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A large-scale genomic approach affords unprecedented resolution for the molecular epidemiology and evolutionary history of contagious caprine pleuropneumonia.

Dupuy V, Verdier A, Thiaucourt F, Manso-Silván L - Vet. Res. (2015)

Bottom Line: A Bayesian approach was used to infer the first robust phylogeny of the species and to date the principal events of its evolutionary history.Finally, plausible scenarios were proposed to elucidate the evolution and dynamics of CCPP in Asia and Africa, though limited by the paucity of Mccp strains, particularly in Asia.This study shows how combining large-scale genomic data with spatial and temporal data makes it possible to obtain a comprehensive view of the epidemiology of CCPP, a precondition for the development of improved disease surveillance and control measures.

View Article: PubMed Central - PubMed

Affiliation: CIRAD, UMR CMAEE, F-34398, Montpellier, France. virginie.dupuy@cirad.fr.

ABSTRACT
Contagious caprine pleuropneumonia (CCPP), caused by Mycoplasma capricolum subsp. capripneumoniae (Mccp), is a devastating disease of domestic goats and of some wild ungulate species. The disease is currently spreading in Africa and Asia and poses a serious threat to disease-free areas. A comprehensive view of the evolutionary history and dynamics of Mccp is essential to understand the epidemiology of CCPP. Yet, analysing the diversity of genetically monomorphic pathogens, such as Mccp, is complicated due to their low variability. In this study, the molecular epidemiology and evolution of CCPP was investigated using a large-scale genomic approach based on next-generation sequencing technologies, applied to a sample of strains representing the global distribution of this disease. A highly discriminatory multigene typing system was developed, allowing the differentiation of 24 haplotypes among 25 Mccp strains distributed in six genotyping groups, which showed some correlation with geographic origin. A Bayesian approach was used to infer the first robust phylogeny of the species and to date the principal events of its evolutionary history. The emergence of Mccp was estimated only at about 270 years ago, which explains the low genetic diversity of this species despite its high mutation rate, evaluated at 1.3 × 10(-6) substitutions per site per year. Finally, plausible scenarios were proposed to elucidate the evolution and dynamics of CCPP in Asia and Africa, though limited by the paucity of Mccp strains, particularly in Asia. This study shows how combining large-scale genomic data with spatial and temporal data makes it possible to obtain a comprehensive view of the epidemiology of CCPP, a precondition for the development of improved disease surveillance and control measures.

No MeSH data available.


Related in: MedlinePlus

Haplotype network ofMycoplasma capricolumsubsp.capripneumoniae. The median-joining network was reconstructed using NETWORK based on the alignment of 57 concatenated genes from 25 Mccp strains. The tree shows 24 haplotypes (nodes) resulting from 239 polymorphic positions including gaps. Different colours indicate the geographic origin of haplotypes.
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Fig1: Haplotype network ofMycoplasma capricolumsubsp.capripneumoniae. The median-joining network was reconstructed using NETWORK based on the alignment of 57 concatenated genes from 25 Mccp strains. The tree shows 24 haplotypes (nodes) resulting from 239 polymorphic positions including gaps. Different colours indicate the geographic origin of haplotypes.

Mentions: A single network connecting all strains was drawn using NETWORK (Figure 1). The 24 haplotypes were structured in six genotyping groups, named group A to F. Group A was quite homogeneous and included four extremely similar strains from East Africa and a more distant strain from the Arabian Peninsula. Within this group, M79/93 and 99108-P1 were the only strains that could not be distinguished. Four strains from Central Africa, also showing little diversity, constituted group B. Group C included three rather variable strains from the Mediterranean Basin, the Arabian Peninsula and Central Asia. Chinese strain M1601, positioned at the extremity of a long isolated branch, was designated group D, and was the only representative of this group. Group E showed little variability and comprised three strains originating from the Mediterranean Basin and a strain from the Arabian Peninsula. Finally, Group F, which was the most populated and variable group, included seven strains from East Africa and one strain from the Arabian Peninsula.Figure 1


A large-scale genomic approach affords unprecedented resolution for the molecular epidemiology and evolutionary history of contagious caprine pleuropneumonia.

