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Highlights • Shady is a new open-source cross-platform visual stimulus toolbox for Python. • A compiled engine overcomes Python's deficiencies regarding timing precision. • Effective dynamic range is enhanced automatically via noisy-bit dithering. • Powerful programming tools allow easy real-time stimulus animation—even interactively. • Shady performs well under challenging conditions (sub-optimal systems; multi-tasking). Abstract Background Precise definition, rendering and manipulation of visual stimuli are essential in neuroscience. Rather than implementing these tasks from scratch, scientists benefit greatly from using reusable software routines from freely available toolboxes. Existing toolboxes work well when the operating system and hardware are painstakingly optimized, but may be less suited to applications that require multi-tasking (for example, closed-loop systems that involve real-time acquisition and processing of signals). New method We introduce a new cross-platform visual stimulus toolbox called Shady (https://pypi.org/project/Shady)—so called because of its heavy reliance on a shader program to perform parallel pixel processing on a computer's graphics processor. It was designed with an emphasis on performance robustness in multi-tasking applications under unforgiving conditions. For optimal timing performance, the CPU drawing management commands are carried out by a compiled binary engine. For configuring stimuli and controlling their changes over time, Shady provides a programmer's interface in Python, a powerful, accessible and widely-used high-level programming language. Results Our timing benchmark results illustrate that Shady's hybrid compiled/interpreted architecture requires less time to complete drawing operations, exhibits smaller variability in frame-to-frame timing, and hence drops fewer frames, than pure-Python solutions under matched conditions of resource contention. This performance gain comes despite an expansion of functionality (e.g. "noisy-bit" dithering as standard on all pixels and all frames, to enhance effective dynamic range) relative to previous offerings. Conclusions Shady simultaneously advances the functionality and performance available to scientists for rendering visual stimuli and manipulating them in real time. [ABSTRACT FROM AUTHOR]

Abstract: This study presents two new, well-dated sedimentary pollen and charcoal records from high-altitude crater sites in the Virunga volcanoes, located in the Albertine Rift, central Africa, currently part of one of the world''s most biodiverse areas. Here we argue that Holocene vegetation changes in a ca 8000-year palaeoenvironmental record from a crater swamp at an altitude of 3474 m and a ca 2800-year record from a crater lake at an altitude of 4127 m are linked to variations in both climate and human activity. Climatic changes during the mid- to late Holocene are reflected in the high-altitude sites and more widely in adjacent parts of the Albertine Rift. Vegetation changes, comprising a decline in Ericaceous vegetation at ca 5000 cal yrs BP and subsequent expansion of Afroalpine vegetation, together with a later increase in taxa associated with lower montane forest (particularly Podocarpus), reflect increasing aridity during the mid- to late Holocene. Human-induced environmental change in the Virunga volcanoes is apparent only within the last millennium, despite the long history of human occupation of the area. Both study sites record significant forest clearance at ca 900 cal yrs BP, involving a reduction in lower montane forest taxa and increases in disturbance indicators. Changes in the composition of upper montane forest, and particularly the expansion of Hagenia, are possibly linked to anthropogenic-induced changes in the fire regime, and are apparent from ca 900 cal yrs BP. Human-induced environmental modification from the early part of the last millennium, likely associated with onset of the Late Iron Age, appears to have extended to high altitudes. The importance of natural, long-term climate change as a major cause of environmental change in the Albertine Rift has been eclipsed within the last millennium by human-induced environmental effects. [Copyright &y& Elsevier]

