New foci of human CL caused by strains of the Leishmania donovani (L. donovani) complex have been recently described in Cyprus and the Çukurova region in Turkey (L. infantum) situated 150 km north of Cyprus. Cypriot strains were typed by Multilocus Enzyme Electrophoresis (MLEE) using the Montpellier (MON) system as L. donovani zymodeme MON-37. However, multilocus microsatellite typing (MLMT) has shown that this zymodeme is paraphyletic; composed of distantly related genetic subgroups of different geographical origin. Consequently the origin of the Cypriot strains remained enigmatic.
The Cypriot strains were compared with a set of Turkish isolates obtained from a CL patient and sand fly vectors in south-east Turkey (Çukurova region; CUK strains) and from a VL patient in the south-west (Kuşadasi; EP59 strain). These Turkish strains were initially analyzed using the K26-PCR assay that discriminates MON-1 strains by their amplicon size. In line with previous DNA-based data, the strains were inferred to the L. donovani complex and characterized as non MON-1. For these strains MLEE typing revealed two novel zymodemes; L. donovani MON-309 (CUK strains) and MON-308 (EP59). A population genetic analysis of the Turkish isolates was performed using 14 hyper-variable microsatellite loci. The genotypic profiles of 68 previously analyzed L. donovani complex strains from major endemic regions were included for comparison. Population structures were inferred by combination of Bayesian model-based and distance-based approaches. MLMT placed the Turkish and Cypriot strains in a subclade of a newly discovered, genetically distinct L. infantum monophyletic group, suggesting that the Cypriot strains may originate from Turkey.
In eastern Mediterranean, leishmaniasis represents a major public health problem with considerable impact on morbidity and potential to spread. Cutaneous leishmaniasis (CL) caused by L. major or L. tropica accounts for most cases in this region although visceral leishmaniasis (VL) caused by L. infantum is also common. New foci of human CL caused by L. donovani complex strains were recently described in Cyprus and Turkey. Herein we analyzed Turkish strains from human CL foci in Çukurova region (north of Cyprus) and a human VL case in Kuşadasi. These were compared to Cypriot strains that were previously typed by Multilocus Enzyme Electrophoresis (MLEE) as L. donovani MON-37. Nevertheless, they were found genetically distinct from MON-37 strains of other regions and therefore their origin remained enigmatic. A population study was performed by Multilocus Microsatellite Typing (MLMT) and the profile of the Turkish strains was compared to previously analyzed L. donovani complex strains. Our results revealed close genetic relationship between Turkish and Cypriot strains, which form a genetically distinct L. infantum monophyletic group, suggesting that Cypriot strains may originate from Turkey. Our analysis indicates that the epidemiology of leishmaniasis in this region is more complicated than originally thought.
Citation: Gouzelou E, Haralambous C, Amro A, Mentis A, Pratlong F, Dedet J-P, et al. (2012) Multilocus Microsatellite Typing (MLMT) of Strains from Turkey and Cyprus Reveals a Novel Monophyletic L. donovani Sensu Lato Group. PLoS Negl Trop Dis 6(2): e1507. https://doi.org/10.1371/journal.pntd.0001507
Editor: Paul Andrew Bates, Lancaster University, United Kingdom
Received: September 27, 2011; Accepted: December 19, 2011; Published: February 14, 2012
Copyright: © 2012 Gouzelou et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Funding: The work was mainly supported by the Hellenic Ministry of Health and Social Solidarity, Central Health Council (KESY 2009) and the GSRT-TUBITAK grant [joint Research and Technology programmes 2010–2011, Greece-Turkey, Project no: SBAG-GSRT-23 (109S448)]. PV and JV were supported by the Ministry of Education of the Czech Republic (MSM 0021620828 and LC06009). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Competing interests: The authors have declared that no competing interests exist.
Leishmaniases are a group of neglected infectious diseases caused by obligate intracellular protozoa of the genus Leishmania and transmitted by sand flies of the Phlebotominae subfamily. They are characterized by a spectrum of clinical manifestations ranging from ulcerative skin lesions (cutaneous leishmaniasis, CL) to a life-threatening disseminated visceral infection (visceral leishmaniasis, VL). The overall prevalence of leishmaniasis is estimated to 12 million cases worldwide, and the global yearly incidence of all clinical forms is two million cases .
In the Old World, Leishmania major and L. tropica are the prevalent dermotropic species causing CL, whereas strains belonging to the L. donovani complex are typically responsible for VL. The current nomenclature of this complex encompasses only two species, L. donovani and L. infantum. L. archibaldi previously described for strains isolated in East African VL foci has been shown to be an invalid species , and L. chagasi was found to be virtually identical to L. infantum from Southern Europe and recently introduced to the Americas . Some L. infantum variants found in Mediterranean countries are predominantly dermotropic , , .
In the Eastern Mediterranean Region (EMR) leishmaniasis represents a major public health problem with considerable impact on morbidity and the potential to spread. Zoonotic and anthroponotic CL caused by L. major and L. tropica, respectively account for the largest number of cases in this region, although zoonotic VL caused by L. infantum is also common. Nevertheless, data on causative agents, vectors or reservoirs are not regularly available .
In this context, Turkey a country that lies at the crossroad between Asia and Europe represents a geographic site of special epidemiological interest regarding leishmaniasis. Both zoonotic VL caused by L. infantum and anthroponotic CL due to L. tropica have long been known to exist in several regions of Turkey . VL is endemic throughout the Aegean, Central Anatolia, Marmara, Mediterranean and Black Sea Regions and CL is hyperendemic in south-eastern parts of Turkey neighbouring Iraq and Syria. According to Multilocus Enzyme Electrophoresis (MLEE), which remains the reference method for typing Leishmania strains , L. infantum MON-1 is the prevalent zymodeme causing VL in Turkey, as in all Mediterranean countries. CL cases caused by L. infantum spp. are mainly reported from the Çukurova region of south-east Turkey. In particular, Multilocus Sequence Typing (MLST) followed by phylogenetic analysis assigned a single strain isolated from a CL human case and two Phlebotomus tobbi (P. tobbi) sand fly isolates from the Çukurova region in Adana province (CUK1, CUK2 and CUK10) to L. infantum. However, the isolates did not group with the MON-1 clade but with a MON-188 strain (ISS800) from Italy (Sicily) .
CL cases due to species of the L. donovani complex have also been reported in adjacent areas of Middle East countries, such as Lebanon and Syria, where the causative agents were identified as L. infantum by MLEE typing . In another study a CL isolate from Lebanon was characterized as L. archibaldi . Also, it was shown that both L. infantum and L. donovani parasites circulate in the northwest of Iran . Notably, CL cases due to L. donovani MON-37 were also detected in Cyprus , .
Interestingly, most reported CL cases including those from Turkey fall within a 500 km radius area. All have been typed at species level mostly by PCR-based molecular methods, which for practical reasons have replaced MLEE. It is therefore possible that in the past, due to the lack of easily applicable Leishmania PCR-typing tools, some CL cases identified in this region were falsely attributed to the traditional dermotropic species (L. major, L. tropica) based solely on clinical criteria. Hence, strains of the L. donovani complex could potentially have a substantial contribution to the generation of CL in the EMR.
All the above point to the need for an in-depth study of the genetic diversity of parasite populations in the region, at different levels (genus, complex, species, population or even strain). This can be achieved using methods with high discriminatory power and reproducibility that allow inter-lab comparisons ,  such as multilocus microsatellite typing (MLMT). Notably, MLMT has been extensively used for population genetic studies in Leishmania throughout the world giving useful insights into the epidemiology of leishmaniasis , , , . This approach can contribute to a better understanding of the geographical distribution and dynamics of Leishmania populations and disease epidemiology in the EMR.
