# Complete Genome Sequence of Mycoplasma putrefaciens Strain 9231, One of the Agents of Contagious Agalactia in Goats

Virginie Dupuy, Pascal Sirand-Pugnet, Eric Baranowski, Aurélien Barré, Marc Breton, Carole Couture, Emilie Dordet-Frisoni, Patrice Gaurivaud, Daniel Jacob, Claire Lemaitre, et al.

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Virginie Dupuy, Pascal Sirand-Pugnet, Eric Baranowski, Aurélien Barré, Marc Breton, et al. Complete Genome Sequence of Mycoplasma putrefaciens Strain 9231, One of the Agents of Contagious Agalactia in Goats. Genome Announcements, 2013, 1 (3), pp.e00354-13. 10.1128/genomeA.00354-13. hal-00907450

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Distributed under a Creative Commons Attribution 4.0 International License
Complete Genome Sequence of *Mycoplasma putrefaciens* Strain 9231,
One of the Agents of Contagious Agalactia in Goats

Virginie Dupuy,<sup>a,b</sup> Pascal Sirand-Pugnet,<sup>c,d</sup> Eric Baranowski,<sup>e,f</sup> Aurélien Barré,<sup>g</sup> Marc Breton,<sup>c,d</sup> Carole Couture,<sup>c,d</sup>

Emilie Dordet-Frisoni,<sup>e,f</sup> Patrice Gaurivaud,<sup>h,i</sup> Daniel Jacob,<sup>g*</sup> Claire Lemaitre,<sup>g*,</sup> Lucía Manso-Silván,<sup>a,b</sup> Macha Nikolski,<sup>g,j</sup>

Laurent-Xavier Nouvel,<sup>e,f</sup> François Poumarat,<sup>h,i</sup> Florence Tardy,<sup>h,i</sup> Patricia Thébault,<sup>g,j</sup> Sébastien Theil,<sup>a,b*</sup> Christine Citti,<sup>e,f</sup>

Alain Blanchard,<sup>c,d</sup> François Thiaucourt<sup>a,b</sup>

CIRAD, UMR CMAEE, Montpellier, France<sup>a</sup>; INRA, UMR1309 CMAEE, Montpellier, France<sup>b</sup>; INRA, UMR 1332 de Biologie du Fruit et Pathologie, Villenave d'Ornon, France<sup>c</sup>; Univ. Bordeaux, UMR 1332 de Biologie du Fruit et Pathologie, Villenave d'Ornon, France<sup>d</sup>; INRA, UMR 1225, IHAP, Toulouse, France<sup>e</sup>; Université de Toulouse, INP, ENVT, UMR1225, IHAP, Toulouse, France<sup>f</sup>; Université de Bordeaux, Centre de Bioinformatique et de Génomique Fonctionnelle Bordeaux, CBiB, Bordeaux, France<sup>g</sup>; Anses, Laboratoire de Lyon, UMR Mycoplasmoses des Ruminants, Lyon, France<sup>h</sup>; Université de Lyon, VetAgro Sup, UMR Mycoplasmoses des Ruminants, Marcy L'Etoile, France<sup>i</sup>; Université Bordeaux, LaBRI, UMR 5800, Talence, France<sup>j</sup>

* Present address: Daniel Jacob and Sébastien Theil, INRA, Univ. Bordeaux, UMR 1332 de Biologie du Fruit et Pathologie, Villenave d'Ornon, France; Claire Lemaitre, INRIA, Bretagne Atlantique/IRISA, EPI GenScale, Rennes, France.

*Mycoplasma putrefaciens* is one of the etiologic agents of contagious agalactia in goats. We report herein the complete genome sequence of *Mycoplasma putrefaciens* strain 9231.

Received 29 April 2013 Accepted 1 May 2013 Published 13 June 2013

**Citation** Dupuy V, Sirand-Pugnet P, Baranowski E, Barré A, Breton M, Couture C, Dordet-Frisoni E, Gaurivaud P, Jacob D, Lemaitre C, Manso-Silván L, Nikolski M, Nouvel L-X, Poumarat F, Tardy F, Thébault P, Theil S, Citti C, Blanchard A, Thiaucourt F. 2013. Complete genome sequence of *Mycoplasma putrefaciens* strain 9231, one of the agents of contagious agalactia in goats. Genome Announc. 1(3):e00354-13. doi:10.1128/genomeA.00354-13.

Copyright © 2013 Dupuy et al. This is an open-access article distributed under the terms of the Creative Commons Attribution 3.0 Unported license.
Address correspondence to Virginie Dupuy, virginie.dupuy@cirad.fr.

