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Jeffrey David Jensen

Cette personne n’est plus à l’EPFL

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Publications associées (56)

On the Prospect of Identifying Adaptive Loci in Recently Bottlenecked Populations

Jeffrey David Jensen

Identifying adaptively important loci in recently bottlenecked populations - be it natural selection acting on a population following the colonization of novel habitats in the wild, or artificial selection during the domestication of a breed - remains a ma ...

Public Library of Science2014

Thinking too positive? Revisiting current methods of population genetic selection inference

Jeffrey David Jensen, Claudia Bank, Gregory Bruce Ewing, Matthieu Foll

In the age of next-generation sequencing, the availability of increasing amounts and improved quality of data at decreasing cost ought to allow for a better understanding of how natural selection is shaping the genome than ever before. However, alternative ...

Elsevier Science London2014

On the unfounded enthusiasm for soft selective sweeps

Jeffrey David Jensen

Underlying any understanding of the mode, tempo and relative importance of the adaptive process in the evolution of natural populations is the notion of whether adaptation is mutation limited. Two very different population genetic models have recently been ...

Nature Publishing Group2014

A Bayesian MCMC Approach to Assess the Complete Distribution of Fitness Effects of New Mutations: Uncovering the Potential for Adaptive Walks in Challenging Environments

Jeffrey David Jensen, Claudia Bank

The role of adaptation in the evolutionary process has been contentious for decades. At the heart of the century-old debate between neutralists and selectionists lies the distribution of fitness effects (DFE)that is, the selective effect of all mutations. ...

Genetics Soc Am2014

Shifting Fitness Landscapes In Response To Altered Environments

Jeffrey David Jensen, Claudia Bank

The role of adaptation in molecular evolution has been contentious for decades. Here, we shed light on the adaptive potential in Saccharomyces cerevisiae by presenting systematic fitness measurements for all possible point mutations in a region of Hsp90 un ...

Wiley-Blackwell2013

Rapid Intrahost Evolution of Human Cytomegalovirus Is Shaped by Demography and Positive Selection

Jeffrey David Jensen

Populations of human cytomegalovirus (HCMV), a large DNA virus, are highly polymorphic in patient samples, which may allow for rapid evolution within human hosts. To understand HCMV evolution, longitudinally sampled genomic populations from the urine and p ...

Public Library of Science2013

RECURRENT AND RECENT SELECTIVE SWEEPS IN THE piRNA PATHWAY

Jeffrey David Jensen

Uncontrolled transposable element (TE) insertions and excisions can cause chromosome breaks and mutations with dramatic deleterious effects. The PIWI interacting RNA (piRNA) pathway functions as an adaptive TE silencing system during germline development. ...

Wiley-Blackwell2013

Uncovering the genetic basis of adaptive change: on the intersection of landscape genomics and theoretical population genetics

Séverine Vuilleumier Varisco, Stéphane Joost, Sylvie Stucki, Kevin Leempoel, Jeffrey David Jensen, Ivo Widmer

A workshop recently held at the École Polytechnique Fédérale de Lausanne (EPFL, Switzerland) was dedicated to understanding the genetic basis of adaptive change, taking stock of the different approaches developed in theoretical population genetics and land ...

Wiley-Blackwell2013

Inferences of Demography and Selection in an African Population of Drosophila melanogaster

Jeffrey David Jensen

It remains a central problem in population genetics to infer the past action of natural selection, and these inferences pose a challenge because demographic events will also substantially affect patterns of polymorphism and divergence. Thus it is imperativ ...

Genetics Society of America2013

Genomic Variation and Its Impact on Gene Expression in Drosophila melanogaster

Bart Deplancke, Andreas Massouras, Monica Albarca Aguilera, Sebastian Martin Waszak, Jeffrey David Jensen

Understanding the relationship between genetic and phenotypic variation is one of the great outstanding challenges in biology. To meet this challenge, comprehensive genomic variation maps of human as well as of model organism populations are required. Here ...

Public Library of Science2012

Recent Progress in Polymorphism-Based Population Genetic Inference

Jeffrey David Jensen

The recent availability of whole-genome sequencing data affords tremendous power for statistical inference. With this, there has been great interest in the development of polymorphism-based approaches for the estimation of population genetic parameters. Th ...

Oxford University Press2012

Evidence Of Adaptation From Ancestral Variation In Young Populations Of Beach Mice

Jeffrey David Jensen

To understand how organisms adapt to novel habitats, which involves both demographic and selective events, we require knowledge of the evolutionary history of populations and also selected alleles. There are still few cases in which the precise mutations ( ...

Wiley-Blackwell2012

A Critical Assessment of Storytelling: Gene Ontology Categories and the Importance of Validating Genomic Scans

Alexandros Stamatakis, Jeffrey David Jensen

In the age of whole-genome population genetics, so-called genomic scan studies often conclude with a long list of putatively selected loci. These lists are then further scrutinized to annotate these regions by gene function, corresponding biological proces ...

Oxford University Press2012

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

Jeffrey David Jensen, Chang Yu, Xin Liu, Jian Wang, Jun Wang, Wen Wang, Lei Huang, Xun Xu

Rice is a staple crop that has undergone substantial phenotypic and physiological changes during domestication. Here we resequenced the genomes of 40 cultivated accessions selected from the major groups of rice and 10 accessions of their wild progenitors ( ...

Nature Publishing Group2012

Human-Specific Histone Methylation Signatures at Transcription Start Sites in Prefrontal Neurons

Jeffrey David Jensen

Cognitive abilities and disorders unique to humans are thought to result from adaptively driven changes in brain transcriptomes, but little is known about the role of cis-regulatory changes affecting transcription start sites (TSS). Here, we mapped in huma ...

Public Library Science2012

Characterizing the Influence of Effective Population Size on the Rate of Adaptation: Gillespie's Darwin Domain

Jeffrey David Jensen

Characterizing the role of effective population size in dictating the rate of adaptive evolution remains a major challenge in evolutionary biology. Depending on the underlying distribution of fitness effects of new mutations, populations of different sizes ...

2011

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