In this context, we have analyzed a set of L. donovani complex strains isolated from human CL foci in Çukurova and from a VL patient from Kuşadasi in the Aegean region of Turkey. This set was compared to strains from Cyprus causing VL or CL that were MLEE- typed as L. donovani MON-37  but shown by MLMT to be genetically distinct from MON-37 strains of other regions . The strains were first analyzed using the K26-assay that discriminates L. donovani complex subspecies and then typed further using MLEE. In order to elucidate their population structure, the MLMT approach was applied. The microsatellite profiles of 68 previously analyzed Leishmania donovani complex strains from major endemic regions of VL, including those from Cyprus, were used in the analysis for comparison.
Materials and Methods
Leishmania strains, MLEE and DNA extraction
Table 1 lists the 76 L. infantum and L. donovani strains used in this study along with their WHO code, geographic origin, zymodeme type, pathology and population assignment. The Leishmania strains from Turkey included EP59  isolated from a VL patient in Kuşadasi province in the Aegean region of Turkey (nearby Izmir) and six strains from Çukurova region in south-eastern Turkey . The latter were five isolates from P. tobbi (CUK2, CUK3, CUK4, CUK7, CUK10) and a single isolate from a human CL case (CUK1). We have also included three MON-37 clones of CD44, isolated in 2005 from a dog in Cyprus. Strains EP59, CUK1, CUK2 and CUK3 were typed by MLEE using the Montpellier method (MON), as described by Rioux et al. .
The microsatellite profiles and genetic groups of 68 previously analyzed strains belonging to the major L. donovani populations, the non MON-1 L. infantum population and the MON-1 population have been described in previous publications , , , . These L. infantum and L. donovani strains were included for comparison because they originate from various geographic regions and reflect the zymodeme diversity of the two species.
The strains were grown as promastigotes at 26°C in RPMI 1640 containing 20 µmol/L HEPES buffer (GIBCO-BRL Paisley, UK), supplemented with 2 mmol/L glutamine, 10% heat-inactivated fetal bovine serum, 100 IU/mL penicillin, and 100 µg/mL streptomycin.
Total parasite DNA was extracted from mass cultures or clinical samples using phenol/chloroform , suspended in water, and stored at −20°C. DNA was isolated from stocks that in their majority were subjected to limited in vitro passages.
Based on previous preliminary results  we decided to clone, strain CD44 isolated in 2005 from a dog in Cyprus (unpublished data, Gouzelou et al.), and EP59 isolated in 2001 from a VL patient in south-west Turkey. Cloning of Leishmania promastigotes from cultures was carried out by the hanging drop method . In brief, single parasites (examined under the microscope independently by two researchers for confirmation) were isolated from minute drops of serially diluted parasite cultures, grown in 96-well plates in RPMI and subsequently on Novy-MacNeal-Nicolle (NNN) , .
The K26-PCR assay is specific to the L. donovani complex and is capable of discriminating L. infantum MON-1 from other L. donovani complex subspecies, based on length polymorphism of K26 gene. This assay was applied on clones of CD44, the CUK isolates as well as on parent and clones of the EP59 strains. Amplification reactions and subsequent determination of the amplicon size were carried out as described previously .
MLMT and data analysis
Fourteen variable microsatellite markers randomly distributed throughout the genome (Li 22-35, Li 23-41, Li 41-56, Li 45-24, Li 46-67, Li 71-5/2, Li 71-7, Li 71-33, Lm2TG, Lm4TA, TubCA, CS20, kLIST 7031, kLIST 7039) were used in the present study as previously described . For the amplification of a microsatellite locus, one of each pair of the HPLC-purified primers (Proligo, France) used, was conjugated at its 5′ end to one of three fluorescent dyes. PCR reactions and amplifications were performed using the PTC-200 thermocycler (MJ Research Inc., Watertown, MA) as described elsewhere , . The amplified fragments were subjected to automated fragment analysis on the capillary sequencer (CEQ 8000; Beckman Coulter) and analysed with the AFLP analysis software.
To infer the population structure of the sample set, the multilocus microsatellite genotypes were analysed using a model-based clustering method implemented in STRUCTURE v 2.3.1 . This algorithm can assign individuals to populations probabilitistically, based on their multilocus genotypes, and can estimate the posterior probability for a given number of genetic populations (K) thus enabling the identification of the most likely number of populations. The admixture model with correlated allele frequencies was assumed and a burn-in time of 20,000 followed by 200,000 iterations was used. Ten independent runs for each K were carried out for each possible number of clusters (K) in order to quantify the variation in the likelihood of the data for a given K.
The most probable number of genetic clusters was estimated by comparing log-likelihood values for K between 1 and 12. The major population structure was captured at the plateau (maximum) of the derived Gaussian graph. In addition, as suggested by Evanno et al. to better determine the number of populations, ΔK was calculated for each K , which is based on the second-order rate of change in the log probability of data with respect to successive K values.
Microsatellite-based genetic distances were calculated using the software Microsat  by applying the proportion of shared alleles (Dps) distance measure . Dps is defined as the negative logarithm of the proportion of shared alleles and follows the infinite allele model (IAM). On the basis of the calculated distance matrices, a midpoint-rooted neighbour-joining (NJ) tree was constructed using PHYLIP, v 3.6 . Confidence intervals were obtained by bootstrapping (1000 replicates). For the construction of a consensus tree and additional tree editing the programs Geneious  and Figtree (http://tree.bio.ed.ac.uk/software/figtree) were utilized.
To further characterise the genetic substructure at both population and individual level, a factorial correspondence analysis (FCA) implemented in GENETIX v 4.03 software  was carried out. This analysis places the individuals in three-dimensional space according to the degree of their allelic state similarities.
In order to analyse the populations defined by STRUCTURE with respect to diversity of alleles (A), expected heterozygosity (He), observed heterozygosity (Ho) and inbreeding coefficient FIS, the GDA software package was applied (http://hydrodictyon.eeb.uconn.edu/people/plewis/software.php).
Strain collection and Leishmania DNA used in this study, as well as the respective ethical approvals, were described in previous publications , , , , , . All samples were anonymized. The present study was approved by the Ethics Committee of the Hellenic Pasteur Institute.
K26-PCR & MLEE analysis
The K26-PCR assay was the method of choice for initially characterizing the Turkish human and sand fly isolates from the CL foci in Çukurova as well as the VL isolate from Kuşadasi. A K26 amplicon of 385 bp was obtained for the EP59 strain and its clones. The same size for the K26 amplicon has been previously observed in the MHOM/MT/85/BUCK strain , an L. infantum MON-78 strain from Malta that was also included in our analysis for comparison (Table 1, Fig. 1). All 6 strains from the Çukurova region presented a 480 bp K26 amplicon, which was observed for the first time. The isolates from Cyprus including the MON-37 strain (CH35) used as reference herein gave a 700 bp amplicon . A 626 bp K26 amplicon typical for strains of zymodeme MON-1 was yielded for the PMI strain from Spain as expected (Fig. 1).
Lanes: M, 100 bp DNA ladder; CH35 (MON-37, 700 bp); PM1 (MON-1, 626 bp); SC23 (MON-38, 515 bp); CUK1 (MON-309, 480 bp); CUK2 (MON-309, 480 bp); HUSSEN (MON-31, 430 bp); EP59 (MON-308, 385 bp); BUCK (MON-78, 385 bp). Strains CUK3, CUK4, CUK7 and CUK 10 gave identical results to CUK1 and CUK2 (not shown).
