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The curse of the prey: Sarcoptes mite molecular analysis reveals potential prey-to-predator parasitic infestation in wild animals from Masai Mara, Kenya
Recently, there have been attempts to understand the molecular epidemiology of Sarcoptes scabiei, to evaluate the gene flow between isolates of S. scabiei from different hosts and geographic regions. However, to our knowledge, a molecular study has not been carried out to assess the molecular diversity and gene flow of Sarcoptes mite in a predator/prey ecosystem.
Results
Our study revealed an absence of gene flow between the two herbivore (Thomson's gazelle and wildebeest)- and between the two carnivore (lion and cheetah)-derived Sarcoptes populations from Masai Mara (Kenya), which is in discrepancy with the host-taxon law described for wild animals in Europe. Lion- and wildebeest-derived Sarcoptes mite populations were similar yet different from the Thomson's gazelle-derived Sarcoptes population. This could be attributed to Sarcoptes cross-infestation from wildebeest ("favourite prey") of the lion, but not from Thomson's gazelle. The cheetah-derived Sarcoptes population had different subpopulations: one is cheetah-private, one similar to the wildebeest- and lion-derived Sarcoptes populations, and another similar to the Thomson's gazelle-derived Sarcoptes mite population, where both wildebeest and Thomson's gazelle are "favourite preys" for the cheetah.
Conclusions
In a predator/prey ecosystem, like Masai Mara in Kenya, it seems that Sarcoptes infestation in wild animals is prey-to-predator-wise, depending on the predator's "favourite prey". More studies on the lion and cheetah diet and behaviour could be of great help to clarify the addressed hypotheses. This study could have further ramification in the epidemiological studies and the monitoring protocols of the neglected Sarcoptes mite in predator/prey ecosystems.
Sarcoptes scabiei is a ubiquitous ectoparasite infecting more than 100 species of mammals, worldwide [1–3].
An epidemic can result from the introduction of a single case of scabies into crowded living conditions [4], which may result in devastating mortality in wild and domestic animals [5], with huge economic losses affecting the world animal trade [6].
Numerous epidemiological studies have been reported from different human, wild and domestic populations [7, 8] but the epidemiology of sarcoptic mange is still not well understood and seems to differ between different areas and animal species of the world [1].
Recently, there have been attempts to understand the molecular epidemiology of the Sarcoptes mite, to evaluate the gene flow between isolates of S. scabiei from different hosts and geographic regions [9]. Walton et al. [10, 11], used multi-locus genotyping applied to microsatellite markers to substantiate previous findings to the effect that gene flow between scabies mite populations in human and dog hosts is extremely rare in northern Australia. Genetic differences were detected between geographically distinct populations, and even between different people in the same household. Microsatellite markers were used by Alasaad et al. [12] to describe a new phenomenon of genetic structuring among S. scabiei at the individual host skin-scale level. Host-taxon law (carnivore-, omnivore- and herbivore-derived Sarcoptes mite populations) was established for Sarcoptes mite populations in wild animals from Europe [13, 14]. However, to our knowledge, a molecular study has not been carried out to assess the molecular diversity and gene flow of Sarcoptes mite in a predator/prey ecosystem.
Sarcoptic mange has continuously threatened wildlife populations in most of the wildlife areas in Kenya. One of the animals that, to date, has remained a preferential host for Sarcoptes mite is the cheetah (Acinonyx jubatus). The cheetah population in Kenya is estimated to be less than 1000 individuals [15]. The cheetah is now extinct in some areas within its historical and geographical range, and the remaining population is highly endangered. Among the major factors thought to have brought about the decline of the cheetah are diseases, with sarcoptic mange being placed among the leading causes of death [16]. Sarcoptes mite also affects Thomson gazelles (Gazelle thompsonii), the most important prey animal of the cheetah, and wildebeest (Connochaetes taurinus), another prey species of lions (Panthera leo) and even cheetah [17].
Results
Twenty six alleles were detected from the eight microsatellite loci. The allele count for each of the 8 loci ranged from one (Sarms36 and Sarms40, which were excluded from the analyses) to seven (Sarms34). Eleven private alleles (alleles present in only one host-derived population) were detected. The number of private alleles ranged between zero (Sarms35) and three (Sarms34 and Sarms44). The wildebeest-derived Sarcoptes population had the highest number, with five private alleles, followed by the cheetah with three and lion with two private alleles, while only one was detected from the Thomson's gazelle-derived mite population (Table 1).
