Owen T Lewis

University of Oxford | OX · Department of Zoology

There is increasing demand for standardised, easy-to-use metrics to assess progress towards achieving biodiversity targets and the effectiveness of ecological compensation schemes. Biodiversity metrics based on combining habitat area and habitat condition scores are proliferating rapidly, but there is limited evidence on how they relate to ecologic...

Variability in the availability of resources through time is a common attribute in trophic interactions, but its effects on the fitness of different consumer species and on interspecific competition between them are not clearly understood. To investigate this, we allowed two parasitoid species, Trichopria drosophilae and Pachycrepoideus vindemiae,...

Logged and disturbed forests are often viewed as degraded and depauperate environments compared with primary forest. However, they are dynamic ecosystems¹ that provide refugia for large amounts of biodiversity2,3, so we cannot afford to underestimate their conservation value⁴. Here we present empirically defined thresholds for categorizing the cons...

Biodiversity genomics research requires reliable organismal identification, which can be difficult based on morphology alone. DNA-based identification using DNA barcoding can provide confirmation of species identity and resolve taxonomic issues but is rarely used in studies generating reference genomes. Here, we describe the development and impleme...

We present a genome assembly from an individual male Eupithecia exiguata (the Mottled Pug; Arthropoda; Insecta; Lepidoptera; Geometridae). The genome sequence is 372.9 megabases in span. Most of the assembly is scaffolded into 31 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is 16....

We present a genome assembly from an individual female Xanthorhoe spadicearia (the Red Twin-spot Carpet; Arthropoda; Insecta; Lepidoptera; Geometridae). The genome sequence is 276.7 megabases in span. Most of the assembly is scaffolded into 31 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assemb...

The functional stability of ecosystems depends greatly on interspecific differences in responses to environmental perturbation. However, responses to perturbation are not necessarily invariant among populations of the same species, so intraspecific variation in responses might also contribute. Such inter-population response diversity has recently b...

Meeting ambitions such as the Global Biodiversity Framework 2030 targets will require multiple conservation mechanisms that benefit the widest possible range of habitats and species. Using England as a case study, here we evaluate the likely impact of a novel and ambitious ecological compensation policy, Biodiversity Net Gain (BNG), on terrestrial...

Variability in the availability of resources through time is a common attribute in trophic interactions, but its effects on the fitness of different consumer species and on interspecific competition between them are not clearly understood. To investigate this, we allowed two parasitoid species, Trichopria drosophilae and Pachycrepoideus vindemiae ,...

We present a genome assembly from an individual male Protodeltote pygarga (the Marbled White Spot; Arthropoda; Insecta; Lepidoptera; Noctuidae). The genome sequence is 421.1 megabases in span. Most of the assembly is scaffolded into 31 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and...

We present a genome assembly from an individual female Ligdia adustata (the Scorched Carpet; Arthropoda; Insecta; Lepidoptera; Geometridae). The genome sequence is 399.7 megabases in span. Most of the assembly is scaffolded into 31 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is 1...

Species turnover with elevation is a widespread phenomenon and provides valuable information on why and how ecological communities might reorganize as the climate warms. It is commonly assumed that species interactions are more likely to set warm range limits, while physiological tolerances determine cold range limits. However, most studies are fro...

We present a genome assembly from an individual male Euplexia lucipara (the Small Angle Shades; Arthropoda; Insecta; Lepidoptera; Noctuidae). The genome sequence is 661.8 megabases in span. Most of the assembly is scaffolded into 31 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is...

Although decades of research suggest that higher species richness improves ecosystem functioning and stability, planted forests are predominantly monocultures. To determine whether diversification of plantations would enhance aboveground carbon storage, we systematically reviewed over 11,360 publications, and acquired data from a global network of...

Color vision in insects is determined by signaling cascades, central to which are opsin proteins, resulting in sensitivity to light at different wavelengths. In certain insect groups, lineage-specific evolution of opsin genes, in terms of copy number, shifts in expression patterns, and functional amino acid substitutions, has resulted in changes in...

As mean temperatures increase and heatwaves become more frequent, species are expanding their distributions to colonise new habitats. The resulting novel species interactions will simultaneously shape the temperature‐driven reorganization of resident communities. The interactive effects of climate change and climate change‐facilitated invasion have...

Colour vision in insects is determined by signalling cascades, central to which are opsin proteins, resulting in sensitivity to light at different wavelengths. In certain insect groups, lineage specific evolution of opsin genes, in terms of copy number, shifts in expression patterns, and functional amino acid substitutions, has resulted in changes...

We present a genome assembly from an individual male Anorthoa munda (the Twin-spotted Quaker; Arthropoda; Insecta; Lepidoptera; Noctuidae). The genome sequence is 938.6 megabases in span. Most of the assembly is scaffolded into 27 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is 15...

We present a genome assembly from an individual male Electrophaes corylata (the Broken-barred Carpet; Arthropoda; Insecta; Lepidoptera; Geometridae). The genome sequence is 347.5 megabases in span. Most of the assembly is scaffolded into 30 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled...

We present a genome assembly from an individual male Eilema sororcula (the Orange Footman; Arthropoda; Insecta; Lepidoptera; Erebidae). The genome sequence is 729.4 megabases in span. Most of the assembly is scaffolded into 30 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is 15.46...

We present a genome assembly from an individual male Abrostola triplasia (the Dark Spectacle; Arthropoda; Insecta; Lepidoptera; Noctuidae). The genome sequence is 362.7 megabases in span. Most of the assembly is scaffolded into 31 chromosomal pseudomolecules, including the Z sex chromosome. The mitochondrial genome has also been assembled and is 15...

Biting flies (Diptera) transmit pathogens that cause many important diseases in humans as well as domestic and wild animals. The networks of feeding interactions linking these insects to their hosts, and how they vary geographically and in response to human land-use, are currently poorly documented but are relevant to understanding cross-species di...

We present a genome assembly from an individual male Drepana falcataria (the Pebble Hook-tip; Arthropoda; Insecta; Lepidoptera; Drepanidae). The genome sequence is 326.7 megabases in span. The whole assembly is scaffolded into 31 chromosomal pseudomolecules, including the assembled Z sex chromosome. The mitochondrial genome has also been assembled...

We present a genome assembly from an individual male Ecliptopera silaceata (the Small Phoenix; Arthropoda; Insecta; Lepidoptera; Geometridae). The genome sequence is 316.5 megabases in span. Most of the assembly is scaffolded into 29 chromosomal pseudomolecules, including the assembled Z sex chromosome. The mitochondrial genome has also been assemb...

Variation along environmental gradients in host-associated microbial communities is not well understood compared to free-living microbial communities. Because elevational gradients may serve as natural proxies for climate change, understanding patterns along these gradients can inform our understanding of the threats hosts and their symbiotic micro...

We present a genome assembly from an individual male Apeira syringaria (the Lilac Beauty; Arthropoda; Insecta; Lepidoptera; Geometridae). The genome sequence is 544.4 megabases in span. Most of the assembly is scaffolded into 30 chromosomal pseudomolecules, including the assembled Z sex chromosome. The mitochondrial genome has also been assembled a...

As mean temperatures increase and heatwaves become more frequent, species are expanding their distributions to colonise new habitats. The resulting novel species interactions will simultaneously shape the temperature-driven reorganization of resident communities. The interactive effects of climate change and climate change-facilitated invasion have...

Accelerating loss and degradation of tropical forests has led to a pressing need to understand the conservation value of remaining forests. Whereas most studies focus on the responses in community composition and taxonomic richness, more sensitive responses to habitat degradation are likely to be apparent through changes in the trophic complexity o...

The Darwin Tree of Life (DToL) project aims to sequence and assemble high-quality genomes from all eukaryote species in Britain and Ireland, with the first phase of the project concentrating on family-level coverage plus species of particular ecological, biomedical or evolutionary interest. We summarise the processes involved in (1) assessing the U...

We present a genome assembly from an individual male Phragmatobia fuliginosa (the Ruby Tiger; Arthropoda; Insecta; Lepidoptera; Erebidae). The genome sequence is 629.4 megabases in span. Most of the assembly is scaffolded into 28 chromosomal pseudomolecules, including the assembled Z sex chromosome. The mitochondrial genome has also been assembled...

Agricultural expansion is the primary driver of ecological degradation across the tropics. Set-asides—uncultivated parts of agricultural landscapes, often on steep slopes and alongside rivers—may alleviate environmental impacts but can reduce the area cultivated. Here we model an approach to configuring set-asides aimed at optimizing ecological out...

Background Molecular analysis of blood meals is increasingly used to identify the hosts of biting insects such as midges and mosquitoes. Successful host identification depends on the availability of sufficient host DNA template for PCR amplification, making it important to understand how amplification success changes under different storage conditi...

Tropical forests are threatened by degradation and deforestation but the consequences for these ecosystems are poorly understood, particularly at the landscape scale. We present the most extensive ecosystem analysis to date of the impacts of logging and conversion of tropical forest to oil palm from a large-scale study in Borneo, synthesizing respo...

Homeobox genes encode transcription factors with essential roles in patterning and cell fate in developing animal embryos. Many homeobox genes, including Hox and NK genes, are arranged in gene clusters, a feature likely related to transcriptional control. Sparse taxon sampling and fragmentary genome assemblies mean that little is known about dynami...

Building on an exercise that identified potential harms from simulated investigational releases of a population suppression gene drive for malaria vector control, a series of online workshops identified nine recommendations to advance future environmental risk assessment of gene drive applications.

Many tropical regions in Southeast Asia have experienced extensive habitat modification, creating a mosaic of forested and agricultural land. The capacity of these human-modified tropical landscapes to support biodiversity and ecosystem functions and services is of considerable practical interest. Decomposition of plant material is a key process ma...

Pollinators are declining globally, with climate change implicated as an important driver. Climate change can induce phenological shifts and reduce floral resources for pollinators, but little is known about its effects on floral attractiveness and how this might cascade to affect pollinators, pollination functions and plant fitness. We used an in...

The vision of the Earth BioGenome Project ¹ is to complete reference genomes for all of the planet’s ~2M described eukaryotic species in the coming decade. To contribute to this global endeavour, the Darwin Tree of Life Project (DToL ² ) was launched in 2019 with the aim of generating complete genomes for the ~70k described eukaryotic species that...

The assumption that differences in species' traits reflect their different niches has long influenced how ecologists infer processes from assemblage patterns. For instance, many assess the importance of environmental filtering versus classical limiting-similarity competition in driving biological invasions by examining whether invaders' traits are...

Agricultural expansion is a primary driver of biodiversity decline in forested regions of the tropics. Consequently, it is important to understand the conservation value of remnant forests in production landscapes. In a tropical landscape dominated by oil palm (Elaeis guineensis), we characterized faunal communities across eight taxa occurring with...

Species turnover with elevation is a widespread phenomenon and provides valuable information on why and how ecological communities might reorganize as the climate warms. Tropical mountains typically have pronounced thermal gradients and intense species interactions, providing a testing ground for investigating the relationship between thermal toler...

Temperature change is an often‐assumed, but rarely tested, mechanism by which sensitive species may decline in forest landscapes following habitat degradation, fragmentation and destruction. Traits mediate how species respond to environmental change, with physiological, morphological and behavioural traits key to determining the response of ectothe...

Natural forest is declining globally as the area of planted forest increases. Planted forests are often monocultures, despite results suggesting that higher species richness improves ecosystem functioning and stability. To test if this is generally the case, we performed a meta-analysis of available results. We assessed aboveground carbon stocks in...

Malaria affects millions of people, claiming over four hundred thousand lives each year. People in the sub-Saharan Africa are the most affected, especially pregnant women and children under age five. The Anopheles gambiae complex are the major vectors of the malaria parasite; Plasmodium. Current malaria elimination programs target the vector; Anoph...

Logging activities degrade forest habitats across large areas of the tropics, but the impacts on trophic interactions that underpin forest ecosystems are poorly understood. DNA metabarcoding provides an invaluable tool to investigate such interactions, allowing analysis at a far greater scale and resolution than has previously been possible. We ana...

Fragmentation of tropical forests is increasing globally, with negative impacts for biodiversity. In Southeast Asia, expansion of oil palm agriculture has caused widespread deforestation, forest degradation and fragmentation. Persistence of forest‐dependent species within these fragmented landscapes is likely to depend on the capacity of individual...

Insect crop pests are a major threat to food security in sub-Saharan Africa. Configuration of semi-natural habitat within agricultural landscapes has the potential to enhance biological pest control, helping to maintain yields whilst minimising the negative effects of pesticide use. Fall armyworm ( Spodoptera frugiperda , J. E. Smith) is an increas...

Habitat degradation is pervasive across the tropics and is particularly acute in Southeast Asia, with major implications for biodiversity. Much research has addressed the impact of degradation on species diversity; however, little is known about how ecological interactions are altered, including those that constitute important ecosystem functions s...

Given the worldwide plans for extensive tree planting we urgently need to understand how and where implementation will contribute to goals such as those for carbon sequestration. We used a long-term, large-scale native reforestation project in the Scottish Highlands to assess the response of carbon storage and other ecosystem functions to reforesta...

Logging activities degrade forest habitats across large areas of the tropics, but the impacts on trophic interactions that underpin forest ecosystems are poorly understood. DNA metabarcoding provides an invaluable tool to investigate such interactions, allowing analysis at a far greater scale and resolution than has previously been possible. We ana...

Variation along environmental gradients in host-associated microbial communities is not well understood, compared to free-living microbial communities. Because elevational gradients may serve as natural proxies for climate change, understanding patterns along these gradients can inform our understanding of the threats hosts and their symbiotic micr...

As extreme climate events are predicted to become more frequent due to global climate change, understanding their impacts on natural systems is crucial. Tropical forests are vulnerable to droughts associated with extreme El Niño events. However, little is known about how tropical seedling communities respond to El Niño-related droughts, even though...

Globally, there is increasing interest in tree planting, leading to many country‐level commitments to reforestation. In the UK, current commitments would achieve 17% forest cover by 2050, with the highest rates of forest expansion expected in Scotland. Forest expansion with native trees is expected to increase biodiversity, particularly woodland sp...

