Publication

Re-annotation of the genome sequence of Mycobacterium tuberculosis H37Rv

Publications associées (98)

The Median Problems on Linear Multichromosomal Genomes: Graph Representation and Fast Exact Solutions

In genome rearrangement, given a set of genomes G and a distance measure d, the median problem asks for another genome q that minimizes the total distance Sigma(g is an element of G d(q, g)). This is a key problem in genome rearrangement based phylogenetic ...

Mary Ann Liebert2010

Comparative genomic and phylogeographic analysis of Mycobacterium leprae

Stewart Cole, Jacques Rougemont, Philippe Busso, Pushpendra Singh, Alexandre Gattiker

Reductive evolution and massive pseudogene formation have shaped the 3.31-Mb genome of Mycobacterium leprae, an unculturable obligate pathogen that causes leprosy in humans. The complete genome sequence of M. leprae strain Br4923 from Brazil was obtained b ...

2009

Inversion-based genomic signatures

Bernard Moret, Krister Swenson

Background: Reconstructing complete ancestral genomes (at least in terms of their gene inventory and arrangement) is attracting much interest due to the rapidly increasing availability of whole genome sequences. While modest successes have been reported fo ...

2009

Quantitative PCR for determining the infectivity of bacteriophage MS2 upon inactivation by heat, UVB and singlet oxygen: advantages and limitations of an enzymatic treatment to reduce false-positive results

Tamar Kohn, Brian Pecson

Health risks posed by waterborne viruses are difficult to assess because it is tedious or impossible to determine the infectivity of many viruses. Recent studies hypothesized that quantitative PCR (qPCR) could selectively quantify infective viruses if prec ...

American Society for Microbiology2009

Insights from the complete genome sequence of Mycobacterium marinum on the evolution of Mycobacterium tuberculosis

Stewart Cole

Mycobacterium marinum, a ubiquitous pathogen of fish and amphibia, is a near relative of Mycobacterium tuberculosis, the etiologic agent of tuberculosis in humans. The genome of the M strain of M. marinum comprises a 6,636,827-bp circular chromosome with 5 ...

2008

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

Reductive evolution and niche adaptation inferred from the genome of Mycobacterium ulcerans, the causative agent of Buruli ulcer

Stewart Cole

Mycobacterium ulcerans is found in aquatic ecosystems and causes Buruli ulcer in humans, a neglected but devastating necrotic disease of subcutaneous tissue that is rampant throughout West and Central Africa. Here, we report the complete 5.8-Mb genome sequ ...

2007

Indexing strategies for rapid searches of short words in genome sequences

Giovanna Ambrosini, Philipp Bucher

Searching for matches between large collections of short (14-30 nucleotides) words and sequence databases comprising full genomes or transcriptomes is a common task in biological sequence analysis. We investigated the performance of simple indexing strateg ...

Public Library of Science2007

Vertebrate conserved non coding DNA regions have a high persistence length and a short persistence time

Philipp Bucher

ABSTRACT: BACKGROUND: The comparison of complete genomes has revealed surprisingly large numbers of conserved non-protein-coding (CNC) DNA regions. However, the biological function of CNC remains elusive. CNC differ in two aspects from conserved protein-co ...

2007

Complete genome sequence of the entomopathogenic and metabolically versatile soil bacterium Pseudomonas entomophila

Bruno Lemaitre

Pseudomonas entomophila is an entomopathogenic bacterium that, upon ingestion, kills Drosophila melanogaster as well as insects from different orders. The complete sequence of the 5.9-Mb genome was determined and compared to the sequenced genomes of four P ...

Nature Publishing Group2006

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