Emeric Figuet

Emeric Figuet
Université de Montpellier | UM1

PhD

About

20
Publications
3,509
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483
Citations
Citations since 2016
16 Research Items
460 Citations
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2016201720182019202020212022020406080100
2016201720182019202020212022020406080100

Publications

Publications (20)
Article
Reconstructing ancestral characters on a phylogeny is an arduous task because the observed states at the tips of the tree correspond to a single realization of the underlying evolutionary process. Recently, it was proposed that ancestral traits can be indirectly estimated with the help of molecular data, based on the fact that life history traits i...
Article
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Significance Putatively ancient asexual species pose a challenge to theory because they appear to escape the predicted negative long-term consequences of asexuality. Although long-term asexuality is difficult to demonstrate, specific signatures of haplotype divergence, called the “Meselson effect,” are regarded as strong support for long-term asexu...
Preprint
Full-text available
Sex strongly impacts genome evolution via recombination and segregation. In the absence of these processes, haplotypes within lineages of diploid organisms are predicted to accumulate mutations independently of each other and diverge over time. This so-called ‘Meselson effect’ is regarded as a strong indicator of the long-term evolution under oblig...
Preprint
Full-text available
The shift from sexual reproduction to parthenogenesis has occurred repeatedly in animals, but how the loss of sex affects genome evolution remains poorly understood. We generated de novo reference genomes for five independently evolved parthenogenetic species in the stick insect genus Timema and their closest sexual relatives. Using these reference...
Article
Full-text available
Whether adaptation is limited by the beneficial mutation supply is a long-standing question of evolutionary genetics, which is more generally related to the determination of the adaptive substitution rate and its relationship with species effective population size (Ne) and genetic diversity. Empirical evidence reported so far is equivocal, with som...
Article
Full-text available
Thanks to huge advances in sequencing technologies, genomic resources are increasingly being generated and shared by the scientific community. The quality of such public resources are therefore of critical importance. Errors due to contamination are particularly worrying; they are widespread, propagate across databases, and can compromise downstrea...
Preprint
Full-text available
Whether adaptation is limited by the supply of beneficial mutations is a long-standing question of evolutionary genetics, which more generally relates to the determination of the adaptive substitution rate and its relationship with the effective population size Ne. The empirical evidence so far is equivocal, with some but not all studies supporting...
Article
Full-text available
Recombination is expected to affect functional sequence evolution in several ways. On the one hand, recombination is thought to improve the efficiency of multilocus selection by dissipating linkage disequilibrium. On the other hand, natural selection can be counteracted by recombination-associated transmission distorters such as GC-biased gene conv...
Article
Full-text available
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 effective population size (Ne), is unclear. In animals, the population genetics of codon usage bias has only been studied in a handful of model organisms...
Preprint
Full-text available
This preprint has been reviewed and recommended by Peer Community In Evolutionary Biology ( http://dx.doi.org/10.24072/pci.evolbiol.100042 ). Reconstructing ancestral characters on a phylogeny is an arduous task because the observed states at the tips of the tree correspond to a single realization of the underlying evolutionary process. Recently, i...
Article
Full-text available
According to current assemblies, avian genomes differ from those of the other lineages of amniotes in 1) containing a lower number of genes; 2) displaying a high stability of karyotype and recombination map; and 3) lacking any correlation between evolutionary rates (dN/dS) and life-history traits, unlike mammals and nonavian reptiles. We question t...
Preprint
Full-text available
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 effective population size ( N e ), is unclear. Codon usage bias in animals has only been studied in a handful of model organisms so far, and can be affec...
Article
Full-text available
Comparative population genetics in asexual vs. sexual species offers the opportunity to investigate the impact of asexuality on genome evolution. Here we analyse coding sequence polymorphism and divergence patterns in the fascinating Lineus ribbon worms, a group of marine, carnivorous nemerteans with unusual regeneration abilities, and in which ase...
Article
Full-text available
The nearly neutral theory of molecular evolution predicts that small populations should accumulate deleterious mutations at a faster rate than large populations. The analysis of non-synonymous (dN) vs. synonymous (dS) substitution rates in birds vs. mammals, however, has provided contradictory results, questioning the generality of the nearly neutr...
Article
Full-text available
Background Comparative analysis of homologous sequences enables the understanding of evolutionary patterns at the molecular level, unraveling the functional constraints that shaped the underlying genes. Bioinformatic pipelines for comparative sequence analysis typically include procedures for (i) alignment quality assessment and (ii) control of seq...
Article
Full-text available
Mammalian and avian genomes are characterized by a substantial spatial heterogeneity of GC content, which is often interpreted as reflecting the effect of local GC-biased gene conversion, a meiotic repair bias that favours G and C over A and T alleles in high-recombining genomic regions. Surprisingly, the first fully-sequenced non-avian sauropsid (...
Article
Reconstructing the ancestral characteristics of species is a major goal in evolutionary and comparative biology. Unfortunately, fossils are not always available and sufficiently informative, and phylogenetic methods based on models of character evolution can be unsatisfactory. Genomic data offer a new opportunity to estimate ancestral character sta...
Article
Full-text available
Genes and genomes do not evolve similarly in all branches of the tree of life. Detecting and characterizing the heterogeneity in time, and between lineages, of the nucleotide (or amino acid) substitution process is an important goal of current molecular evolutionary research. This task is typically achieved through the use of non-homogeneous models...

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