Table 1
Private alleles detected at the eight microsatellite loci of the four wildlife-derived Sarcoptes mite populations from Masai Mara in Kenya, together with their overall frequencies
Locus
Allele
Overall frequency
Animal-derived Sarcoptes population
174
0.0088
Thomson's gazelle
Sarms34
204
0.0175
Wildebeest
206
0.1404
Cheetah
Sarms37
176
0.0093
Wildebeest
180
0.0463
Cheetah
Sarms41
236
0.0085
Cheetah
240
0.0085
Lion
270
0.0086
Lion
Sarms44
276
0.0172
Wildebeest
279
0.0172
Wildebeest
Sarms45
172
0.0086
Wildebeest
For all loci examined there was no evidence of linkage disequilibrium (P > 0.05). Deviation from Hardy-Weinberg equilibrium (HWE) was detected in Sarms34 (p = 0.008), Sarms35 (p = 0.014) and Sarms36 (p < 0.001) in Thomson's gazelle-derived Sarcoptes population, and in Sarms44 (p = 0.02) in cheetah-derived Sarcoptes mite population.
Intra-host variation was detected in all the animals from Thomson's gazelle-, wildebeest-, and cheetah-derived Sarcoptes populations, and only in one animal in lion-derived Sarcoptes mite population.
Mean number of alleles was 1.625 ± 0.992 (for Thomson's gazelle-), 2.375 ± 1.409 (for wildebeest-), 2 ± 0.866 (for cheetah-), and 1.875 ± 0.927 (for lion-derived Sarcoptes mite population). Mean expected heterozygosity was 0.20115 ± 0.26909 (for Thomson's gazelle-), 0.3228 ± 0.31033 (for wildebeest-), 0.2735 ± 0.23382 (for cheetah-), and 0.26655 ± 0.27041 (for lion-derived Sarcoptes mite population).
AMOVA analysis showed differentiation among populations (FST = 0.24241; P < 0.001), which indicates that the mite component populations differed greatly. FST value between all wild animal-derived Sarcoptes mite populations was statistically supported, with the exception of lion- and wildebeest-derived Sarcoptes mite populations, where FST value was not statistically supported. The highest FST value was between Thomson's gazelle- and lion-derived Sarcoptes mite populations (Table 2).
Table 2
Matrix of fixation index (FST) significant P values, with significance level P = 0.05 (above diagonal), and population pairwise FST (below diagonal) for each pairwise comparison of four Sarcoptes mite populations from Masai Mara, Kenya
Thomson's gazelle
Cheetah
Wildebeest
Lion
Thomson's gazelle
_
< 0.001*
< 0.001*
< 0.001*
Cheetah
0.23386
_
< 0.001*
< 0.001*
Wildebeest
0.33334
0.19637
_
0.18018
Lion
0.41466
0.15064
0.02921
_
These results were confirmed by the average number of pairwise differences (PXY) between Sarcoptes populations, which was statistically supported between all pairs of Sarcoptes populations with the exception of wildebeest- and lion-derived Sarcoptes mite populations (Table 3).
Table 3
Population average pairwise differences between four Sarcoptes mite derived populations from Masai Mara, Kenya
Thomson's gazelle
Cheetah
Wildebeest
Lion
Thomson's gazelle
1.16538
1.75850
2.31607
2.08393
Cheetah
0.41662
1.51837
2.20000
1.68000
Wildebeest
0.67843
0.38587
2.10989
1.76020
Lion
0.84739
0.26697
0.05141
1.30769
Above diagonal: average number of pairwise differences between populations (PiXY). Diagonal elements: average number of pairwise differences within population (PiX). Below diagonal: corrected average pairwise difference (PiXY-(PiX+PiY)/2).
The number of migrations (M = 2 Nm for diploid data) ranged from 0.70582 (between Thomson's gazelle- and lion-derived Sarcoptes mite populations) and 16.61832 (between wildebeest- and lion-derived Sarcoptes populations). The effective number of migrations per generation was lower between the two herbivore (Thomson's gazelle and wildebeest)-derived Sarcoptes populations (0.99996), compared with the two carnivore (lion and cheetah)-derived mite populations (2.8191). The cheetah-derived S. scabiei population showed a relatively high migration rate with all the studied populations (for more details see Table 4).
