Minoarisoa Rajerison

Distinct clones of yersinia pestis caused the Black Death

From AD 1347 to AD 1353, the Black Death killed tens of millions of people in Europe, leaving misery and devastation in its wake, with successive epidemics ravaging the continent until the 18th century. The etiology of this disease has remained highly controversial, ranging from claims based on genetics and the historical descriptions of symptoms that it was caused by Yersinia pestis to conclusions that it must have been caused by other pathogens. It has also been disputed whether plague had the same etiology in northern and southern Europe. Here we identified DNA and protein signatures specific for Y. pestis in human skeletons from mass graves in northern, central and southern Europe that were associated archaeologically with the Black Death and subsequent resurgences. We confirm that Y. pestis caused the Black Death and later epidemics on the entire European continent over the course of four centuries. Furthermore, on the basis of 17 single nucleotide polymorphisms plus the absence of a deletion in glpD gene, our aDNA results identified two previously unknown but related clades of Y. pestis associated with distinct medieval mass graves. These findings suggest that plague was imported to Europe on two or more occasions, each following a distinct route. These two clades are ancestral to modern isolates of Y. pestis biovars Orientalis and Medievalis. Our results clarify the etiology of the Black Death and provide a paradigm for a detailed historical reconstruction of the infection routes followed by this disease.

Understanding the persistence of plague foci in Madagascar.

Plague, a zoonosis caused by Yersinia pestis, is still found in Africa, Asia, and the Americas. Madagascar reports almost one third of the cases worldwide. Y. pestis can be encountered in three very different types of foci: urban, rural, and sylvatic. Flea vector and wild rodent host population dynamics are tightly correlated with modulation of climatic conditions, an association that could be crucial for both the maintenance of foci and human plague epidemics. The black rat Rattus rattus, the main host of Y. pestis in Madagascar, is found to exhibit high resistance to plague in endemic areas, opposing the concept of high mortality rates among rats exposed to the infection. Also, endemic fleas could play an essential role in maintenance of the foci. This review discusses recent advances in the understanding of the role of these factors as well as human behavior in the persistence of plague in Madagascar.

Field evaluation of a rapid immunochromatographic dipstick test for the diagnosis of cholera in a high-risk population

BackgroundEarly detection of cholera outbreaks is crucial for the implementation of the most appropriate control strategies.MethodsThe performance of an immunochromatographic dipstick test (Institute Pasteur, Paris, France) specific for Vibrio cholerae O1 was evaluated in a prospective study in Beira, Mozambique, during the 2004 cholera season (January-May). Fecal specimens were collected from 391 patients with acute watery nonbloody diarrhea and tested by dipstick and conventional culture.ResultsThe overall sensitivity and specificity of the rapid test compared to culture were 95% (95% confidence interval [CI]: 91%–99%) and 89% (95% CI: 86%–93%), respectively. After stratification by type of sample (rectal swab/bulk stool) and severity of diarrhea, the sensitivity ranged between 85% and 98% and specificity between 77% and 97%.ConclusionThis one-step dipstick test performed well in the diagnosis of V. cholerae O1 in a setting with seasonal outbreaks where rapid tests are most urgently needed.

Plague Outbreak in Libya, 2009, Unrelated to Plague in Algeria

After 25 years of no cases of plague, this disease recurred near Tobruk, Libya, in 2009. An epidemiologic investigation identified 5 confirmed cases. We determined ribotypes, Not1 restriction profiles, and IS100 and IS1541 hybridization patterns of strains isolated during this outbreak. We also analyzed strains isolated during the 2003 plague epidemic in Algeria to determine whether there were epidemiologic links between the 2 events. Our results demonstrate unambiguously that neighboring but independent plague foci coexist in Algeria and Libya. They also indicate that these outbreaks were most likely caused by reactivation of organisms in local or regional foci believed to be dormant (Libya) or extinct (Algeria) for decades, rather than by recent importation of Yersinia pestis from distant foci. Environmental factors favorable for plague reemergence might exist in this area and lead to reactivation of organisms in other ancient foci.

Invasion genetics of a human commensal rodent: the black rat Rattus rattus in Madagascar

Studies focusing on geographical genetic patterns of commensal species and on human history complement each other and provide proxies to trace common colonization events. On Madagascar, the unintentional introduction and spread of the commensal species Rattus rattus by people may have left a living clue of human colonization patterns and history. In this study, we addressed this question by characterizing the genetic structure of natural populations of R. rattus using both microsatellites and mitochondrial sequences, on an extensive sampling across the island. Such data sets were analysed by a combination of methods using population genetics, phylogeography and approximate Bayesian computation. Our results indicated two introduction events to Madagascar from the same ancestral source of R. rattus, one in the extreme north of the island and the other further south. The latter was the source of a large spatial expansion, which may have initially started from an original point located on the southern coast. The inferred timing of introduction events—several centuries ago—is temporally congruent with the Arabian trade network in the Indian Ocean, which was flourishing from the middle of the first millennium.

