Searching journal content for articles similar to Didelot et al. 19 (2): 306.

Displaying results 1-10 of 52

For checked items

view abstracts
download to citation manager

Select this article
Method: Inferring and comparing metabolism across heterogeneous sets of annotated genomes using AuCoMe
- Arnaud Belcour,
- Jeanne Got,
- Méziane Aite,
- Ludovic Delage,
- Jonas Collén,
- Clémence Frioux,
- Catherine Leblanc,
- Simon M. Dittami,
- Samuel Blanquart,
- Gabriel V. Markov,
- and Anne Siegel
Genome Res. June 2023 33: 972-987; Published in Advance July 19, 2023, doi:10.1101/gr.277056.122
...distant algae, underlining the potential of AuCoMe to accelerate the broad exploration of metabolic evolution across the tree of life.The comparison of genomic data gave rise to today's view of the three domains of life: bacteria, archaea, and eukaryotes, which are divided into several supergroups (Burki...
Select this article
Research: Burkholderia pseudomallei sequencing identifies genomic clades with distinct recombination, accessory, and epigenetic profiles
- Tannistha Nandi,
- Matthew T.G. Holden,
- Xavier Didelot,
- Kurosh Mehershahi,
- Justin A. Boddey,
- Ifor Beacham,
- Ian Peak,
- John Harting,
- Primo Baybayan,
- Yan Guo,
- Susana Wang,
- Lee Chee How,
- Bernice Sim,
- Angela Essex-Lopresti,
- Mitali Sarkar-Tyson,
- Michelle Nelson,
- Sophie Smither,
- Catherine Ong,
- Lay Tin Aw,
- Chua Hui Hoon,
- Stephen Michell,
- David J. Studholme,
- Richard Titball,
- Swaine L. Chen,
- Julian Parkhill,
- and Patrick Tan
Genome Res. January 2015 25: 129-141; Published in Advance September 18, 2014, doi:10.1101/gr.177543.114
...of the recombination event was attributed to this clade (matches to strains from multiple clades were categorized as ambiguous). If no matches were found, the origin was categorized as unknown. To estimate their relative impact on genomic diversification, the flux of genomic content between clades was summarized...
Select this article
Research: Timescale and genetic linkage explain the variable impact of defense systems on horizontal gene transfer
- Yang Liu,
- João Botelho,
- and Jaime Iranzo
Genome Res. February 2025 35: 268-278; Published in Advance January 10, 2025, doi:10.1101/gr.279300.124
...-quality genomic data, phylogenomic methods, and phylogeny-aware statistical inference, our study aimed to shed light on the nuanced consequences of the interplay between defense systems and MGEs on bacterial evolution across timescales.ResultsAssociation between defense systems and MGE abundance is MGE and taxon...
OPEN ACCESS ARTICLE
Select this article
Research: Diverse evolutionary trajectories of mitocoding DNA in mammalian and avian nuclear genomes
- Yu-Chi Chen,
- David L.J. Vendrami,
- Maximilian L. Huber,
- Luisa E.Y. Handel,
- Christopher R. Cooney,
- Joseph I. Hoffman,
- and Toni I. Gossmann
Genome Res. June 2025 35: 1313-1324; Published in Advance March 31, 2025, doi:10.1101/gr.279428.124
...via the lateral transfer of DNA. There is considerable evidence for such exchanges of genetic material among bacteria and even in eukaryotes (Danchin 2016; Dunning et al. 2019). For example, the substantial exchange of genetic material between eukaryotic species occurs through hybridization...
Select this article
Research: Lambdoid phages with abundant Chi recombination hotspots reflect diverse viral strategies for recombination-dependent growth
- Clarence Zheng,
- Sherwood R. Casjens,
- Alan R. Davidson,
- Susan K. Amundsen,
- and Gerald R. Smith