Table 4
Matrix of number of effective migrants per generation (Nm) for each pairwise comparison of the four Sarcoptes mite populations from Masai Mara (Kenya)
Thomson's gazelle
Cheetah
Wildebeest
Lion
Thomson's gazelle
Cheetah
1.63799
Wildebeest
0.99996
2.04621
Lion
0.70582
2.81910
16.61832
Using the Bayesian assignment test of the software STRUCTURE, ln Pr(X|K) for the likely number of populations K, it was consistently found K = 4, and we obtained the same results when applying Evanno et al. [18] criteria (Figure 1). Considering K = 4, herbivore (Thomson's gazelle and wildebeest)-derived Sarcoptes mite populations were separated into two different clusters, while carnivore (lion and cheetah)-derived Sarcoptes mite populations were more similar. The lion-derived Sarcoptes mite population clustered with the wildebeest-derived Sarcoptes mite population. Cheetah-derived Sarcoptes mite population had three different subpopulations: one subpopulation was similar to Thomson's gazelle-derived Sarcoptes mite population, one was similar to wildebeest- and lion-derived Sarcoptes mite populations, and one was cheetah-private. The Thomson's gazelle-derived Sarcoptes population had two subpopulations: one similar to cheetah-derived Sarcoptes population and another private one (Figure 2).
Figure 1
Results of STRUCTURE analysis of the four studiedSarcoptesmite populations. Results of STRUCTURE analysis of the four studied Sarcoptes mite populations from Masai Mara (Kenya) showing ΔK as proposed by Evanno et al. [18] method (1-10 clusters modelled). The best fit of the data was four clusters.
Figure 2
Bar plot of the degree of individual variation between fifty nineS. Scabiei. Bar plot of the degree of individual variation between fifty nine S. scabiei from different host species in the Masai Mara (Kenya) assigned to given genetic clusters in STRUCTURE, when five (K = 4) populations are assumed in the dataset. Each cluster is represented by a different colour.
The scatter plot of the Factorial Component Analysis (FCA), for the individuals of S. scabiei collected from the sympatric wild animals in Kenya, confirmed the results obtained by the Bayesian assignment test: Thomson's gazelle- and wildebeest-derived Sarcoptes individuals were scattered separately. Wildebeest- and lion-derived Sarcoptes individuals were similar to each other. Cheetah-derived Sarcoptes individuals were the most diverse ones, distributed between Thomson's gazelle-, lion- and wildebeest-derived Sarcoptes individuals (Figure 3).
Figure 3
Factorial Component Analysis (FCA). Factorial Component Analysis (FCA) of the proportion of variation of four Sarcoptes mite populations from Masai Mara (Kenya) assigned to given genetic clusters in Genetix.
Discussion
As with other highly divergent taxa, with Sarcoptes scabiei few loci and low sample sizes are deemed sufficient to find strong population differentiation between host species [11, 14]. The unusually high number of private alleles detected in all populations studied was the first indicator of the genetic separation and current lack of gene flow between Sarcoptes mite populations in Masai Mara.
The mean number of alleles and the mean expected heterozygosity were relatively high in wildebeest- and cheetah-derived Sarcoptes mite populations, compared to lion- and Thomson's gazelle-derived Sarcoptes mite populations. This could be attributed (i) to putative higher resistance to parasite infestation [13, 19], (ii) to a wider range of geographical movement especially in the case of wildebeest [20–23], (iii) and/or to a higher diversity of prey species in the case of cheetah compared with lion [24–26]. Lions and Thomson's gazelles have smaller home ranges, which is limited by food availability [27, 28]. These results were confirmed by the detection of infra-host variations and the deviation from HWE in some loci from the corresponding mite populations, which could be attributed to the presence of subpopulations [12, 29]. Sarcoptes mites lack free-living stages, and individual hosts, depending on their susceptibility and behaviour, are essentially ephemeral habitats providing patchy environments that hamper random mating [13, 30, 31].
AMOVA analysis (showing differentiation among populations) confirmed the presence of genetic differentiation and the absence of gene flow between wildlife-derived Sarcoptes mite populations from Masai Mara, with the exception of lion- and wildebeest-derived Sarcoptes mite populations. This was confirmed by the Bayesian assignment test which separated the two herbivore (Thomson's gazelle and wildebeest)- and two carnivore (lion and cheetah)-derived Sarcoptes populations into different clusters, which is not in concordance with the host-taxon phenomenon described for wild animals in Europe [13, 14].
