Population genetic data for 17 Y STR markers from Benghazi (East Libya)

The seventeen Y-STR loci included in the AmpF‘STR1 YfilerTM PCR Amplification kit (DYS19, DYS389I,DYS389II, DYS390, DYS391, DYS392, DYS393, DYS385a/b, DYS438, DYS439, DYS437, DYS448, DYS458,DYS456, DYS635, and Y-GATA-H4) were used to type a sample population of 238 males from eastern Libya (Benghazi region). Of 238 observed haplotypes, 214 were unique (90%) and 24 (10%) were found more than once. The 17 loci gave a discriminating power of 0.999. DYS458 showed the highest diversity as a single-locus marker (0.73). Allelic frequencies and gene diversities for each Y-STR locus were determined. The high haplotype diversity and discrimination capacity (0.996) demonstrate the utility of these loci for human identification in forensic applications. Comparative analysis with Y-STR datasets of relevant populations and submission of the haplotypes to the Y-STR Haplotype Reference Database (YHRD) was undertaken

On the variation in the ionospheric response to geomagnetic storms with time of onset

Recent observations from Immel and Mannucci (2013) have indicated that geomagnetic storms cause larger enhancements in the ionospheric plasma density and total electron content (TEC) in the American sector than anywhere else on the planet. This suggests that the presence of a UT storm onset effect is important for correctly understanding the impact, longitudinal structure, and timing of geomagnetic storms. Using the Global Ionosphere‐Thermosphere Model (GITM), we conduct a modeling experiment of the August 2011 geomagnetic storm by modifying the storm arrival time (UT) in Earth’s daily rotation and examining the subsequent system response. We find that the simulations reflect the recent studies indicating that the strongest enhancements of TEC are in the American and Pacific longitude sectors of storms with onsets between 1600 UT and 2400 UT. The underlying mechanisms of the strong TEC increases during storm times in these longitude sectors are also examined. Some of the resulting TEC structures may be explained by changes in the [O]/[N2] ratio (especially in the high latitudes), but it is unable to explain all of the variability in the equatorial regions. Storm time neutral winds and vertical ion motions coupled to Earth’s asymmetrical geomagnetic topology appear to be driving the longitude sector variability due to UT storm onset times.Key PointsSimulations reproduce observed dependence of ionospheric response to UT of storm onsetChanges in upper atmospheric neutral winds or composition cannot account for the ionospheric effect at low latitudesThe implicated driver is the coupling of storm time F region winds and Earth’s asymmetric magnetic topologyPeer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/137537/1/jgra53414_am.pdfhttps://deepblue.lib.umich.edu/bitstream/2027.42/137537/2/jgra53414.pd

Targeting Low-arsenic Groundwater with Mobile-phone Technology in Araihazar, Bangladesh

The Bangladesh Arsenic Mitigation and Water Supply Program (BAMWSP) has compiled field-kit measurements of the arsenic content of groundwater for nearly five million wells. By comparing the spatial distribution of arsenic inferred from these field-kit measurements with geo-referenced laboratory data in a portion of Araihazar upazila, it is shown here that the BAMWSP data could be used for targeting safe aquifers for the installation of community wells in many villages of Bangladesh. Recent experiences with mobile-phone technology to access and update the BAMWSP data in the field are also described. It is shown that the technology, without guaranteeing success, could optimize interventions by guiding the choice of the drilling method that is likely to reach a safe aquifer and identifying those villages where exploratory drilling is needed

Comparative ergonomic workflow and user experience analysis of MRI versus fluoroscopy-guided vascular interventions:an iliac angioplasty exemplar case study

Purpose A methodological framework is introduced to assess and compare a conventional fluoroscopy protocol for peripheral angioplasty with a new magnetic resonant imaging (MRI)-guided protocol. Different scenarios were considered during interventions on a perfused arterial phantom with regard to time-based and cognitive task analysis, user experience and ergonomics. Methods Three clinicians with different expertise performed a total of 43 simulated common iliac angioplasties (9 fluoroscopic, 34 MRI-guided) in two blocks of sessions. Six different configurations for MRI guidance were tested in the first block. Four of them were evaluated in the second block and compared to the fluoroscopy protocol. Relevant stages’ durations were collected, and interventions were audio-visually recorded from different perspectives. A cued retrospective protocol analysis (CRPA) was undertaken, including personal interviews. In addition, ergonomic constraints in the MRI suite were evaluated. Results Significant differences were found when comparing the performance between MRI configurations versus fluoroscopy. Two configurations [with times of 8.56 (0.64) and 9.48 (1.13) min] led to reduce procedure time for MRI guidance, comparable to fluoroscopy [8.49 (0.75) min]. The CRPA pointed out the main influential factors for clinical procedure performance. The ergonomic analysis quantified musculoskeletal risks for interventional radiologists when utilising MRI. Several alternatives were suggested to prevent potential low-back injuries. Conclusions This work presents a step towards the implementation of efficient operational protocols for MRI-guided procedures based on an integral and multidisciplinary framework, applicable to the assessment of current vascular protocols. The use of first-user perspective raises the possibility of establishing new forms of clinical training and education

Mitochondrial genomes of giant deers suggest their late survival in Central Europe

