Jeremy Dewaard

Jeremy Dewaard
University of Guelph | UOGuelph · Centre for Biodiversity Genomics

PhD

About

138
Publications
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26,184
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Publications

Publications (138)
Article
Full-text available
Metazoan metabarcoding is emerging as an essential strategy for inventorying biodiversity, with diverse projects currently generating massive quantities of community-level data. The potential for integrating across such data sets offers new opportunities to better understand biodiversity and how it might respond to global change. However, large-sca...
Article
Full-text available
Background Traditional biomonitoring approaches have delivered a basic understanding of biodiversity, but they cannot support the large-scale assessments required to manage and protect entire ecosystems. This study used DNA metabarcoding to assess spatial and temporal variation in species richness and diversity in arthropod communities from 52 prot...
Article
Full-text available
The Atlantic Forest harbors 7% of global biodiversity and possesses high levels of ende-mism, but many of its component taxa remain unstudied. Due to the importance of tropical forests and the urgency to protect them, there is a compelling need to address this knowledge gap. To provide more information on its arthropod fauna, a Malaise trap was dep...
Preprint
Full-text available
Developing an efficient and effective protocol for capturing biological data held in natural history collections is critically important for many emergent projects in biodiversity, such as the construction of a validated, global DNA barcode reference library. To this end, we developed and streamlined a workflow for ‘museum harvesting’ of authoritat...
Preprint
Full-text available
The use of DNA barcoding has revolutionized biodiversity science, but its application depends on the existence of comprehensive and reliable reference libraries. For many poorly known taxa, such reference sequences are missing even at higher-level taxonomic scales. We harvested the collections of the Smithsonian’s National Museum of Natural History...
Preprint
Our current understanding of ecological and evolutionary processes underlying island biodiversity is heavily shaped by empirical data from plants and birds, although arthropods comprise the overwhelming majority of known animal species. This is due to inherent problems with obtaining high-quality arthropod data. Novel high throughput sequencing app...
Article
Full-text available
Arthropod abundance, biomass and taxonomic diversity are key metrics often used to assess the efficacy of restoration efforts. Gathering these metrics is a slow and laborious process, quantified by an expert manually sorting and weighing arthropod specimens. We present a tool to accelerate bulk arthropod classification and biomass estimates utilizi...
Article
Full-text available
To associate specimens identified by molecular characters to other biological knowledge, we need reference sequences annotated by Linnaean taxonomy. In this paper, we 1) report the creation of a comprehensive reference library of DNA barcodes for the arthropods of an entire country (Finland), 2) publish this library, and 3) deliver a new identifica...
Article
Full-text available
Although mites (Acari) are abundant in many terrestrial and freshwater ecosystems, their diversity is poorly understood. Since most mite species can be distinguished by variation in the DNA barcode region of cytochrome c oxidase I, the Barcode Index Number (BIN) system provides a reliable species proxy that facilitates large-scale surveys. Such ana...
Preprint
Full-text available
Background Traditional biomonitoring approaches have delivered a basic understanding of biodiversity, but they cannot support the large scale assessments required to manage and protect entire ecosystems. This study employed DNA metabarcoding to assess spatial and temporal variation in species richness and diversity in arthropod communities from 52...
Preprint
Full-text available
To associate specimens identified by molecular characters to other biological knowledge, we need reference sequences annotated by Linnaean taxonomy. In this paper, we 1) report the creation of a comprehensive reference library of DNA barcodes for the arthropods of an entire country (Finland), 2) publish this library, and 3) deliver a new identifica...
Article
Full-text available
Although the butterflies of North America have received considerable taxonomic attention, overlooked species and instances of hybridization continue to be revealed. The present study assembles a DNA barcode reference library for this fauna to identify groups whose patterns of sequence variation suggest the need for further taxonomic study. Based on...
Article
Full-text available
Background Rickettsia are intracellular bacteria best known as the causative agents of human and animal diseases. Although these medically important Rickettsia are often transmitted via haematophagous arthropods, other Rickettsia, such as those in the Torix group, appear to reside exclusively in invertebrates and protists with no secondary vertebra...
Article
Full-text available
High‐throughput sequencing (HTS) is increasingly being used for the characterisation and monitoring of biodiversity. If applied in a structured way, across broad geographic scales, it offers the potential for a much deeper understanding of global biodiversity through the integration of massive quantities of molecular inventory data generated indepe...
Article
Full-text available
We report one year (2013-2014) of biomonitoring an insect community in a tropical old-growth rainforest, during construction of an industrial-level geothermal electricity project. This is the first-year reaction by the species-rich insect biodiversity; six subsequent years are being analyzed now. The site is on the margin of a UNESCO Natural World...
