A diverse Pleistocene marsupial trackway assemblage from the Victorian Volcanic Plains, Australia

A diverse assemblage of late Pleistocene marsupial trackways on a lake bed in south-western Victoria provides the first information relating to the gaits and morphology of several megafaunal species, and represents the most speciose and best preserved megafaunal footprint site in Australia. The 60-110 ka volcaniclastic lacustrine sedimentary rocks preserve trackways of the diprotodontid Diprotodon optatum, a macropodid (probably Protemnodon sp.) and a large vombatid (perhaps Ramsayia magna or '. Phascolomys' medius) and possible prints of the marsupial lion, Thylacoleo carnifex. The footprints were imprinted within a short time period, demonstrating the association of the taxa present, rather than the time-averaged accumulations usually observed in skeletal fossil deposits. Individual manus and pes prints are distinguishable in some trackways, and in many cases some digital pad morphology is also present. Several parameters traditionally used to differentiate ichnotaxa, including trackway gauge and the degree of print in-turning relative to the midline, are shown to be subject to significant intraspecific variation in marsupials. Sexual dimorphism in the trackway proportions of Diprotodon, and its potential for occurrence in all large bodied, quadrupedal marsupials, is identified here for the first time

Western Pacific hydroclimate linked to global climate variability over the past two millennia

Interdecadal modes of tropical Pacific ocean-atmosphere circulation have a strong influence on global temperature, yet the extent to which these phenomena influence global climate on multicentury timescales is still poorly known. Here we present a 2,000-year, multiproxy reconstruction of western Pacific hydroclimate from two speleothem records for southeastern Indonesia. The composite record shows pronounced shifts in monsoon rainfall that are antiphased with precipitation records for East Asia and the central-eastern equatorial Pacific. These meridional and zonal patterns are best explained by a poleward expansion of the Australasian Intertropical Convergence Zone and weakening of the Pacific Walker circulation (PWC) between ~1000 and 1500 CE Conversely, an equatorward contraction of the Intertropical Convergence Zone and strengthened PWC occurred between ~1500 and 1900 CE. Our findings, together with climate model simulations, highlight the likelihood that century-scale variations in tropical Pacific climate modes can significantly modulate radiatively forced shifts in global temperature

Hydroclimate of the Last Glacial Maximum and deglaciation in southern Australia's arid margin interpreted from speleothem records (23-15 ka)

Terrestrial data spanning the Last Glacial Maximum (LGM) and deglaciation from the southern Australian region are sparse and limited to discontinuous sedimentological and geomorphological records with relatively large chronological uncertainties. This dearth of records has hindered a critical assessment of the role of the Southern Hemisphere mid-latitude westerly winds on the region's climate during this time period. In this study, two precisely dated speleothem records for Mairs Cave, Flinders Ranges, are presented, providing for the first time a detailed terrestrial hydroclimatic record for the southern Australian drylands during 23-15 ka. Recharge to Mairs Cave is interpreted from the speleothem record by the activation of growth, physical flood layering, and δ18O and δ13C minima. Periods of lowered recharge are indicated by 18O and 13C enrichment, primarily affecting δ18O, argued to be driven by evaporation of shallow soil/epikarst water in this water-limited environment. A hydrological driver is supported by calcite fabric changes. These include the presence of laminae, visible organic colloids, and occasional dissolution features, related to recharge, as well as the presence of sediment bands representing cave floor flooding. A shift to slower-growing, more compact calcite and an absence of lamination is interpreted to represent reduced recharge. The Mairs Cave record indicates that the Flinders Ranges were relatively wet during the LGM and early deglaciation, particularly over the interval 18.9-15.8 ka. This wetter phase ended abruptly with a shift to drier conditions at 15.8 ka. These findings are in agreement with the geomorphic archives for this region, as well as the timing of events in records from the broader Australasian region. The recharge phases identified in the Mairs Cave record are correlated with, but antiphase to, the position of the westerly winds interpreted from marine core MD03-2611, located 550 km south of Mairs Cave in the Murray Canyons region. The implication is that the mid-latitude westerlies are located further south during the period of enhanced recharge in the Mairs Cave record (18.9-16 ka) and conversely are located further north when greater aridity is interpreted in the speleothem record. A further comparison with speleothem records from the northern Australasian region reveals that the availability of tropical moisture is the most likely explanation driving enhanced recharge, with further amplification of recharge occurring during the early half of Heinrich Stadial 1 (HS1), possibly influenced by a more southerly displaced Intertropical Convergence Zone (ITCZ). A rapid transition to aridity at 15.8 ka is consistent with a retraction of this tropical moisture source.The stable isotope measurements on MC-S1 and MC-S2 were supported by Australian Research Council LIEF grants LE0989624 and LE0668400, and U-Th age measurements by Australian Research Council LIEF grant LE098906

