Biology subjects

Wolf, S.

Publications and source records attributed to Wolf, S..

6 recordsLinked to original sources

bioRxiv2018

Enemy release mitigates inbreeding depression in native and invasive Silene latifolia populations: experimental insight into the role of inbreeding x environment interactions in invasion success

Inbreeding and enemy infestation are common in plants and can synergistically reduce their performance. This inbreeding x environment (IxE) interaction may be of particular importance for the success of plant invasions if introduced populations experience a release from attack by natural enemies relative to their native conspecifics. Using native and invasive plant populations, we investigate whether inbreeding affects infestation damage, whether inbreeding depression in performance is mitigated by enemy release and whether genetic differentiation among native and invasive plants modifies these IxE interactions. We used the plant invader Silene latifolia and its natural enemies as a study system. We performed two generations of experimental out- and inbreeding within eight native (European) and eight invasive (North American) S. latifolia populations under controlled conditions using field-collected seeds. Subsequently, we exposed the offspring to an enemy exclusion and inclusion treatment in a common garden in the species native range to assess the interactive effects of population origin (range), breeding treatment and enemy treatment on infestation damage as well as plant performance. Inbreeding increased flower and leaf infestation damage in plants from both ranges, but had opposing effects on fruit damage in native versus invasive plants. Both inbreeding and enemy infestation had negative effects on plant performance, whereby inbreeding depression in fruit number was higher in enemy inclusions than exclusions in plants from both ranges. Moreover, the magnitude of inbreeding depression in fruit number was lower in invasive than native populations. Our results support that inbreeding increases enemy susceptibility of S. latifolia, which magnifies inbreeding depression in the presence of enemies. Enemy release in the invaded habitat may thus increase the persistence of inbred founder populations and thereby contribute to successful invasion. Moreover, our findings emphasize that genetic differentiation among native and invasive plants can shape the magnitude and even the direction of inbreeding effects.

evolutionary biology↗

bioRxiv2018

Marine mammals and sea turtles listed under the U.S. Endangered Species Act are recovering

The U.S. Endangered Species Act (ESA) is the worlds strongest environmental law protecting imperiled plants and animals, and a growing number of marine species have been protected under this law as extinction risk in the oceans has increased. Marine mammals and sea turtles comprise 36% of the 161 ESA-listed marine species, yet analyses of recovery trends after listing are lacking. Here we gather the best available annual population estimates for all marine mammals (n=33) and sea turtles (n=29) listed under the ESA as species. Of these, we quantitatively analyze population trends, magnitude of population change, and recovery status for representative populations of 23 marine mammals and 9 sea turtles, which were listed for more than five years, occur in U.S. waters, and have data of sufficient quality and span of time for trend analyses. Using generalized linear and non-linear models, we found that 78% of marine mammals (n=18) and 78% of sea turtles (n=7) significantly increased after listing; 13% of marine mammals (n=3) and 22% of sea turtles (n=2) showed non-significant changes; while 9% of marine mammals (n=2), but no sea turtles declined after ESA protection. Overall, species with populations that increased in abundance were listed for 20 years or more (e.g., large whales, manatees, and sea turtles). Conservation measures triggered by ESA listing such as ending exploitation, tailored species management, and fishery regulations, among others, appear to have been largely successful in promoting species recovery, leading to the delisting of some species and to increases in most. These findings underscore the capacity of marine mammals and sea turtles to recover from substantial population declines when conservation actions under the ESA are implemented in a timely and effective manner.

ecology↗

bioRxiv2018

Integration of Brassinosteroid and Phytosulfokine Signalling Controls Vascular Cell Fate in the Arabidopsis Root

Multicellularity arose independently in plants and animals, but invariably requires robust determination and maintenance of cell fate. This is exemplified by the highly specialized water-and nutrient-conducting cells of the plant vasculature, which are specified long before their commitment to terminal differentiation. Here, we show that the hormone receptor BRASSINOSTEROID INSENSITIVE 1 (BRI1) is required for root vascular cell fate maintenance, as BRI1 mutants show ectopic xylem in procambial position. However, this phenotype is unrelated to classical brassinosteroid signalling outputs. Instead, BRI1 is required for the expression and function of its interaction partner RECEPTOR-LIKE PROTEIN 44 (RLP44), which, in turn, associates with the receptor for the peptide hormone phytosulfokine (PSK). We show that PSK signalling is required for the maintenance of procambial cell identity and is quantitatively controlled by RLP44, which promotes complex formation between the receptor for PSK and its co-receptor. Mimicking the loss of RLP44, PSK-related mutants show ectopic xylem in the position of procambium, whereas rlp44 can be rescued by exogenous PSK. Based on these findings, we propose that RLP44 controls cell fate by connecting BRI1 and PSK signalling, providing a mechanistic framework for the integration of signalling mediated by the plethora of plant receptor-like kinases at the plasma membrane.