Subsequent MLEE analysis of four of the Turkish isolates revealed two novel L. donovani zymodemes. The EP59 strain was typed as MON-308 with enzymatic patterns identical to those of L. infantum MON-1 except for the two glutamate-oxaloacetate transaminases (GOT1 and GOT2, EC 18.104.22.168). In particular, iso-electrofocusing showed a heterozygous pattern between the L. infantum GOT100 and the L. donovani GOT113 (F. Pratlong, unpublished data). The three isolates from Çukurova, namely CUK1, CUK2 and CUK3 presented exactly the same enzymatic patterns and were typed as L. donovani MON-309. This variant had identical isoenzyme electrophoretic mobilities with the L. donovani MON-3 zymodeme apart from malate dehydrogenase (MDH, EC 22.214.171.124) that presented a relative mobility of 145. This is distinct from all other known electrophoretic variants of MDH found among L. donovani complex strains. Compared to the MON-37 zymodeme, the novel MON-309 zymodeme differs in the mobilities of just two isoenzymes, notably MDH and glucose phosphate isomerase (GPI, EC 126.96.36.199).
Using a set of 14 high-resolution microsatellite L. donovani complex specific markers  all newly analyzed Turkish strains (TR) presented unique genotypes and significant intra-zymodeme diversity was detected. Among strains of the newly identified MON-309 zymodeme different levels of allelic variation were observed that range from a single difference in 1 allele (strains CUK1 and CUK2) to variations in up to 8 alleles (strains CUK2 and CUK10). Interestingly the EP59 strain was characterised by an unusual high number of heterozygous loci (9 out of 14 loci studied). In each of these loci one allele was typical MON-1 and the second corresponded to the allele sizes found for the CUK strains (Table S1).
In order to infer the population structure/substructure of our sample set the MLMT profiles of the MON-308 and MON-309 strains as well as that of the CD44 MON-37 clones (Table S1) were compared to those of previously typed L. infantum and L. donovani strains of different zymodemes and different geographical origins (Table 1) , , , . The population structure of the sample set was estimated using various methods, each one with different assumptions.
Firstly, we employed the Bayesian genotype clustering program STRUCTURE v 2.3.1 . When the K estimator derived from the second-order rate of change of the likelihood function with respect to K  was examined, a sharp signal was found at K = 2 (Fig. 2A). This suggested that two major homogeneous gene pools shape the genetic structure of the analysed strains. At K = 2, MON-1 strains form the first population and all non MON-1 strains, the previously characterized L. donovani strains and L. infantum non MON-1 as well as those from Turkey (TR), were grouped in the second ancestral source population (Fig. 2A). At K = 3, the L. donovani population splits to form a distinct one (Fig. 2A). Interestingly, at K = 4 the 6 strains from Çukurova region and the recently identified MON-37 isolates from Cyprus (CY) , ,  group into a separate population, hereafter termed TR/CY non MON-1. This population also included one of the MON-37 clones of the CD44 canine isolate (CD44 cl.1). The EP59 strain could not be assigned to only one population but had shared membership to both the GR/TR MON-1 (Greece/Turkey) and TR/CY non MON-1 populations (Fig. 2A).
MLMT profiles are based on variations in 14 microsatellite markers. Each strain is represented by a single vertical line divided into K colours, where K is the number of populations assumed. Each colour represents one population and the length of the coloured segments shows the strain's estimated proportion of membership in that population. Strains with mixed memberships to the different populations are represented by different coloured segments in the vertical bar, which are proportional to the membership coefficient. A. When the likelihood of population number is calculated according to Evanno et al. , the derived graph for ΔK shows a peak at K = 2 indicating the existence of two main populations in the studied strain set. However, eight populations are observed based on a log-likelihood plot, which plateaus at K = 8. At K = 8, all Turkish non MON-1 strains group with MON-37 strains from Cyprus, forming the TR/CY non MON-1 population. Bar plots for K = 3 and K = 4 are also shown to help determine ancestral populations. B. When the L. infantum non MON-1 & TR/CY non MON-1 strains are re-analysed separately the log-likelihood plot plateaus at K = 5, while the ΔΚ graph shows a major peak at K = 2 and a minor one at K = 5. At K = 5 a split of the TR/CY non MON-1 population was observed.
It is evident that in the previous estimation the uppermost hierarchical level of population structure was captured. However, the logarithm of probability of the data reached a plateau at K = 8 revealing the presence of additional subpopulations (Fig. 2A). All populations were well defined and stable at K = 8, and corresponded generally to the geographical origin of the strains. The eight main populations were: (1) IN1 (India 1), IN3 (India 3) and LK (Sri Lanka); (2) SD/ET (Sudan/Ethiopia); (3) KE/IN2 (Kenya/India 2); (4) L. infantum non MON-1 population 1; (5) L. infantum non MON-1 population 2; (6) TR/CY non MON-1 (Turkey/Cyprus); (7) SP/PT MON-1 (Spain/Portugal); and (8) GR/TR MON-1 (Greece/Turkey). The main L. donovani complex genetic populations have been previously identified in various studies , , ,  and were also apparent in our analysis. Similarly, populations IN1, LK, IN3 have been analysed extensively in other publications ,  and were also well-defined in our analysis when larger K values (>10) were estimated (not shown). The TR/CY non MON-1 population is maintained without change from K = 4 to K = 9. However, at K = 10 it splits further to form the TR non MON-1 and the CY non MON-1 populations (not shown).
As suggested by Evanno et al. , in order to find the hidden sub-group structure, the ancestral group subsets defined by the program should be reanalysed independently. As defined at K = 3 (Fig. 2A), the analysis was repeated only for the ancestral non MON-1 population, which is comprised of L. infantum non MON-1 and TR/CY non MON-1 and excluded the well characterized L. donovani and L. infantum MON-1 populations. In the new analysis a strong ΔK peak was observed at K = 2 and a weaker one at K = 5 (Fig. 2B). In addition, K = 5 was the most likely number of populations when the logarithm of probability of the data was plotted with respect to K. At K = 2, L. infantum non MON-1 and TR/CY non MON-1 were the two observed populations while at K = 5 the TR/CY non MON-1 population splits into the TR non MON-1 and CY non MON-1 populations (Fig. 2B). At this split the Cypriot CH32 strain (Table 1) groups with the Turkish isolates and the CH34 strain shows a significant proportion of membership to the TR non MON-1 population (Fig. 2B). The fact that similar results were observed when analysing all strains together and when focusing only on the non MON-1 strains corroborates this analysis to a great extent.
Secondly, we applied the proportion of shared alleles (Dps) distance measure  to estimate population differentiation under the assumption of an Infinite Allele Model (IAM) mutation model. The matrix was calculated using the microsatellite profiles of all strains under study (Table 1), excluding the EP59 strain to avoid a false phylogeny due to its ‘hybrid’ profile. The generated midpoint rooted NJ tree is shown in Figure 3. Four main clusters are observed corresponding to the 4 populations obtained by STRUCTURE at K = 4. Furthermore, in accordance with STRUCTURE analysis (Fig. 2B, K = 5) the TR/CY non MON-1 cluster is formed by two geographically defined subclusters, one containing all Turkish strains (TR non MON-1) and the other containing the MON-37 Cypriot strains (CY non MON-1). Interestingly, the TR/CY non MON-1 clade is placed between a small group, which includes the strains MHOM/MT/85/BUCK, MHOM/IT/93/ISS800, and the L. infantum non MON-1 clade. Confidence intervals were obtained by bootstrapping (1000 replicates). Although bootstrap support of >50% was observed between most subclusters, including that of the studied TR non MON-1 strains, it was weak for the basal nodes discriminating the major clusters.
This midpoint rooted tree was inferred from Dps-distances calculated for the MLMT data (14 microsatellite markers) of our sample set. The tree leaves are coloured according to the populations defined by structure analysis (Fig. 2). Bootstrap values (1000 re-samplings) above 50% are indicated at key nodes. The EP59 strain was excluded from this analysis due to its hybrid profile.
