Western Beringia and beyond - three decades of German-Russian paleoenvironmental research on Siberian permafrost

With first joint fieldwork on Taymyr Peninsula during mid-1990s, a successful cooperation of German, Russian, and further international partners on permafrost and Quaternary palaeoenvironments in Siberia was started and resulted in extensive joint research for 3 decades. Studies of permafrost deposits and ground ice provided insights on past environmental and climatic changes, covering several hundreds of thousands of years into the past. They provide multi-proxy evidence for multiple glacial/interglacial cycles and different periods of past climate change or stability in Arctic land environments. Study objects were natural permafrost exposures along coastal sections, thaw slumps, and river banks, studied mostly during summers, complemented by permafrost cores from land, lake and sea ground drilled mostly in spring. Exposure geometry and stratigraphic horizon thickness have been surveyed using laser tachymetry, other measuring equipment, and drones. Based on multi-proxy analyses, mid- and late Quaternary periods were studied, resulting in >300 scientific papers. The approach includes geomorphic studies, various geochronological analyses, analysis of frozen sediments (for ice, carbon, nitrogen, and carbonate contents, grain-size parameters, magnetic susceptibility, heavy mineral compositions), ground ice (stable water isotopes, major ions) and of numerous fossil bioindicators, to reconstruct the Quaternary paleoenvironmental change. Oldest permafrost horizons were dated from the Batagay mega-thaw-slump (Yana Uplands) to about 650 ky with luminescence dating. Here and elsewhere, records of Eemian and Holocene interglacial periods, and environmental conditions associated with it were targeted. Many sites with late Pleistocene Yedoma Ice Complex have been explored. Lateglacial and Holocene warming induced enormous periglacial landscape changes by widespread permafrost degradation and substantial paleoecological changes. For vast Siberian areas where glacial records are not available, we aim on the establishment of permafrost as paleoclimatic archive, emphasizing peculiarities of permafrost age control and record resolution and stressing the great potential for understanding climate variability on glacial-interglacial timescales in Western Beringia

Facilitating tree-ring dating of historic conifer timbers using Blue Intensity

The Scottish pine network expansion has been an ongoing task since 2006 and funding must be acknowledged to the following projects: EU project ‘Millennium’ (017008-2), Leverhulme Trust project ‘RELiC: Reconstructing 8000 years of Environmental and Landscape change in the Cairngorms (F/00268/BG)’, the Native Oak and Pine project or ‘NOAP’ (Historic Scotland) and the NERC project ‘SCOT2K:Reconstructing 2000 years of Scottish climate from tree rings (NE/K003097/1)’. Further PhD funding for Milos Rydval is acknowledged from The Carnegie Trust.Dendroarchaeology almost exclusively uses ring-width (RW) data for dating historical structures and artefacts. Such data can be used to date tree-ring sequences when regional climate dominates RW variability. However, the signal in RW data can be obscured due to site specific ecological influences (natural and anthropogenic) that impact crossdating success. In this paper, using data from Scotland, we introduce a novel tree-ring parameter (Blue Intensity – BI) and explore its utility for facilitating dendro historical dating of conifer samples. BI is similar to latewood density as they both reflect the combined hemicellulose, cellulose and lignin content in the latewood cell walls of conifer species and the amount of these compounds is strongly controlled, at least for trees growing in temperature limited locations, by late summer temperatures. BI not only expresses a strong climate signal, but is also less impacted by site specific ecological influences. It can be concurrently produced with RW data from images of finely sanded conifer samples but at a significantly reduced cost compared to traditional latewood density. Our study shows that the probability of successfully crossdating historical samples is greatly increased using BI compared to RW. Furthermore, due to the large spatial extent of the summer temperature signal expressed by such data, a sparse multi-species conifer network of long BI chronologies across Europe could be used to date and loosely provenance imported material.PostprintPeer reviewe

