ArticleBMC genomics2009
Optical mapping of the Mycobacterium avium subspecies paratuberculosis genome.
Article in BMC genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
19 citing papers in PubMed.
- DNA Manipulation and Single-Molecule Imaging.Molecules (Basel, Switzerland) · 2021Review
- Customized optical mapping by CRISPR-Cas9 mediated DNA labeling with multiple sgRNAs.Nucleic acids research · 2021Article
- Re-sequencing and optical mapping reveals misassemblies and real inversions on Corynebacterium pseudotuberculosis genomes.Scientific reports · 2019Article
- Determining if DNA Stained with a Cyanine Dye Can Be Digested with Restriction Enzymes.Journal of visualized experiments : JoVE · 2018Article
- Identification ofCanadian journal of veterinary research = Revue canadienne de recherche veterinaire · 2017Article
- Pathogenesis, Molecular Genetics, and Genomics ofFrontiers in veterinary science · 2017Review
- Genetic diversity of Mycobacterium avium subspecies paratuberculosis and the influence of strain type on infection and pathogenesis: a review.Veterinary research · 2015Review
- Generation and screening of a comprehensive Mycobacterium avium subsp. paratuberculosis transposon mutant bank.Frontiers in cellular and infection microbiology · 2014Article
- Beyond gel electrophoresis: microfluidic separations, fluorescence burst analysis, and DNA stretching.Chemical reviews · 2013Review
- Sequencing and automated whole-genome optical mapping of the genome of a domestic goat (Capra hircus).Nature biotechnology · 2013Article
- Comparative whole-genome mapping to determine Staphylococcus aureus genome size, virulence motifs, and clonality.Journal of clinical microbiology · 2012Article
- Assessment of whole-genome mapping in a well-defined outbreak of Salmonella enterica serotype Saintpaul.Journal of clinical microbiology · 2012Article
- Genome mapping on nanochannel arrays for structural variation analysis and sequence assembly.Nature biotechnology · 2012Article
- Multicolor super-resolution DNA imaging for genetic analysis.Nano letters · 2012Article
- Genome sequencing of ovine isolates of Mycobacterium avium subspecies paratuberculosis offers insights into host association.BMC genomics · 2012Article
- Genome-Wide Sequence Variation among Mycobacterium avium Subspecies paratuberculosis Isolates: A Better Understanding of Johne's Disease Transmission Dynamics.Frontiers in microbiology · 2011Article
- Resequencing the Mycobacterium avium subsp. paratuberculosis K10 genome: improved annotation and revised genome sequence.Journal of bacteriology · 2010Article
- Two genome sequences of the same bacterial strain, Gluconacetobacter diazotrophicus PAl 5, suggest a new standard in genome sequence submission.Standards in genomic sciences · 2010Article
- A rhodanine agent active against non-replicating intracellular Mycobacterium avium subspecies paratuberculosis.Gut pathogens · 2009Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
backgroundInfection of cattle with Mycobacterium avium subspecies paratuberculosis (M. ap) causes severe economic losses to the dairy industry in the USA and worldwide. In an effort to better examine diversity among M. ap strains, we used optical mapping to profile genomic variations between strains of M. ap K-10 (sequenced strain) and M. ap ATCC 19698 (type strain).
resultsThe assembled physical restriction map of M. ap ATCC 19698 showed a genome size of 4,839 kb compared to the sequenced K-10 genome of 4,830 kb. Interestingly, alignment of the optical map of the M. ap ATCC 19698 genome to the complete M. ap K-10 genome sequence revealed a 648-kb inversion around the origin of replication. However, Southern blotting, PCR amplification and sequencing analyses of the inverted region revealed that the genome of M. ap K-10 differs from the published sequence in the region starting from 4,197,080 bp to 11,150 bp, spanning the origin of replication. Additionally, two new copies of the coding sequences > 99.8% were identified, identical to the MAP0849c and MAP0850c genes located immediately downstream of the MAP3758c gene.
conclusionThe optical map of M. ap ATCC 19698 clearly indicated the miss-assembly of the sequenced genome of M. ap K-10. Moreover, it identified 2 new genes in M. ap K-10 genome. This analysis strongly advocates for the utility of physical mapping protocols to complement genome sequencing projects.
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