Factorial correspondence analysis (FCA) of the MLMT data corroborated our observations concerning the genetic relationships among the strains in our sample set and particularly the existence of a distinct population containing the strains from Turkey and Cyprus. The TR/CY strains were placed in an intermediate position between the MON-1 and the L. infantum non MON-1 populations (Fig. 4). Interestingly, the EP59 strain did not tightly group to the other TR non MON-1 strains but had a shifted position towards the MON-1 population, between the TR non MON-1 and the MON-1 populations. In addition, the BUCK strain (Table 1) was placed very close to the TR non MON-1 strains (Fig. 4) confirming previously described analyses.
CY, Cyprus; ET, Ethiopia; GR, Greece; IN, India; KE, Kenya; LK, Sri Lanka; PT, Portugal; SD, Sudan; SP, Spain; TR, Turkey; Populations designated as MON-1 (red squares) and non MON-1 (orange and brown squares) include respectively L. infantum MON-1 strains from Greece, Turkey, Spain and Portugal and L. infantum non MON-1 strains from Spain, Portugal, France and Italy, corresponding to previous analyses , ; populations designated as IN1 (India 1), IN3 (India 3) and LK (Sri Lanka) (yellow squares); SD/ET (Sudan/Ethiopia) (pink squares); KE/IN2 (Kenya/India 2) (blue squares) compose the L. donovani genetic group, as detected previously , , , ; L. infantum non MON-1 strains from Turkey and Cyprus are designated as TR (dark purple squares) and CY (light purple squares), respectively. The MON-37 clone of CD44 strain from Cyprus groups with the other CY non MON-1 strains. The TR/CY strains are placed between the L. infantum MON-1 and non MON-1 populations and the hybrid strain EP59 from Turkey between the TR non MON-1 and MON-1 populations. The BUCK strain is placed very close to the TR non MON-1 strains, as previously described , .
The expected heterozygosity (He), as a measure of genetic diversity, was higher in the TR/CY non MON-1 strains (0.518) compared to MON-1 (0.276 for SP/PT, and 0.246 for GR/TR) strains (Table 2). The TR/CY non MON-1 population's high genetic diversity was in fact comparable to that of the other L. infantum non MON-1 strain population (0.710). This was also apparent from the greater genetic distances on the Neighbor-joining tree (Fig. 3).
Either a single or two different alleles were observed for all strains in all the loci under study. More than two peaks, suggestive of aneuploidy or mixed heterozygous strains, did not occur. For all populations, the observed heterozygosity values were significantly lower than the expected ones and were higher in L. infantum non MON-1 (0.196) and TR/CY non MON-1 (0.180) strains compared to L. infantum MON-1 strains (0.031 for SP/PT and 0.019 for GR/TR) (Table 2).
The inbreeding coefficients of the TR/CY non MON-1 population was calculated at 0.662, the lowest value amongst the 4 populations studied here (FIS 0.890 for SP/PT MON-1, 0.925 for GR/TR MON-1 and 0.732 for L. infantum non MON-1). The highly positive FIS values can be due to the presence of different factors, such as population subdivision (Wahlund effect) or a high rate of gene conversion.
Indications for recombination and mixed infections
The EP59 strain had an unusual high number of heterozygous loci with alleles characteristic for both the GR/TR MON-1 and TR/CY non MON-1 populations and was assigned to intermediate positions between these two populations (Fig. 1, 2 and 4). Because this suggested that the EP59 strain might represent either mixed MON-1 and MON-308 strains or a MON-1/MON-308 hybrid we decided to clone EP59. Four clones were obtained (EP59 cl1 to EP59 cl4) and re-analysed by MLMT. Interestingly, all clones had identical MLMT profiles to the uncloned strain suggesting that it might be a hybrid (Table S1).
We have also analysed one out of the three MON-37 CD44 clones, isolated in 2005 from a dog in Cyprus . The three CD44 MON-37 clones (CD44cl.1-CD44cl.3) gave the same size for the K26 amplicon (700 bp) as the MON-37 strains whereas two other clones (CD44cl.4 and CD44cl.5) gave an amplicon typical for MON-1 (data not shown). Also, CD44 clones 1–3 presented identical microsatellite profiles and had allele sizes common to those of the MON-37 Cypriot population (CY) , . Interestingly these clones were heterozygous at 6 out of 14 loci studied (Table S1). This result confirmed preliminary MLMT data suggesting that the dog was co-infected with both MON-1 and MON-37 strains .
In this study, we seek to further analyse strains of the L. donovani complex, isolated in Turkey from human CL foci in Çukurova (CUK strains) and from one human VL case in Kuşadasi (strain EP59), and to compare them with strains from Cyprus (CH strains and the MON-37 CD44 clones). These Cypriot strains were typed previously as L. donovani MON-37 by MLEE but shown to be genetically distinct from the MON-37 strains of other regions . In line with previous DNA-based data , , using the K26-PCR assay, the Turkish strains were inferred to the L. donovani complex. Interestingly, they did not present the K26 amplicon sizes corresponding to the L. infantum MON-1 zymodeme  and were thus characterized as non MON-1. Subsequent MLEE analysis of four of the Turkish isolates revealed two novel L. donovani zymodemes, namely zymodemes MON-308 and MON-309. The Turkish strains from Çukurova (zymodeme MON-309) and the MON-37 strains from Cyprus differed in just two isoenzymes and hence MLEE suggested a close relationship between them. Notably, when the EP59, CUK2 and CH35 strains (a MON-37 strain from Cyprus) were subjected to PCR-RFLP of the cpbEF gene  an L. donovani profile was revealed (data not shown).
Overall our data point out the need to validate PCR typing assays on a geographically representative panel of isolates for a given region and to account not only for intra-species variability but also for species identification. This applies especially to areas where different sympatric species are present, as in the EMR. Also we would like to emphasize that for regions with relatively limited data on species distribution of the so called L. donovani complex, the specificity of the PCR tests should be validated by including a sufficient number of reference strains that fall in the boundaries between L. donovani and L. infantum species. Otherwise DNA-based typing could be erroneous. The K26-PCR assay is a simple and quick method that could prove valuable for assessing simultaneously whether the causative agent of VL or CL belongs to the L. donovani complex and if it is a MON-1 zymodeme.
The MLMT approach that is highly discriminatory and reproducible was chosen for accurately investigating the genetic diversity and population structure of the Turkish strains and for classifying them within the L. donovani complex. Considerable polymorphism, comparable to that observed within the L. infantum non MON-1 group was detected within the studied Turkish strains. This is demonstrated by higher He and Ho values (Table 2), long branches in the N-J tree (Fig. 3) and a broad distribution of the strains in FCA (Fig. 4).
The most striking outcome of the MLMT analysis was the identification of a ‘new’ main cluster within the L. donovani complex, proposing the existence of four main L. donovani complex populations. All non MON-1 Turkish isolates were grouped with the recently isolated MON-37 strains from Cyprus ,  in a single monophyletic group (TR/CY non MON-1) of close relationship to the L. infantum MON-1 group (Fig. 2–4). The remaining three clusters, namely L. infantum MON-1, L. infantum non MON-1 and L. donovani, are in agreement with previous publications , , , . The fact that the same main populations were identified when both model- and distance-based methods were applied for the analysis of the microsatellite data, confirms the validity of our analysis. The main subclusters in the N-J tree were also supported by bootstrap values greater than 50%. Basal notes of the major clusters had weak support but this is commonly observed because microsatellite data become less informative for distantly related taxa .
