Eric Pante

Eric Pante
La Rochelle Université · LIttoral ENvironnement et Sociétés (LIENSs)

PhD in Evironmental and Evolutionary Biology

About

75
Publications
17,243
Reads
How we measure 'reads'
A 'read' is counted each time someone views a publication summary (such as the title, abstract, and list of authors), clicks on a figure, or views or downloads the full-text. Learn more
2,090
Citations
Introduction
deep-sea octocoral coral evolution, phylogenetics, marine bivalve evolution, population differentiation and adaptation, doubly uniparental inheritance of mitochondria
Additional affiliations
September 2006 - July 2011
University of Louisiana at Lafayette
Position
  • PhD Student
September 2001 - July 2006
College of Charleston
Position
  • undergraduate and master student
September 1998 - July 2000
University of Strasbourg
Position
  • Student

Publications

Publications (75)
Article
Full-text available
RAD-tag sequencing is a promising method for conducting genome-wide evolutionary studies. However, to date, only a handful of studies empirically tested its applicability above the species level. In this communication, we use RAD-tags to contribute to the delimitation of species within a diverse genus of deep-sea octocorals, Chrysogorgia, for which...
Article
Full-text available
Background Scallops (Bivalvia: Pectinidae) present extraordinary variance in both mitochondrial genome size, structure and content, even when compared to the extreme diversity documented within Mollusca and Bivalvia. In pectinids, mitogenome rearrangements involve protein coding and rRNA genes along with tRNAs, and different genome organization pat...
Article
Full-text available
Cytochrome c oxidase subunit II (COX2) is one of the three mitochondrially encoded proteins of the complex IV of the respiratory chain that catalyses the reduction of oxygen to water. The cox2 gene spans about 690 base pairs in most animal species and produces a protein composed of approximately 230 amino acids. We discovered an extreme departure f...
Preprint
Doubly Uniparental Inheritance (DUI) of mitochondria is a remarkable exception to the Strictly Maternal Inheritance (SMI) in metazoans. In species characterized by DUI --almost exclusively gonochoric bivalve mollusks--, females (F) transmit mitochondria to offspring of both sexes, while males (M) pass on their mitochondria exclusively to their sons...
Article
Full-text available
Foliose species of the genus Ulva are notoriously difficult to identify due to their variable morphological characteristics and high phenotypic plasticity. We reassessed the taxonomic status of several distromatic foliose Ulva spp., morphologically related to Ulva rigida, using DNA barcoding with the chloroplastic tuf A and rbc L (for a subset of t...
Article
Full-text available
Seabirds, particularly Procellariiformes, are highly mobile organisms with a great capacity for long dispersal, though simultaneously showing high philopatry, two conflicting life-history traits that may lead to contrasted patterns of genetic population structure. Landmasses were suggested to explain differentiation patterns observed in seabirds, b...
Preprint
Full-text available
Background Scallops (Bivalvia: Pectinidae) present extraordinary variance in both mitochondrial genome size, structure and content, even when compared to the extreme diversity documented within Mollusca and Bivalvia. In pectinids, mitogenome rearrangements involve protein coding and rRNA genes along with tRNAs, and different genome organization pat...
Article
The green seaweeds Ulva australis and U. pertusa were described from southern Australia and Japan, respectively. They are conspecific and U. australis, the currently accepted taxon, is native to temperate marine waters in north-eastern Asia, and known to be introduced overseas into Australasia, the Americas and Europe. Although the genetics of U. a...
Article
Full-text available
The octocoral genus Chrysogorgia ( Duchassaing and Michelotti, 1864 ) contains 81 nominal species that are ecologically important components of benthic communities. Taxonomic examination of a large set of samples revealed many provisional new species, exhibiting a wide range of morphological variation. We established nine, distinct morphological gr...
Chapter
Mitochondrial DNA (mtDNA) is typically passed on to progeny only by the female parent. The phenomenon of “doubly uniparental inheritance” (DUI) of mtDNA in many bivalve species is a fascinating exception to the paradigm of strict maternal inheritance of mtDNA. In this review, we survey the current state of knowledge of DUI and discuss several activ...
Article
Full-text available
In animals, strictly maternal inheritance (SMI) of mitochondria is the rule, but one exception (doubly uniparental inheritance or DUI), marked by the transmission of sex-specific mitogenomes, has been reported in bivalves. Associated with DUI is a frequent modification of the mitochondrial cox2 gene, as well as additional sex-specific mitochondrial...