Magnesium in subaqueous speleothems as a potential palaeotemperature proxy

Few palaeoclimate archives beyond the polar regions preserve continuous and datable palaeotemperature proxy time series over multiple glacial-interglacial cycles. This hampers efforts to develop a more coherent picture of global patterns of past temperatures. Here we show that Mg concentrations in a subaqueous speleothem from an Italian cave track regional sea-surface temperatures over the last 350,000 years. The Mg shows higher values during warm climate intervals and converse patterns during cold climate stages. In contrast to previous studies, this implicates temperature, not rainfall, as the principal driver of Mg variability. The depositional setting of the speleothem gives rise to Mg partition coefficients that are more temperature dependent than other calcites, enabling the effect of temperature change on Mg partitioning to greatly exceed the effects of changes in source-water Mg/Ca. Subaqueous speleothems from similar deep-cave environments should be capable of providing palaeotemperature information over multiple glacial-interglacial cycles

The age of homo naledi and associated sediments in the rising star cave, South Africa

New ages for flowstone, sediments and fossil bones from the Dinaledi Chamber are presented. We combined optically stimulated luminescence dating of sediments with U-Th and palaeomagnetic analyses of flowstones to establish that all sediments containing Homo naledi fossils can be allocated to a single stratigraphic entity (sub-unit 3b), interpreted to be deposited between 236 ka and 414 ka. This result has been confirmed independently by dating three H. naledi teeth with combined U-series and electron spin resonance (US-ESR) dating. Two dating scenarios for the fossils were tested by varying the assumed levels of222Rn loss in the encasing sediments: a maximum age scenario provides an average age for the two least altered fossil teeth of 253 +82/-70 ka, whilst a minimum age scenario yields an average age of 200 +70/-61 ka. We consider the maximum age scenario to more closely reflect conditions in the cave, and therefore, the true age of the fossils. By combining the US-ESR maximum age estimate obtained from the teeth, with the U-Th age for the oldest flowstone overlying Homo naledi fossils, we have constrained the depositional age of Homo naledi to a period between 236 ka and 335 ka. These age results demonstrate that a morphologically primitive hominin, Homo naledi, survived into the later parts of the Pleistocene in Africa, and indicate a much younger age for the Homo naledi fossils than have previously been hypothesized based on their morphologyWe would also like to thank the many funding agencies that supported various aspects of this work. In particular we would like to thank the National Geographic Society, the National Research Foundation and the Lyda Hill Foundation for significant funding of the discovery, recovery and initial analysis of this material. Further support was provided by ARC (DP140104282: PHGMD, ER, JK, HHW; FT 120100399: AH). The ESR dosimetry study undertaken by CENIEH and Griffith University has been supported by a Marie Curie International Outgoing Fellowship (under REA Grant Agreement n˚ PIOF-GA-2013–626474) of the European Union’s Seventh Framework Programme (FP7/2007-2013) and an Australian Research Council Future Fellowship (FT150100215). ESR and U-series dating undertaken at SCU were supported by ARC (DP140100919: RJB)

