Laura S Epp

University of Konstanz · Department of Biology

Dormancy is a wide-spread key life history trait observed across the tree of life. Many plankton species form dormant cells stages that accumulate in aquatic sediments and under anoxic conditions, form chronological records of past species and population dynamics under changing environmental conditions. Here we report on the germination of a micros...

Global warming is a major threat to marine biodiversity and ecosystem functioning, with consequences that are yet largely unknown. To frame these consequences, we need to understand how marine ecosystems respond to warming and related environmental changes. Ecosystem models have proven to be a valuable tool in this respect, but their projections va...

Many marginal seas had a freshwater phase during the last glaciation. These sediments are often modified by later diagenesis by downward-diffusing ions. Understanding the original processes requires calibration by lacustrine analogues. Lake Constance is one of the largest lakes of Central Europe, and the hard water lake chemistry makes it an ideal...

Marginal sea ecosystems, such as the Baltic Sea, are severely affected by anthropogenic pressures, such as climate warming, pollution, and eutrophication, which increased in the course of the past century. Biodiversity monitoring data and assessment of environmental status in such systems have typically been carried out only for the past few decade...

Sedimentary ancient DNA (sedaDNA) offers an important opportunity for investigating long‐term community dynamics. Nevertheless, sedaDNA is challenging since DNA is degraded and fragmented over time. Of particular interest for such sedaDNA studies are phytoplankton communities, which are sensitive environmental indicators and important producers in...

Placed in a carbonate-rich catchment at the northern foot of the Alps, Lake Constance is one of the largest lakes in Central Europe, and the hard water lake chemistry makes it a natural laboratory to investigate in detail the carbonate formation, preservation, and the interactions with the detrital carbonate fraction, the latter with a major dolomi...

Ancient environmental DNA (aeDNA) from lake sediments has yielded remarkable insights for the reconstruction of past ecosystems, including suggestions of late survival of extinct species. However, translocation and lateral inflow of DNA in sediments can potentially distort the stratigraphic signal of the DNA. Using three different approaches on two...

Marginal sea ecosystems, such as the Baltic Sea, are severely affected by anthropogenic pressures, such as climate warming, pollution, and eutrophication, which increased in the course of the past century. Biodiversity monitoring data and assessment of environmental status in such systems have typically been carried out only for the past few decade...

Ancient environmental DNA (aeDNA) from lake sediments has yielded remarkable insights for the reconstruction of past ecosystems, including suggestions of late survival of extinct species. However, translocation and lateral inflow of DNA in sediments can potentially distort the stratigraphic signal of the DNA. Using three different approaches on two...

Lacustrine carbonates are excellent archives for past environment and climate conditions, due to the climate sensitivity in their formation either as erosional sources of suspended matter or through lake internal processes. At the same time, their reactivity makes them susceptible to diagenetic overprints. Lake Constance, placed in a carbonate-rich...

How does nature change through time and across space? How might it change in the future? While time travel has long been the domain of science fiction, scientists have approached these questions using techniques that examine the traces of the past remaining in today’s environment. The use of ancient environmental DNA (ancient eDNA) is the latest me...

Diatoms (Bacillariophyta) are unicellular eukaryotic algae that contribute largely to the primary production of lakes and oceans and play an important role in global carbon, nitrogen and silica cycles. They are abundant and ubiquitous in almost all aquatic environments, they are particularly sensitive to environmental perturbations and are well pre...

The woolly rhinoceros (Coelodonta antiquitatis) is an iconic species of the Eurasian Pleistocene megafauna, which was abundant in Eurasia in the Pleistocene until its demise beginning approximately 10 000 years ago. Despite the early recovery of several specimens from well-known European archaeological sites, including its type specimen (Blumenbach...

Ancient environmental DNA (aeDNA) from lake sediments has yielded remarkable insights for the reconstruction of past ecosystems, including suggestions of late survival of extinct species. However, translocation and lateral inflow of DNA in sediments can potentially distort the stratigraphic signal of the DNA. Using three different approaches on two...

Ancient environmental DNA (aeDNA) from lake sediments has yielded remarkable insights for the reconstruction of past ecosystems, including suggestions of late survival of extinct species. However, translocation and lateral inflow of DNA in sediments can potentially distort the stratigraphic signal of the DNA. Using three different approaches on two...

Available DNA barcodes of freshwater zooplankton are scarce in regions like the Iberian Peninsula, which harbours many rare and endemic species and is considered a hotspot of crustacean biodiversity. Recently, a new species of Ceriodaphnia (Cladocera: Daphniidae) was described using morphological analysis of specimens in the Mediterranean region an...

The woolly rhinoceros (Coelodonta antiquitatis) is an iconic species of the Eurasian Pleistocene megafauna, which was abundant in Eurasia in the Pleistocene until its demise beginning approximately 10,000 years ago. Despite the early recovery of several specimens from well-known European archaeological sites, including its type specimen (Blumenbach...

Ancient environmental DNA (aeDNA) from lake sediments has yielded remarkable insights for the reconstruction of past ecosystems, including suggestions of late survival of extinct species. However, translocation and lateral inflow of DNA in sediments can potentially distort the stratigraphic signal of the DNA. Using three different approaches on two...

Environmental archives, such as lake sediments, harbour DNA of past and present ecosystems. However, our understanding of the provenance, deposition and distribution of sedimentary DNA in lake systems is largely unknown, limiting the breadth of derived spatiotemporal inferences. By mapping the distribution of aquatic and terrestrial taxa in a large...

Sedimentary ancient DNA ( seda DNA) has proven to be a useful tool for palaeoenvironmental studies, but only a handful of studies exist so far for tropical regions. In this study we used seda DNA to study the temporal succession of Brachionus spp. rotifer mitochondrial DNA haplotypes using two sediment cores from two climatically different alkaline...

Ancient environmental DNA (aeDNA) data are close to enabling insights into past global-scale biodiversity dynamics at unprecedented taxonomic extent and resolution. However, achieving this potential requires solutions that bridge bioinformatics and paleoecoinformatics. Essential needs include support for dynamic taxonomic inferences, dynamic age in...

Successful conservation of cryptic species such as representatives of the genus Cobitis presents a challenge for fishery managers. Only Cobitis taenia L. is currently assumed to occur in southwest Germany, where it is classified as critically endangered. Established genetic markers and eDNA analysis identified three Cobitis species in the study are...

The modern, over 250-m-deep basin of Lake Constance represents the underfilled northern part of an over 400-m-deep, glacially overdeepened trough, which reaches well into the Alps at its southern end. The overdeepening was formed by repeated glacial advance-retreat cycles of the Rhine Glacier throughout the Middle to Late Pleistocene. A seismic sur...

Analyses of sedimentary DNA ( sed DNA) have increased exponentially over the last decade and hold great potential to study the effects of anthropogenic stressors on lake biota over time. Herein, we synthesise the literature that has applied a sed DNA approach to track historical changes in lake biodiversity in response to anthropogenic impacts, wit...

Environmental archives, such as lake sediments, harbor DNA evidence from past and present ecosystems. However, our understanding of the provenance, taphonomy and distribution of sedimentary DNA in lake systems is largely unknown, limiting the breadth of spatiotemporal inferences drawn from it. To address this gap, we studied surface sediments acros...

Climate change has a major impact on arctic and boreal terrestrial ecosystems as warming leads to northward treeline shifts, inducing consequences for heterotrophic organisms associated with the plant taxa. To unravel ecological dependencies, we address how long-term climatic changes have shaped the co-occurrence of plants and fungi across selected...

1. Terrestrial mammals shape their ecosystems, and mammalian community assemblages can be important indicators of ecosystem functioning and ecosystem changes over time. Numerous taxa of terrestrial mammals are currently threatened by habitat loss and face displacement to new geographical areas or systems to which they are less suited and where they...

Abstract Fungi are crucial organisms in most ecosystems as they exert ecological key functions and are closely associated with land plants. Fungal community changes may, therefore, help reveal biodiversity changes in past ecosystems. Lake sediments contain the DNA of organisms in the catchment area, which allows reconstructing past biodiversity by...

Many European lake ecosystems, including their respective catchment areas, underwent anthropogenic environmental changes over the last centuries. This has resulted in changes in the aquatic and terrestrial vegetation, but historical records on the composition of the past vegetation on centennial scale are scarce. In this study, we examined changes...

Invasive, plague-carrying signal crayfish represent a significant threat to imperiled European crayfishes. In the absence of a feasible eradication technique, physical barriers that separate invasive from native crayfish populations have been suggested as management strategy. Here, we investigated the effectiveness of three serial barriers with di...

Climate change has a major impact on arctic and boreal terrestrial ecosystems as warming leads to northward treeline shifts, inducing consequences for heterotrophic organisms associated with the plant taxa. To unravel ecological dependencies, we address how long-term climatic changes have shaped the palaeo-ecosystems at selected sites in Siberia. W...

Fungi are crucial organisms in most ecosystems as they exert ecological key functions and are closely associated with land plants. Fungal community changes may therefore help reveal biodiversity changes in past ecosystems. Lake sediments contain DNA of organisms in the catchment area, which allows reconstructing past biodiversity by using metabarco...