Furthermore, strains BUCK and ISS800 formed an additional small cluster at the base of MON-1 and TR/CY non MON-1 (Fig. 3). The strains also grouped in a subpopulation at K = 5 when analysed with STRUCTURE (Fig. 2B) and BUCK had a significant membership to the TR/CY non MON-1 population at K = 8 (Fig. 2A). Grouping of ISS800 with CUK strains was also demonstrated by Svobodova et al. . Several studies using different genetic markers have placed these two strains (BUCK and ISS800) in ambiguous intermediate positions. Specifically, the strains were either assigned at the basis of the non MON-1 group right after the split from L. donovani ,  or close to the MON-1 group , , as observed in our analysis. The inclusion of the TR/CY non MON-1 strains seems to better clarify the ambiguous position of the two strains but still a larger set of strains should be analysed to reach a solid conclusion.
Interestingly, in a previous work where the same strains from Cyprus were analyzed  it was shown that the MON-37 zymodeme is paraphyletic, encompassing strains with the same enzymatic profile but with different genotypes and consequently their origin still remained enigmatic. Here, we show that the Cypriot strains are very closely related to the Turkish strains. Therefore, the strains could have potentially been introduced into Cyprus from Turkey or vice versa. The geographic proximity of the countries and population movement between them further supports this scenario. Nevertheless, the possibility that these strains originate from neighbouring Middle East countries cannot be excluded.
Parasites isolated from both human hosts (EP59, CUK1) and P. (Larroussius) tobbi sand fly vectors (CUK2, CUK3, CUK4, CUK7 and CUK10) clustered in the same MLMT groups, confirming that P. (Larroussius) tobbi is responsible for the transmission of these parasites in the Çukurova focus . Apart from the proven vector P. (Larroussius) tobbi, other members of subgenus Larroussius could facilitate circulation of TR/CY non MON-1 parasites. Sand flies of this subgenus belong to permissive vectors  and are widely distributed throughout Middle East countries, including Cyprus, Greece and Turkey , , , . P. (Larroussius) perniciosus, a major L. infantum vector in the central and western Mediterranean, was recently shown to be highly susceptible for CUK strains and could readily transmit the CUK parasites by bite . In Iran, six Leishmania strains isolated from P. (Larroussius) perfiliewi transcaucasicus were typed as L. donovani by cpb gene sequencing .
Notably, the strains from Çukurova were typed as L. donovani by MLEE, even though in our MLMT analysis they group between the L. infantum MON-1 and non MON-1 populations (Fig. 2 and 3). Discrepancies between MLEE typing and genotyping especially regarding the taxonomy of the “L. donovani” complex have already been described in a number of studies , , , . This is not so surprising since MLEE mainly distinguishes the species of the L. donovani complex on the basis of just the gene encoding glutamate-oxaloacetate transaminases (GOT) isoenzymes, EC 188.8.131.52, which has been shown to have undergone convergent evolution .
Interestingly the putative hybrid EP59 strain was responsible for VL in a human patient from Western Turkey (Kuşadasi). This intra-specific putative hybrid is most likely a product of genetic cross between strains of the MON-1 and the non MON-1 TR/CY populations. The occurrence of genetic exchange in the genus Leishmania had remained an elusive point until recently, when Akopyants et al. provided evidence that Leishmania promastigotes are capable of having a sexual cycle consistent with a meiotic process in the sand fly . Also Sadlova et al. demonstrated experimentally hybridization of L. donovani in two vectorial species, P. perniciosus and Lutzomyia longipalpis . Leishmania hybrids have already been identified between closely related species, such as L. braziliensis/L. panamensis ,  and L. major/L. arabica , . Intra-species Leishmania hybrids have also been observed in Algeria , Tunisia , Sudan  and Ethiopia . Strains with mixed genotypes are also frequently observed , . Here, mixed genotypes were observed for strains CH32 and CH34, which presented alleles of both TR non MON-1 and CY non MON-1 subpopulations (Fig. 2B, K = 5). Furthermore, the canine MON-37 clone from Cyprus (CD44 cl.1) had a shared membership to both the L. infantum non MON-1 and the CY non MON-1 populations (Fig. 2B, K = 5).
Hybridization may allow adaptation to new ecological niches, vectors and hosts, including humans and domestic animals, and the efficient spread of new traits. Volf et al.  demonstrated that L. infantum/L. major hybrids could be transmitted efficiently by P. papatasi, a highly specific sand fly vector that has been shown to support only the development of L. major. Additionally, Nolder et al.  described the emergence and spread of L. braziliensis/L. peruviana hybrids with increased fitness in Peru. However, it is important to mention that the pathology of leishmaniasis varies and is determined not only by parasite genetics but also by other factors such as host genetics .
Parasites belonging to the TR/CY non MON-1 population have been isolated from two distant regions of Turkey, the south-eastern (Çukurova) and south-western (Kuşadası) parts, indicating that these parasites could be broadly distributed in Turkey. In line with this hypothesis, their presence in neighbouring countries also merits to be investigated.
Parasites of the identified TR/CY population could be contributing to the generation of CL in this region. In this case, clinical management of these patients would require more accurate monitoring during drug treatment since these parasites could potentially cause VL, which can be lethal if left untreated. Furthermore, appropriate drug regimes should be administered considering different Leishmania species show significant variation in their sensitivity to drugs . Distinguishing different L. donovani complex species/subspecies is therefore crucial for prognosis, drug regimes and proper disease control.
In conclusion, our analysis indicates that the epidemiology of leishmaniasis in Turkey is more complicated than originally thought. Here we describe a new L. donovani sensu lato non MON-1 group of strains originating from Turkey and Cyprus, which can cause both CL and VL. The identified population is genetically different from all other L. donovani complex populations, including the L. infantum MON-1 population that is also present in these countries. Interestingly, a putative MON-1/TR/CY non MON-1 hybrid strain and some gene flow between the studied populations were also identified. The results described herein and those of previous studies showing that MLEE and DNA-based approaches for strain typing may lead to discrepant results, further support the call for a revision of Leishmania taxonomy , , , , . This should be based on gene sequences, which are remarkably congruent and uncontroversial. Nevertheless, our findings are inconsistent with the current nomenclature of the L. donovani complex with just two species and argue in favour of recognizing a number of L. donovani subspecies.
Multilocus microsatellite profiles of strains presenting high heterozygosity. CUK strains present different levels of allelic variation to a maximum of eight allele differences (strains CUK2 and CUK10). Strain EP59 presents extensive heterozygosity (9 out of 14 loci), sharing one typical MON-1 allele and a second one corresponding to the allele sizes of CUK strains. MON-37 CD44 clones are also highly heterozygous (6 out of 14 loci) sharing common alleles with those of Cypriot MON-37 strains (CH35 strain is shown here for comparison). Identical MLMT profiles are obtained for all EP59 clones (EP59cl.1- EP59cl.4) as well as all MON-37 CD44 clones (CD44cl.1- CD44cl.3); only EP59cl.1 and CD44cl.1 are shown here.
This work was in partial fulfilment of the requirements of Charité Universitätsmedizin in Berlin (Germany) toward the PhD of Ms Evi Gouzelou.
Conceived and designed the experiments: CH KS. Performed the experiments: EG CH. Analyzed the data: EG CH AA KK AM GS. Contributed reagents/materials/analysis tools: FP J-PD JV PV SOT. Wrote the paper: EG CH KS.
- 1. WHO (2010) WHO2010Control of leishmaniasis: report of a meeting of the WHO expert committee on the control of Leishmaniases, Geneva, 22–26 March 2010. Control of leishmaniasis: report of a meeting of the WHO expert committee on the control of Leishmaniases, Geneva, 22–26 March 2010.
