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Jonathan Romiguier
University of Montpellier
29Publications
16H-index
1,148Citations
Publications 30
Newest
Historical changes affecting food resources are a major driver of cetacean evolution. Small cetaceans like porpoises (Phocoenidae) are among the most metabolically challenged marine mammals and are particularly sensitive to changes in their food resources. The seven species of this family inhabit mostly temperate waters and constitute a textbook example of antitropical distribution. Yet, their evolutionary history remains poorly known despite major conservation issues threatening the survival of...
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#1Rémi Allio (University of Montpellier)H-Index: 1
#2Alex Schomaker-Bastos (UFRJ: Federal University of Rio de Janeiro)H-Index: 2
Last.Frédéric Delsuc (University of Montpellier)H-Index: 42
view all 6 authors...
Thanks to the development of high-throughput sequencing technologies, target enrichment sequencing of nuclear ultraconserved DNA elements (UCEs) now allows routinely inferring phylogenetic relationships from thousands of genomic markers. Recently, it has been shown that mitochondrial DNA (mtDNA) is frequently sequenced alongside the targeted loci in such capture experiments. Despite its broad evolutionary interest, mtDNA is rarely assembled and used in conjunction with nuclear markers in capture...
1 CitationsSource
#1Jonathan Romiguier (University of Montpellier)H-Index: 16
#2Jonathan Rolland (Swiss Institute of Bioinformatics)H-Index: 9
Last.Laurent Keller (UNIL: University of Lausanne)H-Index: 74
view all 4 authors...
The ants of the Formica genus are classical model species in evolutionary biology. In particular, Darwin used Formica as model species to better understand the evolution of slave-making, a parasitic behaviour where workers of another species are stolen to exploit their workforce. In his book “On the Origin of Species” (1859), Darwin first hypothesized that slave-making behaviour in Formica evolved in incremental steps from a free-living ancestor. The absence of a well-resolved phylogenetic tree ...
1 CitationsSource
#1Christelle Fraïsse (University of Cambridge)H-Index: 6
#2Camille Roux (Lille University of Science and Technology)H-Index: 12
Last.Nicolas Bierne (University of Cambridge)H-Index: 36
view all 7 authors...
Genome-scale diversity data are increasingly available in a variety of biological systems, and can be used to reconstruct the past evolutionary history of species divergence. However, extracting the full demographic information from these data is not trivial, and requires inferential methods that account for the diversity of coalescent histories throughout the genome. Here, we evaluate the potential and limitations of one such approach. We reexamine a well-known system of mussel sister species, ...
7 CitationsSource
#1Christelle Fraïsse (University of Cambridge)H-Index: 6
#2Camille Roux (Lille University of Science and Technology)H-Index: 12
Last.Nicolas Bierne (University of Montpellier)H-Index: 36
view all 7 authors...
Abstract Genome-scale diversity data are increasingly available in a variety of biological systems, and can be used to reconstruct the past evolutionary history of species divergence. However, extracting the full demographic information from these data is not trivial, and requires inferential methods that account for the diversity of coalescent histories throughout the genome. Here, we evaluate the potential and limitations of one such approach. We reexamine a well-known system of mussel sister ...
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#1Nicolas Galtier (CNRS: Centre national de la recherche scientifique)H-Index: 49
#2Camille Roux (Lille University of Science and Technology)H-Index: 12
Last.Laurent Duret (University of Lyon)H-Index: 64
view all 8 authors...
Selection on codon usage bias is well documented in a number of microorganisms. Whether codon usage is also generally shaped by natural selection in large organisms, despite their relatively small ...
24 CitationsSource
#1Christelle Fraisse (Institute of Science and Technology Austria)H-Index: 2
#2Camille Roux (Lille University of Science and Technology)H-Index: 12
Last.Nicolas Bierne (University of Montpellier)H-Index: 36
view all 7 authors...
Genome-scale diversity data are increasingly available in a variety of biological systems, and can be used to reconstruct the past evolutionary history of species divergence. However, extracting the full demographic information from these data is not trivial and requires inferential methods that account for the diversity of coalescent histories throughout the genome. Here, we evaluate the potential and limitations of one such approach. We reexamine a well-known system of mussel sister species, u...
Source
#1Eric R. Lucas (UNIL: University of Lausanne)H-Index: 7
#2Jonathan Romiguier (UNIL: University of Lausanne)H-Index: 16
Last.Laurent Keller (UNIL: University of Lausanne)H-Index: 74
view all 3 authors...
Phenotypic plasticity, where a single genome can give rise to different phenotypes, underlies many remarkable features of the natural world and occurs in a wide range of organisms. Understanding the transcriptional differences that underlie plastic phenotypes remains a major unsolved problem in biology. In many ants, females can develop into either queens or workers, two phenotypes with different morphology, behaviour and longevity. In comparison with workers, queens are larger, more fecund and ...
7 CitationsSource
#1Thibault Leroy (University of Bordeaux)H-Index: 5
#2Camille Roux (UNIL: University of Lausanne)H-Index: 12
Last.Antoine Kremer (University of Bordeaux)H-Index: 65
view all 10 authors...
Summary Historical trajectories of tree species during the late Quaternary have been well reconstructed through genetic and palaeobotanical studies. However, many congeneric tree species are interfertile, and the timing and contribution of introgression to species divergence during their evolutionary history remains largely unknown. We quantified past and current gene flow events between four morphologically divergent oak species (Quercus petraea, Q. robur, Q. pyrenaica, Q. pubescens), by two in...
33 CitationsSource
#1Jonathan Romiguier (UNIL: University of Lausanne)H-Index: 16
#2Camille Roux (UNIL: University of Lausanne)H-Index: 12
Molecular evolution is being revolutionised by high-throughput sequencing allowing an increased amount of genome-wide data available for multiple species. While base composition summarised by GC-content is one of the first metrics measured in genomes, its genomic distribution is a frequently neglected feature in downstream analyses based on DNA sequence comparisons. Here, we show how base composition heterogeneity among loci and taxa can bias common molecular evolution analyses such as phylogene...
14 CitationsSource
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