to support introgression, and if/how the lines of evidence have changed across time. We then collated a single statistic, Patterson's D, that quantifies the strength of introgression across 123 studies to further assess how taxonomic group, divergence time, and aspects of life history influence introgression. We find three main results. Studies on introgression are much more frequent in plants and mammals than any other taxonomic group. The study of introgression has shifted from a largely qualitative assessment of whether introgression happens, to a focus on when and how much introgression has occurred across taxa. The most-often used introgression statistic, Patterson's D, shows several intriguing patterns suggesting introgression reports may be biased by both differences in reporting criteria and sequencing technology, but may also differ across taxonomic systems and throughout the process of speciation. Together, these results suggest the need for a unified approach to quantifying introgression in natural communities, and highlight important areas of future research that can be better assessed once this unified approach is met.

show abstract

Section: Directions For the Fieldmentioning

confidence: 99%

15 years of introgression studies: quantifying gene flow across Eukaryotes

Peede

et al. 2021

Preprint

View full text Add to dashboard Cite

show abstract

“…cydippis is represented in our data. Future studies should be designed to include collection, morphology, full genomes, and genomics of all life stages [ 52 ].…”

Section: Discussionmentioning

confidence: 99%

Phylogenetic Complexity of Morphologically Identified Anopheles squamosus in Southern Zambia

Hoffman

Ciubotariu

Simubali

et al. 2021

Insects

View full text Add to dashboard Cite

Despite dramatic reductions in malaria cases in the catchment area of Macha Hospital, Choma District, Southern Province in Zambia, prevalence has remained near 1–2% by RDT for the past several years. To investigate residual malaria transmission in the area, this study focuses on the relative abundance, foraging behavior, and phylogenetic relationships of Anopheles squamosus specimens. In 2011, higher than expected rates of anthropophily were observed among “zoophilic” An. squamosus, a species that had sporadically been found to contain Plasmodium falciparum sporozoites. The importance of An. squamosus in the region was reaffirmed in 2016 when P. falciparum sporozoites were detected in numerous An. squamosus specimens. This study analyzed Centers for Disease Control (CDC) light trap collections of adult mosquitoes from two collection schemes: one performed as part of a reactive-test-and-treat program and the second performed along a geographical transect. Morphological identification, molecular verification of anopheline species, and blood meal source were determined on individual samples. Data from these collections supported earlier studies demonstrating An. squamosus to be primarily exophagic and zoophilic, allowing them to evade current control measures. The phylogenetic relationships generated from the specimens in this study illustrate the existence of well supported clade structure among An. squamosus specimens, which further emphasizes the importance of molecular identification of vectors. The primarily exophagic behavior of An. squamosus in these collections also highlights that indoor vector control strategies will not be sufficient for elimination of malaria in southern Zambia.

show abstract

“…gambiae complex (Beard et al 1993;Peng et al 2016;Hanemaaijer et al 2018) and An. funestus complex (Hua et al 2016;Peng et al 2016;Jones et al 2018;Liu et al 2019;Small et al 2020), and created maximum likelihood trees using MAFFT and FastTree incorporating both present-day samples and historic specimens (Supplementary Figure S8, S9). This helped in assessing that two samples were misidentified, and one could be mapped to the proper reference.…”

Section: Discussionmentioning

confidence: 99%

A minimally morphologically destructive approach for DNA retrieval and whole genome shotgun sequencing of pinned historic Dipteran vector species

Korlević

McAlister

Mayho

et al. 2021

Preprint

View full text Add to dashboard Cite

Museum collections contain enormous quantities of insect specimens collected over the past century, covering a period of increased and varied insecticide usage. These historic collections are therefore incredibly valuable as genomic snapshots of organisms before, during, and after exposure to novel selective pressures. However, these samples come with their own challenges compared to present-day collections, as they are fragile and retrievable DNA is low yield and fragmented. In this paper we tested several DNA extraction procedures across pinned historic Diptera specimens from four disease vector genera: Anopheles, Aedes, Culex and Glossina. We identify an approach that minimizes morphological damage while maximizing DNA retrieval for Illumina library preparation and sequencing that can accommodate the fragmented and low yield nature of historic DNA. We identify several key points in retrieving sufficient DNA while keeping morphological damage to a minimum: an initial rehydration step, a short incubation without agitation in a low salt Proteinase K buffer, and critical point drying of samples post-extraction to prevent tissue collapse caused by air drying. The suggested method presented here provides a solid foundation for exploring the genomes and morphology of historic Diptera collections.

show abstract

Radiation with reticulation marks the origin of a major malaria vector

Cited by 36 publications

References 68 publications

15 years of introgression studies: quantifying gene flow across Eukaryotes

15 years of introgression studies: quantifying gene flow across Eukaryotes

Phylogenetic Complexity of Morphologically Identified Anopheles squamosus in Southern Zambia

A minimally morphologically destructive approach for DNA retrieval and whole genome shotgun sequencing of pinned historic Dipteran vector species

Contact Info

Product

Resources

About