- 2. Lukes J, Mauricio IL, Schonian G, Dujardin JC, Soteriadou K, et al. (2007) Evolutionary and geographical history of the Leishmania donovani complex with a revision of current taxonomy. Proc Natl Acad Sci U S A 104: 9375–9380.J. LukesIL MauricioG. SchonianJC DujardinK. Soteriadou2007Evolutionary and geographical history of the Leishmania donovani complex with a revision of current taxonomy.Proc Natl Acad Sci U S A10493759380
- 3. Kuhls K, Alam MZ, Cupolillo E, Ferreira GE, Mauricio IL, et al. (2011) Comparative Microsatellite Typing of New World Leishmania infantum Reveals Low Heterogeneity among Populations and Its Recent Old World Origin. PLoS Negl Trop Dis 5: e1155.K. KuhlsMZ AlamE. CupolilloGE FerreiraIL Mauricio2011Comparative Microsatellite Typing of New World Leishmania infantum Reveals Low Heterogeneity among Populations and Its Recent Old World Origin.PLoS Negl Trop Dis5e1155
- 4. Gramiccia M, Gradoni L, Troiani M (1995) Heterogeneity among zymodemes of Leishmania infantum from HIV-positive patients with visceral leishmaniasis in south Italy. FEMS microbiology letters 128: 33–38.M. GramicciaL. GradoniM. Troiani1995Heterogeneity among zymodemes of Leishmania infantum from HIV-positive patients with visceral leishmaniasis in south Italy.FEMS microbiology letters1283338
- 5. Pratlong F, Dedet JP, Marty P, Portus M, Deniau M, et al. (1995) Leishmania-human immunodeficiency virus coinfection in the Mediterranean basin: isoenzymatic characterization of 100 isolates of the Leishmania infantum complex. J Infect Dis 172: 323–326.F. PratlongJP DedetP. MartyM. PortusM. Deniau1995Leishmania-human immunodeficiency virus coinfection in the Mediterranean basin: isoenzymatic characterization of 100 isolates of the Leishmania infantum complex.J Infect Dis172323326
- 6. Svobodova M, Alten B, Zidkova L, Dvorak V, Hlavackova J, et al. (2009) Cutaneous leishmaniasis caused by Leishmania infantum transmitted by Phlebotomus tobbi. Int J Parasitol 39: 251–256.M. SvobodovaB. AltenL. ZidkovaV. DvorakJ. Hlavackova2009Cutaneous leishmaniasis caused by Leishmania infantum transmitted by Phlebotomus tobbi.Int J Parasitol39251256
- 7. Postigo JA (2010) Leishmaniasis in the World Health Organization Eastern Mediterranean Region. Int J Antimicrob Agents 36: Suppl 1S62–65.JA Postigo2010Leishmaniasis in the World Health Organization Eastern Mediterranean Region.Int J Antimicrob Agents36Suppl 1S6265
- 8. Ok UZ, Balcioglu IC, Taylan Ozkan A, Ozensoy S, Ozbel Y (2002) Leishmaniasis in Turkey. Acta Trop 84: 43–48.UZ OkIC BalciogluA. Taylan OzkanS. OzensoyY. Ozbel2002Leishmaniasis in Turkey.Acta Trop844348
- 9. Knio KN, Baydoun E, Tawk R, Nuwayri-Salti N (2000) Isoenzyme characterization of Leishmania isolates from Lebanon and Syria. Am J Trop Med Hyg 63: 43–47.KN KnioE. BaydounR. TawkN. Nuwayri-Salti2000Isoenzyme characterization of Leishmania isolates from Lebanon and Syria.Am J Trop Med Hyg634347
- 10. Guerbouj S, Guizani I, De Doncker S, Dujardin JC, Nuwayri-Salti N (2001) Identification of Lebanese dermotropic putative Leishmania archibaldi isolates by gp63 PCR-RFLP. Trans R Soc Trop Med Hyg 95: 687–688.S. GuerboujI. GuizaniS. De DonckerJC DujardinN. Nuwayri-Salti2001Identification of Lebanese dermotropic putative Leishmania archibaldi isolates by gp63 PCR-RFLP.Trans R Soc Trop Med Hyg95687688
- 11. Oshaghi MA, Ravasan NM, Hide M, Javadian EA, Rassi Y, et al. (2009) Phlebotomus perfiliewi transcaucasicus is circulating both Leishmania donovani and L. infantum in northwest Iran. Exp Parasitol 123: 218–225.MA OshaghiNM RavasanM. HideEA JavadianY. Rassi2009Phlebotomus perfiliewi transcaucasicus is circulating both Leishmania donovani and L. infantum in northwest Iran.Exp Parasitol123218225
- 12. Antoniou M, Haralambous C, Mazeris A, Pratlong F, Dedet JP, et al. (2008) Leishmania donovani leishmaniasis in Cyprus. Lancet Infect Dis 8: 6–7.M. AntoniouC. HaralambousA. MazerisF. PratlongJP Dedet2008Leishmania donovani leishmaniasis in Cyprus.Lancet Infect Dis867
- 13. Antoniou M, Haralambous C, Mazeris A, Pratlong F, Dedet JP, et al. (2009) Leishmania donovani leishmaniasis in Cyprus. Lancet Infect Dis 9: 76–77.M. AntoniouC. HaralambousA. MazerisF. PratlongJP Dedet2009Leishmania donovani leishmaniasis in Cyprus.Lancet Infect Dis97677
- 14. Botilde Y, Laurent T, Quispe Tintaya W, Chicharro C, Canavate C, et al. (2006) Comparison of molecular markers for strain typing of Leishmania infantum. Infect Genet Evol 6: 440–446.Y. BotildeT. LaurentW. Quispe TintayaC. ChicharroC. Canavate2006Comparison of molecular markers for strain typing of Leishmania infantum.Infect Genet Evol6440446
- 15. Reithinger R, Dujardin JC (2007) Molecular diagnosis of leishmaniasis: current status and future applications. J Clin Microbiol 45: 21–25.R. ReithingerJC Dujardin2007Molecular diagnosis of leishmaniasis: current status and future applications.J Clin Microbiol452125
- 16. Alam MZ, Haralambous C, Kuhls K, Gouzelou E, Sgouras D, et al. (2009) The paraphyletic composition of Leishmania donovani zymodeme MON-37 revealed by multilocus microsatellite typing. Microbes Infect 11: 707–715.MZ AlamC. HaralambousK. KuhlsE. GouzelouD. Sgouras2009The paraphyletic composition of Leishmania donovani zymodeme MON-37 revealed by multilocus microsatellite typing.Microbes Infect11707715
- 17. Alam MZ, Kuhls K, Schweynoch C, Sundar S, Rijal S, et al. (2009) Multilocus microsatellite typing (MLMT) reveals genetic homogeneity of Leishmania donovani strains in the Indian subcontinent. Infect Genet Evol 9: 24–31.MZ AlamK. KuhlsC. SchweynochS. SundarS. Rijal2009Multilocus microsatellite typing (MLMT) reveals genetic homogeneity of Leishmania donovani strains in the Indian subcontinent.Infect Genet Evol92431
- 18. Kuhls K, Chicharro C, Canavate C, Cortes S, Campino L, et al. (2008) Differentiation and gene flow among European populations of Leishmania infantum MON-1. PLoS Negl Trop Dis 2: e261.K. KuhlsC. ChicharroC. CanavateS. CortesL. Campino2008Differentiation and gene flow among European populations of Leishmania infantum MON-1.PLoS Negl Trop Dis2e261
- 19. Toz SO, Nasereddin A, Ozbel Y, Ertabaklar H, Culha G, et al. (2009) Leishmaniasis in Turkey: molecular characterization of Leishmania from human and canine clinical samples. Trop Med Int Health 14: 1401–1406.SO TozA. NasereddinY. OzbelH. ErtabaklarG. Culha2009Leishmaniasis in Turkey: molecular characterization of Leishmania from human and canine clinical samples.Trop Med Int Health1414011406