Article
For over a decade now, High Throughput sequencing (HTS) approaches have revolutionized phylogenetics, both in terms of data production and methodology. While transcriptomes and (reduced) genomes are increasingly used, generating and analyzing HTS datasets remains expensive, time consuming and complex for most non-model taxa. Indeed, a literature su...
Article
The monogeneric family Dendrobrachiidae has been a taxonomic curiosity since its original description in 1889. Using one nuclear (18S) and two mitochondrial (mtMutS and cox1) genes, the phylogenetic placement of Dendrobrachiidae within the Octocorallia was investigated based on recently-collected specimens and museum collections. In particular, the...
Article
Highly unsaturated fatty acids of the omega-3 series (HUFA) are major constituents of cell membranes, yet poorly synthesised de novo by consumers. Their production, mainly supported by aquatic microalgae, has been decreasing with global change. Understanding the consequences of such reductions is essential for ectotherm consumers, since temperature...
Article
We used transcriptomic sequence data to describe patterns of divergence and selection across different populations of a marine bivalve (Limecola balthica). Our analyses focused on a nuclear gene (atp5c1) that was previously detected in an FST scan as highly structured among populations separated by the Finistre Peninsula in France. This gene encode...
Article
Mitochondrial genetic markers have been extensively used to study the phylogenetics and phylogeography of many birds, including seabirds of the order Procellariiformes. Evidence suggests that part of the mitochondrial genome of Procellariiformes, especially albatrosses, is duplicated, but no DNA fragment covering the entire duplication has been seq...
Article
Developing genomic resources for species used as bioindicators of environmental pollution facilitates identification of new biomarkers of interest. The variegated scallop Mimachlamys varia (Pectinidae) is a marine bivalve used to evaluate and monitor chemical contamination on the French Atlantic coast. Because natural populations of this species ar...
Article
Doubly uniparental inheritance (DUI) is a remarkable exception to the maternal inheritance of mitochondria in metazoans. Found in bivalves, DUI is characterized by females transmitting 'female' (F) mitochondria that persist in oocytes and in somatic tissues of both sexes, whereas males pass on 'male' (M) mitochondria that persist in the male germ l...
Poster
Full-text available
Abstract: There is overwhelming evidence that climate change influences the distribution of marine species but little is known about changes in phenology, especially for benthic molluscs. Using contemporary data collected in the warming Bay of Biscay (France) over the last 38 years (1977-2015), the present study aims at characterizing the timing of...
Article
Full-text available
Dendrobrachia was proposed by Xian-Guan et al. (2006) as the name of a new phylum of entoproct-like animals from the Lower Cambrian (Yunnan Province, China). This name was however preoccupied by the octocoral Dendrobrachia Brook 1889, which position within the subclass Octocorallia is currently uncertain (Opresko and Bayer 1991; Berntson et al. 199...
Article
Full-text available
Understanding the effects of chronic chemical contamination on natural populations of marine organisms is complex due to the combined effects of different types of pollutants and environmental parameters that can modulate the physiological responses to stress. Here, we present the effects of a chronic contamination in a marine bivalve by combining...
Article
Improving our understanding of species responses to environmental changes is an important contribution ecologists can make to facilitate effective management decisions. Novel synthetic approaches to assessing biodiversity and ecosystem integrity are needed, ideally including all species living in a community and the dynamics defining their ecologic...
Data
Detailed methodologies for biochemical material preparation, genetic analysis, pollutant measurements and biomarker assessments. (DOCX)
Data
Supplementary results for organic contaminants concentrations. (DOCX)
Data
Individual data for biomarker levels and metal concentrations. (DOCX)
Conference Paper
Full-text available
Invasion impacts on indigenous biodiversity are poorly understood, in part because ecosystem dynamics depend on complex and often unresolved networks of interacting species. Improved understanding of these systems and the impacts of invasive species requires novel synthetic approaches to biodiversity and ecology assessments that would, ideally, cap...
Poster
Full-text available
Abstract : Dans la mitochondrie, la production d’énergie aérobie est assurée par la chaîne de phosphorylation oxydative dont le fonctionnement est étroitement lié aux interactions des différentes sous-unités protéiques qui la constituent. Ces sous-unités protéiques présentent la particularité d’être codées à la fois par des gènes mitochondriaux et...
