Éditeur(s) : HAL CCSD Société géologique de France
Résumé : National audience
Late Triassic submarine alkali basalts and hawaiites were collected from two superimposed tectonic slices belonging to the Kara Dere – Sayrun unit of the Middle Antalya nappes, southwestern Turkey. New determinations on conodont faunas allow to date this sequence to the Lower Carnian (Julian). The volcanic rocks show rather homogeneous compositions, with high TiO2 and relatively low MgO and Ni contents which suggest olivine fractionation. Their primitive mantle-normalised multi-elements plots show Nb and Ta enrichments relative to La, Pb negative anomalies and heavy rare earth element and Y depletions typical of intraplate ocean island basalts. These characteristics are consistent with the major and trace element compositions of their primary clinopyroxene phenocrysts, which do not show any feature ascribable to crustal contamination. The studied lavas display a restricted range of {varepsilon}Nd (+4.6 to +5.2) which falls within the range of ocean island basalts. Their initial (143Nd/144Nd)i ratios are too low to be explained by a simple mixing line between depleted MORB mantle (DMM) and HIMU components. Their Pb and Nd isotopic compositions plot along a mixing line between HIMU component and an enriched mantle, the composition of which could be the result of the addition of about 5 to 8% of an EM2 component (recycled marine sediments) to DMM. The lack of evidence for any continental crustal component in their genesis could be consistent with their emplacement in an intra-oceanic setting.
EISSN: 1777-5817

insu-00338829
https://hal-insu.archives-ouvertes.fr/insu-00338829
DOI : 10.2113/gssgfbull.179.4.397

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
Pathogenic agents can be very hard to detect, and usually they do not cause illness for several hours or days. To improve the speed and the accuracy of detection tests and satisfy the needs of early diagnosis, molecular biology methods such as PCR are now used. However, selecting a proper target gene and designing good primers is often not easy. We present a dedicated website, http://patho-genes.org, where we provide every sequence, functional annotation, published primer and relevant article for every annotated gene of major pathogenic bacterial species listed as key agents to be used for a bioterrorism attack. Each published primer was analysed to determine its melting temperature, its specificity and its coverage (i.e. its sensitivity against every allele of its target gene). Data generated have been organized in the form of data sheet for each gene, which are available through multiple browser panels and query systems.
ISSN: 1751-7915

hal-01546181
https://hal.archives-ouvertes.fr/hal-01546181
DOI : 10.1111/j.1751-7915.2012.00353.x

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
The brown algal genus Padina (Dictyotales, Phaeophyceae) is distributed worldwide in tropical and temperate seas. Global species diversity and distribution ranges, however, remain largely unknown. Species-level diversity was reassessed using DNA-based, algorithmic species delineation techniques based on cox3 and rbcL sequence data from 221 specimens collected worldwide. This resulted in estimates ranging from 39 to 61 putative species (ESUs), depending on the technique as well as the locus. We discuss the merits, potential pitfalls, and evolutionary and biogeographic significance of algorithmic species delineation. We unveil patterns whereby ESUs are in all but one case restricted to either the Atlantic or Indo-Pacific Ocean. Within ocean basins we find evidence for the vast majority of ESUs to be confined to a single marine realm. Exceptions, whereby ESUs span up to three realms, are located in the Indo-Pacific Ocean. Patterns of range-restricted species likely arise by repeated founder events and subsequent peripatric speciation, hypothesized to dominate speciation mechanisms for coastal marine organisms in the Indo-Pacific. Using a three-gene (cox3, psaA and rbcL), relaxed molecular clock phylogenetic analysis we estimated divergence times, providing a historical framework to interpret biogeographic patterns.
ISSN: 0022-3646

hal-01545323
https://hal.archives-ouvertes.fr/hal-01545323
DOI : 10.1111/jpy.12027

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The parasitic life cycle of Leishmania includes an extracellular promastigote stage that occurs in the gut of the insect vector. During that period, the sucrose metabolism and more specifically the first glycosidase of this pathway are essential for growth and survival of the parasite. We investigated the expression of the invertase BfrA in the promastigote and amastigote stages of three parasite species representative of the three various clinical forms and of various geographical areas, namely Leishmania major, L. donovani and L. braziliensis. Thereafter, we cloned, overexpressed and biochemically characterized this invertase BfrA from L. major, heterologously expressed in both Escherichia coli and L. tarentolae. For all species, expression levels of BfrA mRNA were correlated to the time of the culture and the parasitic stage (promastigotes > amastigotes). BfrA exhibited no activity when expressed as a glycoprotein in L. tarentolae but proved to be an invertase when not glycosylated, yet owing low sequence homology with other invertases from the same family. Our data suggest that BfrA is an original invertase that is located inside the parasite. It is expressed in both parasitic stages, though to a higher extent in promastigotes. This work provides new insight into the parasite sucrose metabolism
ISSN: 0008-6215

hal-01187142
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01187142
DOI : 10.1016/j.carres.2015.07.001
PUBMED : 26279524