PaleoEcoGen is a new working group that was launched with the aim of bringing together scientists from around the world who use ancient environmental DNA (ancient eDNA) as a novel proxy to examine the response of past biological communities to environmental changes (pastglobalchanges.org/paleoecogen). We are particularly interested in exploiting th...

During the 20th century, many lakes in the Northern Hemisphere were affected by increasing human population and urbanization along their shorelines and catchment, resulting in aquatic eutrophication. Ecosystem monitoring commenced only after the changes became apparent, precluding any examination of timing and dynamics of initial community change i...

Studies along elevational gradients worldwide usually find the highest plant taxa richness in mid-elevation forest belts. Hence, an increase in upper elevation diversity is expected in the course of warming-related treeline rise. Here, we use a time-series approach to infer past taxa richness from sedimentary ancient DNA from the southeastern Tibet...

Since the seminal paper in 1998 (Coolen and Overmann), sedimentary ancient DNA (sedaDNA) has become a powerful tool in paleoecology to reconstruct past changes in terrestrial and aquatic biodiversity. Still, sedaDNA is an emerging tool and there is a need for calibrations and validations to ensure the reliability of sedaDNA as a proxy to reconstruc...

Effective management of both endangered native and invasive alien crayfishes requires knowledge about distribution, monitoring of existing and early detection of newly established populations. Complementary to traditional survey methods, eDNA sampling has recently emerged as a highly sensitive non-invasive detection method to monitor crayfish popul...

Due to similarities in morphological features together with strong dispersal abilities, it was thought that some groups of zooplankton (e.g. rotifers, copepods, and cladocerans) have cosmopolitan distributions. In the particular case of cladocerans, recent molecular studies using DNA barcode regions have indicated a different picture, including the...

Freshwater crayfish are among the most threatened animal taxa in Central Europe. Effective conservation measures for endangered native and management of invasive alien crayfishes requires knowledge about distribution, monitoring of existing and early detection of newly established populations. eDNA has recently emerged as a promsing, highly sensiti...

The use of lake sedimentary DNA to track the long-term changes in both terrestrial and aquatic biota is a rapidly advancing field in paleoecological research. Although largely applied nowadays, knowledge gaps remain in this field and there is therefore still research to be conducted to ensure the reliability of the sedimentary DNA signal. Building...

Siberian larch (Larix Mill.) forests dominate vast areas of northern Russia and contribute important ecosystem services to the world. It is important to understand the past dynamics of larches in order to predict their likely response to a changing climate in the future. Sedimentary ancient DNA extracted from lake sediment cores can serve as archiv...

Aim This study investigates taxonomic and phylogenetic diversity in diatom genera to evaluate assembly rules for eukaryotic microbes across the Siberian tree line. We first analysed how phylogenetic distance relates to taxonomic richness and turnover. Second, we used relatedness indices to evaluate if environmental filtering or competition influenc...

Siberian larch ( Larix Mill.) forests dominate vast areas of northern Russia and contribute important ecosystem services to the world. It is important to understand the past dynamics of larches, in order to predict their likely response to a changing climate in the future. Sedimentary ancient DNA extracted from lake sediment cores can serve as arch...

Larix populations at the tundra-taiga ecotone in northern Siberia are highly under-represented in population genetic studies, possibly due to the remoteness of these regions that can only be accessed at extraordinary expense. The genetic signatures of populations in these boundary regions are therefore largely unknown. We aim to generate organelle...

The past centuries have seen tremendous turnovers in species distributions and biodiversity due to anthropogenic impacts on a global scale. The processes are ongoing and mostly not well documented. Long‐term records of biotic change can be recovered from sedimentary deposits, but traditional analyses were restricted to organisms that leave behind v...

A strong temperature increase in the Arctic is expected to lead to latitudinal treeline shift. This tundra–taiga turnover would cause a positive vegetation–climate feedback due to albedo decrease. However, reliable estimates of tree migration rates are currently lacking due to the complex processes involved in forest establishment, which depend str...

Environmental DNA preserved in sediments is rapidly gaining importance as a tool in paleoecology. Sampling procedures for sedimentary ancient DNA (sedaDNA) have to be well planned to ensure clean subsampling of the inside of sediment cores and avoid introducing contamination. Additionally, ancient DNA extraction protocols may need to be optimized f...

Sedimentary ancient DNA (sedaDNA) has been proven to be a useful tool for paleoenvironmental studies, but only a handful exist for tropical regions. We here present sedaDNA analyses dating back to 1800 AD on two sediment cores from two crater lakes from the Kenyan Rift Valley. These alkaline-saline lakes have experienced different climatic and anth...