Mycoplasma putrefaciens is one of the etiologic agents of con-
tagious agalactia in goats, a syndrome listed by the World
Organisation for Animal Health (OIE) (1) and characterized by
mastitis, arthritis, keratoconjunctivitis, pneumonia, and septi-
cemia (“MAKePS”) (2). It can also be found as a commensal
organism in the ear canal (3). This mycoplasma is phylogeneti-
cally related to the *Mycoplasma mycoides* cluster, which com-
prises five major ruminant pathogens: *M. mycoides* subsp.
*mycoides*, *M. mycoides* subsp. *capri*, *M. capricolum* subsp. *capri-
colum*, *M. capricolum* subsp. *capripneumoniae*, and *M. leachii*
(4, 5). *M. putrefaciens* was characterized only in 1976 (6). This
species is not as frequently isolated as some members of the
*Mycoplasma mycoides* cluster (7), although it has a worldwide
distribution (3, 8, 9). Since the whole annotated genome of the
type strain KS1T has been recently published (10), an addi-
tional *M. putrefaciens* genome will allow comparative analyses
to gain insight into the pan genome of the species as well as the
intra-species polymorphism.

The genome sequence was determined by the Sanger method (GATC, Constanz, Germany) and resulted in 8.4× average depth. De novo assembly was performed using SeqMan (version 7.0; DNASTAR Lasergene, Madison, WI) and resulted in 3 scaffolds. Gap closure was completed by PCR amplification and Sanger sequencing. Annotation was conducted using a customized version of the CAAT-BOX platform (PMID, 14752000) with automatic preannotation for coding sequences (CDS), followed by expert validation as previously described (11).

The complete genome consisted of an 859,996-bp sequence
with a global G+C content of 26.96%. It is composed of a single
circular chromosome that contains 749 genes, of which 667 cor-

respond to CDS, 44 to pseudogenes, and 38 to structural RNAs. Unlike the genome of strain KS1T, in which no functional mobile elements were found, a 23.9-kb-long integrative conjugative element (ICE) and a single copy of an IS3 family insertion sequence were identified in 9231, which mainly explains their difference in size. The ICE comprises 16 CDS, including the *traG* and *traE* genes. The last two ICE genes are duplicated in the genome and may represent a vestige of a previous ICE integration.

The availability of high-quality genome sequences, as for
*M. putrefaciens* 9231, and comparative analyses with related spe-
cies will improve our understanding of the pathogenomic evolu-
tion of ruminant pathogens.

**Nucleotide sequence accession number.** The annotated ge-
nome sequence was deposited in GenBank under accession no.
CP004357 and in the MolliGen database.

ACKNOWLEDGMENTS

The annotation of the genome was performed within the EVOLMYCO
project, financed by the French national agency for research (ANR-07-
GMGE-001).

REFERENCES

1. Nicholas RA, Loria GR. 2008. Contagious agalactia 2.7.5, p 987–994. *In* Manual of diagnostic tests and vaccines for terrestrial animals, vol 2, 7th ed. OIE, Paris, France.

2. Thiaucourt F, Bölske G. 1996. Contagious caprine pleuropneumonia and other pulmonary mycoplasmoses of sheep and goats. Rev. Sci. Tech. 15: 1397–1414.

3. Cottew GS, Yeats FR. 1981. Occurrence of mycoplasmas in clinically normal goats. Aust. Vet. J. 57:52–53.
4. Manso-Silván L, Perrier X, Thiaucourt F. 2007. Phylogeny of the *Mycoplasma mycoides* cluster based on analysis of five conserved protein-coding sequences: consequences in taxonomy. Int. J. Syst. Evol. Microbiol. 57:2247-2258.

5. Manso-Silván L, Vilei EM, Sachse K, Djordjevic SP, Thiaucourt F, Frey J. 2009. *Mycoplasma leachii* sp. nov. as a new species designation for *Mycoplasma* sp. bovine group 7 of leach, and reclassification of *Mycoplasma mycoides* subsp. *mycoides* LC as a serovar of *Mycoplasma mycoides* subsp. *capri*. Int. J. Syst. Evol. Microbiol. 59:1353-1358.

6. Tully JG, Barile MF, Edward DG, Theodore TS, Erno H. 1974. Characterization of some caprine mycoplasmas, with proposals for new species, *Mycoplasma capricolum* and *Mycoplasma putrefaciens*. J. Gen. Microbiol. 85:102-120.

7. Chazel M, Tardy F, Le Grand D, Calavas D, Poumarat F. 2010. Myco-

plasmoses of ruminants in France: recent data from the national surveillance network. BMC Vet. Res. 6:32.

8. Adler HE, DaMassa AJ, Brooks DL. 1980. Caprine mycoplasmosis: *Mycoplasma putrefaciens*, a new cause of mastitis in goats. Am. J. Vet. Res. 41:1677-1679.

9. Al-Momani W, Halablab MA, Abo-Shehada MN, Miles K, McAuliffe L, Nicholas RAJ. 2006. Isolation and molecular identification of small ruminant mycoplasmas in Jordan. Small Rumin. Res. 65:106-112.

10. Calcutt MJ, Foecking MF. 2011. Genome sequence of *Mycoplasma putrefaciens* type strain KS1. J. Bacteriol. 193:6094.

11. Thiaucourt F, Manso-Silvan L, Salah W, Barbe V, Vacherie B, Jacob D, Breton M, Dupuy V, Lomenech AM, Blanchard A, Sirand-Pugnet P. 2011. Mycoplasma mycoides, from “mycoides Small Colony” to “capri.” *A microevolutionary perspective*. BMC Genomics 12:114.