Conference Paper
Full-text available
Human-induced disturbances generate strong selection pressures on the ecology and evolution of species, affecting community dynamics, ecosystem functioning, and global processes. In the marine environment, the taxonomy and distribution of most organisms are poorly known. As ecologists strive to understand increasingly complex processes, involving a...
Article
The deep-sea part of the "Papua Niugini Biodiversity Expedition" surveyed the deep-sea environments along the coasts of New Guinea Island in the Bismarck Sea, from the Vitiaz Strait to the border between Papua New Guinea (PNG) and Irian Jaya. This expedition was a follow-up of the BIOPAPUA cruise (2010) that gave some of the first insights into the...
Article
AimThe biogeography of seamount fauna remains poorly known, with less than 1% of the world's seamounts having been investigated. Here, we report data on the geographical isolation of species in the octocoral genus Chrysogorgia from south-west Pacific seamounts and slopes, and contrast the results with patterns observed in the north-western Atlantic...
Article
Connectivity among populations determines the dynamics and evolution of populations, and its assessment is essential in ecology in general and in conservation biology in particular. The robust basis of any ecological study is the accurate delimitation of evolutionary units, such as populations, meta-populations and species. Yet a disconnect still p...
Article
Full-text available
Background Allopatric divergence across lineages can lead to post-zygotic reproductive isolation upon secondary contact and disrupt coevolution between mitochondrial and nuclear genomes, promoting emergence of genetic incompatibilities. A previous F ST scan on the transcriptome of the Baltic clam Macoma balthica highlighted several genes potentiall...
Article
Full-text available
Integrative taxonomy was formally introduced in 2005 as a comprehensive framework to delimit and describe taxa by integrating information from different types of data and methodologies (Dayrat 2005; Will et al. 2005). Even if debate remains about the hierarchy of the types of characters and criteria to use for species delimitation (Schlick-Steiner...
Article
Studies focusing on the effect of invasive species on the genetic diversity of native marine invertebrates remain scant. Here we report diversity among French populations of the intertidal gastropod Ocenebra erinacea (Linnaeus, 1758) sampled in the presence and absence of the invasive Ocenebra inornata (Recluz, 1851). Between 1999 and 2004, a total...
Article
We used mitochondrial DNA control region sequences to genetically identify to the species level 23 pilot whales (genus Globicephala ) that stranded on the French coasts between 1996 and 2011. Genetic analysis complemented morphological diagnoses, often hampered by an overlap in morphological characters between the two species or incomplete measurem...
Article
Restriction site-Associated DNA tag (RAD-tag) sequencing has become a popular approach to generate thousands of SNPs used to address diverse questions in population genomics. Comparatively, the suitability of RAD-tag genotyping to address evolutionary questions across divergent species has been the subject of only a few recent studies. Here, we eva...
Article
Full-text available
In this communication we introduce marmap, a package designed for downloading, plotting and manipulating bathymetric and topographic data in R. marmap can query the ETOPO1 bathymetry and topography database hosted by the NOAA, use simple latitude-longitude-depth data in ascii format, and take advantage of the advanced plotting tools available in R...
Data
R code used to produce Figures 1 and 2 . (R)
Article
Full-text available
It is increasingly recognized that populations of marine organisms with potential for large-scale dispersal may exhibit fine-scale genetic structure. The Gulf of Gdañsk (Poland) is an interesting setting to study fine-grained population structure in marine organisms as it is characterized by chronic anthropogenic pollution and strong salinity gradi...
Poster
Full-text available
Abstract : Despite their large population sizes, high fecundity and dispersive potential, marine bivalves maintain adaptive polymorphism that help them cope with local environmental variations. The study of adaptive evolution can be facilitated by examining contact zones between close taxa. In these zones, maintained by endogenic genetic incompatib...
Article
Full-text available
The rare octocoral genus Isidoides Nutting, 1910 was originally placed in the Gorgonellidae (now the Ellisellidae), even though it showed a remarkable similarity to the Isidae (now the Isididae). Isidoides was not classified in the Isididae mostly because the type specimen lacked skeletal nodes, a defining characteristic of that family. The genus w...
Article
Full-text available
Hybrid zones are noteworthy systems for the study of environmental adaptation to fast-changing environments, as they constitute reservoirs of polymorphism and are key to the maintenance of biodiversity. They can move in relation to climate fluctuations, as temperature can affect both selection and migration, or remain trapped by environmental and p...
Data
Description of nuclear contigs with outlier loci. Contigs identified as â “hypothetical protein” using blast were reported as “non-annotated” (na). Accession numbers and E-values correspond to the blast top hit. Information on SNPs that are fixed in some populations ( = 1) is bolded. (XLS)
Article
The bivalve Macoma balthica (L.) is a key species of intertidal mudflats in France and Europe. Its natural range has experienced a contraction along the European coastline towards the northeast during the past five decades. This southern boundary shift seems to be correlated with the increased sea surface temperature in the Bay of Biscay (France),...
Article
Full-text available
Little is known of New Guinea's deep benthic communities. In fall 2010, the Museum national d'Histoire naturelle, Institut de Recherche pour le Developpement, and University of Papua New Guinea spearheaded an international three-leg cruise, BioPapua, aimed at exploring the deep waters of eastern Papua New Guinea and its satellite islands. Special a...
Conference Paper
Background/Question/Methods Climatic variation can trigger strong nonlinear responses in species, such as population crashes or outbreaks. For example, drought conditions have been hypothesized to facilitate outbreaks of the southern pine beetle (Dendroctonus frontalis Zimm.) (SPB) in the southeastern U.S. SPB outbreaks are defined here as rapid...
Article
Full-text available
Recent exploration of the New England and Corner Seamounts revealed four new species of Chrysogorgia, described here using a combination of molecular and morphological data. These four species are characterized by a sinistral spiral, a character that, with one known exception, has only been reported for Pacific species. In addition, two species hav...
Article
Full-text available
The diversity, ubiquity and prevalence in deep waters of the octocoral family Chrysogorgiidae Verrill, 1883 make it noteworthy as a model system to study radiation and diversification in the deep sea. Here we provide the first comprehensive phylogenetic analysis of the Chrysogorgiidae, and compare phylogeny and depth distribution. Phylogenetic rela...
Data
Full-text available
Bayesian 50% majority rule consensus trees based on different markers (mtMutS, cox1 and 18S) and marker combinations. For mtMutS, the effect of indels on phylogeny inference was tested by removing them with Gblocks. Chrysogorgiidae taxa are either color coded (MCC) or have bolded branches (nonMCC).All trees are rooted to the Pennatulacea, except tr...
Data
Collection date, geographic coordinates, depth, and genetic markers sequenced for specimens used in this study. GenBank accession numbers representing each haplotype and biogeographic region are given in the final 3 columns. (XLS)
Article
Full-text available
Ecological monitoring programs depend on the robust estimation of descriptive parameters. Percent cover, gleaned from transects sampled with video imagery, is a popular benthic ecology descriptor often estimated using point counting, an image-based method for identifying substrate types beneath random points. We tested the hypothesis that the numbe...
Article
This chapter discusses the taxonomy, phylogeny, biogeography, ecology, and reproductive biology of deep-sea octocorals and also focuses on gorgonian octocorals because they are the predominant octocoral group in the deep sea. The most widely accepted taxonomic scheme for octocorals divides the subclass into four orders: (1) helioporacea, (2) alcyon...
Article
Full-text available
Pseudochrysogorgia bellona n. gen, n. sp. : un genre nouveau et une nouvelle espèce d'octocorail Chrysogorgiidae (Coelenterata, Anthozoa) de la Mer de Corail.Un nouveau genre et une nouvelle espèce de Chrysogorgiidae Verrill, 1883 de grande profondeur, Pseudochrysogorgia bellona n. gen., n. sp., sont décrits à partir de colonies échantillonnées en...
Article
The widespread assumption that COI and other mitochondrial genes will be ineffective DNA barcodes for anthozoan cnidarians has not been well tested for most anthozoans other than scleractinian corals. Here we examine the limitations of mitochondrial gene barcoding in the sub-class Octocorallia, a large, diverse, and ecologically important group of...
Article
Full-text available
Seamounts are undersea mountains commonly characterized by accelerated currents, exposed hard-substrates, and relatively high biomass and biodiversity. Hydrographic features associated with seamounts have led authors to hypothesize that benthic invertebrate populations from geographically separated searnounts (and the continental slope) may experie...
Article
Full-text available
Temporal changes in the stony coral assemblages of Rainbow Gardens Reef (Iguana Cay, Exumas, Bahamas), were revealed by comparing quantitative community descriptors recorded in 1991 and 2004. Mean percent live cover significantly dropped from 13% to 3% between 1991 and 2004 (−77%, P<0.01). During that period, coral abundance (number of colonies) de...