The Waddlia Genome: A Window into Chlamydial Biology

Bertelli C, Collyn F, Croxatto A, Rückert C, Polkinghorne A, Kebbi-Beghdadi C, Goesmann A, Vaughan L, Greub G (2010)
PLOS ONE 5(5): e10890.

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Growing evidence suggests that a novel member of the Chlamydiales order, Waddlia chondrophila, is a potential agent of miscarriage in humans and abortion in ruminants. Due to the lack of genetic tools to manipulate chlamydia, genomic analysis is proving to be the most incisive tool in stimulating investigations into the biology of these obligate intracellular bacteria. 454/Roche and Solexa/Illumina technologies were thus used to sequence and assemble de novo the full genome of the first representative of the Waddliaceae family, W. chondrophila. The bacteria possesses a 2'116'312bp chromosome and a 15'593 bp low-copy number plasmid that might integrate into the bacterial chromosome. The Waddlia genome displays numerous repeated sequences indicating different genome dynamics from classical chlamydia which almost completely lack repetitive elements. Moreover, W. chondrophila exhibits many virulence factors also present in classical chlamydia, including a functional type III secretion system, but also a large complement of specific factors for resistance to host or environmental stresses. Large families of outer membrane proteins were identified indicating that these highly immunogenic proteins are not Chlamydiaceae specific and might have been present in their last common ancestor. Enhanced metabolic capability for the synthesis of nucleotides, amino acids, lipids and other co-factors suggests that the common ancestor of the modern Chlamydiales may have been less dependent on their eukaryotic host. The fine-detailed analysis of biosynthetic pathways brings us closer to possibly developing a synthetic medium to grow W. chondrophila, a critical step in the development of genetic tools. As a whole, the availability of the W. chondrophila genome opens new possibilities in Chlamydiales research, providing new insights into the evolution of members of the order Chlamydiales and the biology of the Waddliaceae.
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Bertelli C, Collyn F, Croxatto A, et al. The Waddlia Genome: A Window into Chlamydial Biology. PLOS ONE. 2010;5(5):e10890.
Bertelli, C., Collyn, F., Croxatto, A., Rückert, C., Polkinghorne, A., Kebbi-Beghdadi, C., Goesmann, A., et al. (2010). The Waddlia Genome: A Window into Chlamydial Biology. PLOS ONE, 5(5), e10890. doi:10.1371/journal.pone.0010890
Bertelli, C., Collyn, F., Croxatto, A., Rückert, C., Polkinghorne, A., Kebbi-Beghdadi, C., Goesmann, A., Vaughan, L., and Greub, G. (2010). The Waddlia Genome: A Window into Chlamydial Biology. PLOS ONE 5, e10890.
Bertelli, C., et al., 2010. The Waddlia Genome: A Window into Chlamydial Biology. PLOS ONE, 5(5), p e10890.
C. Bertelli, et al., “The Waddlia Genome: A Window into Chlamydial Biology”, PLOS ONE, vol. 5, 2010, pp. e10890.
Bertelli, C., Collyn, F., Croxatto, A., Rückert, C., Polkinghorne, A., Kebbi-Beghdadi, C., Goesmann, A., Vaughan, L., Greub, G.: The Waddlia Genome: A Window into Chlamydial Biology. PLOS ONE. 5, e10890 (2010).
Bertelli, Claire, Collyn, Francois, Croxatto, Antony, Rückert, Christian, Polkinghorne, Adam, Kebbi-Beghdadi, Carole, Goesmann, Alexander, Vaughan, Lloyd, and Greub, Gilbert. “The Waddlia Genome: A Window into Chlamydial Biology”. PLOS ONE 5.5 (2010): e10890.
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60 Citations in Europe PMC

Data provided by Europe PubMed Central.

