Climate Change and invasibility of the Antarctic benthos

Benthic communities living in shallow-shelf habitats in Antarctica (<100-m depth) are archaic in their structure and function. Modern predators, including fast-moving, durophagous (skeleton-crushing) bony fish, sharks, and crabs, are rare or absent; slow-moving invertebrates are the top predators; and epifaunal suspension feeders dominate many soft substratum communities. Cooling temperatures beginning in the late Eocene excluded durophagous predators, ultimately resulting in the endemic living fauna and its unique food-web structure. Although the Southern Ocean is oceanographically isolated, the barriers to biological invasion are primarily physiological rather than geographic. Cold temperatures impose limits to performance that exclude modern predators. Global warming is now removing those physiological barriers, and crabs are reinvading Antarctica. As sea temperatures continue to rise, the invasion of durophagous predators will modernize the shelf benthos and erode the indigenous character of marine life in Antarctica

Strong interface-induced spin-orbit coupling in graphene on WS2

Interfacial interactions allow the electronic properties of graphene to be modified, as recently demonstrated by the appearance of satellite Dirac cones in the band structure of graphene on hexagonal boron nitride (hBN) substrates. Ongoing research strives to explore interfacial interactions in a broader class of materials in order to engineer targeted electronic properties. Here we show that at an interface with a tungsten disulfide (WS2) substrate, the strength of the spin-orbit interaction (SOI) in graphene is very strongly enhanced. The induced SOI leads to a pronounced low-temperature weak anti-localization (WAL) effect, from which we determine the spin-relaxation time. We find that spin-relaxation time in graphene is two-to-three orders of magnitude smaller on WS2 than on SiO2 or hBN, and that it is comparable to the intervalley scattering time. To interpret our findings we have performed first-principle electronic structure calculations, which both confirm that carriers in graphene-on-WS2 experience a strong SOI and allow us to extract a spin-dependent low-energy effective Hamiltonian. Our analysis further shows that the use of WS2 substrates opens a possible new route to access topological states of matter in graphene-based systems.Comment: Originally submitted version in compliance with editorial guidelines. Final version with expanded discussion of the relation between theory and experiments to be published in Nature Communication

VAMP7 modulates ciliary biogenesis in kidney cells

Epithelial cells elaborate specialized domains that have distinct protein and lipid compositions, including the apical and basolateral surfaces and primary cilia. Maintaining the identity of these domains is required for proper cell function, and requires the efficient and selective SNARE-mediated fusion of vesicles containing newly synthesized and recycling proteins with the proper target membrane. Multiple pathways exist to deliver newly synthesized proteins to the apical surface of kidney cells, and the post-Golgi SNAREs, or VAMPs, involved in these distinct pathways have not been identified. VAMP7 has been implicated in apical protein delivery in other cell types, and we hypothesized that this SNARE would have differential effects on the trafficking of apical proteins known to take distinct routes to the apical surface in kidney cells. VAMP7 expressed in polarized Madin Darby canine kidney cells colocalized primarily with LAMP2-positive compartments, and siRNA-mediated knockdown modulated lysosome size, consistent with the known function of VAMP7 in lysosomal delivery. Surprisingly, VAMP7 knockdown had no effect on apical delivery of numerous cargoes tested, but did decrease the length and frequency of primary cilia. Additionally, VAMP7 knockdown disrupted cystogenesis in cells grown in a three-dimensional basement membrane matrix. The effects of VAMP7 depletion on ciliogenesis and cystogenesis are not directly linked to the disruption of lysosomal function, as cilia lengths and cyst morphology were unaffected in an MDCK lysosomal storage disorder model. Together, our data suggest that VAMP7 plays an essential role in ciliogenesis and lumen formation. To our knowledge, this is the first study implicating an R-SNARE in ciliogenesis and cystogenesis. © 2014 Szalinski et al

Evolution of retrovirus-infected premalignant T-cell clones prior to Adult T-cell leukemia/lymphoma diagnosis