This research reports on a synthesis of radiocarbon (14C) dates and the organic content from a variety of depositional sites in a relatively small region in humid eastern Australia centred on Sydney. We focused on basal dates, changes in accumulation rates and the organic content of these sediment records in the period post-dating 21 thousand years ago to make inferences about past environmental conditions, or to infer the timing of past environmental change. We found that low rates of sediment and organic accumulation at the Last Glacial Maximum continued well into the late Pleistocene. The average rate of sediment deposition and organic content increased from about 14.5 calibrated kiloanni before present (cal ka BP), perhaps coincident with Meltwater Pulse 1A, but this was then checked by dry conditions during the Antarctic Climatic Reversal chronozone. An abrupt increase in the average rate of sediment accumulation coincided with the Pleistocene-Holocene boundary (at 11.7 cal ka BP), and this continued until about 9.2 cal ka BP, largely coinciding with the Antarctic thermal maximum, and probably reflecting reduced moisture availability in the Sydney region. Indication of depressed temperature and a more positive moisture availability, from about 9 to 7.6 cal ka BP, witnessed the fastest increase in the number of sites than at any other time. An overall drier early Holocene abruptly altered at about 7.5 cal ka BP and a mid-Holocene 'optimum' in moisture availability extended to 6.2 cal ka BP. The compilation of organic contents of the mid-late Holocene suggests environmental variability, but El Niño frequency or strength is not implicated as a driving force. Increased organic productivity, especially after 2.8 cal ka BP, corresponded to a peak in summer insolation, and associated seasonality of insolation and this is likely to have resulted in increased, or more consistent, summer rainfall and easterly air flow into the Sydney region. In contrast to previous generalisations about changes in south-eastern Australia during the Holocene, which have often relied on palaeoenvironmental records from further south, the southward migration of the intertropical convergence zone during the Holocene had vastly different synoptic outcomes in the Sydney region, with the early Holocene drier as continental air dominated, and the late Holocene wetter, as the synoptic conditions saw more tropical and easterly airflow. This work demonstrates the danger in making generalisations across regions and highlights the utility of the compilation of data at a homoclimatic, regional scale. • New syntheses of sediment accumulation and organic content from sites centred on the Sydney Basin in eastern Australia. • Challenging conditions continued well after the LGM, and this included a dry Antarctic Climatic Reversal. • The region was drier in the early and wetter in the late Holocene, reflecting the interplay between moisture sources. • The drier early Holocene abruptly ended at ∼7.5 cal ka BP and enhanced moisture availability then extended to 6.2 cal ka BP. • In the late Holocene insolation likely drove increased summer rainfall and easterly air flow into the Sydney region. [ABSTRACT FROM AUTHOR]

Highlights • We find a significant relationship between water-table depth and testate amoebae community structure. • We describe testate amoebae ecology. • We develop statistically robust transfer functions, the first for Australia. • We show that the Modern Analogue Technique provides the best transfer function. • We highlight information provided by species-pruned transfer functions. Abstract Although it is well established that moisture availability in south-eastern Australia has been decreasing through time recently, the driver(s) of this trend are contentious, and our understanding of any drivers is limited by a relatively short historic record. Testate amoebae have been widely used to reconstruct peatland hydrology in the Northern Hemisphere, but in the Southern Hemisphere research is still needed to assess their proficiency as a palaeohydrological proxy and to develop robust transfer functions. Here we examine the ecology of testate amoebae in several high altitude mires in south-eastern Australia and present the first transfer function for the continent. Euglypha tuberculata type , Centropyxis platystoma type and Assulina muscorum were the most common taxa in our modern samples. Water-table depth was the primary environmental variable determining testate amoebae assemblages and therefore transfer functions were developed for this ecological factor. We found that the performance of various all-species and species-pruned transfer functions were statistically robust, with R2 values of around 0.8 and Root Mean Squared Error of Prediction (RMSEP) values of about 7 cm. All cross-validation methods (leave-one-out RMSEP, cluster-bootstrap RMSEP, segment-wise RMSEP and leave-one-site-out RMSEP from all-species and species-pruned transfer functions) suggested that the Modern Analogue Technique (MAT) was the best performing transfer function, with negligible bias evident from un-even sampling and spatial autocorrelation. We also used a new approach to evaluate the importance of taxa and the performance of our transfer functions using species-pruned methods. Our results suggest that the all-species MAT, with an RMSEP of 5.73 and R2 of 0.86, provides the best reconstruction of water-table depth across our sites in south-eastern Australia. [ABSTRACT FROM AUTHOR]

