Late Quaternary dynamics of Arctic biota from ancient environmental genomics

During the last glacial-interglacial cycle, Arctic biotas experienced substantial climatic changes, yet the nature, extent and rate of their responses are not fully understood1-8. Here we report a large-scale environmental DNA metagenomic study of ancient plant and mammal communities, analysing 535 permafrost and lake sediment samples from across the Arctic spanning the past 50,000 years. Furthermore, we present 1,541 contemporary plant genome assemblies that were generated as reference sequences. Our study provides several insights into the long-term dynamics of the Arctic biota at the circumpolar and regional scales. Our key findings include: (1) a relatively homogeneous steppe-tundra flora dominated the Arctic during the Last Glacial Maximum, followed by regional divergence of vegetation during the Holocene epoch; (2) certain grazing animals consistently co-occurred in space and time; (3) humans appear to have been a minor factor in driving animal distributions; (4) higher effective precipitation, as well as an increase in the proportion of wetland plants, show negative effects on animal diversity; (5) the persistence of the steppe-tundra vegetation in northern Siberia enabled the late survival of several now-extinct megafauna species, including the woolly mammoth until 3.9 ± 0.2 thousand years ago (ka) and the woolly rhinoceros until 9.8 ± 0.2 ka; and (6) phylogenetic analysis of mammoth environmental DNA reveals a previously unsampled mitochondrial lineage. Our findings highlight the power of ancient environmental metagenomics analyses to advance understanding of population histories and long-term ecological dynamics.

Tectonic and climatic drivers of Asian monsoon evolution

Asian Monsoon rainfall supports the livelihood of billions of people, yet the relative importance of different drivers remains an issue of great debate. Here, we present 30 million-year model-based reconstructions of Indian summer monsoon and South East Asian monsoon rainfall at millennial resolution. We show that precession is the dominant direct driver of orbital variability, although variability on obliquity timescales is driven through the ice sheets. Orographic development dominated the evolution of the South East Asian monsoon, but Indian summer monsoon evolution involved a complex mix of contributions from orography (39%), precession (25%), atmospheric CO2 (21%), ice-sheet state (5%) and ocean gateways (5%). Prior to 15 Ma, the Indian summer monsoon was broadly stable, albeit with substantial orbital variability. From 15 Ma to 5 Ma, strengthening was driven by a combination of orography and glaciation, while closure of the Panama gateway provided the prerequisite for the modern Indian summer monsoon state through a strengthened Atlantic meridional overturning circulation.

A Major Change in Rate of Climate Niche Envelope Evolution during Hominid History

Homo sapiens is the only species alive able to take advantage of its cognitive abilities to inhabit almost all environments on Earth. Humans are able to culturally construct, rather than biologically inherit, their occupied climatic niche to a degree unparalleled within the animal kingdom. Precisely, when hominins acquired such an ability remains unknown, and scholars disagree on the extent to which our ancestors shared this same ability. Here, we settle this issue using fine-grained paleoclimatic data, extensive archaeological data, and phylogenetic comparative methods. Our results indicate that whereas early hominins were forced to live under physiologically suitable climatic conditions, with the emergence of H. heidelbergensis, the Homo climatic niche expanded beyond its natural limits, despite progressive harshening in global climates. This indicates that technological innovations providing effective exploitation of cold and seasonal habitats predated the emergence of Homo sapiens.

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Homo sapiens oversteps our ecological niche limits by means of culture

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The origin of Homo niche-construction ability is unknown

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We found Homo species other than H. sapiens were able to construct their own niche

Quantitative genetics of body size evolution on islands: an individual-based simulation approach

According to the island rule, small-bodied vertebrates will tend to evolve larger body size on islands, whereas the opposite happens to large-bodied species. This controversial pattern has been studied at the macroecological and biogeographical scales, but new developments in quantitative evolutionary genetics now allow studying the island rule from a mechanistic perspective. Here, we develop a simulation approach based on an individual-based model to model body size change on islands as a progressive adaptation to a moving optimum, determined by density-dependent population dynamics. We applied the model to evaluate body size differentiation in the pigmy extinct hominin Homo floresiensis, showing that dwarfing may have occurred in only about 360 generations (95% CI ranging from 150 to 675 generations). This result agrees with reports suggesting rapid dwarfing of large mammals on islands, as well as with the recent discovery that small-sized hominins lived in Flores as early as 700 kyr ago. Our simulations illustrate the power of analysing ecological and evolutionary patterns from an explicit quantitative genetics perspective.