- 20. Rioux JA, Lanotte G, Serres E, Pratlong F, Bastien P, et al. (1990) Taxonomy of Leishmania. Use of isoenzymes. Suggestions for a new classification. Ann Parasitol Hum Comp 65: 111–125.JA RiouxG. LanotteE. SerresF. PratlongP. Bastien1990Taxonomy of Leishmania. Use of isoenzymes. Suggestions for a new classification.Ann Parasitol Hum Comp65111125
- 21. Kuhls K, Keilonat L, Ochsenreither S, Schaar M, Schweynoch C, et al. (2007) Multilocus microsatellite typing (MLMT) reveals genetically isolated populations between and within the main endemic regions of visceral leishmaniasis. Microbes Infect 9: 334–343.K. KuhlsL. KeilonatS. OchsenreitherM. SchaarC. Schweynoch2007Multilocus microsatellite typing (MLMT) reveals genetically isolated populations between and within the main endemic regions of visceral leishmaniasis.Microbes Infect9334343
- 22. Kelly JM (1993) Isolation of DNA and RNA from Leishmania. Methods Mol Biol 21: 123–131.JM Kelly1993Isolation of DNA and RNA from Leishmania.Methods Mol Biol21123131
- 23. Evans DA, Smith V (1986) A simple method for cloning leishmanial promastigotes. Z Parasitenkd 72: 573–576.DA EvansV. Smith1986A simple method for cloning leishmanial promastigotes.Z Parasitenkd72573576
- 24. Garin YJ, Meneceur P, Sulahian A, Derouin F (2002) Microplate method for obtaining Leishmania clonal populations. J Parasitol 88: 803–804.YJ GarinP. MeneceurA. SulahianF. Derouin2002Microplate method for obtaining Leishmania clonal populations.J Parasitol88803804
- 25. Haralambous C, Antoniou M, Pratlong F, Dedet JP, Soteriadou K (2008) Development of a molecular assay specific for the Leishmania donovani complex that discriminates L. donovani/Leishmania infantum zymodemes: a useful tool for typing MON-1. Diagn Microbiol Infect Dis 60: 33–42.C. HaralambousM. AntoniouF. PratlongJP DedetK. Soteriadou2008Development of a molecular assay specific for the Leishmania donovani complex that discriminates L. donovani/Leishmania infantum zymodemes: a useful tool for typing MON-1.Diagn Microbiol Infect Dis603342
- 26. Ochsenreither S, Kuhls K, Schaar M, Presber W, Schonian G (2006) Multilocus microsatellite typing as a new tool for discrimination of Leishmania infantum MON-1 strains. Journal of clinical microbiology 44: 495–503.S. OchsenreitherK. KuhlsM. SchaarW. PresberG. Schonian2006Multilocus microsatellite typing as a new tool for discrimination of Leishmania infantum MON-1 strains.Journal of clinical microbiology44495503
- 27. Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155: 945–959.JK PritchardM. StephensP. Donnelly2000Inference of population structure using multilocus genotype data.Genetics155945959
- 28. Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol 14: 2611–2620.G. EvannoS. RegnautJ. Goudet2005Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study.Mol Ecol1426112620
- 29. Minch E, Ruiz-Linares A, Goldstein D, Feldman M, Cavalli-Sforza LL (1995) MICROSAT, The Microsatellite Distance Program. E. MinchA. Ruiz-LinaresD. GoldsteinM. FeldmanLL Cavalli-Sforza1995MICROSAT, The Microsatellite Distance Program.Stanford Univ Press, Stanford, CA. Stanford Univ Press, Stanford, CA.
- 30. Bowcock AM, Ruiz-Linares A, Tomfohrde J, Minch E, Kidd JR, et al. (1994) High resolution of human evolutionary trees with polymorphic microsatellites. Nature 368: 455–457.AM BowcockA. Ruiz-LinaresJ. TomfohrdeE. MinchJR Kidd1994High resolution of human evolutionary trees with polymorphic microsatellites.Nature368455457
- 31. Felsenstein J (2005) PHYLIP (Phylogeny Inference Package) Distributed by the author. J. Felsenstein2005PHYLIP (Phylogeny Inference Package) Distributed by the author.version 3.6. ed: Department of Genome Sciences, University of Washington, Seattle. version 3.6. ed: Department of Genome Sciences, University of Washington, Seattle.
- 32. Drummond AJ, Kearse M, Heled J, Moir R, Thierer T, et al. (2006) AJ DrummondM. KearseJ. HeledR. MoirT. Thierer2006Geneious v2.0.10 (Available from http://www.geneious.com/). Geneious v2.0.10 (Available from http://www.geneious.com/).
- 33. Dawson KJ, Belkhir K (2001) A Bayesian approach to the identification of panmictic populations and the assignment of individuals. Genet Res 78: 59–77.KJ DawsonK. Belkhir2001A Bayesian approach to the identification of panmictic populations and the assignment of individuals.Genet Res785977
- 34. Hide M, Banuls AL (2006) Species-specific PCR assay for L. infantum/L. donovani discrimination. Acta Trop 100: 241–245.M. HideAL Banuls2006Species-specific PCR assay for L. infantum/L. donovani discrimination.Acta Trop100241245
- 35. Quispe Tintaya KW, Ying X, Dedet JP, Rijal S, De Bolle X, et al. (2004) Antigen genes for molecular epidemiology of leishmaniasis: polymorphism of cysteine proteinase B and surface metalloprotease glycoprotein 63 in the Leishmania donovani complex. The Journal of infectious diseases 189: 1035–1043.KW Quispe TintayaX. YingJP DedetS. RijalX. De Bolle2004Antigen genes for molecular epidemiology of leishmaniasis: polymorphism of cysteine proteinase B and surface metalloprotease glycoprotein 63 in the Leishmania donovani complex.The Journal of infectious diseases18910351043
- 36. Mauricio IL, Yeo M, Baghaei M, Doto D, Pratlong F, et al. (2006) Towards multilocus sequence typing of the Leishmania donovani complex: resolving genotypes and haplotypes for five polymorphic metabolic enzymes (ASAT, GPI, NH1, NH2, PGD). Int J Parasitol 36: 757–769.IL MauricioM. YeoM. BaghaeiD. DotoF. Pratlong2006Towards multilocus sequence typing of the Leishmania donovani complex: resolving genotypes and haplotypes for five polymorphic metabolic enzymes (ASAT, GPI, NH1, NH2, PGD).Int J Parasitol36757769
- 37. Volf P, Myskova J (2007) Sand flies and Leishmania: specific versus permissive vectors. Trends Parasitol 23: 91–92.P. VolfJ. Myskova2007Sand flies and Leishmania: specific versus permissive vectors.Trends Parasitol239192
- 38. Ertabaklar H, Toz SO, Ozkan AT, Rastgeldi S, Balcioglu IC, et al. (2005) Serological and entomological survey in a zoonotic visceral leishmaniasis focus of North Central Anatolia, Turkey: Corum province. Acta Trop 93: 239–246.H. ErtabaklarSO TozAT OzkanS. RastgeldiIC Balcioglu2005Serological and entomological survey in a zoonotic visceral leishmaniasis focus of North Central Anatolia, Turkey: Corum province.Acta Trop93239246