The Ni-Co-(PGE) sulfide deposits of the Thompson Nickel Belt (TNB) in Northern Manitoba, Canada are part of the fifth largest nickel camp in the world based on contained nickel; past production from the TNB deposits is 2500 kt Ni. The Thompson Deposit is located on the eastern and southern flanks of the Thompson Dome structure, which is a re-folded nappe structure formed during collision of the Trans-Hudson Orogen with the Canadian Shield at 1.9–1.7 Ga. The Thompson Deposit is almost entirely hosted by P2 member sulfidic metasedimentary rocks of the Paleoproterozoic Ospwagan Group. Variably serpentinised and altered dunites, peridotites and pyroxenites contain disseminated sulfides and have a spatial association with sediment-hosted Ni sulfides which comprise the bulk of the ore types. These rocks formed from rift-related komatiitic magmas that were emplaced at 1.88 Ga, and subsequently deformed by boudinage, thinning, folding, and stacking. Disseminated sulfide mineralization in the large serpentinised peridotite and dunite intrusions that host the Birchtree and Pipe Ni-Co sulfide deposits typically has 4–6 wt% Ni in 100% sulfide. The disseminated sulfides in the less abundant and much smaller boudinaged serpentinised peridotite and dunite bodies associated with the Thompson Deposit have 7–10 wt% Ni in 100% sulfide. The majority of Thompson Mine sulfides are hosted in the P2 member of the Pipe Formation which is a sulfidic schist developed from a shale prololith; the mineralization in the schist includes both low Ni tenor (<1 wt% Ni in sulfide) and barren sulfide (<200 ppm Ni) and a Ni-enriched sulfide with 1–18 wt% Ni in 100% sulfide. The semi-massive and massive sulfide ores show a similar range in Ni tenor to the metasediment-hosted mineralization, but there are discrete populations with maximum Ni tenors of ∼8, 11 and 13 wt% Ni in 100% sulfide. The variations in Ni tenor are related to the Ni/Co ratio (high Ni/Co correlates with high Ni tenor sulfide) and this relationship is produced by the different Ni/Co ratios in sulfides with a range in proportions of pyrrhotite and pentlandite. Geological models of the ore deposit, host rocks, and sulfide geochemical data in three dimensions reveal that the Thompson Deposit forms an anastomosing domain on the south and east flanks of a first order D3 structure which is the Thompson Dome. In detail, a series of second order doubly-plunging folds on the eastern and southern flank control the geometry of the mineral zones. The position of these folds on the flank of the Thompson Dome is a response to the anisotropy of the host rocks during deformation; ultramafic boudins and layers of massive quartzite in ductile metasedimentary rocks control the geometry of the doubly-plunging F3 structures. The envelope of mineralization is almost entirely contained within the P2 member of the Pipe formation, so the deposit is clearly folded by the first order and second order D3 structures. The sulfides with highest Ni tenor (typically >13 wt% Ni in sulfide) define a systematic trend that mirrors the configuration of the second order doubly-plunging F3 structures on the flanks of the Dome. Although moderate to high Ni tenor mineralization is sometimes localized in fold hinges, more typically the highest Ni tenor mineralization is located on the flanks of the fold structures. There is no indication of the mineralogical and geochemical signatures of sedimentary exhalative or hydrothermal processes in the genesis of the Thompson ores. The primary origin of the mineralization is undoubtedly magmatic and this was a critical stage in the development of economic mineralization. Variations in metal tenor in disseminated sulfides contained in ultramafic rock indicate a higher magma/sulfide ratio in the Thompson parental magma relative to Birchtree and Pipe. The variation in Ni tenor of the semi-massive and massive sulfide broadly supports this conclusion, but the variations in metal tenor in the Thompson ores was likely created partly during deformation. The sequence of rocks was modified by burial and loading of the crust (D2 events) to a peak temperature of 750 °C and pressure of 7.5 kbar. The third major phase of deformation (D3) was a sinistral transpression (D3 event) which generated the dome and basin configuration of the TNB. These conditions allowed for progressive deformation and reformation of pyrrhotite and pentlandite into monosulfide solid solution as pressure and temperature increased; this process is termed sulfide kinesis. Separation of the ductile monosulfide solid solution from granular pentlandite would result in an effective separation of Ni during metamorphism, and the monosulfide solid solution would likely be spread out in the stratigraphy to form a broad halo around the main deposit to produce the low Ni tenor sulfide. Reformation of pentlandite and pyrrhotite after the peak D2 event would explain the broad footprint of the mineral system. The effect of the D3 event at lower pressure and temperature would have been to locally redistribute, deform, and repeat the lenses of sulfide. The understanding of the relationships between petrology, stratigraphy, structure, and geochemistry has assisted in formulating a predictive exploration model that has triggered new discoveries to the north and south of the mine, and provides a framework for understanding ore genesis in deformed terrains and the future exploration of the Thompson Nickel Belt. [ABSTRACT FROM AUTHOR]

