Field Evaluation of DNA Based Biodiversity Monitoring of Caribbean Mosquitoes

Boerlijst, Sam P.; Trimbos, Krijn B.; Beek, Jordy G. van der; Dijkstra, K. D. B.; Hoorn, Berry B. van der; Schrama, Maarten

doi:10.3389/fevo.2019.00240

Cited by 17 publications

(13 citation statements)

References 60 publications

(80 reference statements)

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“…The use of Culicidae-targeting primers is relevant to the growing number of biomonitoring initiatives that use aquatic environmental DNA (eDNA), which invariably contains substantial amounts of non-target DNA ( Schneider et al 2016 , Boerlijst et al 2019 , Krol et al 2019 ). By excluding most of the bycatch from amplification, such a protocol saves both time and financial resources.…”

Section: Discussionmentioning

confidence: 99%

Efficient Monitoring of Adult and Immature Mosquitoes Through Metabarcoding of Bulk Samples: A Case Study for Non-Model Culicids With Unique Ecologies

Pedro

Sá

Rojas

et al. 2020

Journal of Medical Entomology

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The rapid and economical monitoring of mosquitos is imperative to understanding the dynamics of both disease vectors and nuisance species. In light of technological advances in mosquito sampling and DNA sequencing, health agencies can now utilize the full potential of metabarcoding pipelines for rapid and standardizable surveillance. Here, we describe mosquito spatial and temporal variation, with particular focus on Mansonia Blanchard species, in the Madeira (Rondônia State) and the Ribeira (São Paulo) watersheds, Brazil using metabarcoding of the D2 rDNA marker. Sampling and molecular pipelines were used to evaluate the taxonomic contribution of mosquitos in pools of culicids collected en masse from macrophyte-roots (immatures) and from Mosquito Magnet traps and protected human landings (adults). Results for adult captures are comparable to morphological diagnoses and clarify previously unknown temporal and spatial species turnover. Metabarcoding of immature stages also confirmed the extent of the geographical distribution of some species and each taxon’s association with macrophyte species. Given the benefits of metabarcoding, such as taxonomic acuity, high throughput processing, and objectivity, we suggest such techniques should be more fully incorporated into culicid monitoring schemes. The metabarcoding protocol described herein paired with standardized field sampling schemes, when used by mosquito monitoring professionals, offers substantial improvements in terms of practicality, speed and cost.

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Section: Discussionmentioning

confidence: 99%

Efficient Monitoring of Adult and Immature Mosquitoes Through Metabarcoding of Bulk Samples: A Case Study for Non-Model Culicids With Unique Ecologies

Pedro

Sá

Rojas

et al. 2020

Journal of Medical Entomology

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“…In addition, DNA metabarcoding has been tested as an effective alternative for vector and arbovirus surveillance, which is an issue that concerns public health (Schneider et al ., ). For example, early detection of mosquito vectors using water sample eDNA presented a comparable or higher detection probability to traditional surveys (Schneider et al ., ; Boerlijst et al ., ). There have also been some attempts at using DNA metabarcoding to conduct population genetics studies (Elbrecht et al ., ; Marshall & Stepien, ).…”