Genome Res. August 2025 35: 1767-1780; Published in Advance July 10, 2025, doi:10.1101/gr.280248.124
...module) mostly lack Chi sites. Lambdoid phages of both diverse enteric bacteria and a pseudomonad have these properties. For this study, we thoroughly analyze the Rec modules of 246 lambdoid phage s. These analyses reveal a remarkable heterogeneity of Rec module protein types, both in sequence...
OPEN ACCESS ARTICLE
Select this article
ARTICLE: Genomes in Flux: The Evolution of Archaeal and Proteobacterial Gene Content
- Berend Snel,
- Peer Bork,
- and Martijn A. Huynen
Genome Res. January 1, 2002 12: 17-25; Published in Advance December 14, 2001, doi:10.1101/gr.176501
...Genomes in Flux: The Evolution of Archaeal and Proteobacterial Gene Content Berend Snel 1 , 3 , Peer Bork 1 , 2 , and Martijn A. Huynen 1 , 2 1European Molecular Biology Laboratory, 69117 Heidelberg, Germany; 2Max...
Select this article
LETTER: Lateral gene transfer between obligate intracellular bacteria: Evidence from the Rickettsia massiliae genome
- Guillaume Blanc,
- Hiroyuki Ogata,
- Catherine Robert,
- Stéphane Audic,
- Jean-Michel Claverie,
- and Didier Raoult
Genome Res. November 2007 17: 1657-1664; Published in Advance October 4, 2007, doi:10.1101/gr.6742107
...Lateral gene transfer between obligate intracellular bacteria: Evidence from the Rickettsia massiliae genome Guillaume Blanc 1 , 3 , Hiroyuki Ogata 1 , Catherine Robert 2 , Stéphane Audic 1 , Jean-Michel Claverie 1 , and Didier...
Select this article
Methods: Resolving the structural features of genomic islands: A machine learning approach
- Georgios S. Vernikos and
- Julian Parkhill
Genome Res. February 2008 18: 331-342; Published in Advance December 10, 2007, doi:10.1101/gr.7004508
...Resolving the structural features of genomic islands: A machine learning approach Georgios S. Vernikos and Julian Parkhill 1 The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, United Kingdom Abstract...
Select this article
Methods: Efficient high-resolution deletion discovery in Caenorhabditis elegans by array comparative genomic hybridization
- Jason S. Maydan,
- Stephane Flibotte,
- Mark L. Edgley,
- Joanne Lau,
- Rebecca R. Selzer,
- Todd A. Richmond,
- Nathan J. Pofahl,
- James H. Thomas,
- and Donald G. Moerman
Genome Res. March 2007 17: 337-347; Published in Advance January 31, 2007, doi:10.1101/gr.5690307
...Efficient high-resolution deletion discovery in Caenorhabditis elegans by array comparative genomic hybridization Jason S. Maydan 1 , Stephane Flibotte 2 , Mark L. Edgley 3 , Joanne Lau 3 , Rebecca R. Selzer 5 , Todd A. Richmond 5...
Select this article
Research: Chromosome-scale assemblies of Acanthamoeba castellanii genomes provide insights into Legionella pneumophila infection–related chromatin reorganization
- Cyril Matthey-Doret,
- Morgan J. Colp,
- Pedro Escoll,
- Agnès Thierry,
- Pierrick Moreau,
- Bruce Curtis,
- Tobias Sahr,
- Matt Sarrasin,
- Michael W. Gray,
- B. Franz Lang,
- John M. Archibald,
- Carmen Buchrieser,
- and Romain Koszul
Genome Res. September 2022 32: 1698-1710; Published in Advance September 15, 2022, doi:10.1101/gr.276375.121
...Biology and Institute for Comparative Genomics, Dalhousie University, Halifax, Nova Scotia B3H 4R2, Canada; 4Institut Pasteur, Université de Paris, Biologie des Bactéries Intracellulaires and CNRS UMR 6047, F-75015 Paris, France; 5Robert Cedergren Centre for Bioinformatics and Genomics, Département de...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Didelot et al. 19 (2): 306.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: