Whole genome sequencing of Moraxella bovoculi reveals high genetic diversity and evidence for interspecies recombination at multiple loci

Autor: J. Dustin Loy, Michael L. Clawson, Aaron M. Dickey, Gennie Schuller
Jazyk: angličtina
Rok vydání: 2018
Předmět:
0301 basic medicine
Heredity
Eye
0403 veterinary science
DNA library construction
Genomic island
Genotype
Medicine and Health Sciences
Data Management
Genetics
Recombination
Genetic
Mammals
education.field_of_study
Multidisciplinary
Eukaryota
Phylogenetic Analysis
04 agricultural and veterinary sciences
Ruminants
Genomic Library Construction
Phylogenetics
Genetic Mapping
Mutant Genotypes
Vertebrates
Medicine
Moraxella bovoculi
Anatomy
Research Article
Keratoconjunctivitis
Infectious
Computer and Information Sciences
040301 veterinary sciences
Science
Population
Single-nucleotide polymorphism
Variant Genotypes
Biology
DNA construction
Polymorphism
Single Nucleotide
Molecular Genetics
03 medical and health sciences
Ocular System
Bovines
Genetic variation
Animals
Moraxella
Evolutionary Systematics
education
Molecular Biology
Taxonomy
Genetic diversity
Evolutionary Biology
Whole Genome Sequencing
Organisms
Genetic Variation
Biology and Life Sciences
biology.organism_classification
Research and analysis methods
030104 developmental biology
Molecular biology techniques
Infectious bovine keratoconjunctivitis
Genetic Loci
Amniotes
Eyes
Cattle
Head
Zdroj: PLoS ONE, Vol 13, Iss 12, p e0209113 (2018)
PLoS ONE
ISSN: 1932-6203
Popis: Moraxella bovoculi is frequently cultured from the ocular secretions and conjunctiva of cattle with Infectious Bovine Keratoconjunctivitis (IBK). Previous work has shown that single nucleotide polymorphism (SNP) diversity in this species is quite high with 81,284 SNPs identified in eight genomes representing two distinct genotypes isolated from IBK affected eyes (genotype 1) and the nasopharynx of cattle without clinical IBK signs (genotype 2), respectively. The goals of this study were to identify SNPs from a collection of geographically diverse and epidemiologically unlinked M. bovoculi strains from the eyes of IBK positive cattle (n = 183) and another from the eyes of cattle (most from a single population at a single time-point) without signs of IBK (n = 63) and to characterize the genetic diversity. Strains of both genotypes were identified from the eyes of cattle without IBK signs. Only genotype 1 strains were identified from IBK affected eyes, however, these strains were isolated before the discovery of genotype 2, and the protocol for their isolation would have preferentially selected genotype 1 M. bovoculi. The core genome comprised ~74% of the whole and contained >127,000 filtered SNPs. More than 80% of these characterize diversity within genotype 1 while 23,611 SNPs (~18%) delimit the two major genotypes. Genotype 2 strains lacked a repeats-in-toxin (RTX) putative pathogenesis factor and any of ten putative antibiotic resistance genes carried within a genomic island. Within genotype 1, prevalence of these elements was 0.85 and 0.12 respectively in strains from eyes that were IBK positive. Recombination appears to be an important source of genetic diversity for genotype 1 and undermines the utility of ribosomal-locus-based species identification. The extremely high genetic diversity in genotype 1 presents a challenge to the development of an efficacious vaccine directed against them, however, several low-diversity pilin-like genes were identified. Finally, the genotype-defining SNPs described in this study are a resource that can facilitate the development of more accurate M. bovoculi diagnostic tests.
Databáze: OpenAIRE
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