Changes in species’ distributions are classically projected based on their climate envelopes. For Siberian forests, which have a tremendous significance for vegetation-climate feedbacks, this implies future shifts of each of the forest-forming larch (Larix) species to the north-east. However, in addition to abiotic factors, reliable projections mus...

A strong temperature increase in the Arctic is expected to lead to latitudinal treeline shift. This tundra-taiga turnover would cause a positive vegetation-climate feedback due to albedo decrease. However, reliable estimates of tree migration rates are currently lacking due to the complex processes involved in forest establishment, which depend str...

Clist et al. (1) challenge our conclusions (2), criticizing our archaeological synthesis to maintain that the late Holocene rainforest crisis (LHRC) in Western Central Africa (WCA) was not triggered by human activity. Clist et al. (1) claim that the archaeological 14C dates we used were not critically evaluated, as we were more concerned with the q...

A potential human footprint on Western Central African rainforests before the Common Era has become the focus of an ongoing controversy. Between 3,000 y ago and 2,000 y ago, regional pollen sequences indicate a replacement of mature rainforests by a forest-savannah mosaic including pioneer trees. Although some studies suggested an anthropogenic inf...

Significance Modern human societies live in strongly altered ecosystems. However, anthropogenic environmental disturbances occurred long before the industrial revolution. About 2,600 y ago, a forest–savannah mosaic replaced dense rainforests in Western Central Africa. This rainforest crisis was previously attributed either to the impact of climate...

Arctic treelines are facing a strong temperature increase as a result of recent global warming, causing possible changes in forest extent, which will alter vegetation-climate feedbacks. However, the mode and strength of the response is rather unclear, as potential changes are happening in areas that are very remote and difficult to access, and empi...

Ecosystem boundaries, such as the Arctic-Boreal treeline, are strongly coupled with climate and were spatially highly dynamic during past glacial-interglacial cycles. Only a few studies cover vegetation changes since the last interglacial, as most of the former landscapes are inundated and difficult to access. Using pollen analysis and sedimentary...

Due to methodological challenges there are only a few studies that focus on macrophyte dynamics in large lakes despite their notable role in a lake’s ecosystem functioning. This study investigates composition and productivity changes of the submerged vegetation of Lake Karakul, Pamir Mountains (Tajikistan), using sedimentary ancient DNA metabarcodi...

Reliable information on past and present vegetation is important to project future changes, especially for rapidly transitioning areas such as the boreal treeline. To study past vegetation, pollen analysis is common, while current vegetation is usually assessed by field surveys. Application of detailed sedimentary DNA (sedDNA) records has the poten...

Arctic and alpine treelines worldwide differ in their reactions to climate change. A northward advance of or densification within the treeline ecotone will likely influence climate-vegetation feedback mechanisms. In our study, which was conducted in the Taimyr Depression in the North Siberian Lowlands, w present a combined field- and model-based ap...

Organic matter deposited in ancient, ice-rich permafrost sediments is vulnerable to climate change and may contribute to the future release of greenhouse gases; it is thus important to get a better characterization of the plant organic matter within such sediments. From a Late Quaternary permafrost sediment core from the Buor Khaya Peninsula, we an...

Organic matter deposited in ancient, ice-rich permafrost sediments is vulnerable to climate change and may contribute to the future release of greenhouse gases; it is thus important to get a better characterization of the plant organic matter within such sediments. From a Late Quaternary permafrost sediment core from the Buor Khaya Peninsula, we an...

Human population expansion and associated degradation of the habitat of many wildlife species cause loss of biodiversity and species extinctions. The small Simen Mountains National Park in Ethiopia is one of the last strongholds for the preservation of a number of afro-alpine mammals, plants and birds, and it is home to the rare endemic Walia ibex,...

Diet molecular operational taxonomic units (MOTUs) detected in the samples. Listed MOTUs were detected more than 10 times in at least one of the two herbivore species. Occurrence refers to the number of sequence reads from the faecal samples of each species. Frequency refers to the number of samples where the MOTUs were detected. (DOCX)

Taxa included in the afro-alpine taxonomic trnL P6 loop reference library version 2.0. Specimen O-DP-30529 ET-0333-1 14.1 in reference library 1.0 [33] was removed as it had been misidentified. Nomenclature follows Flora of Ethiopia and Eritrea and Flora of Tropical East Africa and the APG III [72]. (DOCX)

Individual-based rarefaction curves of diet item sequences retrieved from a) Walia ibex samples and b) domestic goat. (TIF)