Éditeur(s) : HAL CCSD
Résumé : The Tyrrhenian Sea is usually interpreted to be a Neogene back-arc basin that opened by continental rifting and oceanic spreading caused by the eastward migration of the Apennine subduction system from Tortonian to Pliocene times. Rifting of the Tyrrhenian Sea started first along the Eastern Sardinian margin during the Tortonian-Messinian times. The " METYSS " project aims at better constraining the relations between crustal tectonics, salt tectonics and sedimentation from Messinian times to present-day. The " METYSS 1 " cruise (2009, R/V "Téthys II"-INSU) allowed us to obtain about 1200 km of high-resolution seismic reflection profiles along the SE Corsican margin, and along the upper and middle parts of the Eastern Sardinian margin, Western Tyrrhenian. This new dataset clearly illustrates that this area has been highly dissected during the rifting stage by N-S trending normal faults delineating ridges and basins, as previously described. The Messinian seismic markers (UU and MU) locally display fan-shaped stratal geometries, but the mechanism responsible for such geometries, i.e., salt tectonics or rifting, has yet to be carefully deciphered. We also mapped the spatial distribution of the mobile salt (MU). The highly variable thickness of the confined salt basins may be related to the initial pre-Messinian basin geometry or to the fact that sediment deposition was syn-rift. Southeastward, salt tectonics appears highly vigorous. More surprisingly, our data demonstrate that some of the major faults have been significantly reactivated during the post-rift period, up to late Quaternary time. Such recent fault activity has been recorded by bathymetric scarps and associated footwall debris flows. Moreover, some of this post-rift deformation can be evidenced within the Plio-Quaternary sequence by a regional unconformity. The post-Miocene deformation style varies greatly between different areas of the margin, and can also be strongly influenced by the presence or absence of mobile Messinian evaporites (MU).
13ème Congrès Français de Sédimentologie
Dijon, France

hal-00657310
https://hal-brgm.archives-ouvertes.fr/hal-00657310

Éditeur(s) : HAL CCSD
Résumé : 1 p.
International audience
The Patagonian plateau basalts are a sequence of flat-lying Late Cretaceous through Tertiary basaltic and andesitic rocks exposed east of the Andes in dissected mesetas of Chilean and Argentine Patagonia. The plateau basalts cover a total area of 120,000 km2 between 40°S and 52°S. These igneous rocks rest on generally flatlying older Mesozoic silicic volcanic or sedimentary rocks. Of major importance to the paleomagnetic investigation is the lack of significant tectonic disturbance of this portion of Patagonia from Late Cretaceous to present. 12 sites (107 cores) have been sampled in the Tertiary (Paleocene to Miocene) volcanic rocks between 43°S and 46°S in latitude and between 68°W and 70°W in longitude. Rocks are usually very fresh but, as they outcrop generally on top of the mesas, few hundred meters above the Plateau, remagnetization by lightning strikes is a major problem of the paleomagnetic analysis. Paleomagnetic, rock magnetic and paleointensity results will be presented.
Eos, Transactions, American Geophysical Union
Acapulco, Mexico

