Publications associées à GEOME : A web-based landscape genomics geocomputation platform

Publications associées (31)

Automated plasmid design for marker-free genome editing in budding yeast

Lazar Stojkovic, Mahsa Geramimanesh, Sahand Jamal Rahi, Vojislav Gligorovski, Marco Labagnara

Scarless genome editing in budding yeast with elimination of the selection marker has many advantages. Some markers such as URA3 and TRP1 can be recycled through counterselection. This permits seamless genome modification with pop-in/pop-out, in which a DN ...

OXFORD UNIV PRESS INC2025

The microbial genomics of glacier-fed streams: adaptations to an extreme ecosystem

Massimo Bourquin

Glacier-fed streams are the cold, ultra-oligotrophic, and unstable streams that are fed by glacial meltwater. Despite these extreme conditions, they harbour a diverse and abundant microbial diversity that develops into biofilms, covering the boulders and s ...

EPFL2024

The cost of adaptability: resource availability constrains functional stability under pulsed disturbances

Hannes Markus Peter

Global change exposes ecosystems to changes in the frequency, magnitude, and concomitancy of disturbances, which impact the composition and functioning of these systems. Here, we experimentally evaluate the effects of salinity disturbances and eutrophicati ...

Amer Soc Microbiology2024

Multiscale Spatiotemporal Characterization of Embodied Environmental Performance of Building Structures in Geneva from 1850 to 2018

Corentin Jean Dominique Fivet, Catherine Elvire L. De Wolf

Load-bearing systems in buildings, significant in material use and embodied greenhouse gas emissions (EGHGE), have lacked detailed analysis on their environmental and functional relationships over time and space. This study evaluates the environmental impa ...

2024

The Effect of Rivers on Energy Balance at the Neighborhood Scale. A comparative analysis of four Rhodanian sites in France and Switzerland

Emmanuel Rey, Sergi Aguacil Moreno, Martine Laprise, Sara Sonia Formery Regazzoni

This research aims to compare the greenhouse gas (GHG) emissions of new neighbourhood projects near the Rhône River in France and Switzerland. The study considers the influence of the river on energy demand and resilience to climate change of 12 project-ba ...

Wrocław University of Science and Technology Publishing House2024

At what spatial scale does natural selection operate? Using multiscale frameworks to calibrate the effects of environmental factors across landscape continuums

Annie Sandrine Guillaume

Patterns in nature arise from processes interacting across a continuum of spatial scales, where new relationships emerge at each level of investigation. These patterns are nested features encompassing fine-scale local patterns, such as topography and geolo ...

EPFL2024

Comparison of Three Viral Nucleic Acid Preamplification Pipelines for Sewage Viral Metagenomics

Tamar Kohn, Xavier Fernandez Cassi

Viral metagenomics is a useful tool for detecting multiple human viruses in urban sewage. However, more refined protocols are required for its effective use in disease surveillance. In this study, we investigated the performance of three different preampli ...

2024

Ancestral genome reconstruction enhances transposable element annotation by identifying degenerate integrants

Wayo Matsushima, Didier Trono, Evaristo Jose Planet Letschert

Growing evidence indicates that transposable elements (TEs) play important roles in evolution by providing genomes with coding and non-coding sequences. Identification of TE-derived functional elements, however, has relied on TE annotations in individual s ...

2024

Single-mitosis dissection of acute and chronic DNA mutagenesis and repair

Christina Ernst

How chronic mutational processes and punctuated bursts of DNA damage drive evolution of the cancer genome is poorly understood. Here, we demonstrate a strategy to disentangle and quantify distinct mechanisms underlying genome evolution in single cells, dur ...

Nature Portfolio2024

Epidemicity indices and reproduction numbers from infectious disease data in connected human populations

Andrea Rinaldo, Lorenzo Mari, Cristiano Trevisin

We focus on distinctive data-driven measures of the fate of ongoing epidemics. The relevance of our pursuit is suggested by recent results proving that the short-term temporal evolution of infection spread is described by an epidemicity index related to th ...

2024

Reconstruction and analysis of genome-scale metabolic networks in single organisms and microbial communities

Evangelia Vagena

Microorganisms are a key component in the chain of life. They are essential for agriculture, produce a large proportion of oxygen, and play a central role in the cycle of elements. Microorganisms are widely used in the production of food and alcoholic beve ...

EPFL2024

Climate Change Contributions to Increasing Compound Flooding Risk in New York City

Monika Feldmann

Efforts to meaningfully quantify the changes in coastal compound surge- and rainfall -driven flooding hazard associated with tropical cyclones (TCs) and extratropical cyclones (ETCs) in a warming climate have increased in recent years. Despite substantial ...

Amer Meteorological Soc2024

Genome sequences of Vibrio cholerae strains isolated in the DRC between 2009 and 2012

Melanie Blokesch, Sandrine Stutzmann, Natalia Carolina Drebes Dorr, Alexandre Lemopoulos

Vibrio cholerae has caused seven cholera pandemics in the past two centuries. The seventh and ongoing pandemic has been particularly severe on the African continent. Here, we report long read-based genome sequences of six V. cholerae strains isolated in th ...

2024

Spatial Modeling for Building Design Evaluation: from Visual Landscape Quality Assessment to Devaluation Risk Estimation

Adam Robert Swietek

Zoning reform is a crucial tool for cities to adapt to contemporary challenges. However, its implementation remains challenging. Property owners, with a vested interest in the value of their neighborhoods, are sensitive to local developments and the potent ...

EPFL2024

The role of spatial epidemiology to support public health policies : case studies applied to health promotion, noncommunicable and infectious diseases in the canton of Vaud, Switzerland

Anaïs Laurence Ladoy

In a context of escalating public health challenges, including the rise of chronic diseases, the impact of climate change, and the COVID-19 pandemic, certain populations bear a disproportionate burden. As a result, there is an urgent need to develop public ...

EPFL2024

Quantitative characterization of the inorganic phosphate gene regulatory networks in S. cerevisiae and bottom up engineering an orthogonal gene network

Shiyu Cheng

Gene regulatory networks (GRNs) play a crucial role in an organism's response to changing environmental conditions. Cellular behaviors typically result from the integration of multiple gene outputs, and their regulation often demands precise control of num ...

EPFL2024

Echoing Swiss Coloniality. Land, Archive and Visuality between Brazil and Switzerland

Denise Bertschi

Informed by longstanding artistic practice, this doctoral thesis approaches entanglements of Swiss coloniality in Brazil and Switzerland under the lens of land, archive, and visuality. The enduring legacies of imperial capitalism in the former Colonia Leop ...

EPFL2024

Embodied Carbon Premium for Cantilevers

David Michael Volpe Ruggiero, Paola Costanza Miglietta

This study addresses the critical need for sustainable architectural designs within the context of climate change and the significant role the built environment plays in greenhouse gas emissions. The focus of this paper is on understanding the influence of ...

2024

From roots to canopy: Unraveling the influence of species diversity on tree water relations under warmer and drier climates

Eugénie Isabelle Mas

The worsening of drought events with rising air temperature alters tree water relations causing severe hydraulic impairments and widespread forest mortality. Mixing tree species with contrasting hydraulic traits could reduce forest vulnerability to extreme ...

EPFL2024

Impact of anthropogenic emission control in reducing future PM2.5 concentrations and the related oxidative potential across different regions of China

Athanasios Nenes, Yuan Yuan

Affected by both future anthropogenic emissions and climate change, future prediction of PM2.5 and its Oxidative Potential (OP) distribution is a significant challenge, especially in developing countries like China. To overcome this challenge, we estimated ...

Elsevier2024