Adult T cell leukemia/lymphoma (ATL) is an aggressive hematological malignancy caused by Human T-cell leukemia virus type-1 (HTLV-1). ATL is preceded by decades of chronic HTLV-1 infection, and the tumors carry both somatic mutations and proviral DNA integrated into the tumor genome. In order to gain insight into the oncogenic process, we used targeted sequencing to track the evolution of the malignant clone in six individuals, 2-10 years before the diagnosis of ATL. Clones of premalignant HTLV-1-infected cells bearing known driver mutations were detected in the blood up to 10 years before individuals developed acute and lymphoma subtype ATL. Six months before diagnosis, the total number and variant allele fraction of mutations increased in the blood. Peripheral blood mononuclear cells from premalignant cases (1 year pre-diagnosis) had significantly higher mutational burden in genes frequently mutated in ATL than did high risk, age-matched HTLV-1-carriers who remained ATL-free after a median of 10 years of follow up. These data show that HTLV-1-infected T cell clones carrying key oncogenic driver mutations can be detected in cases of ATL years before the onset of symptoms. Early detection of such mutations may enable earlier and more effective intervention to prevent the development of ATL

The Long-Baseline Neutrino Experiment: Exploring Fundamental Symmetries of the Universe

Major update of previous version. This is the reference document for LBNE science program and current status. Chapters 1, 3, and 9 provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess. 288 pages, 116 figuresMajor update of previous version. This is the reference document for LBNE science program and current status. Chapters 1, 3, and 9 provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess. 288 pages, 116 figuresThe preponderance of matter over antimatter in the early Universe, the dynamics of the supernova bursts that produced the heavy elements necessary for life and whether protons eventually decay --- these mysteries at the forefront of particle physics and astrophysics are key to understanding the early evolution of our Universe, its current state and its eventual fate. The Long-Baseline Neutrino Experiment (LBNE) represents an extensively developed plan for a world-class experiment dedicated to addressing these questions. LBNE is conceived around three central components: (1) a new, high-intensity neutrino source generated from a megawatt-class proton accelerator at Fermi National Accelerator Laboratory, (2) a near neutrino detector just downstream of the source, and (3) a massive liquid argon time-projection chamber deployed as a far detector deep underground at the Sanford Underground Research Facility. This facility, located at the site of the former Homestake Mine in Lead, South Dakota, is approximately 1,300 km from the neutrino source at Fermilab -- a distance (baseline) that delivers optimal sensitivity to neutrino charge-parity symmetry violation and mass ordering effects. This ambitious yet cost-effective design incorporates scalability and flexibility and can accommodate a variety of upgrades and contributions. With its exceptional combination of experimental configuration, technical capabilities, and potential for transformative discoveries, LBNE promises to be a vital facility for the field of particle physics worldwide, providing physicists from around the globe with opportunities to collaborate in a twenty to thirty year program of exciting science. In this document we provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess

Transit Hunt for Young and Maturing Exoplanets (THYME). VIII. A Pleiades-age Association Harboring Two Transiting Planetary Systems from Kepler

Young planets provide a window into the early stages and evolution of planetary systems. Ideal planets for such research are in coeval associations, where the parent population can precisely determine their ages. We describe a young association (MELANGE-3) in the Kepler field, which harbors two transiting planetary systems (KOI-3876 and Kepler-970). We identify MELANGE-3 by searching for kinematic and spatial overdensities around Kepler planet hosts with high levels of lithium. To determine the age and membership of MELANGE-3, we combine new high-resolution spectra with archival light curves, velocities, and astrometry of stars near KOI-3876 spatially and kinematically. We use the resulting rotation sequence, lithium levels, and color-magnitude diagram of candidate members to confirm the presence of a coeval 105 ± 10 Myr population. MELANGE-3 may be part of the recently identified Theia 316 stream. For the two exoplanet systems, we revise the stellar and planetary parameters, taking into account the newly determined age. Fitting the 4.5 yr Kepler light curves, we find that KOI-3876b is a 2.0 ± 0.1 R⊕ planet on a 19.58 day orbit, while Kepler-970 b is a 2.8 ± 0.2 R⊕ planet on a 16.73 day orbit. KOI-3876 was previously flagged as an eclipsing binary, which we rule out using radial velocities from APOGEE and statistically validate the signal as planetary in origin. Given its overlap with the Kepler field, MELANGE-3 is valuable for studies of spot evolution on year timescales, and both planets contribute to the growing work on transiting planets in young stellar associations

Hazy with a Chance of Star Spots: Constraining the Atmosphere of Young Planet K2-33b

Although all-sky surveys have led to the discovery of dozens of young planets, little is known about their atmospheres. Here, we present multiwavelength transit data for the super-Neptune sized exoplanet, K2-33b-the youngest (~10 Myr) transiting exoplanet to date. We combined photometric observations of K2-33 covering a total of 33 transits spanning >2 yr, taken from K2, MEarth, the Hubble Space Telescope (HST), and Spitzer. The transit photometry spanned from the optical to the near-infrared (0.6-4.5 μm), enabling us to construct a transmission spectrum of the planet. We find that the optical transit depths are nearly a factor of 2 deeper than those from the near-infrared. This difference holds across multiple data sets taken over years, ruling out issues of data analysis and unconstrained systematics. Surface inhomogeneities on the young star can reproduce some of the difference, but required spot coverage fractions (>60%) are ruled out by the observed stellar spectrum (<20%). We find a better fit to the transmission spectrum using photochemical hazes, which were predicted to be strong in young, moderate-temperature, and large-radius planets like K2-33b. A tholin haze with CO as the dominant gaseous carbon carrier in the atmosphere can reasonably reproduce the data with small or no stellar surface inhomogeneities, consistent with the stellar spectrum. The HST data quality is insufficient for the detection of any molecular features. More observations would be required to fully characterize the hazes and spot properties and confirm the presence of CO suggested by current data

Hazy with a chance of star spots: constraining the atmosphere of the young planet, K2-33b

Although all-sky surveys have led to the discovery of dozens of young planets, little is known about their atmospheres. Here, we present multi-wavelength transit data for the super Neptune-sized exoplanet, K2-33b -- the youngest (~10 Myr) transiting exoplanet to-date. We combined photometric observations of K2-33 covering a total of 33 transits spanning >2 years, taken from K2, MEarth, Hubble, and Spitzer. The transit photometry spanned from the optical to the near-infrared (0.6-4.5$\mu$m), enabling us to construct a transmission spectrum of the planet. We find that the optical transit depths are nearly a factor of two deeper than those from the near-infrared. This difference holds across multiple datasets taken over years, ruling out issues of data analysis and unconstrained systematics. Surface inhomogeneities on the young star can reproduce some of the difference, but required spot coverage fractions (>60%) are ruled out by the observed stellar spectrum(<20%). We find a better fit to the transmission spectrum using photochemical hazes, which were predicted to be strong in young, moderate-temperature, and large-radius planets like K2-33b. A tholin haze with CO as the dominant gaseous carbon carrier in the atmosphere can reasonably reproduce the data with small or no stellar surface inhomogeneities, consistent with the stellar spectrum. The HST data quality is insufficient for the detection of any molecular features. More observations would be required to fully characterize the hazes and spot properties and confirm the presence of CO suggested by current data.Comment: Accepted to AJ. 26 pages, 14 figures, 6 table

Use of Zidovudine and Interferon Alfa With Chemotherapy Improves Survival in Both Acute and Lymphoma Subtypes of Adult T-Cell Leukemia/Lymphoma

Purpose Adult T-cell leukemia/lymphoma (ATLL) is a mature (post-thymic) T-cell lymphoma associated with human T-lymphotropic virus type 1 infection. Survival in aggressive subtypes remains poor, and treatment resistance is frequent. Use of zidovudine (ZDV) and interferon alfa (IFN-α) has been associated with improved response rates in small studies and prolonged overall survival in leukemic ATLL subtypes in a recent meta-analysis. Patients and Methods We report the clinicopathologic characteristics, treatment, and outcome of 73 patients with aggressive ATLL (acute ATLL, 29; lymphoma ATLL, 44) diagnosed and treated in England between 1999 and 2009. The impact of ZDV/IFN-α on treatment response and survival was assessed. Results The overall response rate ranged from 49% with chemotherapy alone to 81% with combined first-line therapy (chemotherapy with concurrent/sequential ZDV/IFN-α). Median overall survival (OS) was 9 months: 7.5 months for acute ATLL and 10 months for lymphoma ATLL. Use of ZDV/IFN-α at any time prolonged survival in acute (P &lt; .001) and lymphoma ATLL (P &lt; .001) and was the sole factor associated with reduction in risk of death in aggressive ATLL (hazard ratio, 0.23; 95% CI, 0.09 to 0.60; P = .002). Combined first-line therapy prolonged median OS in acute (P = .0081) and lymphoma ATLL (P = .001) compared with chemotherapy alone. Conclusion These data support the use of low-dose ZDV/IFN-α with chemotherapy in first-line treatment of acute and lymphoma ATLL. </jats:sec