Rémi Allio
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Pseudogenes Document Protracted Parallel Regression of Oral Anatomy in Myrmecophagous Mammals Open
Adaptation to ant and/or termite consumption (myrmecophagy) in mammals constitutes a textbook example of convergent evolution, being independently derived in several mammalian lineages. Myrmecophagous species are characterized by striking …
View article: Pseudogenes Document Protracted Parallel Regression of Oral Anatomy in Myrmecophagous Mammals
Pseudogenes Document Protracted Parallel Regression of Oral Anatomy in Myrmecophagous Mammals Open
Adaptation to ant and/or termite consumption (myrmecophagy) in mammals constitutes a textbook example of convergent evolution, being independently derived in several mammalian lineages. Myrmecophagous species are characterized by striking …
View article: Transcriptomic Data Reveal Divergent Paths of Chitinase Evolution Underlying Dietary Convergence in Anteaters and Pangolins
Transcriptomic Data Reveal Divergent Paths of Chitinase Evolution Underlying Dietary Convergence in Anteaters and Pangolins Open
Ant-eating mammals represent a textbook example of convergent evolution. Among them, anteaters and pangolins exhibit the most extreme convergent phenotypes with complete tooth loss, elongated skulls, protruding tongues, and hypertrophied s…
Transposable element accumulation drives genome size increase in <i>Hylesia metabus</i> (Lepidoptera: Saturniidae), an urticating moth species from South America Open
We present the first nuclear genome assembly and a complete mitogenome for Hylesia metabus (Arthropoda; Insecta; Lepidoptera; Saturniidae). The assembled nuclear genome sequence is 1,271 Mb long, which is among the 10 largest lepidopteran …
View article: Transcriptomic data reveal divergent paths of chitinase evolution underlying dietary convergence in anteaters and pangolins
Transcriptomic data reveal divergent paths of chitinase evolution underlying dietary convergence in anteaters and pangolins Open
Transcriptomic data reveal divergent paths of chitinase evolution underlying dietary convergence in anteaters and pangolins Rémi Allio1,2,§,*, Sophie Teullet1,§, Dave Lutgen1,3,4,§, Amandine Magdeleine1, Rachid Koual1, Marie-Ka Tilak1, Ben…
Transposable element accumulation drives genome size increase in <i>Hylesia metabus</i> (Lepidoptera: Saturniidae), an urticating moth species from South America Open
We present the first nuclear genome assembly and a complete mitogenome for Hylesia metabus (Arthropoda; Insecta; Lepidoptera; Saturniidae). The assembled nuclear genome sequence is 1,271 Mb long, which is among the 10 largest lepidopteran …
Structural variants underlie parallel adaptation following global invasion Open
Rapid adaptation during invasion has historically been considered limited and unpredictable. We leverage whole-genome sequencing of >2600 plants across six continents to investigate the relative roles of colonization history and adaptation…
The first example of extreme and independent host plant shifts mediated by parasitic plants in insects Open
Phytophagous insects have specialized on virtually every plant lineage. Parasitic plants, however, are uncommon hosts. Among insects, only a single lineage of weevils, the Smicronychini, has successfully radiated on both parasitic and non-…
PhylteR: Efficient Identification of Outlier Sequences in Phylogenomic Datasets Open
In phylogenomics, incongruences between gene trees, resulting from both artifactual and biological reasons, can decrease the signal-to-noise ratio and complicate species tree inference. The amount of data handled today in classical phyloge…
View article: OrthoMaM v12: a database of curated single-copy ortholog alignments and trees to study mammalian evolutionary genomics
OrthoMaM v12: a database of curated single-copy ortholog alignments and trees to study mammalian evolutionary genomics Open
To date, the databases built to gather information on gene orthology do not provide end-users with descriptors of the molecular evolution information and phylogenetic pattern of these orthologues. In this context, we developed OrthoMaM, a …
View article: Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils
Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils Open
Weevils are an unusually species-rich group of phytophagous insects for which there is increasing evidence of frequent involvement in brood-site pollination. This study examines phylogenetic patterns in the emergence of brood-site pollinat…
View article: Pangolin Genomes Offer Key Insights and Resources for the World’s Most Trafficked Wild Mammals
Pangolin Genomes Offer Key Insights and Resources for the World’s Most Trafficked Wild Mammals Open
Pangolins form a group of scaly mammals that are trafficked at record numbers for their meat and purported medicinal properties. Despite their conservation concern, knowledge of their evolution is limited by a paucity of genomic data. We a…
Reconciling fossils with phylogenies reveals the origin and macroevolutionary processes explaining the global cycad biodiversity Open
Summary The determinants of biodiversity patterns can be understood using macroevolutionary analyses. The integration of fossils into phylogenies offers a deeper understanding of processes underlying biodiversity patterns in deep time. Cyc…
View article: Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils
Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils Open
Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils (142 /150 characters) Haran J.1*, Li X.2,3,4*, Allio R.5*, Shin S.3,4,6, Beno…
View article: Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils
Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils Open
Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils (142 /150 characters) Haran J.1*, Li X.2,3,4*, Allio R.5*, Shin S.3,4,6, Beno…
Comparative transcriptomics reveals divergent paths of chitinase evolution underlying dietary convergence in ant-eating mammals Open
Comparative transcriptomics reveals divergent paths of chitinase evolution underlying dietary convergence in ant-eating mammals Rémi Allio1,2,§,*, Sophie Teullet1,§, Dave Lutgen1,3,4,§, Amandine Magdeleine1, Rachid Koual1, Marie-Ka Tilak1,…
Pangolin genomes offer key insights and resources for the world’s most trafficked wild mammals Open
Summary Pangolins form a group of scaly mammals that are trafficked at record numbers for their meat and medicinal properties. Despite their great conservation concern, knowledge of their evolution is limited by a paucity of genomic data. …
PhylteR: efficient identification of outlier sequences in phylogenomic datasets Open
In phylogenomics, incongruences between gene trees, resulting from both artifactual and biological reasons, can decrease the signal-to-noise ratio and complicate species tree inference. The amount of data handled today in classical phyloge…
Reconciling fossils with phylogenies reveals the origin and macroevolutionary processes explaining the global cycad biodiversity Open
This folder contains: Data 1 - Phylogenetic analyses of Cycadales with IQ-TREE Data 2 - Total-evidence molecular dating of Cycadales with MrBayes Data 3 - Geographic distributions and historical biogeographic analyses with DECX and BioGeoB…
Table S1 from Phylogenomics illuminates the phylogeny of flower weevils (Curculioninae) and reveals ten independent origins of brood-site pollination mutualism in true weevils Open
Specimen data, pollinator status and plant tissues used by larvae.
A comprehensive phylogeny and revised taxonomy illuminate the origin and diversification of the global radiation of Papilio (Lepidoptera: Papilionidae) Open
This folder contains: Data 1 - Phylogenetic analyses of Papilio Data 2 - Molecular dating of Papilio Data 3 - Geographic distributions and historical biogeographic analyses Data 4 - Diversification analyses
Comparative transcriptomics reveals divergent paths of chitinase evolution underlying dietary convergence in ant-eating mammals Open
Comparative transcriptomics reveals divergent paths of chitinase evolution underlying dietary convergence in ant-eating mammals Rémi Allio1,2,§,*, Sophie Teullet1,§, Dave Lutgen1,3,4,§, Amandine Magdeleine1, Rachid Koual1, Marie-Ka Tilak1,…
Transcriptomic data reveal divergent paths of chitinase evolution underlying dietary convergence in anteaters and pangolins Open
Ant-eating mammals represent a textbook example of convergent evolution. Among them, anteaters and pangolins exhibit the most extreme convergent phenotypes with complete tooth loss, elongated skulls, protruding tongues, hypertrophied saliv…
High-quality carnivoran genomes from roadkill samples enable comparative species delineation in aardwolf and bat-eared fox Open
High-quality carnivore genomes from roadkill samples enable comparative species delineation in aardwolf and bat-eared fox Rémi Allio1*, Marie-Ka Tilak1, Céline Scornavacca1, Nico L. Avenant2, Andrew C. Kitchener3, Erwan Corre4, Benoit Nabh…
High-quality carnivoran genomes from roadkill samples enable comparative species delineation in aardwolf and bat-eared fox Open
In a context of ongoing biodiversity erosion, obtaining genomic resources from wildlife is essential for conservation. The thousands of yearly mammalian roadkill provide a useful source material for genomic surveys. To illustrate the poten…
High-quality carnivoran genomes from roadkill samples enable comparative species delineation in aardwolf and bat-eared fox Open
High-quality carnivore genomes from roadkill samples enable comparative species delineation in aardwolf and bat-eared fox Rémi Allio1*, Marie-Ka Tilak1, Céline Scornavacca1, Nico L. Avenant2, Andrew C. Kitchener3, Erwan Corre4, Benoit Nabh…