Eurasian house mouse (Mus musculus L.) differentiation at microsatellite loci identifies the Iranian plateau as a phylogeographic hotspot

Background: The phylogeography of the house mouse (Mus musculus L.), an emblematic species for genetic and biomedical studies, is only partly understood, essentially because of a sampling bias towards its most peripheral populations in Europe, Asia and the Americas. Moreover, the present-day phylogeographic hypotheses stem mostly from the study of mitochondrial lineages. In this article, we complement the mtDNA studies with a comprehensive survey of nuclear markers (19 microsatellite loci) typed in 963 individuals from 47 population samples, with an emphasis on the putative Middle-Eastern centre of dispersal of the species. Results: Based on correspondence analysis, distance and allele-sharing trees, we find a good coherence between geographical origin and genetic make-up of the populations. We thus confirm the clear distinction of the three best described peripheral subspecies, M. m. musculus, M. m. domesticus and M. m. castaneus. A large diversity was found in the Iranian populations, which have had an unclear taxonomic status to date. In addition to samples with clear affiliation to M. m. musculus and M. m. domesticus, we find two genetic groups in Central and South East Iran, which are as distinct from each other as they are from the south-east Asian M. m. castaneus. These groups were previously also found to harbor distinct mitochondrial haplotypes. Conclusion: We propose that the Iranian plateau is home to two more taxonomic units displaying complex primary and secondary relationships with their long recognized neighbours. This central region emerges as the area with the highest known diversity of mouse lineages within a restricted geographical area, designating it as the focal place to study the mechanisms of speciation and diversification of this species

Evidence for Pop III-like stellar populations in the most luminous Lyman-α emitters at the epoch of re-ionisation:spectroscopic confirmation

Faint Lyman-$\alpha$ (Ly$\alpha$) emitters become increasingly rarer towards the re-ionisation epoch (z~6-7). However, observations from a very large (~5deg$^2$) Ly$\alpha$ survey at z=6.6 (Matthee et al. 2015) show that this is not the case for the most luminous emitters. Here we present follow-up observations of the two most luminous z~6.6 Ly$\alpha$ candidates in the COSMOS field: `MASOSA' and `CR7'. We used X-SHOOTER, SINFONI and FORS2 (VLT), and DEIMOS (Keck), to confirm both candidates beyond any doubt. We find redshifts of z=6.541 and z=6.604 for MASOSA and CR7, respectively. MASOSA has a strong detection in Ly$\alpha$ with a line width of $386\pm30$ km/s (FWHM) and with high EW$_0$ (>200 \AA), but it is undetected in the continuum. CR7, with an observed Ly$\alpha$ luminosity of $10^{43.93\pm0.05}$erg/s is the most luminous Ly$\alpha$ emitter ever found at z>6. CR7 reveals a narrow Ly$\alpha$ line with $266\pm15$ km/s FWHM, being detected in the NIR (rest-frame UV, with $\beta=-2.3\pm0.1$) with an excess in $J$, and also strongly detected in IRAC/Spitzer. We detect a narrow HeII1640$\AA$ emission line ($6\sigma$) which explains the excess seen in the $J$ band photometry (EW$_0$~80 \AA). We find no other emission lines from the UV to the NIR in our X-SHOOTER spectra, nor any signatures of Wolf-Rayet (WR) stars. We find that CR7 is best explained by a combination of a PopIII-like population which dominates the rest-frame UV and the nebular emission, and a more normal stellar population which dominates the mass. HST/WFC3 observations show that the light is indeed spatially separated between a very blue component, coincident with Ly$\alpha$ and HeII emission, and two red components (~5 kpc away), which dominate the mass. Our findings are consistent with theoretical predictions of a PopIII wave, with PopIII star formation migrating away from the original sites of star formation

