@article {9117, title = {New insights into the diversity of cryptobenthic Cirripectes blennies in the Mascarene Archipelago sampled using Autonomous Reef Monitoring Structures (ARMS)}, journal = {Ecology and Evolution}, volume = {13}, year = {2023}, month = {Jan-03-2023}, issn = {2045-7758}, doi = {10.1002/ece3.v13.310.1002/ece3.9850}, url = {https://onlinelibrary.wiley.com/toc/20457758/13/3}, author = {Marion Cou{\"e}del and Dettai, Agn{\`e}s and Mireille M.M. Guillaume and Bruggemann, Fleur and Bureau, Sophie and Baptiste Frattini and Verde~Ferreira, Am{\'e}lie and Azie, Jean-Lindsay and Bruggemann, J. Henrich} } @article {8388, title = {The complete mitochondrial genome of Barbatula quignardi (B{\u a}cescu-Me{\c s}ter, 1967) (Teleostei, Nemacheilidae)}, journal = {Cybium}, volume = {45}, year = {2021}, pages = {39-42}, abstract = {The complete mitochondrial DNA sequence of Barbatula quignardi (Teleostei, Nemacheilidae) was sequenced from a museum voucher caught in its type locality (Lez River). The sequence was 16,641 bp in length, consisted of 13 protein-coding genes, 22 transfer RNA genes including 2 tRNA-Leu and 2 tRNA-Ser, 2 ribosomic RNA genes and the control region. Intergenic space and overlapping gene sequences were found. The base composition of the whole mtDNA was 28.7\% A, 26.2\% T, 27.2\% C and 17.9\% G.}, author = {Gauliard, Camille and Denys, Ga{\"e}l and Perea, Silvia and Dettai, Agn{\`e}s} } @article {8386, title = {Revalidation of the Spanish stone loach Barbatula hispanica (Lelek, 1987) (Teleostei, Nemacheilidae) according to morphological and mitochondrial data}, journal = {Annales de Limnologie - International Journal of Limnology}, volume = {57}, year = {2021}, month = {Jan-01-2021}, pages = {10}, issn = {0003-4088}, doi = {10.1051/limn/2021007}, url = {https://www.limnology-journal.org/10.1051/limn/2021007}, author = {Denys, Ga{\"e}l and Perea, Silvia and Dettai, Agn{\`e}s and Gauliard, Camille and Persat, Henri and Doadrio, Ignacio} } @article {8393, title = {Revision of Phoxinus in France with the description of two new species (Teleostei, Leuciscidae)}, journal = {Cybium}, volume = {44}, year = {2020}, pages = {205-237}, abstract = {French minnows of the genus Phoxinus are revised based on molecular data (COI and 12S rDNA markers), morphological characters and nuptial colouration patterns. The results delineate six groups of populations, which are recognised as species. Phoxinus phoxinus is found in eastern France in the lower and middle Rhine and Seine drainages. Phoxinus bigerri occurs in the Adour drainage and populations from the Lake Geneva basin and the upper Rhine drainage are identified as Phoxinus csikii. Phoxinus dragarum, new species, from the Garonne drainage, is distinguished by its unique nuptial colour pattern (green stripe in Z3 reaching up to the anal fin base and Z4 greenish yellow in male; Z4 green-ochre and black line below in Z5 reaching from the pectoral fin bases to the anal fin base in female), and by an incomplete lateral line generally reaching to a point in front of the anal fin base or just shortly beyond the origin of the last anal fin ray. Phoxinus fayollarum, new species, from the Loire drainage, is distinguished by its unique nuptial colour pattern (green bars in Z3 and Z4, Z4 bright yellow, and belly red in male; green stripe in Z3, Z4 yellow-pinkish, and red spots at the pectoral, pelvic and anal fin base in female). Minnows of the Rh{\^o}ne drainage are identified as Phoxinus septimaniae. We consider Pisciculus varius and Phoxynus montanus as nomen oblitum and Phoxinus septimaniae as nomen protectum, and Leuciscus obtusus as incertae sedis within Leuciscidae.}, author = {Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Persat, Henri and Daszkiewicz, Piotr and Hautecoeur, M{\'e}lyne and Philippe Keith} } @proceedings {8401, title = {Upstream as a sanctuary for the French populations of catalan chub Squalius laietanus (Teleostei , Leuciscidae) threatened by the allochtonous European chub S. cephalus}, year = {2020}, abstract = {In the Pyr{\'e}n{\'e}es-Orientales department (France), three Mediterranean catchments (Agly, T{\^e}t and Tech) are subject to high variations in water levels during Cevenol-type events. In order to fight against the effects of these floods, dams and wiers were built along these rivers with consequences on aquatic fauna, eliminating the ecological continuum. The chub Squalius is a potamodromous fish occurring from the salmonids stream to close to the estuaries. Moreover, whereas the European chub S. cephalus was thought to be represented by a single species in France, another species, endemic to Catalonia, was described: the Catalan chub S. laietanus. However, S. cephalus was also introduced in the catchments of this area with possibly threats of hybridization. Samples from eight populations of Squalius spp coming from these rivers were genetically identified using a DNA Barcoding approach with a mitochondrial (COI) and a nuclear (RAG1) markers. Our results confirm the presence of both species in the three drainages as well as their hybridization, threatening S. laietanus by hybridization as in 70\% of Mediterrannean endemic species. There is also a downstream-upstream gradient in the presence of S. cephalus in the T{\^e}t and Tech catchments. S. laietanus seems less impacted by S. cephalus in headwaters than downstream. One of the explanations would be the numerous weirs between these areas. If the negative impacts of the absence of ecological continuum on the ichthyofauna are known and cannot be denied, these weirs might form in this case a barrier against the presence of S. cephalus in headwaters. As a consequence, S. laietanus has been evaluated as EN in the last French UICN Red List published in 2019. While the ecological parameters still need to be examined, our study brings additional information for better suited conservation actions regarding the ecological continuum.}, author = {Rose, Morgane and Dettai, Agn{\`e}s and Lef{\`e}bvre, St{\'e}phane and Blanc, Laurence and Poulet, Nicolas and Baudier, Olivier and Hautecoeur, M{\'e}lyne and Denys, Ga{\"e}l} } @article {6045, title = {Barbatula leoparda (Actinopterygii, Nemacheilidae), a new endemic species of stone loach of French Catalonia}, journal = {Cybium}, volume = {43}, year = {2019}, pages = {169-177}, abstract = {

This study described a new stone loach species in France, Barbatula leoparda, which is endemic to French Catalonia (T{\^e}t and Tech river drainages). Seven specimens were compared to 49 specimens of B. barbatula\ (Linnaeus, 1758) and 71 specimens of B. quignardi (B{\u a}cescu-Me{\c s}ter, 1967). This new species is characterized by the presence of blotches on the belly and the jugular area in individuals longer than 47 mm SL and by a greater interorbital distance (35.5 to 41.8\% of the head length). We brought moreover the sequence of two mitochondrial markers (COI and 12S, respectively 652 and 950 bp) of the holotype, which are well distinct from all other species, for molecular identifications. This discovery is important for conservation.

}, keywords = {Barbatula leopard, French Catalonia, Freshwater, Nemacheilidae, New species}, author = {Gauliard, Camille and Dettai, Agn{\`e}s and Persat, Henri and Philippe Keith and Denys, Ga{\"e}l} } @article {6044, title = {Does your lip stick? Evolutionary aspects of the mouth morphology of the Indo-Pacific clinging goby of the Sicyopterus genus (Teleostei: Gobioidei: Sicydiinae) based on mitogenome phylogeny.}, journal = {Journal of Zoological Systematics and Evolutionary Research}, year = {2019}, abstract = {

Sicydiinae gobies have an amphidromous life cycle. Adults grow, feed, and reproduce in rivers, while larvae have a marine dispersal phase. Larvae recruit back to rivers and settle in upstream habitats. Within the Sicydiinae subfamily, the\ Sicyopterus genus, one of the most diverse (24 species), is distributed in the tropical islands of the Indo-Pacific. One of the characters used to determine Sicyopterus species is the upper lip morphology, which can be either smooth, crenulated, or with papillae, and with (2 or 3) or without clefts. The mouth is used as a secondary locomotor organ along with the pelvic sucker. It is thus strongly related to the climbing ability of species and is of major importance for the upstream migration and the colonization of insular freshwater systems. The mouth also has an important role in the feeding mechanism of these herbivorous species. In this paper, we have established a molecular phylogeny of the genus based on the 13 mitochondrial protein-coding genes to discuss the relationship between 18 Sicyopterus species. There is a well-supported dichotomy in the molecular phylogeny of the Sicyopterus genus and this separation into two clades is also morphologically visible, with the distinction of species with three clefts and species with 0 or 2 clefts on the upper lip. The mouth morphology can thus be separated with regard to the molecular phylogeny obtained. The evolution of the mouth morphology is discussed in terms of the adaptation of the Sicyopterus genus to settlement and life in tropical insular river systems.

}, keywords = {mitogenome, mouth morphology, Phylogeny, Sicydiinae, Sicyopterus}, doi = {DOI: 10.1111/jzs.12291}, author = {Clara Lord and Laure Bellec and Dettai, Agn{\`e}s and Bonillo, C{\'e}line and Philippe Keith} } @article {8402, title = {Minnow, Minnow, new and old, who is the fairest of them all: the taxonomical review of the French minnows Phoxinus spp. (Actinopterygii, Leuciscidae)}, journal = {Frontiers in Marine Science}, volume = {6}, year = {2019}, month = {Jan-01-2019}, doi = {10.3389/conf.fmars.2019.07.00102}, url = {http://www.frontiersin.org/Community/AbstractDetails.aspx?ABS_DOI=10.3389\%2fconf.fmars.2019.07.00102}, author = {Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Persat, Henri and Hautecoeur, M{\'e}lyne and Philippe Keith} } @article {5343, title = {Genetic and morphological discrimination of three species of ninespined stickleback Pungitius spp. (Teleostei, Gasterosteidae) in France with the revalidation of Pungitius vulgaris (Mauduyt, 1848)}, journal = {J Zool Syst Evol Res }, volume = {2017}, year = {2018}, pages = {1{\textendash}25}, abstract = {

The taxonomy of French ninespined sticklebacks (Pungitius spp.) has long been controversial. To clarify the taxonomy in this group, we use mitochondrial (COI) and nuclear\  (RNF213) sequence markers, as well as morphological data. In France, both genetic markers discriminate three evolutionary lineages. Morphological analysis on fresh and type specimens supports the different lineages and the existence of three species in France. Pungitius pungitius, occurring in the North of France and Rhone basin, is characterized by specimens longer than 35 mm SL, by a flat head with a straight or slightly concave snout, typically 9{\textendash}10 dorsal spines, 10{\textendash}11 dorsal soft rays, 9{\textendash}10 anal soft rays, 0{\textendash}12 scutes on the caudal peduncle with a keel reaching the last anal-fin ray, longer pelvic fin, post-dorsal and caudal peduncle lengths, and a slim caudal peduncle (caudal peduncle depth/ length 11.8\%{\textendash}21.9\%). Pungitius laevis, occurring in France, in the English Channel basins and Loire drainage, differs from the other species by a head rounded with concave snout in specimens longer than 35 mm SL, accentuating the impression of fleshy lips, 0{\textendash}4 scutes on the caudal peduncle and a higher caudal peduncle depth/length ratio (15.7\%{\textendash} 34.5\%). Finally, Pungitius vulgaris, endemic to the Vienne River and rivers of south-western France as far north as the Garonne estuary, is differentiated by a rounded head with a straight or slightly convex snout, the absence of scutes on the caudal peduncle and by having 11 pectoral-fin rays. Our data confirm the existence of a hybridization zone in the North of France between P. pungitius and P. laevis. As a result, Pungitius lotharingus is invalid, as it was described based on hybrid specimens. A lectotype for P. laevis was designated because the syntypes included hybrids. This revision provides new perspectives for evolutionary biology studies and will have consequences for Pungitius conservation in France.

