Genomic Insights into the Emerging Human Pathogen Mycobacterium Download full-text
Hervé Tettelin,aElizabeth P. Sampaio,b,cSean C. Daugherty,aErin Hine,aDavid R. Riley,aLisa Sadzewicz,aNaomi Sengamalay,a
Kent Shefchek,aQi Su,aLuke J. Tallon,aPatricia Conville,dKenneth N. Olivier,bSteven M. Holland,bClaire M. Fraser,a
and Adrian M. Zelaznyb,d
Institute for Genome Sciences, Department of Microbiology and Immunology, University of Maryland School of Medicine, Baltimore, Maryland, USAa; Laboratory of
Clinical Infectious Diseases, LCID, NIAID, NIH, Bethesda, Maryland, USAb; Leprosy Laboratory, Oswaldo Cruz Institute, FIOCRUZ, Rio de Janeiro, Brazilc; and Microbiology
Service, Department of Laboratory Medicine, Clinical Center, NIH, Bethesda, Maryland, USAd
Mycobacterium massiliense (Mycobacterium abscessus group) is an emerging pathogen causing pulmonary disease and skin and
ease. M. abscessus includes three closely related organisms, Myco-
bacterium abscessus (sensu stricto), Mycobacterium massiliense,
and Mycobacterium bolletii, with taxonomic status under debate.
Interest in M. massiliense arose following recent postsurgical in-
patients (1, 5).
The genomes of three M. abscessus strains and of M. bolletii
have been released (2–4, 6) and constitute an important resource
ent the draft genome of the M. massiliense type strain CCUG
48898 and its comparison to the other released genomes. The
sequence was obtained using a combination of the 454 Titanium
3-kb paired-end and Illumina HiSeq 2000 100-bp paired-end
technologies. The draft genome includes 5 contigs with a cumu-
lative size of 5,195,205 bp and a 64.1% G?C content. It contains
total coding sequences, while the rest were found to be hypothet-
ical or conserved hypothetical proteins.
A phylogenetic tree based on core genome single nucleotide
polymorphisms (SNPs) that was derived from a whole-genome
while M. abscessus M93 clusters with M. abscessus ATCC 19977
and M. bolletii BD appears separately.
Strain 47J26 carries an A-to-C substitution in the 23S rRNA,
iense type strain and 47J26 have the reported 2-nucleotide (CG)
deletion and the large 276-nucleotide (nt) deletion in the induc-
ible macrolide resistance gene erm41 as well as several shared
SNPs. These features and the tree described above indicate that
47J26 is most likely a strain of M. massiliense.
BLASTN-based comparisons (shared genes defined by a
BLASTN e value of ?10?5) revealed 346 and 304 genes that are
unique to CCUG 48898 and 47J26, respectively, compared to the
other three genomes. A pairwise comparison of these M. massil-
iense-specific genes revealed that 128 of these genes, including 2
genes encoding virulence-related WXG/ESAT-6 family proteins,
an ?120-kb genomic region (108 genes) in CCUG 48898, encod-
47J26. Most of these genes, including genes encoding virulence
2 M. abscessus genomes but mostly present (100 of 108) in M.
None of the recently released genomes include the 23-kb mer-
cury resistance plasmid found in M. abscessus (6).
A detailed genomic study promises a better understanding of
Nucleotide sequence accession number. The M. massiliense
strain CCUG 48898 genome sequence and annotation data have
been deposited at NCBI GenBank under the accession number
Institute of Allergy and Infectious Diseases, National Institutes of Health,
Department of Health and Human Services, under contract number
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Received 9 July 2012 Accepted 17 July 2012
Address correspondence to Hervé Tettelin, email@example.com.
Copyright © 2012, American Society for Microbiology. All Rights Reserved.
jb.asm.orgJournal of Bacteriologyp. 5450October 2012 Volume 194 Number 19