Publications related to Molecular ecology

Beyond the patch: on landscape-explicit metapopulation dynamics

Climate change threatens biodiversity and species distribution all over the world at unprecedented rates. Human induced changes to landscape structure and habitat are redefining the relation between species and their environment. Understanding, characteriz ...

EPFL2020

2D MoS2 nanopores: ionic current blockade height for clustering DNA events

Aleksandra Radenovic, Ke Liu

2D nanopores can be used to electrophoretically drive DNA molecules, which can in turn be identified through measurable electronic current blockades. In this work, we use experimental data from molybdenum disulfide nanopores threading DNA nucleotides and p ...

2019

Genome-wide SNP profiling of worldwide goat populations reveals strong partitioning of diversity and highlights post-domestication migration routes

Stéphane Joost, Estelle Rochat, Elia Vajana

Background: Goat populations that are characterized within the AdaptMap project cover a large part of the worldwide distribution of this species and provide the opportunity to assess their diversity at a global scale. We analysed genome-wide 50K single nuc ...

BMC2018

Combining landscape genomics and ecological modelling to investigate local adaptation of indigenous Ugandan cattle to East Coast fever

Stéphane Joost, Estelle Rochat, Elia Vajana

East Coast fever (ECF) is a fatal sickness affecting cattle populations of eastern, central, and southern Africa. The disease is transmitted by the tick Rhipicephalus appendiculatus, and caused by the protozoan Theileria parva parva, which invades host lym ...

2018

Combining Landscape Genomics and Ecological Modelling to Investigate Local Adaptation of Indigenous Ugandan Cattle to East Coast Fever

Stéphane Joost, Estelle Rochat, Elia Vajana

East Coast fever (ECF) is a fatal sickness affecting cattle populations of eastern, central, and southern Africa. The disease is transmitted by the tick Rhipicephalus appendiculatus, and caused by the protozoan Theileria parva parva, which invades host lym ...

2018

Demographic stochasticity and resource autocorrelation control biological invasions in heterogeneous landscapes

Andrea Rinaldo, Andrea Giometto, Florian Altermatt

Mounting theoretical evidence suggests that demographic stochasticity, environmental heterogeneity and biased movement of organisms individually affect the dynamics of biological invasions and range expansions. Studies of species spread in heterogeneous la ...

Wiley2017

Simple rules for an efficient use of Geographic Information Systems in molecular ecology

Stéphane Joost, Estelle Rochat, Kevin Leempoel, Ivo Widmer, Solange Catherine Gaillard

Geographic Information Systems (GIS) are becoming increasingly popular in the context of molecular ecology and conservation biology thanks to their display options efficiency, flexibility and management of geodata. Indeed, spatial data for wildlife and liv ...

2017

Dynamics of Spatially Confined Bisphenol A Trimers in a Unimolecular Network on Ag(111)

Katharina Johanna Diller

Bisphenol A (BPA) aggregates on Ag(111) shows a polymorphism between two supramolecular motifs leading to formation of distinct networks depending on thermal energy. With rising temperature a dimeric pairing scheme reversibly converts into a trimeric motif ...

American Chemical Society2016

Utilization of the Scythe C++ open source library for statistical geocomputation in livestock landscape genomics

Stéphane Joost, Sylvie Stucki

Understanding genetic basis of adaptation is of key importance, especially to insure food supply for present and future populations. Cultivated plants and livestock animals are subjected to high selection pressure due to climate change, increasing food nee ...

Lulu.com2012

Population-specific expression analysis (PSEA) reveals molecular changes in diseased brain

Doris Chau Voo Thu

Human diseases are often accompanied by histological changes that confound interpretation of molecular analyses and identification of disease-related effects. We developed population-specific expression analysis (PSEA), a computational method of analyzing ...

Nature Publishing Group2011

Ecological Controls of Aerobic and Anaerobic Microbial Activities and Potential Impacts on Greenhouse Gases in Regenerating Peatlands

Andy Siegenthaler

Peatlands represent massive global carbon (C) pools and sinks. Carbon accumulation depends on the ratio between net primary production and decomposition of organic matter, both of which can change under projected increases of atmospheric carbon dioxide (CO ...

EPFL2011

Promoting collaboration between livestock and wildlife conservation genetics communities

Stéphane Joost, Pierre Taberlet

The collaboration between livestock and wildlife conservation genetics communities has the potential to help promote shared priorities, with respect to emerging technologies and new analytical approaches such as next generation sequencing incorporating ada ...

Springer Netherlands2011

Have we underestimated the importance of humans in the biogeography of free-living terrestrial microorganisms?

The role of humans in the global dispersal of free-living terrestrial microorganisms has received surprisingly little attention in the literature, compared with the frequent discussions of human dispersal for aquatic microbes. Here I argue that this area n ...

2010

Lumpability Abstractions of Rule-based Systems

Tatjana Petrov

The induction of a signaling pathway is characterized by transient complex formation and mutual posttranslational modification of proteins. To faithfully capture this combinatorial process in a mathematical model is an important challenge in systems biolog ...

2010

Landscape genomics and biased FST approaches reveal single nucleotide polymorphisms under selection in goat breeds of North-East Mediterranean

Stéphane Joost

Background: In this study we compare outlier loci detected using a FST based method with those identified by a recently described method based on spatial analysis (SAM). We tested a panel of single nucleotide polymorphisms (SNSPs) previously genotyped in i ...

BioMed Central2009

Time-resolved x-ray absorption spectroscopy: Watching atoms dance

Majed Chergui, Paul Beaud, Wojciech Gawelda, Van Thai Pham, Camelia Borca, Amal El Nahhas, Renske Marjan van der Veen, Frederico Alves Lima

The introduction of pump-probe techniques to the field of x-ray absorption spectroscopy (XAS) has allowed the monitoring of both structural and electronic dynamics of disordered systems in the condensed phase with unprecedented accuracy, both in time and i ...

Iop Publishing Ltd, Dirac House, Temple Back, Bristol Bs1 6Be, England2009

Un rôle pour la science de l'information géographique en écologie moléculaire La détection de régions du génome soumises à la sélection naturelle

Stéphane Joost, Régis Caloz, Pierre Taberlet

We introduce a new method to detect signatures of natural selection in the genome based on the application of spatial analysis, with the contribution of Geographical Information Systems, environmental variables, molecular data, and multiple univariate logi ...

2008