Article
Full-text available
The reliable taxonomic identification of organisms through DNA sequence data requires a well parameterized library of curated reference sequences. However, it is estimated that just 15% of described animal species are represented in public sequence repositories. To begin to address this deficiency, we provide DNA barcodes for 1,500,003 animal speci...
Article
Mites (Arachnida: Acariformes, Parasitiformes) are the most abundant and species‐rich group of arthropods in soil, but are also diverse in freshwater habitats, on plants, and as symbionts of larger animals. However, assessment of their diversity has been impeded by their small size and often cryptic morphology. As a consequence, published estimates...
Preprint
Full-text available
The reliable taxonomic identification of organisms through DNA sequence data requires a well parameterized library of curated reference sequences. However, it is estimated that just 15% of described animal species are represented in public sequence repositories. To begin to address this deficiency, we provide DNA barcodes for 1,500,003 animal speci...
Article
Full-text available
Madagascar is a prime evolutionary hotspot globally, but its unique biodiversity is under threat, essentially from anthropogenic disturbance. There is a race against time to describe and protect the Madagascan endangered biota. Here we present a first molecular characterization of the micromoth fauna of Madagascar. We collected 1572 micromoths main...
Article
Full-text available
Biodiversity research in tropical ecosystems - popularized as the most biodiverse habitats on Earth - often neglects invertebrates, yet representing the bulk of local species richness. Insect communities in particular remain strongly impeded by both Linnaean and Wallacean shortfalls, and identifying species often remains a formidable challenge inhi...
Article
Full-text available
Although DNA metabarcoding is an attractive approach for monitoring biodiversity, it is often difficult to detect all the species present in a bulk sample. In particular, sequence recovery for a given species depends on its biomass and mitome copy number as well as the primer set employed for PCR. To examine these variables, we constructed a mock c...
Article
Full-text available
The currently documented fauna of described species of myriapods in Canada includes 54 Chilopoda, 66 Diplopoda, 23 Pauropoda, and two Symphyla, representing increases of 24, 23, 23, and one species, respectively, since 1979. Of the 145 myriapod species currently documented, 40 species are not native to Canada. The myriapods have not been well docum...
Article
Trichoptera, or caddisflies, are common members of freshwater ecosystems as larvae and are important indicators of aquatic system health. As such, the species are relatively well studied, with keys available for larvae and adults of many of the taxa occurring in Canada. The number of species recorded from Canada since 1979 (Wiggins 1979) has increa...
Article
Full-text available
The Canadian Diptera fauna is updated. Numbers of species currently known from Canada, total Barcode Index Numbers (BINs), and estimated numbers of undescribed or unrecorded species are provided for each family. An overview of recent changes in the systematics and Canadian faunistics of major groups is provided as well as some general information o...
Article
Full-text available
The known Lepidoptera (moths and butterflies) of the provinces and territories of Canada are summarised, and current knowledge is compared to the state of knowledge in 1979. A total of 5405 species are known to occur in Canada in 81 families, and a further 50 species have been reported but are unconfirmed. This represents an increase of 1348 specie...
Article
Full-text available
A summary of the numbers of species of the 83 families of Hymenoptera recorded in Canada is provided. In total, 8757 described species are recorded compared to approximately 6000 in 1979, which is a 46% increase. Of the families recognized in 1979, three have been newly recorded to Canada since the previous survey: Anaxyelidae (Anaxyleoidea), Liopt...
Preprint
Full-text available
DNA metabarcoding is an attractive approach for monitoring biodiversity. However, it is subject to biases that often impede detection of all species in a sample. In particular, the proportion of sequences recovered from each species depends on its biomass, mitome copy number, and primer set employed for PCR. To examine these variables, we construct...
Article
Full-text available
Monitoring changes in terrestrial arthropod communities over space and time requires a dramatic increase in the speed and accuracy of processing samples that cannot be achieved with morphological approaches. The combination of DNA barcoding and Malaise traps allows expedited, comprehensive inventories of species abundance whose cost will rapidly de...
Article
Full-text available
Global identification and monitoring programs for invasive species aim to reduce imminent impacts to biodiversity, ecosystem services, agriculture and human health. This study employs a 658 base pair fragment of the cytochrome c oxidase subunit I (COI) gene to identify and categorize clades of the banded grove snail (Cepaea nemoralis (Linnaeus, 175...
Article
Full-text available
Background: Although high-throughput sequencers (HTS) have largely displaced their Sanger counterparts, the short read lengths and high error rates of most platforms constrain their utility for amplicon sequencing. The present study tests the capacity of single molecule, real-time (SMRT) sequencing implemented on the SEQUEL platform to overcome th...
Book
Full-text available