All AMOVA analysis, the Bayesian assignment test (between mites), the scatter plot of the FCA (for the individuals Sarcoptes mite), and the effective number of migrations per generation showed that lion- and wildebeest-derived Sarcoptes mite populations were both similar but different from the Thomson's gazelle-derived Sarcoptes population. This could be attributed to Sarcoptes cross-infestation from wildebeest to lion, but not from Thomson's gazelle to lion. The cheetah-derived Sarcoptes population has different subpopulations: one which is private, one similar to wildebeest- and lion-derived Sarcoptes populations, and another similar to Thomson's gazelle-derived Sarcoptes mite population, which could be attributed to the diet preference, since the cheetah is known to prey upon Thomson's gazelle and wildebeest, especially calves [24], in contrast to lions which are known to prey on wildebeest and rarely Thomson's gazelle [25, 26]. There is a high probability of Sarcoptes mite transmission from the prey to the predator during the hunting process and during feeding which can lead to prey-to-predator Sarcoptes gene flow via direct transfer of S. scabiei, depending on the predator's "favourite prey". This phenomenon explains the existence of gene flow of Sarcoptes mite between lion and wildebeest, the cheetah and Thomson gazelle, and the cheetah and wildebeest. Lions preying on Thomson gazelles is quite rare especially in areas where there are other big game species [25], like in the Masai Mara ecosystem [32].
In the study reported by Rasero et al. [13] on Sarcoptes mite genetic diversity from wild animals in Europe, there was lack of interaction between carnivore, herbivore and omnivore hosts, while in a predator/prey ecosystem like Masai Mara there is evidence of such an interaction, which could lead to alterations in host-taxon phenomenon on prey-to-predator gene flow. Moreover, lions and cheetahs may preferentially select mangy preys, since the affected preys could have a reduced flight response compared with healthy individuals.
Conclusions
Bearing in mind some limitations of our study regarding the sampling size of the studied wild animals and the microsatellite panel used, our study revealed alteration in the specificity of Sarcoptes mite by its host-taxon. This alteration could be at least partially explained by predator/prey interactions. In a predator/prey ecosystem, like Masai Mara in Kenya, it seems that Sarcoptes infestation is from prey-to-predator, in relation to the predator's "favourite prey". More studies on the lion and the cheetah diet and their behaviour could be of great help to clarify the hypotheses addressed in our study, as well as more studies on Sarcoptes mites from: i) the same carnivore hosts and their "favourite preys" in different ecosystems; and ii) additional carnivore hosts (both predators and scavengers) with broader and narrower prey spectra. This study could have further ramification in the epidemiological studies and the monitoring protocols of the neglected Sarcoptes mite in predator/prey ecosystems. The effective control of sarcoptic mange in the threatened carnivores, as it the case of the cheetah in Masai Mara (which is estimated at only 61 animals; [33]), should take into account the management and control of S. scabiei in its favourite preys.
Methods
Masai Mara ecosystem
This study was carried out in the Masai Mara National Reserve and Mara Conservancy from the protected area of the Masai Mara ecosystem (1013' and 1045' S, and 34045' and 35025 E), which covers approximately 1,850 km2 and is located at the northern tip of the Serengeti National Park (Tanzania). Rainfall increases along a southeast-northwest gradient. The terrain of the reserve is primarily open grassland with seasonal riverlets.
Ethical approval
The Committee of the Department of Veterinary and Capture Services, Kenya Wildlife Service (KWS) approved this study including the animal protocols. KWS guidelines on Wildlife Veterinary Practice-2006 were used. All veterinaries in KWS were guided by Veterinary Surgeons Act Cap 366 Laws of Kenya that regulates veterinary practice in Kenya.
Specimen collection and DNA extraction
Between 2007 and 2009 mangy animals, based on clinical observation (pruritus, alopecia, crust formation, skin roughening and poor body condition) were chemically immobilized, through darting using etorphine hydrochloride (M99® 9.8 mg/ml, Novartis South Africa Pty Ltd, Isando, South Africa) combined with Xylazine hydrochloride (Ilium Xylazil-100 100 mg/ml, Troy Laboratories Pty Ltd, Smithfield, Australia). The most affected area of skin was scraped with a scalpel until it bled in order to obtain hairs and crusts for parasitological examination. The scrapings were placed in universal bottles containing 70% ethanol and transported to the laboratory [34]. A total of fifty nine adult mites were collected: twenty Sarcoptes mites from three Thomson's gazelles (Eudorcas thompsonii), seven from three wildebeests (Connochaetes taurinus), twenty five from three cheetahs (Acinonyx jubatus), and seven from three lions (Panthera leo).