Modeling the ecology and evolution of biodiversity: Biogeographical cradles, museums, and graves

Individual processes shaping geographical patterns of biodiversity are increasingly understood, but their complex interactions on broad spatial and temporal scales remain beyond the reach of analytical models and traditional experiments. To meet this challenge, we built a spatially explicit, mechanistic simulation model implementing adaptation, range shifts, fragmentation, speciation, dispersal, competition, and extinction, driven by modeled climates of the past 800,000 years in South America. Experimental topographic smoothing confirmed the impact of climate heterogeneity on diversification. The simulations identified regions and episodes of speciation (cradles), persistence (museums), and extinction (graves). Although the simulations had no target pattern and were not parameterized with empirical data, emerging richness maps closely resembled contemporary maps for major taxa, confirming powerful roles for evolution and diversification driven by topography and climate.

Emulating global climate change impacts on crop yields

The potential effects of climate change on the environment and society are many. In order to effectively quantify the uncertainty associated with these effects, highly complex simulation models are run with detailed representations of ecosystem processes. These models are computationally expensive and can involve a computer run of several days. Computationally cheaper models can be obtained from large ensembles of simulations using statistical emulation. The purpose of this article is to construct a cheaper computational model (emulator) from simulations of the Lund-Potsdam-Jena managed Land (LPJmL), which is a dynamic global vegetation and crop model. This article focuses on statistical emulation of potential crop yields from LPJmL and an emulator is constructed using a combination of ordinary least squares, principal component analysis and weighted least squares methods. For five climate models, under cross-validation, the percentage of variance explained ranges from 60 to 88% for the rainfed crops and 62 to 93% for the irrigated crops. The emulator can be used to predict potential crop yield change under any future climate scenarios and management options.

Similar meltwater contributions to glacial sea level changes from Antarctic and northern ice sheets

The period between 75,000 and 20,000 years ago was characterized by high variability in climate and sea level. Southern Ocean records of ice-rafted debris suggest a significant contribution to the sea level changes from melt water of Antarctic origin, in addition to likely contributions from northern ice sheets, but the relative volumes of melt water from northern and southern sources have yet to be established. Here we simulate the first-order impact of a range of relative meltwater releases from the two polar regions on the distribution of marine oxygen isotopes, using an intermediate complexity model. By comparing our simulations with oxygen isotope data from sediment cores, we infer that the contributions from Antarctica and the northern ice sheets to the documented sea level rises between 65,000 and 35,000 years ago were approximately equal, each accounting for a rise of about 15 m. The reductions in Antarctic ice volume implied by our analysis are comparable to that inferred previously for the Antarctic contribution to meltwater pulse 1A (refs 16, 17), which occurred about 14,200 years ago, during the last deglaciation.

The effect of mental effort on open- and closed-loop accommodation

The accommodative response to stimuli in normal visual environments is determined by a complex and subtle integration of optical and non-optical factors. Mental effort associated with the visual task can modify significantly the steady-state accommodative level, but, owing to the diversity of experimental designs, there is no clear consensus on the mechanisms involved. Changes in the accommodation response of ten emmetropic subjects (mean (+/- SD) age = 20.4 +/- 4.5 years) under open- and closed-loop conditions were investigated for three levels of mental activity. (1) A passive task whereby subjects simply read letters to themselves. (2) A stimulus-dependent task (SDT) whereby subjects are instructed to respond only when the letter 'e' appears in one of a series of presentations. (3) A stimulus-independent task (SIT) whereby subjects count backwards in sevens to themselves while viewing the target. An objective infra-red (IR) optometer was used in its static mode of operation to make monocular measurements of accommodation under monocular viewing conditions. Open-loop conditions were achieved by placing a pinhole (0.5 mm diameter), drilled into an IR filter, 12 mm in front of the eye. Under closed-loop conditions the mean accommodation response for passive viewing of the near target was +3.08 D. A significant (F = 5.45 d.f. 9,18 P less than 0.005) accommodative shift induced by mental effort in the mean response of +0.17 D occurred for the SDT. The SIT induced a mean shift of -0.05 D which was not significantly different to the passive viewing response.(ABSTRACT TRUNCATED AT 250 WORDS)