Identification of immunogenic proteins of Waddlia chondrophila.
Kebbi-Beghdadi C, Lienard J, Uyttebroeck F, Baud D, Riederer BM, Greub G., PLoS One 7(1), 2012
PMID: 22238579
The Chlamydia psittaci genome: a comparative analysis of intracellular pathogens.
Voigt A, Schöfl G, Saluz HP., PLoS One 7(4), 2012
PMID: 22506068
The chlamydiales pangenome revisited: structural stability and functional coherence.
Psomopoulos FE, Siarkou VI, Papanikolaou N, Iliopoulos I, Tsaftaris AS, Promponas VJ, Ouzounis CA., Genes (Basel) 3(2), 2012
PMID: 24704919
Nucleotide parasitism by Simkania negevensis (Chlamydiae).
Knab S, Mushak TM, Schmitz-Esser S, Horn M, Haferkamp I., J Bacteriol 193(1), 2011
PMID: 20971898
Permissivity of Vero cells, human pneumocytes and human endometrial cells to Waddlia chondrophila.
Kebbi-Beghdadi C, Cisse O, Greub G., Microbes Infect 13(6), 2011
PMID: 21315828
Unity in variety--the pan-genome of the Chlamydiae.
Collingro A, Tischler P, Weinmaier T, Penz T, Heinz E, Brunham RC, Read TD, Bavoil PM, Sachse K, Kahane S, Friedman MG, Rattei T, Myers GS, Horn M., Mol Biol Evol 28(12), 2011
PMID: 21690563
Intracellular bacteria and adverse pregnancy outcomes.
Baud D, Greub G., Clin Microbiol Infect 17(9), 2011
PMID: 21884294
Insight into cross-talk between intra-amoebal pathogens.
Gimenez G, Bertelli C, Moliner C, Robert C, Raoult D, Fournier PE, Greub G., BMC Genomics 12(), 2011
PMID: 22047552
The Chlamydial Type III Secretion Mechanism: Revealing Cracks in a Tough Nut.
Betts-Hampikian HJ, Fields KA., Front Microbiol 1(), 2010
PMID: 21738522

62 References

Data provided by Europe PubMed Central.

Improved microbial gene identification with GLIMMER.
Delcher AL, Harmon D, Kasif S, White O, Salzberg SL., Nucleic Acids Res. 27(23), 1999
PMID: 10556321
REGANOR: a gene prediction server for prokaryotic genomes and a database of high quality gene predictions for prokaryotes.
Linke B, McHardy AC, Neuweger H, Krause L, Meyer F., Appl. Bioinformatics 5(3), 2006
PMID: 16922601
Improved prediction of signal peptides: SignalP 3.0.
Bendtsen JD, Nielsen H, von Heijne G, Brunak S., J. Mol. Biol. 340(4), 2004
PMID: 15223320
Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.
Krogh A, Larsson B, von Heijne G, Sonnhammer EL., J. Mol. Biol. 305(3), 2001
PMID: 11152613
DNAPlotter: circular and linear interactive genome visualization.
Carver T, Thomson N, Bleasby A, Berriman M, Parkhill J., Bioinformatics 25(1), 2009
PMID: 18990721
REPuter: the manifold applications of repeat analysis on a genomic scale.
Kurtz S, Choudhuri JV, Ohlebusch E, Schleiermacher C, Stoye J, Giegerich R., Nucleic Acids Res. 29(22), 2001
PMID: 11713313
EDGAR: a software framework for the comparative analysis of prokaryotic genomes.
Blom J, Albaum SP, Doppmeier D, Puhler A, Vorholter FJ, Zakrzewski M, Goesmann A., BMC Bioinformatics 10(), 2009
PMID: 19457249
T-Coffee: A novel method for fast and accurate multiple sequence alignment.
Notredame C, Higgins DG, Heringa J., J. Mol. Biol. 302(1), 2000
PMID: 10964570
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0.
Tamura K, Dudley J, Nei M, Kumar S., Mol. Biol. Evol. 24(8), 2007
PMID: 17488738
Modeling ensembles of transmembrane beta-barrel proteins.
Waldispuhl J, O'Donnell CW, Devadas S, Clote P, Berger B., Proteins 71(3), 2008
PMID: 18004792
Fold recognition and accurate sequence-structure alignment of sequences directing beta-sheet proteins.
McDonnell AV, Menke M, Palmer N, King J, Cowen L, Berger B., Proteins 63(4), 2006
PMID: 16547930

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