Whole Genome Sequences of Three Treponema pallidum ssp. pertenue Strains: Yaws and Syphilis Treponemes Differ in Less than 0.2% of the Genome Sequence

Spirochete Treponema pallidum ssp. pertenue (TPE) is the causative agent of yaws while strains of Treponema pallidum ssp. pallidum (TPA) cause syphilis. Both yaws and syphilis are distinguished on the basis of epidemiological characteristics and clinical symptoms. Neither treponeme can reproduce outside the host organism, which precludes the use of standard molecular biology techniques used to study cultivable pathogens. In this study, we determined high quality whole genome sequences of TPE strains and compared them to known genetic information for T. pallidum ssp. pallidum strains. The genome structure was identical in all three TPE strains and also between TPA and TPE strains. The TPE genome length ranged between 1,139,330 bp and 1,139,744 bp. The overall sequence identity between TPA and TPE genomes was 99.8%, indicating that the two pathogens are extremely closely related. A set of 34 TPE genes (3.5%) encoded proteins containing six or more amino acid replacements or other major sequence changes. These genes more often belonged to the group of genes with predicted virulence and unknown functions suggesting their involvement in infection differences between yaws and syphilis

Sex- and Diet-Specific Changes of Imprinted Gene Expression and DNA Methylation in Mouse Placenta under a High-Fat Diet

Changes in imprinted gene dosage in the placenta may compromise the prenatal control of nutritional resources. Indeed monoallelic behaviour and sensitivity to changes in regional epigenetic state render imprinted genes both vulnerable and adaptable

Characteristic Evolution and Matching

I review the development of numerical evolution codes for general relativity based upon the characteristic initial value problem. Progress is traced from the early stage of 1D feasibility studies to 2D axisymmetric codes that accurately simulate the oscillations and gravitational collapse of relativistic stars and to current 3D codes that provide pieces of a binary black spacetime. A prime application of characteristic evolution is to compute waveforms via Cauchy-characteristic matching, which is also reviewed.Comment: Published version http://www.livingreviews.org/lrr-2005-1

The Nevados de Payachata volcanic region (18°S/69°W, N. Chile)

Subduction-related volcanism in the Nevados de Payachata region of the Central Andes at 18°S comprises two temporally and geochemically distinct phases. An older period of magmatism is represented by glaciated stratocones and ignimbrite sheets of late Miocene age. The Pleistocene to Recent phase (≤0.3 Ma) includes the twin stratovolcanoes Volcan Pomerape and Volcan Parinacota (the Nevados de Payachata volcanic group) and two small centers to the west (i. e., Caquena and Vilacollo). Both stratovolcanoes consist of an older dome-and-flow series capped by an andesitic cone. The younger cone, i. e., V. Parinacota, suffered a postglacial cone collapse producing a widespread debris-avalanche deposit. Subsequently, the cone reformed during a brief, second volcanic episode. A number of small, relatively mafic, satellitic cinder cones and associated flows were produced during the most recent activity at V. Parinacota. At the older cone, i. e., V. Pomerape, an early dome sequence with an overlying isolated mafic spatter cone and the cone-forming andesitic-dacitic phase (mostly flows) have been recognized. The two Nevados de Payachata stratovolcanoes display continuous major- and trace-element trends from high-K 2 O basaltic andesites through rhyolites (53%–76% SiO 2 ) that are well defined and distinct from those of the older volcanic centers. Petrography, chemical composition, and eruptive styles at V. Parinacota differ between pre- and post-debris-avalanche lavas. Precollapse flows have abundant amphibole (at SiO 2 > 59 wt%) and lower Mg numbers than postcollapse lavas, which are generally less silicic and more restricted in composition. Compositional variations indicate that the magmas of the Nevados de Payachata volcanic group evolved through a combination of fractional crystallization, crustal assimilation, and intratrend magma mixing. Isotope compositions exhibit only minor variations. Pb-isotope ratios are relatively low ( 206 Pb/ 204 Pb = 17.95–18.20 and 208 Pb/ 204 Pb = 38.2–38.5); 87 Sr/ 86 Sr ratios range 0.70612–0.70707, 143 Nd/ 144 Nd ratios range 0.51238–0.51230, and γ 18 O SMOW values range from + 6.8% o to + 7.6% o SMOW. A comparison with other Central Volcanic Zone centers shows that the Nevados de Payachata magmas are unusually rich in Ba (up to 1800 ppm) and Sr (up to 1700 ppm) and thus represent an unusual chemical signature in the Andean arc. These chemical and isotope variations suggest a complex petrogenetic evolution involving at least three distinct components. Primary mantle-derived melts, which are similar to those generated by subduction processes throughout the Andean arc, are modified by deep crustal interactions to produce magmas that are parental to those erupted at the surface. These magmas subsequently evolve at shallower levels through assimilation-crystallization processes involving upper crust and intratrend magma mixing which in both cases were restricted to end members of low isotopic contrast.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/47805/1/445_2005_Article_BF01073587.pd

Formation of intra-arc volcanosedimentary basins in the western flank of the central Peruvian Andes during Late Cretaceous oblique subduction: field evidence and constraints from U–Pb ages and Hf isotopes

During late Early to Late Cretaceous, the Peruvian coastal margin underwent fast and oblique subduction and was characterized by important arc plutonism (the Peruvian Coastal Batholith) and formation of volcanosedimentary basins known as the Western Peruvian Trough (WPT). We present high-precision U–Pb ages and initial Hf isotopic compositions of zircon from conformable volcanic and crosscutting intrusive rocks within submarine volcanosedimentary strata of the WPT hosting the Perubar massive sulfide deposit. Zircons extracted from both the volcanic and intrusive rocks yield concordant U–Pb ages ranging from 67.89±0.18 Ma to 69.71±0.18 Ma, indicating that basin subsidence, submarine volcanism and plutonic activity occurred in close spatial and temporal relationship within the Andean magmatic arc during the Late Cretaceous. Field observations, satellite image interpretation, and plate reconstructions, suggest that dextral wrenching movements along crustal lineaments were related to oblique subduction. Wrench tectonics is therefore considered to be the trigger for the formation of the WPT as a series of pull-apart basins and for the emplacement of the Coastal Batholith. The zircon initial εHf values of the dated magmatic rocks fall between 5.5 and 7.4, and indicate only very subordinate influence of a sedimentary or continental component. The absence of inherited cores in the zircons suggest a complete lack of old basement below the WPT, in agreement with previous U–Pb and Sr isotopic data for batholithic rocks emplaced in the WPT area. This is supported by the presence of a most likely continuous block of dense (~3.0 g/cm3) material observed beneath the WPT area on gravimetric crustal cross sections. We suggest that this gravimetric anomaly may correspond to a piece of lithospheric mantle and/or oceanic crust inherited from a possible Late Permian–Triassic rifting. Such young and mafic crust was the most probable source for arc magmatism in the WPT area