Population dynamics and genetic connectivity in recent chimpanzee history

The European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 864203) (to T.M.-B.). BFU2017-86471-P (MINECO/FEDER, UE) (to T.M.-B.). “Unidad de Excelencia María de Maeztu”, funded by the AEI (CEX2018-000792-M) (to T.M.-B.). Howard Hughes International Early Career (to T.M.-B.). NIH 1R01HG010898-01A1 (to T.M.-B.). Secretaria d’Universitats i Recerca and CERCA Program del Departament d’Economia i Coneixement de la Generalitat de Catalunya (GRC 2017 SGR 880) (to T.M.-B.). UCL’s Wellcome Trust ISSF3 award 204841/Z/16/Z (to A.M.A. and J.M.S.). Generalitat de Catalunya (2017 SGR-1040) (to M. Llorente). Wellcome Trust Investigator Award 202802/Z/16/Z (to D.A.H.). The Pan African Program: The Cultured Chimpanzee (PanAf) is generously funded by the Max Planck Society, the Max Planck Society Innovation Fund, and the Heinz L. Krekeler Foundation.Knowledge on the population history of endangered species is critical for conservation, but whole-genome data on chimpanzees (Pan troglodytes) is geographically sparse. Here, we produced the first non-invasive geolocalized catalog of genomic diversity by capturing chromosome 21 from 828 non-invasive samples collected at 48 sampling sites across Africa. The four recognized subspecies show clear genetic differentiation correlating with known barriers, while previously undescribed genetic exchange suggests that these have been permeable on a local scale. We obtained a detailed reconstruction of population stratification and fine-scale patterns of isolation, migration, and connectivity, including a comprehensive picture of admixture with bonobos (Pan paniscus). Unlike humans, chimpanzees did not experience extended episodes of long-distance migrations, which might have limited cultural transmission. Finally, based on local rare variation, we implement a fine-grained geolocalization approach demonstrating improved precision in determining the origin of confiscated chimpanzees.Publisher PDFPeer reviewe

Mutations in KEOPS-Complex Genes Cause Nephrotic Syndrome with Primary Microcephaly

Galloway-Mowat syndrome (GAMOS) is an autosomal-recessive disease characterized by the combination of early-onset nephrotic syndrome (SRNS) and microcephaly with brain anomalies. Here we identified recessive mutations in OSGEP, TP53RK, TPRKB, and LAGE3, genes encoding the four subunits of the KEOPS complex, in 37 individuals from 32 families with GAMOS. CRISPR-Cas9 knockout in zebrafish and mice recapitulated the human phenotype of primary microcephaly and resulted in early lethality. Knockdown of OSGEP, TP53RK, or TPRKB inhibited cell proliferation, which human mutations did not rescue. Furthermore, knockdown of these genes impaired protein translation, caused endoplasmic reticulum stress, activated DNA-damage-response signaling, and ultimately induced apoptosis. Knockdown of OSGEP or TP53RK induced defects in the actin cytoskeleton and decreased the migration rate of human podocytes, an established intermediate phenotype of SRNS. We thus identified four new monogenic causes of GAMOS, describe a link between KEOPS function and human disease, and delineate potential pathogenic mechanisms

Recent genetic connectivity and clinal variation in chimpanzees.

Funder: Max-Planck-Gesellschaft (Max Planck Society); doi: https://doi.org/10.13039/501100004189Funder: Max Planck Society Innovation Fund Heinz L. Krekeler FoundationMuch like humans, chimpanzees occupy diverse habitats and exhibit extensive behavioural variability. However, chimpanzees are recognized as a discontinuous species, with four subspecies separated by historical geographic barriers. Nevertheless, their range-wide degree of genetic connectivity remains poorly resolved, mainly due to sampling limitations. By analyzing a geographically comprehensive sample set amplified at microsatellite markers that inform recent population history, we found that isolation by distance explains most of the range-wide genetic structure of chimpanzees. Furthermore, we did not identify spatial discontinuities corresponding with the recognized subspecies, suggesting that some of the subspecies-delineating geographic barriers were recently permeable to gene flow. Substantial range-wide genetic connectivity is consistent with the hypothesis that behavioural flexibility is a salient driver of chimpanzee responses to changing environmental conditions. Finally, our observation of strong local differentiation associated with recent anthropogenic pressures portends future loss of critical genetic diversity if habitat fragmentation and population isolation continue unabated

Quantitative estimates of glacial refugia for chimpanzees (Pan troglodytes) since the Last Interglacial (120,000 BP).

