Complete Genome Sequence of Mycobacterium intracellulare Strain Download full-text
Byoung-Jun Kim,aBeom-Soon Choi,bJong-Sung Lim,bIk-Young Choi,bJe-Hee Lee,cJongsik Chun,c,dYoon-Hoh Kook,a
and Bum-Joon Kima
Department of Microbiology and Immunology, Liver Research Institute, Cancer Research Institute and SNUMRC, College of Medicine, Seoul National University, Seoul,
Republic of Koreaa; National Instrumentation Center for Environmental Management, Seoul National University, Seoul, Republic of Koreab; Chunlab, Inc., Seoul National
University, Seoul, Republic of Koreac; and School of Biological Sciences, Seoul National University, Seoul, Republic of Koread
Here we report the first complete genome sequence of Mycobacterium intracellulare ATCC 13950T, a Mycobacterium avium
(MAC) are the nontuberculous mycobacteria most frequently iso-
lated in clinical settings (5–7). Traditionally, the MAC includes two
species, M. avium and Mycobacterium intracellulare (1, 3, 6). There
epidemiologic, biological, and pathogenic aspects. Currently, of the
biense (AFVW00000000) (2), closely related to M. avium, are avail-
able. However, the complete genome sequence of M. intracellulare
has not yet been determined. To better understand the pathogenic
mechanism of M. intracellulare, we report the complete, annotated
genome sequence of M. intracellulare ATCC 13950Tin the present
The M. intracellulare genome was sequenced by a standard shot-
gun strategy using GS FLX pyrosequencing technology. Sequencing
analysis was performed at the National Instrumentation Center for
Environmental Management (Genome Analysis Unit) at Seoul Na-
tional University. A total of 921,179 reads were generated, with an
average read length of 400, yielding a total sequence of 368,366,484
bp. This represents 68? coverage of the estimated 5.4-Mb genome.
genome sequences of reference strain using the BLASTZ program
(http://www.psc.edu/general/software/packages/blastz/). All of the
remaining gaps between contigs were completely filled by ?50-fold
Solexa reads and PCR amplifications. Genome annotation was per-
formed using the NCBI Prokaryotic Genomes Automatic Annota-
Our data on the M. intracellulare genome show it to have a
circular DNA of 5,402,402 bp, which is larger than the genome of
M. avium subsp. paratuberculosis (4.8 Mb) and contains more
protein coding genes (5,145 versus 4,400) and more tRNA genes
a G?C content of 68.10%, and no plasmid was found. M. intra-
cellulare is known to form a close cluster with M. avium in a phy-
logenetic analysis based on the 16S rRNA gene sequence. Our
the NCBI microbial sequence database also supported the close
relationships of M. intracellulare with M avium subsp. avium 104
and M. avium subsp. paratuberculosis. The genome sequence re-
epidemiologic, biological, and pathogenic aspects of the disparity
between MAC members.
Nucleotide sequence accession number. The whole-genome
sequence of M. intracellulare ATCC 13950Thas been deposited in
the GenBank database under accession number CP003322.
This work was supported by a National Research Foundation of Korea
grant funded by the Korean Government Ministry of Education, Science
and Technology (2010-0014269).
1. Falkinham JO, III. 1996. Epidemiology of infection by nontuberculous
mycobacteria. Clin. Microbiol. Rev. 9:177–215.
2. González-Pérez M, Murcia MI, Landsman D, Jordan IK, Marino-
strain, CECT 3035. J. Bacteriol. 193:5866–5867.
3. Inderlied CB, Kemper CA, Bermudez LE. 1993. The Mycobacterium
avium complex. Clin. Microbiol. Rev. 6:266–310.
4. Li L, et al. 2005. The complete genome sequence of Mycobacterium avium
subspecies paratuberculosis. Proc. Natl. Acad. Sci. U. S. A. 102:12344–
5. Tortoli E, et al. 1999. Use of BACTEC MGIT 960 for recovery of myco-
bacteria from clinical specimens: multicenter study. J. Clin. Microbiol. 37:
6. Turenne CY, Wallace R, Jr, Behr MA. 2007. Mycobacterium avium in the
postgenomic era. Clin. Microbiol. Rev. 20:205–229.
7. Yajko DM, et al. 1995. Mycobacterium avium complex in water, food, and
Acquir. Immune. Defic. Syndr. Hum. Retrovirol. 9:176–182.
Received 22 February 2012 Accepted 2 March 2012
Address correspondence to Bum-Joon Kim, email@example.com.
Copyright © 2012, American Society for Microbiology. All Rights Reserved.
jb.asm.org0021-9193/12/$12.00Journal of Bacteriologyp. 2750