0000000001307925
AUTHOR
Thomas Flatt
showing 33 related works from this author
Supplementary TextS26 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
This Supplement includes Supplementary Methods and Results; Table S4; List of Captions for Supplementary Tables and Supplementary Figures; List of Supplementary Archives deposited at DRYAD and Supplementary References.
The discovery, distribution and diversity of DNA viruses associated withDrosophila melanogasterin Europe
2020
AbstractDrosophila melanogasteris an important model for antiviral immunity in arthropods, but very few DNA viruses have been described from the family Drosophilidae. This deficiency limits our opportunity to use natural host-pathogen combinations in experimental studies, and may bias our understanding of theDrosophilavirome. Here we report fourteen DNA viruses detected in a metagenomic analysis of approximately 6500 pool-sequencedDrosophila, sampled from 47 European locations between 2014 and 2016. These include three new Nudiviruses, a new and divergent Entomopox virus, a virus related toLeptopilina boulardifilamentous virus, and a virus related toMusca domesticasalivary gland hypertrophy…
Drosophila Evolution over Space and Time (DEST) - A New Population Genomics Resource
2021
Abstract Drosophila melanogaster is a leading model in population genetics and genomics, and a growing number of whole-genome datasets from natural populations of this species have been published over the last 20 years. A major challenge is the integration of these disparate datasets, often generated using different sequencing technologies and bioinformatic pipelines, which hampers our ability to address questions about the evolution and population structure of this species. Here we address these issues by developing a bioinformatics pipeline that maps pooled sequencing (Pool-Seq) reads from D. melanogaster to a hologenome consisting of fly and symbiont genomes and estimates allele frequenc…
Drosophila Evolution over Space and Time (DEST) : A New Population Genomics Resource
2021
Drosophila melanogaster is a leading model in population genetics and genomics, and a growing number of whole-genome datasets from natural populations of this species have been published over the last years. A major challenge is the integration of disparate datasets, often generated using different sequencing technologies and bioinformatic pipelines, which hampers our ability to address questions about the evolution of this species. Here we address these issues by developing a bioinformatics pipeline that maps pooled sequencing (Pool-Seq) reads from D. melanogaster to a hologenome consisting of fly and symbiont genomes and estimates allele frequencies using either a heuristic (PoolSNP) or a…
Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects.
2021
The exceptional longevity of social insect queens despite their lifelong high fecundity remains poorly understood in ageing biology. To gain insights into the mechanisms that might underlie ageing in social insects, we compared gene expression patterns between young and old castes (both queens and workers) across different lineages of social insects (two termite, two bee and two ant species). After global analyses, we paid particular attention to genes of the insulin/insulin-like growth factor 1 signalling (IIS)/target of rapamycin (TOR)/juvenile hormone (JH) network, which is well known to regulate lifespan and the trade-off between reproduction and somatic maintenance in solitary insects…
Genomic Analysis of European Drosophila melanogaster Populations Reveals Longitudinal Structure, Continent-Wide Selection, and Previously Unknown DNA…
2020
Genetic variation is the fuel of evolution, with standing genetic variation especially important for short-term evolution and local adaptation. To date, studies of spatiotemporal patterns of genetic variation in natural populations have been challenging, as comprehensive sampling is logistically difficult, and sequencing of entire populations costly. Here, we address these issues using a collaborative approach, sequencing 48 pooled population samples from 32 locations, and perform the first continent-wide genomic analysis of genetic variation in European Drosophila melanogaster. Our analyses uncover longitudinal population structure, provide evidence for continent-wide selective sweeps, ide…
The discovery, distribution, and diversity of DNA viruses associated with Drosophila melanogaster in Europe
2021
Drosophila melanogaster is an important model for antiviral immunity in arthropods, but very few DNA viruses have been described from the family Drosophilidae. This deficiency limits our opportunity to use natural host-pathogen combinations in experimental studies, and may bias our understanding of the Drosophila virome. Here, we report fourteen DNA viruses detected in a metagenomic analysis of 6668 pool-sequenced Drosophila, sampled from forty-seven European locations between 2014 and 2016. These include three new nudiviruses, a new and divergent entomopoxvirus, a virus related to Leptopilina boulardi filamentous virus, and a virus related to Musca domestica salivary gland hypertrophy viru…
Evolutionary genomics can improve prediction of species' responses to climate change
2020
Abstract Global climate change (GCC) increasingly threatens biodiversity through the loss of species, and the transformation of entire ecosystems. Many species are challenged by the pace of GCC because they might not be able to respond fast enough to changing biotic and abiotic conditions. Species can respond either by shifting their range, or by persisting in their local habitat. If populations persist, they can tolerate climatic changes through phenotypic plasticity, or genetically adapt to changing conditions depending on their genetic variability and census population size to allow for de novo mutations. Otherwise, populations will experience demographic collapses and species may go ext…
Supplementary Figures from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
This supplement includes Supplementary Figure S1-S17.
Table S5 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S1 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM 1.
Table S16 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S6 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S20 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S12 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S3 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S10 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S26 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S24 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S15 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S19 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S7 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S11 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S2 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S17 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S21 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S23 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S25 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S13 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S9 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S22 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S18 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.
Table S8 from Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects
2021
Overview of all Supplementary tables provided as separate Excel files, except Table S4 which is included in ESM1.