ALBERT

Description: Among animals, genome sizes range from 20 Mb to 130 Gb, with 380-fold variation across vertebrates. Most of the largest vertebrate genomes are found in salamanders, an amphibian clade of 660 species. Thus, salamanders are an important system for studying causes and consequences of genomic gigantism. Previously, we showed that plethodontid salamander genomes accumulate higher levels of long terminal repeat (LTR) retrotransposons than do other vertebrates, although the evolutionary origins of such sequences remained unexplored. We also showed that some salamanders in the family Plethodontidae have relatively slow rates of DNA loss through small insertions and deletions. Here, we present new data from Cryptobranchus alleganiensis , the hellbender. Cryptobranchus and Plethodontidae span the basal phylogenetic split within salamanders; thus, analyses incorporating these taxa can shed light on the genome of the ancestral crown salamander lineage, which underwent expansion. We show that high levels of LTR retrotransposons likely characterize all crown salamanders, suggesting that disproportionate expansion of this transposable element (TE) class contributed to genomic expansion. Phylogenetic and age distribution analyses of salamander LTR retrotransposons indicate that salamanders’ high TE levels reflect persistence and diversification of ancestral TEs rather than horizontal transfer events. Finally, we show that relatively slow DNA loss rates through small indels likely characterize all crown salamanders, suggesting that a decreased DNA loss rate contributed to genomic expansion at the clade’s base. Our identification of shared genomic features across phylogenetically distant salamanders is a first step toward identifying the evolutionary processes underlying accumulation and persistence of high levels of repetitive sequence in salamander genomes.

Description: In January 2010 and December 2011, synoptic-scale polar stratospheric cloud (PSC) fields were probed during seven flights of the high-altitude research aircraft M-55 Geophysica within the RECONCILE (Reconciliation of essential process parameters for an enhanced predictability of Arctic stratospheric ozone loss and its climate interaction) and the ESSenCe (ESSenCe: ESA Sounder Campaign) projects. Particle size distributions in a diameter range between 0.46 and 40μm were recorded by four different optical in situ instruments. Three of these particle instruments are based on the detection of forward-scattered light by single particles. The fourth instrument is a grayscale optical array imaging probe. Optical particle diameters of up to 35μm were detected with particle number densities and total particle volumes exceeding previous Arctic measurements. Also, gas-phase and particle-bound NOy was measured, as well as water vapor concentrations. The optical characteristics of the clouds were measured by the remote sensing lidar MAL (Miniature Aerosol Lidar) and by the in situ backscatter sonde MAS (Multiwavelength Aerosol Scatterometer), showing the synoptic scale of the encountered PSCs. The particle mode below 2μm in size diameter has been identified as supercooled ternary solution (STS) droplets. The PSC particles in the size range above 2μm in diameter are considered to consist of nitric acid hydrates, and the particles' high HNO3 content was confirmed by the NOy instrument. Assuming a particle composition of nitric acid trihydrate (NAT), the optically measured size distributions result in particle-phase HNO3 mixing ratios exceeding available stratospheric values. Therefore the measurement uncertainties concerning probable overestimations of measured particle sizes and volumes are discussed in detail. We hypothesize that either a strong asphericity or an alternate particle composition (e.g., water ice coated with NAT) could explain our observations. In particular, with respect to the denitrification by sedimentation of large HNO3-containing particles, generally considered to be NAT, our new measurements raise questions concerning composition, shape and nucleation pathways. Answering these would improve the numerical simulation of PSC microphysical processes like cloud particle formation, growth and denitrification, which is necessary for better predictions of future polar ozone losses, especially under changing global climate conditions. Generally, it seems that the occurrence of large NAT particles – sometimes termed "NAT rocks" – are a regular feature of synoptic-scale PSCs in the Arctic.

Description: We describe a novel method implemented in the GPlates plate tectonic reconstruction software to interactively reconstruct arbitrarily high-resolution raster data to past geological times using a rotation model. The approach is based on the projection of geo-referenced raster data into a cube map followed by a reverse projection onto rotated tectonic plates on the surface of the globe. This decouples the rendering of a geo-referenced raster from its reconstruction, providing a number of benefits including a simple implementation and the ability to combine rasters with different geo-referencing or inbuilt raster projections. The cube map projection is accelerated by graphics hardware in a wide variety of computer systems manufactured over the last decade. Furthermore, by integrating a multi-resolution tile partitioning into the cube map we can provide on-demand tile streaming, level-of-detail rendering and hierarchical visibility culling, enabling researchers to visually explore essentially unlimited resolution geophysical raster data attached to tectonic plates and reconstructed through geological time. This capability forms the basis for interactively building and improving plate reconstructions in an iterative fashion, particularly for tectonically complex regions.

