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Published online before print April 18, 2005, 10.1101/gr.3684805
Genome Res. 15:629-640, 2005
©2005 by Cold Spring Harbor Laboratory Press; ISSN 1088-9051/05 $5.00
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The Chlamydophila abortus genome sequence reveals an array of variable proteins that contribute to interspecies variation

Nicholas R. Thomson1,5, Corin Yeats2, Kenneth Bell3, Matthew T.G. Holden1, Stephen D. Bentley1, Morag Livingstone4, Ana M. Cerdeño-Tárraga1, Barbara Harris1, Jon Doggett1, Doug Ormond1, Karen Mungall1, Kay Clarke1, Theresa Feltwell1, Zahra Hance1, Mandy Sanders1, Michael A. Quail1, Claire Price1, Bart G. Barrell1, Julian Parkhill1 and David Longbottom4,5

1 The Pathogen Sequencing Unit, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, United Kingdom 2 The Pfam Group, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, United Kingdom 3 Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, United Kingdom 4 Moredun Research Institute, Penicuik, Midlothian EH26 0PZ, United Kingdom

The obligate intracellular bacterial pathogen Chlamydophila abortus strain S26/3 (formerly the abortion subtype of Chlamydia psittaci) is an important cause of late gestation abortions in ruminants and pigs. Furthermore, although relatively rare, zoonotic infection can result in acute illness and miscarriage in pregnant women. The complete genome sequence was determined and shows a high level of conservation in both sequence and overall gene content in comparison to other Chlamydiaceae. The 1,144,377-bp genome contains 961 predicted coding sequences, 842 of which are conserved with those of Chlamydophila caviae and Chlamydophila pneumoniae. Within this conserved Cp. abortus core genome we have identified the major regions of variation and have focused our analysis on these loci, several of which were found to encode highly variable protein families, such as TMH/Inc and Pmp families, which are strong candidates for the source of diversity in host tropism and disease causation in this group of organisms. Significantly, Cp. abortus lacks any toxin genes, and also lacks genes involved in tryptophan metabolism and nucleotide salvaging (guaB is present as a pseudogene), suggesting that the genetic basis of niche adaptation of this species is distinct from those previously proposed for other chlamydial species.

[Supplemental material is available online at www.genome.org. The genome sequence data from this study have been submitted to EMBL under the accession number CR848038. The following individuals kindly provided DNA samples as indicated in the paper: H. Krauss, S. Magnino, and O. Papadopoulos.]

Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.3684805. Article published online ahead of print in April 2005.

5 Corresponding author.
E-mail nrt{at}sanger.ac.uk; fax 44 (0) 1223 494919. E-mail longd{at}mri.sari.ac.uk; fax +44 131 6111/6235.


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