Genetic variations of live attenuated plague vaccine strains (Yersinia pestis EV76 lineage) during laboratory passages in different countries

Plague, one of the most devastating infectious diseases in human history, is caused by the bacterial species Yersinia pestis. A live attenuated Y. pestis strain (EV76) has been widely used as a plague vaccine in various countries around the world. Here we compared the whole genome sequence of an EV76 strain used in China (EV76-CN) with the genomes of Y. pestis wild isolates to identify genetic variations specific to the EV76 lineage. We identified 6 SNPs and 6 Indels (insertions and deletions) differentiating EV76-CN from its counterparts. Then, we screened these polymorphic sites in 28 other strains of EV76 lineage that were stored in different countries. Based on the profiles of SNPs and Indels, we reconstructed the parsimonious dissemination history of EV76 lineage. This analysis revealed that there have been at least three independent imports of EV76 strains into China. Additionally, we observed that the pyrE gene is a mutation hotspot in EV76 lineages. The fine comparison results based on whole genome sequence in this study provide better understanding of the effects of laboratory passages on the accumulation of genetic polymorphisms in plague vaccine strains. These variations identified here will also be helpful in discriminating different EV76 derivatives.

Pneumonic Plague Outbreak, Northern Madagascar, 2011

Multidrug-resistant Yersinia pestis is a serious threat that requires outbreak response strategies.

Serologic Survey of Plague in Animals, Western Iran

To the Editor: Plague has been one of the most devastating infectious diseases in human history. The etiologic agent, Yersinia pestis, primarily affects rodents and is usually transmitted to humans through infective flea bites. Endemic plague foci result from circulation of the plague bacillus in its rodent reservoir, the source of human plague cases (1). Carnivores such as dogs and foxes, which prey on rodents and eat their fresh carcasses, are valuable sentinel animals for plague serosurveillance in disease-endemic foci, although their infections are usually asymptomatic (2,3). Plague epidemics have caused loss of human life in various parts of Iran. During 1947–1966 in western Iran, 9 human epidemics occurred and caused 156 deaths. The last case of human plague was reported in 1966 (4). Field investigations identified 4 Meriones rodent species as Y pestis reservoirs; 2 were resistant (M. persicus and M. libycus), and the other 2 (M. tristrami and M. vinogradovi) were susceptible to death from infection (4,5). The epidemiologic investigations demonstrated a 3–4 year plague epizootic cycle in Iran (5). The last official report of plague in rodents in Iran dates back to 1978, in Sarab County in the East Azarbaijan Province (6). Plague surveillance was ignored for more than 3 decades and then restarted in 2011 in Iran. This study was designed to investigate plague among resident animals in western Iran, specificallyregion localities along the border between the Kurdistan and Hamadan Provinces, where plague in wildlife has been repeatedly reported (enclosed by 47.900° and 48.284° north latitude and 35.4616° and 35.7829° east longitude). The epidemiologic team was based at the Akanlu Research Center of the Pasteur Institute of Iran, in a village ≈100 km from Kabudar Ahang, Hamadan Province, at an altitude of ≈1,600 m. The study was conducted during June–September in 2011 and 2012. In 2011, a large area (2,000 km2) was selected and, because only 1 Y. pestis–positive dog sample was found, in 2012, , the study area was reduced to 1,200 km2 and confined to localities in which the Y. pestis–positive dog sample was identified the previous year; 3 additional Y. pestis–positive dogs and 1 Y. pestis–positive rodent were found in 2012. The average number of traps used per night per locality was 13. A total of 46 rodents were entrapped from 26 localities in 998 traps (4.61% success) during the first year, and 52 rodents were captured in 30 localities in 1,164 traps (4.46% success) during the second year. They were mostly members of the Meriones genus, although a few Microtus socialis irani and 1 Ellobius lutescens rodents were also caught (Table). A total of 281 fleas were collected on 70.41% of trapped rodents (Table), corresponding to an average flea index of 4.10 for infested rodents. All fleas were Xenopsylla spp. ELISA was performed as described (7) to detect antibodies against Y. pestis F1 capsular antigen. Samples positive by ELISA were confirmed by using the inhibition ELISA method (8). Of 98 trapped rodents, 1 (1.02%) had IgG against F1 (Table), an M. persicus jird caught in 2012. Table Number of fleas and serum samples with Yersinia pestis F1 antibody collected from various animals during field investigations, Iran, 2011–2012* Sheepdogs that lived in the study areas were also used as sentinel animals. Blood samples were collected from 58 sheepdogs in 15 villages in 2011 and from 59 sheepdogs in 8 villages in 2012. Of 117 dog serum samples analyzed, 4 (3.42%) had IgG titers against F1, 1 in 2011 and the other 3 in 2012 (Table). Finally, wild animals such as jackals, foxes, rabbits, and hedgehogs were hunted in the study areas, and blood samples were taken immediately. None of the serum samples obtained from 3 foxes, 2 jackals, 8 rabbits, and 1 hedgehog had IgG against F1 (Table). Because a well-established plague focus existed in Iranian Kurdistan, with animal cases occurring until 1978 (9), complete extinction of this focus is most unlikely. Our study demonstrates that animal reservoirs (Meriones rodents) and flea vectors (Xenopsylla spp.) shown to be central to the plague ecologic cycle in Iran still are found in high numbers in a previously active focus. The fact that 70% of trapped rodents were infested with fleas, with an average Xenopsylla spp. index of 4.10, may be considered as circumstances most favorable for the onset of plague epizootics. Furthermore, the detection of Y. pestis–specific IgG in 1.02% of trapped rodents and 3.42% of sentinel dogs is highly suggestive of active circulation of Y. pestis in its natural animal reservoir. Because Y. pestis antibodies last only for ≈6 months in dogs (2), seropositivity of these dogs indicates newly acquired infections. This fact that Y. pestis–-positive animals were found over the 2-year surveillance period suggests that this area could be an active plague focus. Therefore, although no official reports of human plague in Iran have been made since 1966, this study indicates that the epidemiologic conditions needed to trigger an outbreak have been met. It is thus of utmost importance to maintain and strengthen the health system with plague surveillance in western Iran.

Development and Evaluation of Two Simple, Rapid Immunochromatographic Tests for the Detection of Yersinia pestis Antibodies in Humans and Reservoirs

Background Tools for plague diagnosis and surveillance are not always available and affordable in most of the countries affected by the disease. Yersinia pestis isolation for confirmation is time-consuming and difficult to perform under field conditions. Serologic tests like ELISA require specific equipments not always available in developing countries. In addition to the existing rapid test for antigen detection, a rapid serodiagnostic assay may be useful for plague control. Methods/Principal Findings We developed two rapid immunochromatography-based tests for the detection of antibodies directed against F1 antigen of Y. pestis. The first test, SIgT, which detects total Ig (IgT) anti-F1 in several species (S) (human and reservoirs), was developed in order to have for the field use an alternative method to ELISA. The performance of the SIgT test was evaluated with samples from humans and animals for which ELISA was used to determine the presumptive diagnosis of plague. SIgT test detected anti-F1 Ig antibodies in humans with a sensitivity of 84.6% (95% CI: 0.76–0.94) and a specificity of 98% (95% CI: 0.96–1). In evaluation of samples from rodents and other small mammals, the SlgT test had a sensitivity of 87.8% (95% CI: 0.80–0.94) and a specificity of 90.3% (95% CI: 0.86–0.93). Improved performance was obtained with samples from dogs, a sentinel animal, with a sensitivity of 93% (95% CI: 0.82–1) and a specificity of 98% (95% CI: 0.95–1.01). The second test, HIgM, which detects human (H) IgM anti-F1, was developed in order to have another method for plague diagnosis. Its sensitivity was 83% (95% CI: 0.75–0.90) and its specificity about 100%. Conclusion/Significance The SIgT test is of importance for surveillance because it can detect Ig antibodies in a range of reservoir species. The HIgM test could facilitate the diagnosis of plague during outbreaks, particularly when only a single serum sample is available.

Plague Circulation and Population Genetics of the Reservoir Rattus rattus: The Influence of Topographic Relief on the Distribution of the Disease within the Madagascan Focus.

Background Landscape may affect the distribution of infectious diseases by influencing the population density and dispersal of hosts and vectors. Plague (Yersinia pestis infection) is a highly virulent, re-emerging disease, the ecology of which has been scarcely studied in Africa. Human seroprevalence data for the major plague focus of Madagascar suggest that plague spreads heterogeneously across the landscape as a function of the relief. Plague is primarily a disease of rodents. We therefore investigated the relationship between disease distribution and the population genetic structure of the black rat, Rattus rattus, the main reservoir of plague in Madagascar. Methodology/Principal Findings We conducted a comparative study of plague seroprevalence and genetic structure (15 microsatellite markers) in rat populations from four geographic areas differing in topology, each covering about 150–200 km2 within the Madagascan plague focus. The seroprevalence levels in the rat populations mimicked those previously reported for humans. As expected, rat populations clearly displayed a more marked genetic structure with increasing relief. However, the relationship between seroprevalence data and genetic structure differs between areas, suggesting that plague distribution is not related everywhere to the effective dispersal of rats. Conclusions/Significance Genetic diversity estimates suggested that plague epizootics had only a weak impact on rat population sizes. In the highlands of Madagascar, plague dissemination cannot be accounted for solely by the effective dispersal of the reservoir. Human social activities may also be involved in spreading the disease in rat and human populations.