Genome-Wide Biases in the Rate and Molecular Spectrum of Spontaneous Mutations inVibrio choleraeandVibrio fischeri

The properties of spontaneous mutations in the opportunistic pathogen Pseudomonas aeruginosa

(2016) Jeremy R. Dettman et al.   BMC GENOMICS

The Effect of Local Sequence Context on Mutational Bias of Genes Encoded on the Leading and Lagging Strands

(2016) Jeremy W. Schroeder et al.   CURRENT BIOLOGY

New insights into the mechanism of DNA mismatch repair

(2015) Gloria X. Reyes et al.   CHROMOSOMA

One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly

(2015) Sergey Koren et al.   CURRENT OPINION IN MICROBIOLOGY

The Rate and Molecular Spectrum of Spontaneous Mutations in the GC-Rich Multichromosome Genome of Burkholderia cenocepacia

(2015) Marcus M. Dillon et al.   GENETICS

Asymmetric Context-Dependent Mutation Patterns Revealed through Mutation–Accumulation Experiments

(2015) Way Sung et al.   MOLECULAR BIOLOGY AND EVOLUTION

Background Mutational Features of the Radiation-Resistant BacteriumDeinococcus radiodurans

(2015) Hongan Long et al.   MOLECULAR BIOLOGY AND EVOLUTION

Determinants of spontaneous mutation in the bacteriumEscherichia colias revealed by whole-genome sequencing

(2015) Patricia L. Foster et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bypass of genetic constraints during mutator evolution to antibiotic resistance

(2015) A. Couce et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Single molecule-level detection and long read-based phasing of epigenetic variations in bacterial methylomes

(2015) John Beaulaurier et al.   Nature Communications

GC-Content Evolution in Bacterial Genomes: The Biased Gene Conversion Hypothesis Expands

(2015) Florent Lassalle et al.   PLoS Genetics

The Rate and Molecular Spectrum of Spontaneous Mutations in the GC-Rich Multichromosome Genome of Burkholderia cenocepacia

(2015) Marcus M. Dillon et al.   GENETICS

Inexpensive Multiplexed Library Preparation for Megabase-Sized Genomes

(2015) Michael Baym et al.   PLoS One

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Fitness Is Strongly Influenced by Rare Mutations of Large Effect in a Microbial Mutation Accumulation Experiment

(2014) K. Heilbron et al.   GENETICS

Mutation Rate, Spectrum, Topology, and Context-Dependency in the DNA Mismatch Repair-Deficient Pseudomonas fluorescens ATCC948

(2014) Hongan Long et al.   Genome Biology and Evolution

Ecological Diversification of Vibrio fischeri Serially Passaged for 500 Generations in Novel Squid Host Euprymna tasmanica

(2014) William Soto et al.   MICROBIAL ECOLOGY

Precise estimates of mutation rate and spectrum in yeast

(2014) Y. O. Zhu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rates and Genomic Consequences of Spontaneous Mutational Events in Drosophila melanogaster

(2013) Daniel R. Schrider et al.   GENETICS

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

(2013) Chen-Shan Chin et al.   NATURE METHODS

Mutational Spectrum Drives the Rise of Mutator Bacteria

(2013) Alejandro Couce et al.   PLoS Genetics

Genome Analysis of a Transmissible Lineage of Pseudomonas aeruginosa Reveals Pathoadaptive Mutations and Distinct Evolutionary Paths of Hypermutators

(2013) Rasmus Lykke Marvig et al.   PLoS Genetics

Evolutionary Effects of Translocations in Bacterial Genomes

(2012) Jarrett D. Morrow et al.   Genome Biology and Evolution

Global and regional mortality from 235 causes of death for 20 age groups in 1990 and 2010: a systematic analysis for the Global Burden of Disease Study 2010

(2012) Rafael Lozano et al.   LANCET

Evidence of non-random mutation rates suggests an evolutionary risk management strategy

(2012) Iñigo Martincorena et al.   NATURE

DoriC 5.0: an updated database of oriC regions in both bacterial and archaeal genomes

(2012) Feng Gao et al.   NUCLEIC ACIDS RESEARCH

Extraordinary genome stability in the ciliate Paramecium tetraurelia

(2012) W. Sung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rate and molecular spectrum of spontaneous mutations in the bacterium Escherichia coli as determined by whole-genome sequencing

(2012) H. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Drift-barrier hypothesis and mutation-rate evolution

(2012) W. Sung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome Engineering in Vibrio cholerae: A Feasible Approach to Address Biological Issues

(2012) Marie-Eve Val et al.   PLoS Genetics

The Lower Bound to the Evolution of Mutation Rates

(2011) Michael Lynch   Genome Biology and Evolution

Phylogeny and fitness of Vibrio fischeri from the light organs of Euprymna scolopes in two Oahu, Hawaii populations

(2011) Michael S Wollenberg et al.   ISME Journal

The Mutational Profile of the Yeast Genome Is Shaped by Replication

(2011) N. Agier et al.   MOLECULAR BIOLOGY AND EVOLUTION

Impact of replication timing on non-CpG and CpG substitution rates in mammalian genomes

(2010) C. L. Chen et al.   GENOME RESEARCH

Mutators in cystic fibrosis chronic lung infection: Prevalence, mechanisms, and consequences for antimicrobial therapy

(2010) Antonio Oliver   INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY

Replication patterns and organization of replication forks in Vibrio cholerae

(2010) C. Stokke et al.   MICROBIOLOGY-SGM

The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana

(2010) S. Ossowski et al.   SCIENCE

Evolution of the mutation rate

(2010) Michael Lynch   TRENDS IN GENETICS

Why Genes Evolve Faster on Secondary Chromosomes in Bacteria

(2010) Vaughn S. Cooper et al.   PLoS Computational Biology

Evidence of Selection upon Genomic GC-Content in Bacteria

(2010) Falk Hildebrand et al.   PLoS Genetics

Evidence That Mutation Is Universally Biased towards AT in Bacteria

(2010) Ruth Hershberg et al.   PLoS Genetics

Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads

(2009) K. Ye et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Inactivation of mismatch repair increases the diversity ofVibrio parahaemolyticus

(2009) Tracy H. Hazen et al.   ENVIRONMENTAL MICROBIOLOGY

Mutation is the Main Driving Force in the Diversification of the Vibrio splendidus Clade

(2009) Tomoo Sawabe et al.   MICROBES AND ENVIRONMENTS

Human mutation rate associated with DNA replication timing

(2009) John A Stamatoyannopoulos et al.   NATURE GENETICS

A genome-wide view of Caenorhabditis elegans base-substitution mutation processes

(2009) D. R. Denver et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Vibrio biofilms: so much the same yet so different

(2009) Fitnat H. Yildiz et al.   TRENDS IN MICROBIOLOGY

Ori-Finder: A web-based system for finding oriCs in unannotated bacterial genomes

(2008) Feng Gao et al.   BMC BIOINFORMATICS

Epidemiological study ofVibrio choleraeusing variable number of tandem repeats

(2008) Raikamal Ghosh et al.   FEMS MICROBIOLOGY LETTERS

A comparison of homologous recombination rates in bacteria and archaea

(2008) Michiel Vos et al.   ISME Journal

Genetic Adaptation of Pseudomonas aeruginosa to the Airways of Cystic Fibrosis Patients Is Catalyzed by Hypermutation

(2008) A. Mena et al.   JOURNAL OF BACTERIOLOGY

A genome-wide view of the spectrum of spontaneous mutations in yeast

(2008) M. Lynch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Whole-genome mutational biases in bacteria

(2008) P. A. Lind et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA