Trypanosoma cruzi transmission in the wild and its most important reservoir hosts in Brazil.

Trypanosoma cruzi (Kinetoplastea: Trypanosomatidae) infects all tissues of its hosts, which along with humans, include hundreds of mammalian species in the Americas. The epidemiology of T. cruzi has been changing in that currently the majority of the cases and/or outbreaks of Chagas disease occur by the ingestion of comestibles contaminated by T. cruzi metacyclic forms. These cases/outbreaks occur in distinct regional scenarios, mainly in the Amazon biome and are related to the local interaction mode of humans with their surroundings, as well as with the overall local ecological peculiarities. As trypanosomiasis caused by T. cruzi is primarily a zoonosis, understanding the variables that influences its transmission in the wild as well as the role played by the extant fauna in the maintenance of the parasite, is critical in establishing control measures. Here, we present the results of our studies of T. cruzi infection of free ranging wild mammalian fauna in the five biomes of Brazil, a country of continental dimensions. From 1992 up to 2017, we examined a total of 6587 free-ranging non-volant wild mammal specimens. Our studies found that 17% of mammals were seropositive and 8% of all animals displayed positive hemocultures indicative of high parasitemia and, consequently, of infectivity potential. We observed that opossums, mainly Philander spp. and Didelphis spp., the coati Nasua nasua, the capuchin monkey Sapajus libidinosus and the golden lion tamarin Leontopithecus rosalia, were mammal taxa that demonstrated higher rates of positive hemocultures. Additionally, Didelphis spp. demonstrated to be a competent bioaccumulator of TcI diversity. Chiroptera were distinguished for hosting the greatest diversity of species and genotypes of Trypanosoma spp. Additionally the observation of the higher host range of some Trypanosoma spp., shows the need to reassess the ecology of representatives of the taxon. Altogether, our results showed that each locality, may display distinct enzootiological and epidemiological scenarios that must be taken into account when it comes to establishing control and/or clarification campaigns of the local population.

Background

The current rapid anthropogenic environmental changes, in addition to the uncontrolled human and animal migrations within an increasingly globalized world, act powerfully as parasite dispersers. This is the case of trypanosomiasis caused by T. cruzi that in humans can result in Chagas disease, currently considered a global health challenge [1].

Trypanosoma cruzi is a true generalist and highly successful parasite in that it is able to infect almost all cell types of hundreds of mammal species distributed from southern USA to the south of Argentina. This parasite species is transmitted by dozens of exclusively hematophagous triatomine bug species (insects of the order Hemiptera), in which the parasite establishes permanent infections. In its mammalian hosts, T. cruzi also establishes stable and long-lasting infections, that display peculiarities inherent to the different host species and even individuals and other multiple factors, such as the parasite subpopulations, infection route, host nutritional status and concomitant infection with distinct T. cruzi DTUs (discrete typing units) or other parasite taxa [2].

Trypanosomiasis caused by T. cruzi is primarily an ancient enzootic parasitosis of wild mammals and its most probable main dispersion strategy in nature is the oral route, by predation on both infected vectors and mammals. Consequently, T. cruzi transmission in the wild is deeply immersed in trophic nets [2, 3]. Additionally, the classical contaminative route by metacyclic forms eliminated in infected triatomine feces may frequently occur in animals in their shelters and nests. It is also probable that the contaminative transmission by metacyclic forms of the scent gland of didelphid marsupials [4] represents an efficient transmission mechanism in the wild, but this has not been evaluated so far. This transmission route could have been important in the wild before hemipterans developed hematophagic habits [5]. The competence to infect all mammalian nucleated cells in any tissue as well as the diverse infectious forms, also represent a powerful mechanism of the maintenance of T. cruzi in nature. In addition to these evolutionary advantages, T. cruzi also displays a huge biological plasticity, probably as the result of its impressive biological, biochemical and molecular heterogeneity. Understanding the origin of T. cruzi heterogeneity still represents a challenge: although the population structure of T. cruzi is mainly clonal, mitochondrial introgression and hybridization events occur intra and inter-T. cruzi DTUs [6]. The frequency with which these phenomena occur in nature and their importance as promoters of T. cruzi diversity has been a highly discussed issue for decades. Currently, the set of these T. cruzi subpopulations were subdivided into seven taxonomic units or DTUs, namely TcI-TcVI and Tcbat. The latter, formerly assumed as restricted to bats, has been described infecting pre-Columbian human mummies [7, 8]. The attempts that have been made to associate a given subpopulation of the parasite with the distinct forms of human disease, the ecology of its wildlife host species, the biome of its occurrence and vector species have not yet resulted in conclusive associations. If any association exists between a given parasite subpopulation and specific symptoms of the disease or reservoir, only long-term studies of a representative number of T. cruzi isolates of representative mammalian species of the different biomes and habitats will establish this. Currently, however, studies have been conducted with samples that are obtained usually on only a single occasion from a single infected individual. These samples are then subjected to selective pressures inherent to isolation and maintenance methods. In addition, representative T. cruzi isolates of representative mammalian species present in all habitats where the parasite occurs are lacking. Altogether, we are sure that these gaps result in huge biases.