Description: Large tectonic plates are known to be susceptible to internal deformation, leading to a~range of phenomena including intraplate volcanism. However, the space and time dependence of intraplate deformation and its relationship with changing plate boundary configurations, subducting slab geometries, and absolute plate motion is poorly understood. We utilise a buoyancy-driven Stokes flow solver, BEM-Earth, to investigate the contribution of subducting slabs through time on Pacific plate motion and plate-scale deformation, and how this is linked to intraplate volcanism. We produce a series of geodynamic models from 62 to 42 Ma in which the plates are driven by the attached subducting slabs and mantle drag/suction forces. We compare our modelled intraplate deformation history with those types of intraplate volcanism that lack a clear age progression. Our models suggest that changes in Cenozoic subduction zone topology caused intraplate deformation to trigger volcanism along several linear seafloor structures, mostly by reactivation of existing seamount chains, but occasionally creating new volcanic chains on crust weakened by fracture zones and extinct ridges. Around 55 Ma, subduction of the Pacific-Izanagi ridge reconfigured the major tectonic forces acting on the plate by replacing ridge push with slab pull along its northwestern perimeter, causing lithospheric extension along pre-existing weaknesses. Large-scale deformation observed in the models coincides with the seamount chains of Hawaii, Louisville, Tokelau and Gilbert during our modelled time period of 62 to 42 Ma. We suggest that extensional stresses between 72 and 52 Ma are the likely cause of large parts of the formation of the Gilbert chain and that localised extension between 62 and 42 Ma could cause late-stage volcanism along the Musicians volcanic ridges. Our models demonstrate that early Cenozoic changes in Pacific plate driving forces only cause relatively minor changes in Pacific absolute plate motion directions, and cannot be responsible for the Hawaiian–Emperor bend (HEB), confirming previous interpretations that the 47 Ma HEB does not primarily reflect an absolute plate motion event.

Description: We describe a novel method implemented in the GPlates plate tectonic reconstruction software to interactively reconstruct arbitrarily high-resolution raster data to past geological times using a rotation model. The approach is based on the projection of geo-referenced raster data into a cube map followed by a reverse projection onto rotated tectonic plates on the surface of the globe. This decouples the rendering of a geo-referenced raster from its reconstruction, providing a number of benefits including a simple implementation and the ability to combine rasters with different geo-referencing or inbuilt raster projections. The cube map projection is accelerated by graphics hardware in a wide variety of computer systems manufactured over the last decade. Furthermore, by integrating a multi-resolution tile partitioning into the cube map we can provide on-demand tile streaming, level-of-detail rendering and hierarchical visibility culling enabling researchers to visually explore essentially unlimited resolution geophysical raster data attached to tectonic plates and reconstructed through geological time. This capability forms the basis for interactively building and improving plate reconstructions in an iterative fashion, particularly for tectonically complex regions.

Description: Large tectonic plates are known to be susceptible to internal deformation, leading to a range of phenomena including intraplate volcanism. However, the space and time dependence of intraplate deformation and its relationship with changing plate boundary configurations, subducting slab geometries, and absolute plate motion is poorly understood. We utilise a buoyancy driven Stokes flow solver, BEM-Earth, to investigate the contribution of subducting slabs through time on Pacific Plate motion and plate-scale deformation, and how this is linked to intraplate volcanism. We produce a series of geodynamic models from 62 to 42 Ma in which the plates are driven by the attached subducting slabs and mantle drag/suction forces. We compare our modelled intraplate deformation history with those types of intraplate volcanism that lack a clear age progression. Our models suggest that changes in Cenozoic subduction zone topology caused intraplate deformation to trigger volcanism along several linear seafloor structures, mostly by reactivation of existing seamount chains, but occasionally creating new volcanic chains on crust weakened by fracture zones and extinct ridges. Around 55 Ma subduction of the Pacific-Izanagi ridge reconfigured the major tectonic forces acting on the plate by replacing ridge push with slab pull along its north-western perimeter, causing lithospheric extension along pre-existing weaknesses. Large scale deformation observed in the models coincides with the seamount chains of Hawaii, Louisville, Tokelau, and Gilbert during our modelled time period of 62 to 42 Ma. We suggest that extensional stresses between 72 and 52 Ma are the likely cause of large parts of the formation of the Gilbert chain and that localised extension between 62 and 42 Ma could cause late-stage volcanism along the Musicians Volcanic Ridges. Our models demonstrate that early Cenozoic changes in Pacific plate driving forces only cause relatively minor changes in Pacific absolute plate motions, and cannot be responsible for the Hawaii-Emperor Bend (HEB), confirming previous interpretations that the 47 Ma HEB does not reflect an absolute plate motion event.

