Applied and Environmental Microbiology · 2019 · 90 citations · 66 references
Life SciencesGeneticsMolecular GeneticsComparative GenomicsGenomicsPlant GenomicsBacterial Plant PathogensComparative Microbial GenomicsComparative Plant GenomicsMicrobial Evolutionary GenomicsMolecular PhylogenyPathogen GenomicsBacterial Genome VariationComparative Genome AnalysisGenomic Diversity AnalysisGenomics Of Plant-pathogenic BacteriaMicrobial Genomic DiversityPhylogenetic Comparison Of PathogensSubspecies DistributionXylella Fastidiosa
Xylella fastidiosa is an important vector-borne plant pathogen. We used a set of 72 genomes that constitutes the largest assembled data set for this bacterial species so far to investigate genetic relationships and the impact of recombination on phylogenetic clades and to compare genome content at the subspecies level, and we used a molecular dating approach to infer the evolutionary rate of X. fastidiosa . The results demonstrate that recombination is important in shaping the genomes of X. fastidiosa and that each of the main subspecies is under different selective pressures. We hope insights from this study will improve our understanding of X. fastidiosa evolution and biology.
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The Sequence Alignment/Map format and SAMtools
Heng Li, Alec Wysoker, Tim Fennell et al. · Bioinformatics · 2009 · 67.5K citations · Full text
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li, Richard Durbin · Bioinformatics · 2009 · 62.8K citations · Full text