}, keywords = {France, Integrative taxonomy, mitochondrial DNA COI, Pungitius, RNF213}, author = {Denys, Ga{\"e}l and Persat, Henri and Dettai, Agn{\`e}s and Geiger Mathias and Freyhof, J and Fesquet, J and Philippe Keith} } @article {8405, title = {S7 characterization of Western European pikes Esox spp. (Actinopterygii, Esociformes)}, journal = {Cybium}, volume = {42}, year = {2018}, pages = {221-228}, abstract = {The comparison of a 1635 bp fragment of the first intron of the S7 ribosomal protein coding gene, a commonly used phylogenetic marker, for specimens from the three European pike species Esox aquitanicus, Esox cisalpinus and Esox lucius highlights diagnostic sites and indels constituting molecular synapomorphies. Both the sequence alignment and the phylogenetic tree discriminate these three species, even with a short sequence fragment. Three Esox lucius haplogroups can be separated. These haplogroups might correspond to the evolutionary lineages highlighted by previous mitochondrial studies. Finally this study confirms hybridization between Esox aquitanicus and Esox lucius, but also the absence of geographical structure between Esox lucius haplogroups in France following restocking from East European piscicultures. The S7 marker is excellent for molecular identification, and could be used for environmental DNA.}, author = {Denys, Ga{\"e}l P.J. and Lauga, Th{\'e}o and Delmastro, Giovanni B. and Dettai, Agn{\`e}s} } @article {5908, title = {Geography and life history traits account for the accumulation of cryptic diversity among {Indo}-{West} {Pacific} coral reef fishes}, journal = {Marine Ecology Progress Series}, volume = {583}, year = {2017}, pages = {179{\textendash}193}, author = {Hubert, Nicolas and Dettai, Agn{\`e}s and Patrice Pruvost and Cruaud, Corinne and Kulbicki, Michel and Myers, Robert F. and Borsa, Philippe} } @article {4429, title = {The freshwater fish fauna history between Rhine and Ebro: general considerations and comments from on-going developments in fish taxonomy.}, journal = {Frontiers in Marine Science}, volume = {2}, year = {2015}, author = {Persat, Henri and Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Philippe Keith} } @article {3847, title = {Invalidity of Gasterosteus gymnurus (Cuvier, 1829) (Actinopterygii, Gasterosteidae) according to integrative taxonomy. }, journal = {Cybium}, volume = {39}, year = {2015}, pages = {37-45}, keywords = {Cytochrome C, Gasterosteidae Gasterosteus aculeatus Gasterosteus gymnurus Gasterosteus islandicus, Integrative taxonomy, oxidase subunit 1}, author = {Denys, Ga{\"e}l and Geiger Mathias and Persat, Henri and Philippe Keith and Dettai, Agn{\`e}s} } @inbook {3878, title = {Storage of Karyotyped Voucher Specimens and their Molecular Identification}, booktitle = {Fish Cytogenetic Techniques: Ray-Fin Fishes and Chondrichthyans}, year = {2015}, publisher = {CRC Press}, organization = {CRC Press}, edition = {CRC Press}, abstract = {

Fish are currently the only vertebrate group where several hundred new species are still
described each year (Fig. 1). One third of the currently recognized species have been
described in the last 12 years (Fishbase 2002; 2014). The reassesment using modern
approaches of species that were thought to be well known resulted in the discovery of many
new species (Thomas et al. 2014; Zemlak et al. 2009). In a particularly stunning example,
Durand et al.(2012) presented evidence for the presence of many cryptic groups within ...

}, author = {Dettai, Agn{\`e}s and Patrice Pruvost} } @article {3131, title = {Morphological and molecular evidence of three species of pikes Esox spp. (Actinopterygii, Esocidae) in France, including the description of a new species}, journal = {Comptes Rendus Biologies}, volume = {337}, year = {2014}, pages = {521-534}, abstract = {

This integrative taxonomy study of French pikes compares morphological characters and molecular sequence data (mitochondrial COI and nuclear Plagl2 genes). In addition to the expected E.\ lucius, DNA sequences and morphology both support a new species in France, E.\ aquitanicus sp. nov. from the Charente to the Adour drainages. It is characterized by a color pattern of sides with narrow 1{\textendash}1.5-scale-wide oblique vertical bands, conferring it a marbled coat, a snout only 0.9 times larger than the postorbital length, an anal fin basis 1.1{\textendash}1.2 times larger than the caudal peduncle length, 101 to 121 lateral scales, 53 to 57 vertebrae, as well as 24 diagnostic sites in the COI gene and 3 in the Plagl2 gene. Partial COI sequences (131bp) from modern and historical specimens indicate also the presence of E.\ cisalpinus and E.\ lucius during the 19th century in Lake Geneva. Morphological and molecular data points to a possible hybridization between E.\ lucius with both other local pike species, representing a risk for them. Their endangerment status should be evaluated rapidly in order to take conservation measures.

}, keywords = {Cytochrome c oxidase subunit 1, Esox aquitanicus, Esox cisalpinus, France, Integrative taxonomy, New species, Pleiomorphic adenoma gene-like 2}, issn = {16310691}, doi = {10.1016/j.crvi.2014.07.002}, author = {Denys, Ga{\"e}l and Dettai, Agn{\`e}s and Persat, Henri and M{\'e}lyne Hautecoeur and Philippe Keith} } @article {3486, title = {New Sicydiinae phylogeny (Teleostei: Gobioidei) inferred from mitochondrial and nuclear genes: insights on systematics and ancestral areas.}, journal = {Mol Phylogenet Evol}, volume = {70}, year = {2014}, month = {2014 Jan}, pages = {260-71}, abstract = {

The Sicydiinae subfamily (Teleostei: Gobioidei) is the biggest contributor to the diversity of fish communities in river systems of tropical islands. These species are found in the Indo-Pacific area, the Caribbean region and West Africa. They spawn in freshwater, their planktotrophic larvae drift downstream to the sea where they develop, before returning to the rivers to grow and reproduce. Hence, they are called amphidromous. Their phylogeny has been explored using a total of 3545 sites from 5 molecular markers (mitochondrial DNA: 16S rDNA, cytochrome oxidase I, cytochrome b; nuclear DNA: rhodopsin gene and a nuclear marker specially developed for this study, the interferon regulatory factor 2 binding protein 1-IRF2PB1). Sequences were obtained for 59 Sicydiinae specimens of 9 known genera. The Bayesian and maximum likelihood analyses support the monophyly of the subfamily as well as the monophylyof all genera except Sicydium, which is paraphyletic. Five major clades were identified within this subfamily. One clade contained the genus Stiphodon. Another clade contained Sicyopterus, Sicydium and Parasicydium with Sicyopterus as sister genus of Sicydium. The non-monophyly of Sicydium subclade, because it includes the monotypic genus Parasicydium, challenged the validity of Parasicydium genus. Ancestral area reconstruction showed that the subfamily emerged in the Central West Pacific region implying that previous hypotheses proposing a dispersal route for Sicydiinae into the Atlantic Ocean are unsupported by the present analysis. Our results suggest that the hypotheses for the dispersal route of the genus Sicydium should be reconsidered.

}, keywords = {Animals, Bayes Theorem, Cell Nucleus, Cytochromes b, DNA, Mitochondrial, DNA, Ribosomal, Electron Transport Complex IV, Evolution, Molecular, Female, Mitochondria, Perciformes, Phylogeny, Sequence Analysis, DNA}, issn = {1095-9513}, doi = {10.1016/j.ympev.2013.09.026}, author = {Taillebois, Laura and Castelin, Magalie and Clara Lord and Chabarria, Ryan and Dettai, Agn{\`e}s and Philippe Keith} }