All mites were identified as S. scabiei on the basis of known morphological criteria [35]. The DNA of individual Sarcoptes mites was extracted using the HotSHOT Plus ThermalSHOCK technique [36]. Two blanks (reagents only) were included in each extraction to monitor for contamination.
Fluorescent-based Polymerase chain reaction (PCR) analysis of microsatellite DNA
As described by Alasaad et al. [12], eight specific Sarcoptes mite microsatellites (Sarms 34-37, 40, 41, 44 and 45) were used with one 8× multiplex PCR. One primer from each set was 5' labelled with 6-FAM, VIC, NED or PET® fluorescent dye tag (Applied Biosystems, Foster City, CA, USA). Each 15 μl PCR reaction mixture consisted of 3 μl of the single mite DNA, together with the PCR mixture containing all primer pairs (ranging from 0.04 to 0.1 μM per primer), 200 μM of each dNTP, 1.5 μl of 10× PCR buffer (200 mM KCl and 100 mM Tris-HCl, pH 8.0), 1.5 mM MgCl2 and 0.15 μl (0.5 U/reaction) HotStar Taq (QIAGEN, Milano, Italy). The thermal profile in a 2720 thermal cycler (Applied Biosystems, Foster City, CA, USA) was as follows: 15 min at 95°C (initial denaturing), followed by 37 cycles of three steps of 30 s at 94°C (denaturation), 45 s at 55°C (annealing) and 1.5 min at 72°C (extension), before a final elongation of 7 min at 72°C. Fluorescent PCR amplification products were analysed using formamide with Size Standard 500 Liz (Applied Biosystems, Foster City, CA, USA) by ABI PRISM 310 Genetic Analyser with pop4. Allele calling was performed using the GeneMapper v. 4.0 software (Applied Biosystems, Foster City, CA, USA).
Molecular analyses
Expected (HE) and observed (HO) heterozygosity, linkage disequilibria (LD), and HWE tests were calculated using GENEPOP (v.3.4; [37]). Deviations from HWE and tests for LD were evaluated using Fisher's exact tests and sequential Bonferroni corrections.
The heterogeneity of genetic diversity among the different Sarcoptes mite populations was estimated by the partition of variance components (AMOVA) applying conventional FST statistics using allele's frequencies as implemented in Arlequin 3.11 [38]. The analysis of relationships between mites was carried out by the Bayesian assignment test of the software STRUCTURE (v.2.3.3; [39]). Burn-in and run lengths of Markov chains were both 100000. We ran 20 independent runs for each K (for K = 1-10). The most likely number of clusters was determined using two approaches; by estimating the posterior probability for each K as recommended by Pritchard et al. [39], and by using the method of Evanno et al. [18]. Finally, each of the inferred clusters was associated with the component populations of its mites.
The degree of genetic relationship among populations was further investigated with FCA as implemented in Genetix v.4.05.2 [40].
Declarations
Acknowledgements
We would like to thank S. Maione, AR Molinar, R. Rasero and D. Soglia (Università degli Studi di Torino, Italy) for offering laboratory infrastructure. Thanks are also due to Dominic Mijele, Elsie Maina and John Kariuki for their assistance in field, necropsy and laboratory work. The experiments comply with the current laws of the countries in which the experiments were performed. The research was supported by The Kenya Wildlife Service, Projecto de Excelencia (Junta de Andalucia, Spain) and Juan de la Cierva Grant.
Authors’ Affiliations
(1)
Department of Veterinary and Capture Services, Kenya Wildlife Service
(2)
Dipartimento di Produzioni Animali, Epidemiologia ed Ecologia, Università degli Studi di Torino
(3)
Department of Public Health, Pharmacology & Toxicology, University of Nairobi
(4)
Department of Pathology and Microbiology, University of Nairobi
(5)
Estación Biológica de Doñana, Consejo Superior de Investigaciones Científicas (CSIC)
(6)
Institute of Evolutionary Biology and Environmental Studies (IEU), University of Zürich
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