Dissecting quantitative trait variation in the resequencing era: complementarity of bi-parental, multi-parental and association panels

Quantitative trait loci (QTL) have been identified using traditional linkage mapping and positional cloning identified several QTLs. However linkage mapping is limited to the analysis of traits differing between two lines and the impact of the genetic background on QTL effect has been underlined. Genome-wide association studies (GWAs) were proposed to circumvent these limitations. In tomato, we have shown that GWAs is possible, using the admixed nature of cherry tomato genomes that reduces the impact of population structure. Nevertheless, GWAs success might be limited due to the low decay of linkage disequilibrium, which varies along the genome in this species. Multi-parent advanced generation intercross (MAGIC) populations offer an alternative to traditional linkage and GWAs by increasing the precision of QTL mapping. We have developed a MAGIC population by crossing eight tomato lines whose genomes were resequenced. We showed the potential of the MAGIC population when coupled with whole genome sequencing to detect candidate single nucleotide polymorphisms (SNPs) underlying the QTLs. QTLs for fruit quality traits were mapped and related to the variations detected at the genome sequence and expression levels. The advantages and limitations of the three types of population, in the context of the available genome sequence and resequencing facilities, are discussed.This work was supported by CEA-IG/CNG, by performing the DNA QC and providing access to INRA-EPGV to their Illumina Sequencing Platform. We acknowledge groups of Anne Boland (DNA and Cell Bank service) and Marie-Thérèse Bihoreau (Illumina HT Sequencing). The ANR MAGIC-Tom SNP project 09-GENM-109G and the European Solanaceae Integrated Project EUSOL (Food-CT-2006-016214) supported this work. LP was supported by a postdoctoral INRA fellowship, EA by an INRA PhD fellowship and JD by a grant from the Embassy of France in Thailand in Junior Research Fellowship Program 2014.Peer reviewe

Oligocene-Miocene tectonic evolution of the South Fiji Basin and Northland Plateau, SW Pacific Ocean : evidence from petrology and dating of dredged rocks

International audienc

Neck-MRI experience for investigation of survived strangulation victims

For the medicolegal evaluation of victims of survived strangulation, a neck-magnetic resonance imaging (MRI) can be performed for assessing lesions in the inner soft tissues (fat, muscles or lymph nodes, for example). In our institute, such MRI examinations have been performed for a test period of 4 years with the aim of evaluating the use of this tool by forensic pathologists and identifying medicolegal indicators for the performance of neck-MRI in surviving victims of strangulation. We retrospectively reviewed medicolegal reports from all victims examined during the test period. We extracted objective lesions (e.g. petechiae, bruising and abrasions) and reported clinical symptoms (e.g. vision disorder, dysphasia) from the reports. These findings were compared to those reported from the neck-MRI. In total, 112 victims were clinically examined after suspected strangulation. Eleven of these victims underwent an MRI examination of the neck. Eighty-four of the victims presented objective lesions during the clinical examination, with eight showing signs of both petechiae and bruising. Neck-MRI was performed in four of these eight victims and three of them showed lesions visible in MRI. Of 76 victims with bruising as the only objective finding, 66 victims described clinical symptoms. Of those 66 victims, seven were examined by MRI and two demonstrated lesions in MRI. When MRI was performed, relevant findings were detected in 45% of the cases. This leads to the suspicion that many more findings could have been detected in the other victims, if an MRI had been performed in those cases. Our results lead us to the conclusion that an MRI examination of victims of suspected strangulation is useful, and strict indications for its application should be established

Motion of the Scotia Sea plates

Earthquake data from the Scotia Arc to early 2002 are reviewed in the light of satellite gravity and other data in order to derive a model for the motion of plates in the Scotia Sea region. Events with magnitude greater than or equal to5, which occurred on or near the boundaries of the Scotia and Sandwich plates, and for which Centroid Moment Tensor (CMT) solutions are available, are examined. The newer data fill some of the previous sampling gaps along the boundaries of the Scotia and Sandwich plates, and provide tighter constraints on relative motions. Variations in the width of the Brunhes anomaly on evenly spaced marine magnetic profiles over the East Scotia Ridge provide new estimates of Scotia-Sandwich plate spreading rates. Since there are no stable fracture zones in the east Scotia Sea, the mean azimuth of sea floor fabric mapped by sidescan is used to constrain the direction of spreading. 18 newrate estimates and four azimuths from the East Scotia Ridge are combined with 68 selected earthquake slip vectors from the boundaries of the Scotia Sea in a least-squares inversion for the best-fitting set of Euler poles and angular rotation rates describing the 'present-day' motions of the Scotia and Sandwich plates relative to South America and Antarctica. Our preferred model (TLP2003) gives poles that are similar to previous estimates, except for Scotia Plate motion with respect to South America, which is significantly different from earlier estimates; predicted rates of motion also differ slightly. Our results are much more robust than earlier work. We examine the implications of the model for motion and deformation along the various plate boundaries, with particular reference to the North and South Scotia Ridges, where rates are obtained by closure