A definitive species list is the foundation of biodiversity and conservation work. As we deal with massive climatic changes in the Anthropocene, knowing which species make up our diverse ecosystems will be critically important if we wish to protect and restore them. The Lepidoptera, moths and butterflies, are the fourth-largest insect order in term...
Article
Full-text available
Premise of the study Constructing complete, accurate plant DNA barcode reference libraries can be logistically challenging for large-scale floras. Here we demonstrate the promise and challenges of using herbarium collections for building a DNA barcode reference library for the vascular plant flora of Canada. Methods Our study examined 20,816 speci...
Preprint
Full-text available
Monitoring changes in terrestrial arthropod communities over space and time requires a dramatic increase in the speed and accuracy of processing samples that cannot be achieved with morphological approaches. The combination of DNA barcoding and Malaise traps allows expedited, comprehensive inventories of species abundance whose cost will rapidly de...
Preprint
Full-text available
Although high-throughput sequencers (HTS) have largely displaced their Sanger counterparts, the short read lengths and high error rates of most platforms constrain their utility for amplicon sequencing. The present study tests the capacity of single molecule, real-time (SMRT) sequencing implemented on the SEQUEL platform to overcome these limitatio...
Article
Full-text available
This study reports the assembly of a DNA barcode reference library for species in the lepi-dopteran superfamily Noctuoidea from Canada and the USA. Based on the analysis of 69,378 specimens, the library provides coverage for 97.3% of the noctuoid fauna (3565 of 3664 species). In addition to verifying the strong performance of DNA barcodes in the di...
Data
Introduced species into North America. List of introduced species of noctuoids in North America with the approximate date of their arrival. (XLS)
Data
Two-way presence-absence data for 3252 North American noctuoid species in 12 ecoregions of North America. Each region designated by a numeric code: 1 Arctic (Arctic Cordillera + Tundra); 2 Boreal (Taiga + Hudson plain + Northern forests); 3 Northwestern forested mountains; 4 Marine west coast forests; 5 Eastern temperate forests; 6 Great plains; 7...
Data
Barcode performance among ecoregions of North America. Data set for the analysis of barcode performance in the discrimination of noctuoid species from the 12 ecoregions of North America. (XLS)
Data
Data set for the analysis of BIN overlap among zoogeographical regions. (XLS)
Data
Barcode coverage. List of North American noctuoid species without barcode coverage. (XLS)
Data
Noctuidae-3. NJ tree based on sequence variation in the barcode region of the cytochrome c oxidase I gene for North American species in the family Noctuidae-3. (PDF)
Data
Checklist for North American noctuoids. The table represents barcode coverage in terms of the number of specimens analyzed and geographic coverage. Species lacking barcode data are in red. (XLS)
Data
Species with extraterritorial barcode records. Forty-eight species barcoded from other nations likely share the same barcode as specimens collected in the USA. For species collected in Texas and Arizona—barcodes from Mexican specimens are the best proxy, followed by Guatemala. For species collected in Florida—barcodes from Cuban specimens are best,...
Data
Low sequence divergence. List of North American noctuoid species with low sequence divergence from another taxon. (XLS)
Data
Noctuidae-1. NJ tree based on sequence variation in the barcode region of the cytochrome c oxidase I gene for North American species in the family Noctuidae-1. (PDF)
Data
Noctuidae-2. NJ tree based on sequence variation in the barcode region of the cytochrome c oxidase I gene for North American species in the family Noctuidae-2. (PDF)
Data
Barcode sharing. List of North American noctuoid species sharing a barcode haplotype. (XLS)
Data
Deep split. List of North American noctuoid species with deep intraspecific sequence divergence. (XLS)
Data
List of all noctuoid species known from North America with number of BINs, mean intra-specific divergence, and number of specimens per species. (XLS)
Data
Euteliidae. NJ tree based on sequence variation in the barcode region of the cytochrome c oxidase I gene for North American species in the family Euteliidae. (PDF)
Data
Nolidae. NJ tree based on sequence variation in the barcode region of the cytochrome c oxidase I gene for North American species in the family Nolidae. (PDF)
Data
Erebidae (rest). NJ tree based on sequence variation in the barcode region of the cytochrome c oxidase I gene for North American species in the family Erebidae (rest). (PDF)
Data
Notodontidae and Doidae. NJ tree based on sequence variation in the barcode region of the cytochrome c oxidase I gene for North American species in the families Notodontidae and Doidae. (PDF)
Data
Erebidae (Arctiinae). NJ tree based on sequence variation in the barcode region of the cytochrome c oxidase I gene for North American species in the family Erebidae (Arctiinae). (PDF)
Article
Full-text available
To date the global initiative to barcode all fishes, FISH-BOL, has delivered barcodes for approximately 14,400 of the 30,000 fish species; there is still much to do to attain its ultimate goal of barcoding all the world’s fishes. One strategy to overcome local gaps is to initiate short but intensive efforts to collect and barcode as many species as...
Data
Summary data for the 983 fish specimens successfully barcoded as part of the Lizard Island barcode 'blitz'.
Data
Neighbour Joining tree based on K2P distances
Data
Species collected at Lizard Island listed by order and family. An asterisk indicates species for which a barcode sequence could not be obtained.