plant biology↗

bioRxiv2018

A Comprehensive Tool Set for Inducible, Cell Type-Specific Gene Expression in Arabidopsis

Understanding the context-specific role of gene function is a key objective of modern biology. To this end, we generated a resource for inducible cell-type specific trans-activation based on the well-established combination of the chimeric GR-LhG4 transcription factor and the synthetic pOp promoter. Harnessing the flexibility of the GreenGate cloning system, we produced a comprehensive set of GR-LhG4 driver lines targeting most tissues in the Arabidopsis shoot and root with a strong focus on the indeterminate meristems. We show that, when combined with effectors under control of the pOp promoter, tight temporal and spatial control of gene expression is achieved. In particular, inducible expression in F1 plants obtained from crosses of driver and effector lines allows rapid assessment of the cell type-specific impact of an effector with high temporal resolution. Thus, our comprehensive and flexible toolbox is suited to overcome the limitations of ubiquitous genetic approaches, the outputs of which are often difficult to interpret due to widespread existence of compensatory mechanisms and the integration of diverging effects in different cell types.\n\nOne sentence summary: A set of lines enabling spatio-temporal control of gene expression in Arabidopsis.

plant biology↗

bioRxiv2017

Blind sparse deconvolution for inferring spike trains from fluorescence recordings

The parallel developments of genetically-encoded calcium indicators and fast fluorescence imaging techniques makes it possible to simultaneously record neural activity of extended neuronal populations in vivo, opening a new arena for systems neuroscience. To fully harness the potential of functional imaging, one needs to infer the sequence of action potentials from fluorescence time traces. Here we build on recently proposed computational approaches to develop a blind sparse deconvolution algorithm (BSD), which we motivate by a theoretical analysis. We demonstrate that this method outperforms existing sparse deconvolution algorithms in terms of robustness, speed and/or accuracy on both synthetic and real fluorescence data. Furthermore, we provide solutions for the practical problems of thresholding and determination of the rise and decay time constants. We provide theoretical bounds on the performance of the algorithm in terms of precision-recall and temporal accuracy. Finally, we extend the computational framework to support temporal superresolution whose performance is established on real data.

neuroscience↗

bioRxiv2017

Profiling copy number variation and disease associations from 50,726 DiscovEHR Study exomes

Copy number variants (CNVs) are a substantial source of genomic variation and contribute to a wide range of human disorders. Gene-disrupting exonic CNVs have important clinical implications as they can underlie variability in disease presentation and susceptibility. The relationship between exonic CNVs and clinical traits has not been broadly explored at the population level, primarily due to technical challenges. We surveyed common and rare CNVs in the exome sequences of 50,726 adult DiscovEHR study participants with linked electronic health records (EHRs). We evaluated the diagnostic yield and clinical expressivity of known pathogenic CNVs, and performed tests of association with EHR-derived serum lipids, thereby evaluating the relationship between CNVs and complex traits and phenotypes in an unbiased, real-world clinical context. We identified CNVs from megabase to exon-level resolution, demonstrating reliable, high-throughput detection of clinically relevant exonic CNVs. In doing so, we created a catalog of high-confidence common and rare CNVs and refined population frequency estimates of known and novel gene-disrupting CNVs. Our survey among an unselected clinical population provides further evidence that neuropathy-associated duplications and deletions in 17p12 have similar population prevalence but are clinically under-diagnosed. Similarly, adults who harbor 22q11.2 deletions frequently had EHR documentation of neurodevelopmental/neuropsychiatric disorders and congenital anomalies, but not a formal genetic diagnosis (i.e., deletion). In an exome-wide association study of lipid levels, we identified a novel five-exon duplication within LDLR segregating in a large kindred with features of familial hypercholesterolemia. Exonic CNVs provide new opportunities to understand and diagnose human disease.

genomics↗