Section: Future Research and Challengesmentioning

confidence: 97%

A practical guide to DNA metabarcoding for entomological ecologists

Liu

Clarke

Baker

et al. 2019

Ecological Entomology

107

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1. DNA metabarcoding is a cost-effective species identification approach with great potential to assist entomological ecologists. This review presents a practical guide to help entomological ecologists design their own DNA metabarcoding studies and ensure that sound ecological conclusions can be obtained.2. The review considers approaches to field sampling, laboratory work, and bioinformatic analyses, with the aim of providing the background knowledge needed to make decisions at each step of a DNA metabarcoding workflow.3. Although most conventional sampling methods can be adapted to DNA metabarcoding, this review highlights techniques that will ensure suitable DNA preservation during field sampling and laboratory storage. The review also calls for a greater understanding of the occurrence, transportation, and deposition of environmental DNA when applying DNA metabarcoding approaches for different ecosystems.4. Accurate species detection with DNA metabarcoding needs to consider biases introduced during DNA extraction and PCR amplification, cross-contamination resulting from inappropriate amplicon library preparation, and downstream bioinformatic analyses. Quantifying species abundance with DNA metabarcoding is in its infancy, yet recent studies demonstrate promise for estimating relative species abundance from DNA sequencing reads. 5. Given that bioinformatics is one of the biggest hurdles for researchers new to DNA metabarcoding, several useful graphical user interface programs are recommended for sequence data processing, and the application of emerging sequencing technologies is discussed.

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“…All adult mosquitoes were morphologically identified by using newly developed keys (included after the Discussion), which were based on available specimens, species descriptions, and pre-existing identification keys for the region (such as: Lane, 1953;Van der Kuyp, 1954;Pratt, 1969;Belkin et al, 1970;Darsie et al, 2010;Gustave et al, 2018). All morphospecies from the sites were DNA barcoded as mini-barcodes for MT-CO1 by using a Culicid-specific primer (Boerlijst et al, 2019;Krol et al, 2019). Morphological identifications were checked by blasting the barcodes against the Barcode of Life Data (BOLD) System (version 4) and a reference database extracted from a small collection of pinned adults from Guadeloupe provided by one of the authors (FS) (RMNH.INS.1114107-134).…”

Section: Sampling and Identificationmentioning

confidence: 99%

Taxonomy, ecology and distribution of the mosquitoes (Diptera: Culicidae) of the Dutch Leeward Islands, with a key to the adults and fourth instar larvae

et al. 2020

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Assessing mosquito biodiversity is important for disease surveillance and ecosystem health assessments. Such studies are particularly needed in regions like the Caribbean, which have experienced a series of recent mosquito borne disease outbreaks but received little attention regarding its invertebrate biodiversity. Here, we report on results from a mosquito survey on the Dutch Leeward Islands (Sint Eustatius, Sint Maarten and Saba), carried out in April and October 2018, which is the first integrative survey since those conducted by Van der Kuyp (1947) and Wagenaar Hummelinck (1949). Moreover, we present a novel key for adults and fourth instar larvae of the mosquitoes of the Dutch Leeward Islands. Overall, eleven species were recorded, eight on Sint Maarten, five on Saba and two on Sint Eustatius. Two new potential disease vectors, Culex nigripalpus and Aedes taeniorhynchus, were recorded on Sint Maarten. One previously recorded species, Cx. habilitator, was not retrieved from any of the islands, which is further discussed in the paper. Species indicative of natural forest which previously occurred on all three islands were absent from Sint Eustatius and Sint Maarten but still present on Saba. In contrast, species indicative of human inhabitation, Ae. aegypti and Cx. quinquefasciatus, were highly abundant on Sint Maarten and Sint Eustatius and present in low numbers on Saba. Overall, the results of this study emphasize the importance of biodiversity surveys and indicate that frequent mosquito inventories may contribute to a better understanding of mosquito community composition and distribution of potential vector species.

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Field Evaluation of DNA Based Biodiversity Monitoring of Caribbean Mosquitoes

Cited by 17 publications

References 60 publications

Efficient Monitoring of Adult and Immature Mosquitoes Through Metabarcoding of Bulk Samples: A Case Study for Non-Model Culicids With Unique Ecologies

Efficient Monitoring of Adult and Immature Mosquitoes Through Metabarcoding of Bulk Samples: A Case Study for Non-Model Culicids With Unique Ecologies

A practical guide to DNA metabarcoding for entomological ecologists

Taxonomy, ecology and distribution of the mosquitoes (Diptera: Culicidae) of the Dutch Leeward Islands, with a key to the adults and fourth instar larvae

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