Paleoclimate reconstructions have enhanced our understanding of how past climates have shaped present-day biodiversity. We hypothesize that the geographic extent of Pleistocene forest refugia and suitable habitat fluctuated significantly in time during the late Quaternary for chimpanzees (Pan troglodytes). Using bioclimatic variables representing monthly temperature and precipitation estimates, past human population density data, and an extensive database of georeferenced presence points, we built a model of changing habitat suitability for chimpanzees at fine spatio-temporal scales dating back to the Last Interglacial (120,000 BP). Our models cover a spatial resolution of 0.0467° (approximately 5.19 km2 grid cells) and a temporal resolution of between 1000 and 4000 years. Using our model, we mapped habitat stability over time using three approaches, comparing our modeled stability estimates to existing knowledge of Afrotropical refugia, as well as contemporary patterns of major keystone tropical food resources used by chimpanzees, figs (Moraceae), and palms (Arecacae). Results show habitat stability congruent with known glacial refugia across Africa, suggesting their extents may have been underestimated for chimpanzees, with potentially up to approximately 60,000 km2 of previously unrecognized glacial refugia. The refugia we highlight coincide with higher species richness for figs and palms. Our results provide spatio-temporally explicit insights into the role of refugia across the chimpanzee range, forming the empirical foundation for developing and testing hypotheses about behavioral, ecological, and genetic diversity with additional data. This methodology can be applied to other species and geographic areas when sufficient data are available

Author Correction: Environmental variability supports chimpanzee behavioural diversity

A Correction to this paper has been published: https://doi.org/10.1038/s41467-021-21010-z

Environmental variability supports chimpanzee behavioural diversity.

Funder: Max-Planck-Gesellschaft (Max Planck Society); doi: https://doi.org/10.13039/501100004189Funder: Heinz L. Krekeler FoundationLarge brains and behavioural innovation are positively correlated, species-specific traits, associated with the behavioural flexibility animals need for adapting to seasonal and unpredictable habitats. Similar ecological challenges would have been important drivers throughout human evolution. However, studies examining the influence of environmental variability on within-species behavioural diversity are lacking despite the critical assumption that population diversification precedes genetic divergence and speciation. Here, using a dataset of 144 wild chimpanzee (Pan troglodytes) communities, we show that chimpanzees exhibit greater behavioural diversity in environments with more variability - in both recent and historical timescales. Notably, distance from Pleistocene forest refugia is associated with the presence of a larger number of behavioural traits, including both tool and non-tool use behaviours. Since more than half of the behaviours investigated are also likely to be cultural, we suggest that environmental variability was a critical evolutionary force promoting the behavioural, as well as cultural diversification of great apes

Human impact erodes chimpanzee behavioral diversity

Chimpanzees possess a large number of behavioral and cultural traits among nonhuman species. The “disturbance hypothesis” predicts that human impact depletes resources and disrupts social learning processes necessary for behavioral and cultural transmission. We used a dataset of 144 chimpanzee communities, with information on 31 behaviors, to show that chimpanzees inhabiting areas with high human impact have a mean probability of occurrence reduced by 88%, across all behaviors, compared to low-impact areas. This behavioral diversity loss was evident irrespective of the grouping or categorization of behaviors. Therefore, human impact may not only be associated with the loss of populations and genetic diversity, but also affects how animals behave. Our results support the view that “culturally significant units” should be integrated into wildlife conservation

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