TY - JOUR
T1 - Ecotypes of the Mycobacterium tuberculosis complex
AU - Smith, Noel H.
AU - Kremer, Kristin
AU - Inwald, Jacqueline
AU - Dale, James
AU - Driscoll, Jeffrey R.
AU - Gordon, Stephen V.
AU - Van Soolingen, Dick
AU - Glyn Hewinson, R.
AU - Maynard Smith, John
PY - 2006/3/21
Y1 - 2006/3/21
N2 - A phylogeny of the Mycobacterium tuberculosis complex has recently shown that the animal-adapted strains are found in a single lineage marked by the deletion of chromosomal region 9 (RD9) [Brosch et al., 2002. A new evolutionary scenario for the Mycobacterium tuberculosis complex. Proc. Natl Acad. Sci. USA 99 (6), 3684-3689]. We have obtained the spoligotype patterns of the RD9 deleted strains used to generate this new evolutionary scenario and we show that the presence of spoligotype spacers 3, 9, 16, 39, and 40-43 is phylogenetically informative in this lineage. We have used the phylogenetically informative spoligotype spacers to screen a database of spoligotype patterns and have identified further members of a group of strains apparently host-adapted to antelopes. The presence of the spoligotype spacers is congruent with the phylogeny generated by chromosomal deletions, suggesting that recombination is rare or absent between strains of this lineage. The phylogenetically informative spacers, in concert with the previously identified single nucleotide mutations and chromosomal deletions, can be used to identify a series of clades in the RD9 deleted lineage each with a separate host preference. Finally, we discuss the application of the ecotype concept to this series of clades and suggest that the M. tuberculosis complex may best be described as a series of host-adapted ecotypes. Crown
AB - A phylogeny of the Mycobacterium tuberculosis complex has recently shown that the animal-adapted strains are found in a single lineage marked by the deletion of chromosomal region 9 (RD9) [Brosch et al., 2002. A new evolutionary scenario for the Mycobacterium tuberculosis complex. Proc. Natl Acad. Sci. USA 99 (6), 3684-3689]. We have obtained the spoligotype patterns of the RD9 deleted strains used to generate this new evolutionary scenario and we show that the presence of spoligotype spacers 3, 9, 16, 39, and 40-43 is phylogenetically informative in this lineage. We have used the phylogenetically informative spoligotype spacers to screen a database of spoligotype patterns and have identified further members of a group of strains apparently host-adapted to antelopes. The presence of the spoligotype spacers is congruent with the phylogeny generated by chromosomal deletions, suggesting that recombination is rare or absent between strains of this lineage. The phylogenetically informative spacers, in concert with the previously identified single nucleotide mutations and chromosomal deletions, can be used to identify a series of clades in the RD9 deleted lineage each with a separate host preference. Finally, we discuss the application of the ecotype concept to this series of clades and suggest that the M. tuberculosis complex may best be described as a series of host-adapted ecotypes. Crown
KW - Bovine tuberculosis
KW - Host-adapted strain
KW - RD9 deleted lineage
KW - Spoligotype
UR - http://www.scopus.com/inward/record.url?scp=33644617473&partnerID=8YFLogxK
U2 - 10.1016/j.jtbi.2005.08.036
DO - 10.1016/j.jtbi.2005.08.036
M3 - Article
C2 - 16242724
AN - SCOPUS:33644617473
SN - 0022-5193
VL - 239
SP - 220
EP - 225
JO - Journal of Theoretical Biology
JF - Journal of Theoretical Biology
IS - 2
ER -