insu-00266820
https://hal-insu.archives-ouvertes.fr/insu-00266820

Éditeur(s) : HAL CCSD Elsevier
Résumé : Pb, Hf, Nd and Sr isotopes of basaltic lavas from the two Reunion Island volcanoes are reported in order to examine the origin of the sources feeding these volcanoes and to detect possible changes through time. Samples, chosen to cover the whole lifetime of the two volcanoes (from 2 Ma to present), yield a chemically restricted (compared to 0113 lavas) but complex distribution. Reunion plume isotopic characteristics have been defined on the basis of the composition of uncontaminated shield-building lavas from the Piton de la Fournaise volcano. The average epsilon(Nd), epsilon(Hf), Sr-87/Sr-86 and Pb-206/Pb-204, Pb-207/Pb-204, and Pb-208/Pb-204 isotope ratios calculated for this component are +4.4, +9.1, 0.70411, 18.97, 15.59 and 39.03, respectively. In Pb-Pb isotope space, each volcano defines a distinct linear trend but slight variation are also detected within the various volcanic sequences. The Piton des Neiges volcano yields a distinct and significantly more scattered isotopic distribution than Piton de la Fournaise for both Pb, Hf and Nd isotope tracers. A principal component analysis of the Pb isotope data from Piton de la Fournaise reveals a major contribution of the C and EM-1 components (with a clear Dupal flavor) as main components for the modem Reunion plume. The same components have been identified for Piton des Neiges but with a stronger participation of a depleted mantle component and a weaker EM-1 contribution. The compositional change of the lavas erupted by the Piton des Neiges and Piton de la Fournaise volcanoes is attributed to the impingement of two small-scale blobs of plume material at the base of the Reunion lithosphere. Compared to other hot-spots worldwide, in particular Hawaii and Kerguelen, magmas beneath Reunion are generated from a considerably more homogeneous, compositionally more primitive plume higher in Pb-206. Although shallow-level contamination processes have been locally detected they did not alter significantly the composition of the plume magmas. This is tentatively attributed to mantle dynamics producing small, high-velocity blobs that ascend rapidly through the lithosphere, and to the lack of a well-developed magma chamber at depth in the lithosphere.
ISSN: 0012-821X

hal-00412196
https://hal.archives-ouvertes.fr/hal-00412196
DOI : 10.1016/j.epsl.2007.11.018

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
The distribution of the lagoon cockle Cerastoderma glaucum is strongly fragmented and usually restricted to isolated, shallow and nontidal lagoons. A high level of genetic structuring was found among the European populations of this species based on mtDNA (COI) sequences, as well as allozymic and microsatellite markers. However, the strengths and geographic locations of the major divisions differed among markers. In the present study we characterized the diversity of a new, potentially universal exon-primed intron-crossing marker, i34, for 17 C. glaucum populations. Allele frequency data at the i34 locus were informative and relevant with respect to geography. Multivariate analyses of new data together with previously published microsatellites confirmed the divergent character of the Ionian Sea and the Aegean-Ponto-Caspian populations, but also revealed the existence of a genetic cline from the Bay of Biscay to the Baltic Sea. Some noncongruent patterns among loci were detected, which may reflect either differential introgression along the genome at the hypothetical contact zone, or selective sweeps. This strong genetic differentiation, and the occurrence of private alleles, may hint at the presence of cryptic species within C. glaucum.
ISSN: 0260-1230

hal-01444646
https://hal.archives-ouvertes.fr/hal-01444646
DOI : 10.1093/mollus/eyw019

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The tree model and tree-based methods have played a major, fruitful role in evolutionary studies. However, with the increasing realization of the quantitative and qualitative importance of reticulate evolutionary processes, affecting all levels of biological organization, complementary network-based models and methods are now flourishing, inviting evolutionary biology to experience a network-thinking era. We show how relatively recent comers in this field of study, that is, sequence-similarity networks, genome networks, and gene families–genomes bipartite graphs, already allow for a significantly enhanced usage of molecular datasets in comparative studies. Analyses of these networks provide tools for tackling a multitude of complex phenomena, including the evolution of gene transfer, composite genes and genomes, evolutionary transitions, and holobionts.
ISSN: 0966-842X

Droits : http://creativecommons.org/licenses/by-nc-nd/
hal-01300043
http://hal.upmc.fr/hal-01300043
http://hal.upmc.fr/hal-01300043/document
http://hal.upmc.fr/hal-01300043/file/Network-Thinking.pdf
DOI : 10.1016/j.tim.2015.12.003

Éditeur(s) : HAL CCSD Wiley-Blackwell
Résumé : International audience
We explore the tectono-magmatic processes in the western West Philippine Basin, Philippine Sea Plate, using bathymetric data acquired in 2003 and 2004. The northwestern part of the basin formed through a series of northwestward propagating rifts. We identify at least five sequences of propagating rifts, probably triggered by mantle flow away from the mantle thermal anomaly that is responsible for the origin of the Benham and Urdenata plateaus. Gravitational forces caused by along-axis topographic gradient and a ∼30° ridge reorientation appear to also be driving the rift propagations. The along-axis mantle flow appears to be reduced and deflected along the Luzon-Okinawa fracture zone, because the spreading system remained stable west of this major fault zone. North-east of the Benham plateau, a left-lateral fracture zone has turned into a NE–SW-trending spreading axis. As a result, a microplate developed at the triple junction.
ISSN: 0954-4879

insu-00304360
https://hal-insu.archives-ouvertes.fr/insu-00304360
DOI : 10.1111/j.1365-3121.2008.00824.x

Éditeur(s) : HAL CCSD Geological Society
Résumé : Extensional basins often evolve both with the generation of normal faults at all scales, and with tilting in the hanging walls and footwalls of major structures. This paper examines the effect of regional tilting on the development of normal fault arrays in an anisotropic sequence, using the asymmetric Lodève Basin, France, as a case study. The orientation range of normal faults is found not to match that expected by continued symmetric generation of conjugate normal faults during tilting. Instead, continued generation of new faults preferentially occurred for faults dipping opposite to the direction of tilt, with propagation perpendicular to bedding. The presence of early bedding-perpendicular joints in the competent sandstone units aided propagation of these faults during tilting and this preferential asymmetric development. Bedding-parallel slip surfaces were activated as normal faults during the later stages of bedding tilting, showing complex interaction patterns with later faults downthrowing in the direction opposite to bedding tilting. Hence knowledge of the timing between tilting of the strata and deformation helps in evaluating the likely complexity of fault arrays at subseismic scales in extensional basins, and may also help in understanding the evolution of fault systems in tilted normal fault blocks at the reservoir scale.
ISSN: 0016-7649

hal-00404753
https://hal.archives-ouvertes.fr/hal-00404753
DOI : 10.1144/0016-76492006-047

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
Deciphering the evolutionary processes driving nucleotide variation in multiallelic genes is limited by the number of genetic systems in which such genes occur. The complementary sex determiner (csd) gene in the honey bee Apis mellifera is an informative example for studying allelic diversity and the underlying evolutionary forces in a well-described model of balancing selection. Acting as the primary signal of sex determination, diploid individuals heterozygous for csd develop into females, whereas csd homozygotes are diploid males that have zero fitness. Examining 77 of the functional heterozygous csd allele pairs, we established a combinatorical criteria that provide insights into the minimum number of amino acid differences among those pairs. Given a data set of 244 csd sequences, we show that the total number of csd alleles found in A. mellifera ranges from 53 (locally) to 87 (worldwide), which is much higher than was previously reported (20). Using a coupon-collector model, we extrapolate the presence of in total 116-145 csd alleles worldwide. The hypervariable region (HVR) is of particular importance in determining csd allele specificity, and we provide for this region evidence of high evolutionary rate for length differences exceeding those of microsatellites. The proportion of amino acids driven by positive selection and the rate of nonsynonymous substitutions in the HVR-flanking regions reach values close to 1 but differ with respect to the HVR length. Using a model of csd coalescence, we identified the high originating rate of csd specificities as a major evolutionary force, leading to an origin of a novel csd allele every 400,000 years. The csd polymorphism frequencies in natural populations indicate an excess of new mutations, whereas signs of ancestral transspecies polymorphism can still be detected. This study provides a comprehensive view of the enormous diversity and the evolutionary forces shaping a multiallelic gene.
ISSN: 0737-4038

hal-01544758
https://hal.archives-ouvertes.fr/hal-01544758
DOI : 10.1093/molbev/mst207

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
At oceanic spreading centers, interactions between magma and hydrothermal convecting systems trigger major physical, thermal, and chemical exchanges. The two-pyroxene hornfels recovered from the base of the sheeted dike sequence at Integrated Ocean Drilling Program (IODP) Site 1256 (equatorial Eastern Pacific) are interpreted as a conducting boundary layer between the underlying axial melt lens and the hydrothermally cooled sheeted dikes. They are cut by numerous small, felsic veins, which were recently interpreted as a product of hydrous partial melting of sheeted dikes. Here, we present trace element compositions of products (melts and residues) of hydrous partial melting experiments using basalts and hornfels from IODP Site 1256 as starting material. The experimental products generated between 910 °C and 970 °C match the natural lithologies from Site 1256 in terms of major and trace element compositions. The compositions of the anatectic melts correspond to the compositions of the felsic veins, while the residual minerals match the compositions of the two-pyroxene hornfels, evidencing that hydrous partial melting is an important magmatic process in the gabbro/dike transition of fast-spreading mid-oceanic ridges. Our results complement previous experimental studies on anatectic processes occurring at the roof of the magma chambers from fast-spreading mid-ocean ridges. Moreover, calculations of mixing and assimilation fractional crystallization using the experimental partial melts as contaminant/assimilant showed that anatectic melts can only be a minor contributor to the contamination process.
ISSN: 0024-4937

hal-01419949
https://hal.archives-ouvertes.fr/hal-01419949
DOI : 10.1016/j.lithos.2016.05.001