Large scale structure around a z=2.1 cluster

The most prodigious starburst galaxies are absent in massive galaxy clusters today, but their connection with large scale environments is less clear at $z\gtrsim2$. We present a search of large scale structure around a galaxy cluster core at $z=2.095$ using a set of spectroscopically confirmed galaxies. We find that both color-selected star-forming galaxies (SFGs) and dusty star-forming galaxies (DSFGs) show significant overdensities around the $z=2.095$ cluster. A total of 8 DSFGs (including 3 X-ray luminous active galactic nuclei, AGNs) and 34 SFGs are found within a 10 arcmin radius (corresponds to $\sim$15 cMpc at $z\sim2.1$) from the cluster center and within a redshift range of $\Delta z=0.02$, which leads to galaxy overdensities of $\delta_{\rm DSFG}\sim12.3$ and $\delta_{\rm SFG}\sim2.8$. The cluster core and the extended DSFG- and SFG-rich structure together demonstrate an active cluster formation phase, in which the cluster is accreting a significant amount of material from large scale structure while the more mature core may begin to virialize. Our finding of this DSFG-rich structure, along with a number of other protoclusters with excess DSFGs and AGNs found to date, suggest that the overdensities of these rare sources indeed trace significant mass overdensities. However, it remains puzzling how these intense star formers are triggered concurrently. Although an increased probability of galaxy interactions and/or enhanced gas supply can trigger the excess of DSFGs, our stacking analysis based on 850 $\mu$m images and morphological analysis based on rest-frame optical imaging do not show such enhancements of merger fraction and gas content in this structure.Comment: 11 pages, 4 figures, ApJ accepte

The Bright and Dark Sides of High-Redshift starburst galaxies from {\it Herschel} and {\it Subaru} observations

We present rest-frame optical spectra from the FMOS-COSMOS survey of twelve $z \sim 1.6$ \textit{Herschel} starburst galaxies, with Star Formation Rate (SFR) elevated by $\times$8, on average, above the star-forming Main Sequence (MS). Comparing the H$\alpha$ to IR luminosity ratio and the Balmer Decrement we find that the optically-thin regions of the sources contain on average only $\sim 10$ percent of the total SFR whereas $\sim90$ percent comes from an extremely obscured component which is revealed only by far-IR observations and is optically-thick even in H$\alpha$. We measure the [NII]$_{6583}$/H$\alpha$ ratio, suggesting that the less obscured regions have a metal content similar to that of the MS population at the same stellar masses and redshifts. However, our objects appear to be metal-rich outliers from the metallicity-SFR anticorrelation observed at fixed stellar mass for the MS population. The [SII]$_{6732}$/[SII]$_{6717}$ ratio from the average spectrum indicates an electron density $n_{\rm e} \sim 1,100\ \mathrm{cm}^{-3}$, larger than what estimated for MS galaxies but only at the 1.5$\sigma$ level. Our results provide supporting evidence that high-$z$ MS outliers are the analogous of local ULIRGs, and are consistent with a major merger origin for the starburst event.Comment: 6 pages, 4 figures, Accepted for publication in ApJ Letter

Analysis of and workarounds for element reversal for a finite element-based algorithm for warping triangular and tetrahedral meshes

We consider an algorithm called FEMWARP for warping triangular and tetrahedral finite element meshes that computes the warping using the finite element method itself. The algorithm takes as input a two- or three-dimensional domain defined by a boundary mesh (segments in one dimension or triangles in two dimensions) that has a volume mesh (triangles in two dimensions or tetrahedra in three dimensions) in its interior. It also takes as input a prescribed movement of the boundary mesh. It computes as output updated positions of the vertices of the volume mesh. The first step of the algorithm is to determine from the initial mesh a set of local weights for each interior vertex that describes each interior vertex in terms of the positions of its neighbors. These weights are computed using a finite element stiffness matrix. After a boundary transformation is applied, a linear system of equations based upon the weights is solved to determine the final positions of the interior vertices. The FEMWARP algorithm has been considered in the previous literature (e.g., in a 2001 paper by Baker). FEMWARP has been succesful in computing deformed meshes for certain applications. However, sometimes FEMWARP reverses elements; this is our main concern in this paper. We analyze the causes for this undesirable behavior and propose several techniques to make the method more robust against reversals. The most successful of the proposed methods includes combining FEMWARP with an optimization-based untangler.Comment: Revision of earlier version of paper. Submitted for publication in BIT Numerical Mathematics on 27 April 2010. Accepted for publication on 7 September 2010. Published online on 9 October 2010. The final publication is available at http://www.springerlink.co

Geometric morphometric analysis of the molars in three species of the genus Mus (Mus) (Rodentia, Muridae) based on the outline method

The relatively new technique of outline-based geometric morphometrics was applied in a study of the variation in the shape of the upper and lower molars among 122 mice, belonging to one species from Iran (Mus musculus) and two species from Europe (Mus macedonicus, Mus spicilegus). Differentiation of specimens based on molar shape was highly dependent on the details of the shape information. Among molars, the second upper and first lower molars are better at separating the species. This method provides a useful way to distinguish species based on the outline of their molars.Keywords: shape variation; upper and lower molars; mice; Iran; Europe

Low temperature magneto-morphological characterisation of coronene and the resolution of previously observed unexplained phenomena

The polyaromatic hydrocarbon coronene has been the molecule of choice for understanding the physical properties of graphene for over a decade. The modelling of the latter by the former was considered to be valid, as since it was first synthesised in 1932, the physical behaviour of coronene has been determined extremely accurately. We recently discovered however, an unforeseen polymorph of coronene, which exists as an enantiotrope with the previously observed crystal structure. Using low-temperature magnetisation and crystallographic measurements, we show here for the first time that the electronic and magnetic properties of coronene depend directly on the temperature at which it is observed, with hysteretic behaviour exhibited between 300 K and 100 K. Furthermore we determine that this behaviour is a direct result of the appearance and disappearance of the newly-discovered polymorph during thermal cycling. Our results not only highlight the need for theoretical models of graphene to take into account this anomalous behaviour at low temperatures, but also explain puzzling experimental observations of coronene dating back over 40 years

Bi-allelic variants in RNF170 are associated with hereditary spastic paraplegia.

Alterations of Ca2+ homeostasis have been implicated in a wide range of neurodegenerative diseases. Ca2+ efflux from the endoplasmic reticulum into the cytoplasm is controlled by binding of inositol 1,4,5-trisphosphate to its receptor. Activated inositol 1,4,5-trisphosphate receptors are then rapidly degraded by the endoplasmic reticulum-associated degradation pathway. Mutations in genes encoding the neuronal isoform of the inositol 1,4,5-trisphosphate receptor (ITPR1) and genes involved in inositol 1,4,5-trisphosphate receptor degradation (ERLIN1, ERLIN2) are known to cause hereditary spastic paraplegia (HSP) and cerebellar ataxia. We provide evidence that mutations in the ubiquitin E3 ligase gene RNF170, which targets inositol 1,4,5-trisphosphate receptors for degradation, are the likely cause of autosomal recessive HSP in four unrelated families and functionally evaluate the consequences of mutations in patient fibroblasts, mutant SH-SY5Y cells and by gene knockdown in zebrafish. Our findings highlight inositol 1,4,5-trisphosphate signaling as a candidate key pathway for hereditary spastic paraplegias and cerebellar ataxias and thus prioritize this pathway for therapeutic interventions

Candidate high-z proto-clusters among the Planck compact sources, as revealed by Herschel-SPIRE

By determining the nature of all the Planck compact sources within 808.4 deg2 of large Herschel surveys, we have identified 27 candidate proto-clusters of dusty star forming galaxies (DSFGs) that are at least 3σ overdense in either 250, 350 or 500 μm sources. We find roughly half of all the Planck compact sources are resolved by Herschel into multiple discrete objects, with the other half remaining unresolved by Herschel. We find a significant difference between versions of the Planck catalogues, with earlier releases hosting a larger fraction of candidate proto-clusters and Galactic Cirrus than later releases, which we ascribe to a difference in the filters used in the creation of the three catalogues. We find a surface density of DSFG candidate proto-clusters of (3.3 ± 0.7) × 10−2 sources deg−2, in good agreement with previous similar studies. We find that a Planck colour selection of S857/S545 1. Our candidate proto-clusters are a factor of 5 times brighter at 353 GHz than expected from simulations, even in the most conservative estimates. Further observations are needed to confirm whether these candidate proto-clusters are physical clusters, multiple proto-clusters along the line of sight, or chance alignments of unassociated sources

Phylogeography of Calomyscus elburzensis (Calomyscidae, Rodentia) around the Central Iranian Desert with Description of a New Subspecies in Center of Iranian Plateau

Calomyscus elburzensis Goodwin, 1938, was previously known from central and northern Iran to southern and southwestern Turkmenistan and northwestern Afghanistan. Its type locality is at altitude of 1200m elevation in the Kurkhud Mts., North Khorasan province in northeastern Iran. This study provides new evidence that its range is more extensive than thought previously and central Iranian Mountains, Shirkuh (Yazd province)and Karkas Mts. in Isfahan and Zanjan provinces in the northwest were recognized as its distribution areas. Two major clades were detected within C. elburzensis from the analysis of two mitochondrial genes Cytb and CoI. The outline on m2 and karyotypes analyses also supported these two molecular clades; one northeast with 2n=44 and FNa=58, 60 and 62 and the other west and northwest of central Iranian desert with 2n=44 and Fna=70.The Statistical Dispersal-Vicariance Analysis (S-DIVA) suggested dispersal events from north east to the center of Iran occurred in two separate occasions. As 2.5% was the rather low level of sequence divergence between these two major clades, we assigned the central-northwestern brush-tailed mice as a subspecies of C. elburzensis and therefore we named as C. e. isatissus ssp. novo