Wibberg, Daniel; Price-Carter, Marian; Rückert, Christian; Blom, Jochen; Möbius, Petra: Complete Genome Sequence of Ovine Mycobacterium avium subsp. paratuberculosis Strain JIII-386 (MAP-S/type III) and Its Comparison to MAP-S/type I, MAP-C, [...]. In: Microorganisms. Vol.9 Issue 1. 2021
Content
- Materials and Methods
- Strain Cultivation and DNA Isolation
- Nanopore Library Preparation and MinION® Sequencing
- Base Calling, Reads Processing, Assembly, Quality Control, and Deposition of New Genome Sequence
- Genome Annotation and Comparative Analysis
- Reference Genome Sequences
- Results and Discussion
- Genome Sequencing, Assembly, and Finishing of Strain JIII-386
- General Genomic Features of JIII-386
- Shine–Delgarno Motif
- Chromosomal Organization
- SNPs and INDELs
- Taxonomic Calculations
- Specific Genomic Elements
- Putative Virulence Associated Genes and Gene Clusters
- Secondary Metabolite and Antibiotic Resistance Genes Clusters
- Genomic Islands
- Phylogenetic Analysis based on Extended Panel of MAC Genomes
- Validation of MAP-S Specific LSPS Regions and Deletions Based on the Core Genome Analysis
- Core and Pan Genome Analysis
- Summary
- References