Complete Chromosome Sequence of a Mycolactone-Producing Mycobacterium, Mycobacterium pseudoshottsii

Abstract

Mycobacterium pseudoshottsii is a fish pathogen that produces mycolactone. Here, we report the complete chromosome sequence of a type strain of M. pseudoshottsii (JCM 15466). The sequence will represent essential data for future phylogenetic and comparative genome studies of mycolactone-producing mycobacteria.

Complete Genome Sequence of Mycobacterium marinum ATCC 927 T , Obtained Using Nanopore and Illumina Sequencing Technologies

“…Genomic studies indicated that M. ulcerans was diverged from a M. marinum progenitor ( 9 – 11 ). In addition, M. marinum -related mycolactone-producing mycobacteria (MPMs) were also isolated from frogs and fish ( 12 – 15 ). Hence, detailed genomic information of M. marinum will be helpful for understanding evolutionary pathways of these MPMs.…”

“…The library was loaded on a SpotON Mk I (R9.4) flow cell and sequenced using MinKNOW version 1.7.14, and raw sequence data (FAST5 format) were base-called using Albacore Sequencing Pipeline version 2.0.2 software. The reads were de novo assembled into two contigs (6,456,544 bp and 173,286 bp) with Canu version 1.5 ( 15 , 16 , 17 ), and the assembled genome was circularized by manually trimming the repeated sequences. Illumina paired-end (2 × 150-bp) reads (266,781,451 reads) were obtained with the MiniSeq system (Illumina, San Diego, CA, USA) and mapped to the assembly using the Burrows-Wheeler aligner ( 15 , 17 , 18 ) for sequence and assembly error correction with Pilon ( 15 , 17 , 19 ).…”

“…Orthologous gene clusters were identified using Cd-hit ( 21 ). Average nucleotide identity (ANI) was calculated by JSpeciesWS ( 15 , 17 , 22 ).…”

Draft Genome Sequence of Mycobacterium montefiorense Isolated from Japanese Black Salamander (Hynobius nigrescens)

“…Automated annotation was carried out with the DDBJ FAST Annotation and Submission Tool (DFAST) ( https://dfast.nig.ac.jp ). Average nucleotide identity (ANI) was calculated with JSpeciesWS version 1.2.1 ( 8 , 9 ).…”

Complete Genome Sequence of a Type Strain of Mycobacterium abscessus subsp. bolletii , a Member of the Mycobacterium abscessus Complex

“…The strain was grown in Middlebrook 7H9 medium, and DNA was extracted using a standard phenol-chloroform method. The genome sequence was determined using PacBio reads (112,992 reads) obtained with the RS II system (Pacific Biosciences, Menlo Park, CA, USA) ( 10 – 12 ). The reads were de novo assembled with Canu version 1.5 ( 13 ), and the assembled genome was circularized by manually trimming the repeated sequences.…”