Description: Tectonic reconstructions of Southeast Asia have given rise to numerous controversies that include the accretionary history of Sundaland and the enigmatic tectonic origin of the proto-South China Sea. We assimilate a diversity of geological and geophysical observations into a new regional plate model, coupled to a global model, to address these debates. Our approach takes into account terrane suturing and accretion histories, the location of subducted slabs imaged in mantle tomography in order to constrain the evolution of regional subduction zones, as well as plausible absolute and relative plate velocities and tectonic driving mechanisms. We propose a scenario of rifting from northern Gondwana in the latest Jurassic, driven by northward slab pull from north-dipping subduction of Tethyan crust beneath Eurasia, to detach East Java, Mangkalihat, southeast Borneo and West Sulawesi blocks that collided with a Tethyan intra-oceanic subduction zone in the mid-Cretaceous and subsequently accreted to the Sunda margin (i.e., southwest Borneo core) in the Late Cretaceous. In accounting for the evolution of plate boundaries, we propose that the Philippine Sea plate originated on the periphery of Tethyan crust forming this northward conveyor. We implement a revised model for the Tethyan intra-oceanic subduction zones to reconcile convergence rates, changes in volcanism and the obduction of ophiolites. In our model the northward margin of Greater India collides with the Kohistan–Ladakh intra-oceanic arc at ∼53 Ma, followed by continent–continent collision closing the Shyok and Indus–Tsangpo suture zones between ∼42 and 34 Ma. We also account for the back-arc opening of the proto-South China Sea from ∼65 Ma, consistent with extension along east Asia and the formation of supra-subduction zone ophiolites presently found on the island of Mindoro. The related rifting likely detached the Semitau continental fragment from South China, which accreted to northern Borneo in the mid-Eocene, to account for the Sarawak Orogeny. Rifting then re-initiated along southeast China by 37 Ma to open the South China Sea, resulting in the complete consumption of proto-South China Sea by ∼17 Ma when the collision of the Dangerous Grounds and northern Palawan blocks with northern Borneo choked the subduction zone to result in the Sabah Orogeny and the obduction of ophiolites in Palawan and Mindoro. We conclude that the counterclockwise rotation of Borneo was accommodated by oroclinal bending consistent with paleomagnetic constraints, the curved lithospheric lineaments observed in gravity anomalies of the Java Sea and the curvature of the Cretaceous Natuna paleo-subduction zone. We complete our model by constructing a time-dependent network of topological plate boundaries and gridded paleo-ages of oceanic basins, allowing us to compare our plate model evolution to seismic tomography. In particular, slabs observed at depths shallower than ∼1000 km beneath northern Borneo and the South China Sea are likely to be remnants of the proto-South China Sea basin.

Description: The critical fracture toughness is a material parameter describing the resistance of a cracked body to further crack extension. It is an important parameter to simulate and predict the break-up behaviour of ice shelves from calving of single icebergs to the disintegration of entire ice shelves over a wide range of length scales. The fracture toughness values are calculated with equations that are derived from an elastic stress analysis. Additionally, an X-ray computer tomography (CT scanner) was used to identify the density as a function of depth. The critical fracture toughness of 91 Antarctic inland ice samples with densities between 840 to 870 kg m−3 has been determined by applying a four-point-bending technique on single edge v-notched beam samples. The examined ice core was drilled 70 m north of Kohnen Station, Dronnning Maud Land (75°00' S, 00°04' E, 2882 m). Supplementary data are available at doi:10.1594/PANGAEA.835321.

Description: Variations in the mixing ratio of trace gases of tropospheric origin entering the stratosphere in the tropics are of interest for assessing both troposphere to stratosphere transport fluxes in the tropics and the impact of these transport fluxes on the composition of the tropical lower stratosphere. Anomaly patterns of carbon monoxide (CO) and long-lived tracers in the lower tropical stratosphere allow conclusions about the rate and the variability of tropical upwelling to be drawn. Here, we present a simplified chemistry scheme for the Chemical Lagrangian Model of the Stratosphere (CLaMS) for the simulation, at comparatively low numerical cost, of CO, ozone, and long-lived trace substances (CH4, N2O, CCl3F (CFC-11), CCl2F2 (CFC-12), and CO2) in the lower tropical stratosphere. For the long-lived trace substances, the boundary conditions at the surface are prescribed based on ground-based measurements in the lowest model level. The boundary condition for CO in the lower troposphere (below about 4 km) is deduced from MOPITT measurements. Due to the lack of a specific representation of mixing and convective uplift in the troposphere in this model version, enhanced CO values, in particular those resulting from convective outflow are underestimated. However, in the tropical tropopause layer and the lower tropical stratosphere, there is relatively good agreement of simulated CO with in situ measurements (with the exception of the TROCCINOX campaign, where CO in the simulation is biased low ≈10–15 ppbv). Further, the model results (and therefore also the ERA-Interim winds, on which the transport in the model is based) are of sufficient quality to describe large scale anomaly patterns of CO in the lower stratosphere. In particular, the zonally averaged tropical CO anomaly patterns (the so called "tape recorder" patterns) simulated by this model version of CLaMS are in good agreement with observations, although the simulations show a too rapid upwelling compared to observations as a consequence of the overestimated vertical velocities in the ERA-Interim reanalysis data set. Moreover, the simulated tropical anomaly patterns of N2O are in good agreement with observations. In the simulations, anomaly patterns of CH4 and CFC-11 were found to be very similar to those of N2O; for all long-lived tracers, positive anomalies are simulated because of the enhanced tropical upwelling in the easterly shear phase of the quasi-biennial oscillation.