- 39. Ivovic V, Ivovic M, Chaniotis B, Tselentis Y (2007) The establishment, maintenance and productivity of a laboratory colony of Phlebotomus similis Perfiliew, 1963 (Diptera, Psychodidae). Parasitol Res 101: 229–231.V. IvovicM. IvovicB. ChaniotisY. Tselentis2007The establishment, maintenance and productivity of a laboratory colony of Phlebotomus similis Perfiliew, 1963 (Diptera, Psychodidae).Parasitol Res101229231
- 40. Maia C, Seblova V, Sadlova J, Votypka J, Volf P (2011) Experimental Transmission of Leishmania infantum by Two Major Vectors: A Comparison between a Viscerotropic and a Dermotropic Strain. PLoS Negl Trop Dis 5: e1181.C. MaiaV. SeblovaJ. SadlovaJ. VotypkaP. Volf2011Experimental Transmission of Leishmania infantum by Two Major Vectors: A Comparison between a Viscerotropic and a Dermotropic Strain.PLoS Negl Trop Dis5e1181
- 41. Van der Auwera G, Fraga J, Montalvo AM, Dujardin JC (2011) Leishmania taxonomy up for promotion? Trends Parasitol 27: 49–50.G. Van der AuweraJ. FragaAM MontalvoJC Dujardin2011Leishmania taxonomy up for promotion?Trends Parasitol274950
- 42. Zemanova E, Jirku M, Mauricio IL, Horak A, Miles MA, et al. (2007) The Leishmania donovani complex: genotypes of five metabolic enzymes (ICD, ME, MPI, G6PDH, and FH), new targets for multilocus sequence typing. Int J Parasitol 37: 149–160.E. ZemanovaM. JirkuIL MauricioA. HorakMA Miles2007The Leishmania donovani complex: genotypes of five metabolic enzymes (ICD, ME, MPI, G6PDH, and FH), new targets for multilocus sequence typing.Int J Parasitol37149160
- 43. Jamjoom MB, Ashford RW, Bates PA, Chance ML, Kemp SJ, et al. (2004) Leishmania donovani is the only cause of visceral leishmaniasis in East Africa; previous descriptions of L. infantum and “L. archibaldi” from this region are a consequence of convergent evolution in the isoenzyme data. Parasitology 129: 399–409.MB JamjoomRW AshfordPA BatesML ChanceSJ Kemp2004Leishmania donovani is the only cause of visceral leishmaniasis in East Africa; previous descriptions of L. infantum and “L. archibaldi” from this region are a consequence of convergent evolution in the isoenzyme data.Parasitology129399409
- 44. Akopyants NS, Kimblin N, Secundino N, Patrick R, Peters N, et al. (2009) Demonstration of genetic exchange during cyclical development of Leishmania in the sand fly vector. Science 324: 265–268.NS AkopyantsN. KimblinN. SecundinoR. PatrickN. Peters2009Demonstration of genetic exchange during cyclical development of Leishmania in the sand fly vector.Science324265268
- 45. Sadlova J, Yeo M, Seblova V, Lewis MD, Mauricio I, et al. (2011) Visualisation of Leishmania donovani fluorescent hybrids during early stage development in the sand fly vector. PLoS One 6: e19851.J. SadlovaM. YeoV. SeblovaMD LewisI. Mauricio2011Visualisation of Leishmania donovani fluorescent hybrids during early stage development in the sand fly vector.PLoS One6e19851
- 46. Belli AA, Miles MA, Kelly JM (1994) A putative Leishmania panamensis/Leishmania braziliensis hybrid is a causative agent of human cutaneous leishmaniasis in Nicaragua. Parasitology 109(Pt 4): 435–442.AA BelliMA MilesJM Kelly1994A putative Leishmania panamensis/Leishmania braziliensis hybrid is a causative agent of human cutaneous leishmaniasis in Nicaragua.Parasitology109Pt 4435442
- 47. Dujardin JC, Banuls AL, Llanos-Cuentas A, Alvarez E, DeDoncker S, et al. (1995) Putative Leishmania hybrids in the Eastern Andean valley of Huanuco, Peru. Acta Trop 59: 293–307.JC DujardinAL BanulsA. Llanos-CuentasE. AlvarezS. DeDoncker1995Putative Leishmania hybrids in the Eastern Andean valley of Huanuco, Peru.Acta Trop59293307
- 48. Evans DA, Kennedy WP, Elbihari S, Chapman CJ, Smith V, et al. (1987) Hybrid formation within the genus Leishmania? Parassitologia 29: 165–173.DA EvansWP KennedyS. ElbihariCJ ChapmanV. Smith1987Hybrid formation within the genus Leishmania?Parassitologia29165173
- 49. Kelly JM, Law JM, Chapman CJ, Van Eys GJ, Evans DA (1991) Evidence of genetic recombination in Leishmania. Mol Biochem Parasitol 46: 253–263.JM KellyJM LawCJ ChapmanGJ Van EysDA Evans1991Evidence of genetic recombination in Leishmania.Mol Biochem Parasitol46253263
- 50. Seridi N, Amro A, Kuhls K, Belkaid M, Zidane C, et al. (2008) Genetic polymorphism of Algerian Leishmania infantum strains revealed by multilocus microsatellite analysis. Microbes Infect 10: 1309–1315.N. SeridiA. AmroK. KuhlsM. BelkaidC. Zidane2008Genetic polymorphism of Algerian Leishmania infantum strains revealed by multilocus microsatellite analysis.Microbes Infect1013091315
- 51. Chargui N, Amro A, Haouas N, Schonian G, Babba H, et al. (2009) Population structure of Tunisian Leishmania infantum and evidence for the existence of hybrids and gene flow between genetically different populations. Int J Parasitol 39: 801–811.N. CharguiA. AmroN. HaouasG. SchonianH. Babba2009Population structure of Tunisian Leishmania infantum and evidence for the existence of hybrids and gene flow between genetically different populations.Int J Parasitol39801811
- 52. Gelanew T, Kuhls K, Hurissa Z, Weldegebreal T, Hailu W, et al. (2010) Inference of population structure of Leishmania donovani strains isolated from different Ethiopian visceral leishmaniasis endemic areas. PLoS Negl Trop Dis 4: e889.T. GelanewK. KuhlsZ. HurissaT. WeldegebrealW. Hailu2010Inference of population structure of Leishmania donovani strains isolated from different Ethiopian visceral leishmaniasis endemic areas.PLoS Negl Trop Dis4e889
- 53. Volf P, Benkova I, Myskova J, Sadlova J, Campino L, et al. (2007) Increased transmission potential of Leishmania major/Leishmania infantum hybrids. Int J Parasitol 37: 589–593.P. VolfI. BenkovaJ. MyskovaJ. SadlovaL. Campino2007Increased transmission potential of Leishmania major/Leishmania infantum hybrids.Int J Parasitol37589593
- 54. Nolder D, Roncal N, Davies CR, Llanos-Cuentas A, Miles MA (2007) Multiple hybrid genotypes of Leishmania (viannia) in a focus of mucocutaneous Leishmaniasis. Am J Trop Med Hyg 76: 573–578.D. NolderN. RoncalCR DaviesA. Llanos-CuentasMA Miles2007Multiple hybrid genotypes of Leishmania (viannia) in a focus of mucocutaneous Leishmaniasis.Am J Trop Med Hyg76573578
- 55. Sakthianandeswaren A, Foote SJ, Handman E (2009) The role of host genetics in leishmaniasis. Trends Parasitol 25: 383–391.A. SakthianandeswarenSJ FooteE. Handman2009The role of host genetics in leishmaniasis.Trends Parasitol25383391
- 56. Croft SL, Sundar S, Fairlamb AH (2006) Drug resistance in leishmaniasis. Clin Microbiol Rev 19: 111–126.SL CroftS. SundarAH Fairlamb2006Drug resistance in leishmaniasis.Clin Microbiol Rev19111126