The giant deer Megaloceros giganteus is among the most fascinating Late Pleistocene Eurasian megafauna that became extinct at the end of the last ice age. Important questions persist regarding its phylogenetic relationship to contemporary taxa and the reasons for its extinction. We analyzed two large ancient cervid bone fragments recovered from cave sites in the Swabian Jura (Baden-Württemberg, Germany) dated to 12,000 years ago. Using hybridization capture in combination with next generation sequencing, we were able to reconstruct nearly complete mitochondrial genomes from both specimens. Both mtDNAs cluster phylogenetically with fallow deer and show high similarity to previously studied partial Megaloceros giganteus DNA from Kamyshlov in western Siberia and Killavullen in Ireland. The unexpected presence of Megaloceros giganteus in Southern Germany after the Ice Age suggests a later survival in Central Europe than previously proposed. The complete mtDNAs provide strong phylogenetic support for a Dama-Megaloceros clade. Furthermore, isotope analyses support an increasing competition between giant deer, red deer, and reindeer after the Last Glacial Maximum, which might have contributed to the extinction of Megaloceros in Central Europe

Biomineralisations en carbonate de calcium chez les métazoaires : tendances macro-évolutives - Défis pour la décennie à venir.

16 pagesInternational audienceCalcium carbonate-based biominerals, also referred as biocalcifications, are the most abundant biogenic mineralized products at the surface of the Earth. In this paper, we summarize general concepts on biocalcifications and we sketch macro-evolutionary trends throughout the history of the Earth, from Archean to Phanerozoic times. Then, we expose five fundamental issues that represent key-challenges in biocalcification researches for the coming decade: the first one concerns the comprehension of the micro- and nano-structure of calcium carbonate biominerals from a mineral viewpoint, while the second one deals with the understanding of the dynamic process of their fabrication. The third one treats the subtle interplay between organics and the mineral phase. The fourth issue focuses on an environmental challenge related to ocean acidification (OA); at last, the diagenetic processes that affect biogenic calcium carbonate mineral constitute the fifth issue.Les biocalcifications, ou biominéraux en carbonate de calcium, sont les minéralisations biogéniques les plusabondantes à la surface du globe. Le présent article montre comment les biocalcifications sont à l’origine de certainsconcepts scientifiques d’importance, et comment elles ont évolué au cours des temps géologiques, de l’Archéen au Phanérozoïque.Cinq défis majeurs y ayant trait sont ensuite identifiés pour les années à venir : le premier vise à comprendrela structure des biocalcifications aux échelles micro- et nanométriques, tandis que le second s’interroge sur leprocessus dynamique de leur formation. Le troisième défi traite des interactions complexes entre constituants organiqueset phase minérale. Le quatrième se focalise sur des questions environnementales cruciales, notamment l’acidificationocéanique. Le dernier défi consiste à comprendre comment les phénomènes diagénétiques et la fossilisationaffectent les biocalcifications dans leur globalité

Solid-phase XRN1 reactions for RNA cleavage: application in single-molecule sequencing

Modifications in RNA are numerous (∼170) and in higher numbers compared to DNA (∼5) making the ability to sequence an RNA molecule to identify these modifications highly tenuous using next generation sequencing (NGS). The ability to immobilize an exoribonuclease enzyme, such as XRN1, to a solid support while maintaining its activity and capability to cleave both the canonical and modified ribonucleotides from an intact RNA molecule can be a viable approach for single-molecule RNA sequencing. In this study, we report an enzymatic reactor consisting of covalently attached XRN1 to a solid support as the groundwork for a novel RNA exosequencing technique. The covalent attachment of XRN1 to a plastic solid support was achieved using EDC/NHS coupling chemistry. Studies showed that the solid-phase digestion efficiency of model RNAs was 87.6 ± 2.8%, while the XRN1 solution-phase digestion for the same model was 78.3 ± 4.4%. The ability of immobilized XRN1 to digest methylated RNA containing m6A and m5C ribonucleotides was also demonstrated. The processivity and clipping rate of immobilized XRN1 secured using single-molecule fluorescence measurements of a single RNA transcript demonstrated a clipping rate of 26 ± 5 nt s−1 and a processivity of >10.5 kb at 25°C

DEVELOPMENT OF TECHNOLOGY TO REMOTELY NAVIGATE VERTICAL PIPE ARRAYS

Situations exist around the Savannah River Site (SRS) and the Department of Energy (DOE) complex where it is advantageous to remotely navigate vertical pipe arrays. Specific examples are waste tanks in the SRS Tank Farms, which contain horizontal cooling coils at the tank bottom, vertical cooling coils throughout and a limited number of access points or ''risers''. These factors limit accessibility to many parts of these tanks by conventional means. Pipe Traveler technology has been developed to address these issues. The Pipe Traveler addresses these issues by using the vertical cooling coils as its medium of travel. The unit operates by grabbing a pipe using dual grippers located on either side of the equipment. Once securely attached to the pipe a drive wheel is extended to come in contact with the pipe. Rotation of the drive wheel causes the unit to rotate around the pipe. This action is continued until the second set of grippers is aligned with the next pipe. Extension pistons are actuated to extend the second set of grippers in contact with a second pipe. The second set of grippers is then actuated to grasp the pipe. The first set of grippers releases the original pipe and the process is repeated until the unit reaches its desired location. Once at the tool deployment location the desired tool may be used. The current design has proven the concept of pipe-to-pipe navigation. Testing of the Pipe Traveler has proven its ability to transfer itself from one pipe to another