In the tropics, antagonistic seed predation networks may have different properties than mutualistic pollination and seed dispersal networks, but the former have been considerably less studied. We tested whether the structure of antagonistic tripartite networks composed of host plants, insects developing within seeds and fruits, and their insect par...

The role of natural enemies in promoting coexistence of competing species has generated substantial debate. Modern coexistence theory provides a detailed framework to investigate this topic, but there have been remarkably few empirical applications to the impact of natural enemies. We tested experimentally the capacity for a generalist enemy to pro...

Molecular identification is increasingly used to speed up biodiversity surveys and laboratory experiments. However, many groups of organisms cannot be reliably identified using standard databases such as GenBank or BOLD due to lack of sequenced voucher specimens identified by experts. Sometimes a large number of sequences are available, but with to...

Climate and land use change can alter the incidence and strength of biotic interactions, with important effects on the distribution, abundance and function of species. To assess the importance of these effects and their dynamics, studies quantifying how biotic interactions change in space and time are needed. We studied interactions between nettle‐...

Agricultural expansion across the tropics is the primary driver of biodiversity declines and ecosystem service degradation. However, efforts to mitigate these negative impacts may reduce commodity production. We quantify trade-offs between oil palm cultivation and ecological outcomes (biodiversity, above-ground carbon storage and dung nutrient cycl...

Molecular identification is increasingly used to speed up biodiversity surveys and laboratory experiments. However, many groups of organisms cannot be reliably identified using standard databases such as GenBank or BOLD due to lack of sequenced voucher specimens identified by experts. Sometimes a large number of sequences are available, but with to...

Global warming is expected to have direct effects on species through their sensitivity to temperature, and also via their biotic interactions, with cascading indirect effects on species, communities, and entire ecosystems. To predict the community-level consequences of global climate change we need to understand the relative roles of both the direc...

Insight into how species' phenotypic differences shape coexistence is key to understanding the processes structuring, maintaining and threatening biodiversity. In line with modern coexistence theory, increasing studies on plants show that traits may not only confer niche differences fostering the coexistence of dissimilar species, but also competit...

Blood-sucking insects are important vectors of disease, with biting Diptera (flies) alone transmitting diseases that cause an estimated 700 000 human deaths a year. Insect vectors also bite nonhuman hosts, linking them into host-biting networks. While the major vectors of prominent diseases, such as malaria, yellow fever, dengue, and Zika, are inte...

Current global warming trends are expected to have direct effects on species through their sensitivity to temperature, as well as on their biotic interactions, with cascading indirect effects on species, communities, and entire ecosystems. To predict the community-level consequences of global change we need to understand the relative roles of both...

Interspecific competition, a dominant process structuring ecological communities, is influenced by species' phenotypic differences. Limiting similarity theory holds that species with similar traits should compete intensely (‘trait‐similarity'). In contrast, competing theories including modern coexistence theory emphasize that species with traits co...

Climate warming has caused the seasonal timing of many components of ecological food chains to advance. In the context of trophic interactions, the match–mismatch hypothesis postulates that differential shifts can lead to phenological asynchrony with negative impacts for consumers. However, at present there has been no consistent analysis of the li...

The application of metabarcoding to environmental and invertebrate‐derived DNA (eDNA and iDNA) is a new and increasingly applied method for monitoring biodiversity across a diverse range of habitats. This approach is particularly promising for sampling in the biodiverse humid tropics, where rapid land‐use change for agriculture means there is a gro...

The analysis of interaction networks across spatial environmental gradients is a powerful approach to investigate the responses of communities to global change. Using a combination of DNA metabarcoding and traditional molecular methods we built bipartite Drosophila – parasitoid food webs from six Australian rainforest sites across gradients spannin...

There is growing interest in the ecological value of set‐aside habitats around rivers in tropical agriculture. These riparian buffers typically comprise forest or other non‐production habitat, and are established to maintain water quality and hydrological processes, while also supporting biodiversity, ecosystem function and landscape connectivity....

We report on fourteen species and four genera of Tischeriidae recorded from Las Cuevas, a single tropical forest locality in Belize, Central America. This is the highest number of species of Tischeriidae recorded from a single locality worldwide, exceeding the species and generic diversity of the entire Tischeriidae fauna of Europe and accounting f...

The role of natural enemies in promoting coexistence of competing species has generated substantial debate. Modern coexistence theory provides a detailed framework to investigate this topic, but there have been remarkably few empirical applications to the impact of natural enemies. We tested experimentally the capacity for a generalist enemy to pro...

Indo-Pacific lionfish have become invasive throughout the western Atlantic. Their predatory effects have been the focus of much research and are suggested to cause declines in native fish abundance and diversity across the invaded range. However, little is known about their non-consumptive effects, or their effects on invertebrates. Lionfish use sh...