Abstract: The tropics are the major source of heat and moisture for the Australasian region. Determining the tropics' response over time to changes in climate forcing mechanisms, such as summer insolation, and the effects of relative sea level on exposed continental shelves during the Last Glacial period, is an ongoing process of re-evaluation. We present a synthesis of climate proxy data from tropical Australasia spanning the last 30,000 years that incorporates deep sea core, coral, speleothem, pollen, charcoal and terrestrial sedimentary records. Today, seasonal variability is governed largely by the annual migration of the inter-tropical convergence zone (ITCZ), influencing this region most strongly during the austral summer. However, the position of the ITCZ has varied through time. Towards the end of Marine Isotope Stage (MIS) 3, conditions were far wetter throughout the region, becoming drier first in the south. Universally cooler land and sea-surface temperature (SST) were characteristic of the Last Glacial Maximum, with drier conditions than previously, although episodic wet periods are noted in the fluvial records of northern Australia. The deglacial period saw warming first in the Coral Sea and then the Indonesian seas, with a pause in this trend around the time of the Antarctic Cold Reversal (c. 14.5 ka), coincident with the flooding of the Sunda Shelf. Wetter conditions occurred first in Indonesia around 17 ka and northern Australia after 14 ka. The early Holocene saw a peak in marine SST to the northwest and northeast of Australia. Modern vegetation was first established on Indonesia, then progressively south and eastward to NE Australia. Flores and the Atherton Tablelands show a dry period around 11.6 ka, steadily becoming wetter through the early Holocene. The mid-late Holocene was punctuated by millennial-scale variability, associated with the El Niño-Southern Oscillation; this is evident in the marine, coral, speleothem and pollen records of the region. [Copyright &y& Elsevier]

Abstract: The Thracian Plain in the SE Balkans was one of the main corridors through which Neolithic agriculture spread into continental Europe. Previous studies have invoked rapid sea-level and climatic changes to explain the timing of agricultural expansion. We present a new record of vegetation, fire and lacustrine sedimentation from Bulgarian Thrace to examine environmental change in this region since the Last Glacial Maximum. Our record indicates the persistence of cold steppe vegetation from ∼37,500 to 17,900 cal. a BP, semidesert vegetation from ∼17,900 to 10,300 cal. a BP, forest-steppe vegetation from ∼10,300 to 8900 cal. a BP, and mixed oak woods from ∼8900 to 4000 cal. a BP, followed by widespread deforestation, burning and grazing. Early-Holocene forest expansion in Bulgarian Thrace closely followed changes in the Black Sea''s regional moisture balance and appears to have been influenced by solar-forced changes in seasonality. We suggest that climatic aridity and/or enhanced seasonality – lasting until at least ∼8900 cal. a BP – could have delayed the spread of early agriculture from the Aegean coast into the continental lowlands of the Balkans and thence into the rest of Europe. [Copyright &y& Elsevier]

The widespread formation of organic rich sediments in south-east Australia during the Holocene (Marine Isotope Stage [MIS] 1) reflects the return of wetter and warmer climates following the Last Glacial Maximum (LGM). Yet, little is known about whether a similar event occurred in the region during the previous interglacial (MIS 5e). A 6.8 m sediment core (#LC2) from the now ephemeral Lake Couridjah, Greater Blue Mountains World Heritage Area, Australia, provides insight into this question. Organic rich sediments associated with both MIS 1 and 5e are identified using 14C and optically stimulated luminescence (OSL) dating techniques. Also apparent are less organic sedimentary units representing MIS 6, 5d and 2 and a large depositional hiatus. Sediment δ13C values (−34 to −26‰) suggests that C 3 vegetation dominates the organic matter source through the entire sequence. The pollen record highlights the prevalence of sclerophyll trees and shrubs, with local hydrological changes driving variations in the abundance of aquatic and lake-margin species. The upper Holocene sediment (0–1.7 m) is rich in organic matter, including high concentrations of total organic carbon (TOC; 20–40%), fine charcoal and macrophyte remains. These sediments are also characterised by a large proportion of epiphytic diatoms and a substantial biogenic component (chironomids and midges). These attributes, combined with low δ13C and δ15N values, and C:N ratios of approximately 20, indicate a stable peat system in a swamp like setting, under the modern/Holocene climate. In comparison, the lower organic rich unit (MIS 5e-d) has less TOC (5–10%), is relatively higher in δ13C and δ15N, and is devoid of macrophyte remains and biogenic material. Characterisation of the organic matter pool using 13C-NMR spectroscopy identified a strong decomposition signal in the MIS 5e organic sediments relative to MIS 1. Thus the observed shifts in δ13C, δ15N and C:N data between the two periods reflects changes in the organic matter pool, driven by decompositional processes, rather than environmental conditions. Despite this, high proportions of aquatic pollen taxa and planktonic diatoms in the MIS 5e–d deposits, and their absence in the Holocene indicates that last interglacial Lake Couridjah was deeper and, or, had more permanent water, than the current one. • New lacustrine sedimentary record for eastern Australia that encompasses the last glacial cycle. • Evidence in the record of wet conditions linked to last two interglacials. • Multi-proxy investigation of environmental conditions across the last glacial cycle. • Novel investigations of soil organic matter (SOM) disentangling decomposition and environmental signatures. • Robust chronological record identifying large depositional hiatus during MIS 4 and 3. [ABSTRACT FROM AUTHOR]