Dupuy V, Verdier A, Thiaucourt F, Manso-Silván L - Vet. Res. (2015)

Haplotype network ofMycoplasma capricolumsubsp.capripneumoniae. The median-joining network was reconstructed using NETWORK based on the alignment of 57 concatenated genes from 25 Mccp strains. The tree shows 24 haplotypes (nodes) resulting from 239 polymorphic positions including gaps. Different colours indicate the geographic origin of haplotypes.
© Copyright Policy - open-access
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4492101&req=5

Fig1: Haplotype network ofMycoplasma capricolumsubsp.capripneumoniae. The median-joining network was reconstructed using NETWORK based on the alignment of 57 concatenated genes from 25 Mccp strains. The tree shows 24 haplotypes (nodes) resulting from 239 polymorphic positions including gaps. Different colours indicate the geographic origin of haplotypes.
Mentions: A single network connecting all strains was drawn using NETWORK (Figure 1). The 24 haplotypes were structured in six genotyping groups, named group A to F. Group A was quite homogeneous and included four extremely similar strains from East Africa and a more distant strain from the Arabian Peninsula. Within this group, M79/93 and 99108-P1 were the only strains that could not be distinguished. Four strains from Central Africa, also showing little diversity, constituted group B. Group C included three rather variable strains from the Mediterranean Basin, the Arabian Peninsula and Central Asia. Chinese strain M1601, positioned at the extremity of a long isolated branch, was designated group D, and was the only representative of this group. Group E showed little variability and comprised three strains originating from the Mediterranean Basin and a strain from the Arabian Peninsula. Finally, Group F, which was the most populated and variable group, included seven strains from East Africa and one strain from the Arabian Peninsula.Figure 1

Bottom Line: A Bayesian approach was used to infer the first robust phylogeny of the species and to date the principal events of its evolutionary history.Finally, plausible scenarios were proposed to elucidate the evolution and dynamics of CCPP in Asia and Africa, though limited by the paucity of Mccp strains, particularly in Asia.This study shows how combining large-scale genomic data with spatial and temporal data makes it possible to obtain a comprehensive view of the epidemiology of CCPP, a precondition for the development of improved disease surveillance and control measures.

View Article: PubMed Central - PubMed

Affiliation: CIRAD, UMR CMAEE, F-34398, Montpellier, France. virginie.dupuy@cirad.fr.

ABSTRACT
Contagious caprine pleuropneumonia (CCPP), caused by Mycoplasma capricolum subsp. capripneumoniae (Mccp), is a devastating disease of domestic goats and of some wild ungulate species. The disease is currently spreading in Africa and Asia and poses a serious threat to disease-free areas. A comprehensive view of the evolutionary history and dynamics of Mccp is essential to understand the epidemiology of CCPP. Yet, analysing the diversity of genetically monomorphic pathogens, such as Mccp, is complicated due to their low variability. In this study, the molecular epidemiology and evolution of CCPP was investigated using a large-scale genomic approach based on next-generation sequencing technologies, applied to a sample of strains representing the global distribution of this disease. A highly discriminatory multigene typing system was developed, allowing the differentiation of 24 haplotypes among 25 Mccp strains distributed in six genotyping groups, which showed some correlation with geographic origin. A Bayesian approach was used to infer the first robust phylogeny of the species and to date the principal events of its evolutionary history. The emergence of Mccp was estimated only at about 270 years ago, which explains the low genetic diversity of this species despite its high mutation rate, evaluated at 1.3 × 10(-6) substitutions per site per year. Finally, plausible scenarios were proposed to elucidate the evolution and dynamics of CCPP in Asia and Africa, though limited by the paucity of Mccp strains, particularly in Asia. This study shows how combining large-scale genomic data with spatial and temporal data makes it possible to obtain a comprehensive view of the epidemiology of CCPP, a precondition for the development of improved disease surveillance and control measures.

No MeSH data available.


Related in: MedlinePlus