Interpreting canopy development and physiology using the EUROPhen camera network at flux sites

Peer reviewe

Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples

Funder: NCI U24CA211006Abstract: The Cancer Genome Atlas (TCGA) and International Cancer Genome Consortium (ICGC) curated consensus somatic mutation calls using whole exome sequencing (WES) and whole genome sequencing (WGS), respectively. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, which aggregated whole genome sequencing data from 2,658 cancers across 38 tumour types, we compare WES and WGS side-by-side from 746 TCGA samples, finding that ~80% of mutations overlap in covered exonic regions. We estimate that low variant allele fraction (VAF < 15%) and clonal heterogeneity contribute up to 68% of private WGS mutations and 71% of private WES mutations. We observe that ~30% of private WGS mutations trace to mutations identified by a single variant caller in WES consensus efforts. WGS captures both ~50% more variation in exonic regions and un-observed mutations in loci with variable GC-content. Together, our analysis highlights technological divergences between two reproducible somatic variant detection efforts

The challenge of direct dating old human fossils

This paper reviews the possible approaches for dating of human bones and teeth, older than 500,000. years. Skeletal tissues can, in principle, be dated with an open-system U-series approach, which requires that the Th/U activity ratio is still below equilibrium. This indicates that the sample experienced continuing U-uptake. To gain insights about the state of U-series isotopes in old samples, laser ablation ICP-MS analysis was used for the detailed mapping of U-series isotopes in a 1.2. Ma old horse tooth from the archaeological site of Fuente Nueva III (Orce, Andalusia, Spain). The maps show a complex system of U-migration in and out of the dental tissues. There are clearly domains in the dentine of the tooth where the Th/U ratios indicate continuing U-accumulation. These domains could be extracted and used for open-system U-series dating. Firstly, the diffusion-adsorption model could be applied for open-system U-series dating of bones well beyond one million years. The practical difficulty of this approach is whether there are actually any old samples that conform to the D-A model. The horse tooth from Fuente Nueva III, for example, was definitely not suitable for D-A dating. Secondly, a combination of Th/U-Pa/U dating could be applied on bones. When calculating open-system Th/U-Pa/U isotope evolution diagrams with isochrons, it turns out that dating is theoretically possible to perhaps one million years. However, even the presently most precise analytical results would be associated with errors that will prevent dating beyond about 600-700. ka, because the isochrons beyond this time range become very tightly spaced. Lastly, a combination of ESR and U-series analyses can be used in ideal circumstances for dating teeth up to several millions of years of age

High resolution LA-ICP-MS mapping of U and Th isotopes in an early Pleistocene equid tooth from Fuente Nueva-3 (Orce, Andalusia, Spain)

We have produced detailed maps of U and Th isotopes for three cross-sections of an Early Pleistocene equid tooth from the archaeological site of Fuente Nueva-3 (Orce, Andalusia, Spain). This permits us to visualise, for the first time, U migration processes in 3 dimensions. The tooth shows a concentration gradient from the top to the base, indicating the U profile had not equilibrated after >1 Ma. The spatial pattern of230Th/234U and234U/238U indicates complex U-mobilisation processes over the last 100 ka, dominated by small-scale redistribution of U. Leaching from the tooth through the pulp cavity started at least 93 ka ago with several later phases in various domains of the dentine and cement. This leaching event could have been triggered by changes in the local hydrological regime associated with periods of increased erosion in the Guadix-Baza basin. The results illustrate the difficulty of dating faunal material from Early Pleistocene sites. They also demonstrate that dental tissues can neither be considered as homogeneous media for U-diffusion, nor behave as closed systems for U-series isotopes because diagenetic alterations seem to trigger U-migration. The results do not support the notion that U-uptake into dental tissues is necessarily of short duration. Nevertheless, rapid laser ablation scanning can be used to identify suitable samples for dating as well as domains within the teeth that may have preserved original isotopic signatures, i.e. domains that have not been affected by recent U-mobilisation process