After all, what constitutes a reservoir?

Defining what constitutes a reservoir is a practical and theoretical challenge, and there are currently many definitions [9, 10]. Our concept of a reservoir is based on that proposed by Ashford [11], according to which a reservoir, or rather a reservoir system, is the species or the assemblage of species that support the maintenance of a parasite in nature in a sustainable way in a given space scale. Actually, among the several definitions, this seems the best-fit for a complex taxon as in the case of T. cruzi. Indeed, this multi-host parasite establishes peculiar and dynamic interaction patterns with each of its hundreds of host species, which therefore play different roles in the parasite transmission network of the different habitats and biomes of its occurrence.

The host’s capacity of being infective to its vectors, under natural conditions, depends on several factors, the most important being the concentration of parasites in the mammalian host’s blood (i.e. the parasitemia). That is, a mammalian host displays its maximum infectivity potential during the period in which it maintains a sufficient amount of circulating parasites to be ingested during the blood meal of the vector, ensuring its dispersion and maintenance in nature. The periods of high parasitemia vary among host species and individuals. The currently known variables that determine the duration of parasitemia in a given animal species (or even individual) include at least parasite genotype, nutritional status, infection route and concomitant infection. A combinatorial analysis of all the variables might result in an infinite number of possibilities. The competence of a mammalian host in infecting vectors was elegantly termed by Brunner et al. [12] as “realized reservoir competence”.

Among the points that should be taken into account when evaluating a given mammalian species as a reservoir, is its precise taxonomic classification. In fact, even cryptic species may present significant differences of the course of the infection with the same species of parasite as is the case of Thrichomys laurentius, a caviomorph rodent species of the semi-arid caatinga in northeast Brazil, and T. fosteri, a species from the Pantanal, a flood plain region in west-central Brazil. Experimental infections with T. cruzi in these two rodent species showed that T. fosteri demonstrated a significantly higher and long-lasting parasitemia and much more severe histopathological lesions [13]. These rodent species, which are morphologically absolutely indistinguishable, demonstrated to manage T. cruzi infection in totally different ways and consequently play a very different role in the maintenance of T. cruzi in the natural environment, as was later demonstrated [14, 15].

Evaluating the infectivity potential of a mammal species is a challenging task since it depends on a long-term follow-up of naturally or experimentally infected animals. In the latter case, the great challenge is the difficulty in rearing and maintaining wild mammal species in animal facilities. Experimental infections in conventional laboratory animal models are not representative and do not mimic infection conditions in the wild. In order to fully understand a reservoir system, it is important within the area of study to take an inventory of the local species, to analyse their population structure and to assess the taxonomic and beta diversity of an area.

One of the major obstacles to the study of wild reservoirs is the lack of species-specific reagents for serological tests. These tests are indispensable because they detect infected animals which have low, undetectable parasitemia, as shown by negative parasitological tests, i.e. low infectivity potential. Ideally two serological tests and two parasitological tests with distinct sensitivity should be employed.

In this review article, we summarize the data concerning wild reservoirs of T. cruzi collected during the last 20 years by our research group. We used data exclusively collected by our group as a way of making these data comparable. Moreover, we used the same techniques that we employed after establishing standard operating procedures (SOP) in our laboratory (Labtrip). The technical team, if renewed, received proper training by our staff before assuming any procedure as a way to maintain quality and repeatability. Thus, the methods employed in all steps were the same and are, therefore, comparable. In short: (i) blood cultures were performed in two tubes with 300 μl of blood in each that were examined fortnightly for up to five months; (ii) serology was performed through indirect immunofluorescent assay tests (IFAT), according to Camargo [16] Epimastigotes of T. cruzi, strains F (DTU TcI) and Y (DTU TcII) were grown in NNN/LIT medium to exponential phase and subsequently washed. Whole epimastigotes of each strain were mixed in equal proportions and employed as antigen in the IFAT assays. The reaction was revealed by species or specific family conjugate]; and (iii) molecular characterization at the DTU-level by means of two algorithms, mini-exon with RFLP and, more recently, nested-PCR for the 18S gene followed by sequence analysis. In this sense, all bat samples, as well as original isolates from other mammals not previously characterized in DTUs level, were recharacterized by the nested PCR protocol [17]. The complete methodology, as well as some of the results that were previously published, are described elsewhere [14, 15, 18–30].

Longitudinal studies are labor-intensive, logistically challenging and very expensive; however, they are the most informative. For example, in Brazil, the greatest infectivity potential of T. cruzi was observed in free-ranging wild Didelphimorphia (mainly Didelphis spp.), Primates and Carnivora. These observations were the result of 20 years of field studies in the different Brazilian biomes [14, 15, 18–30].

The infectivity potential, however, is not taxon-inherent and a fixed trait, as already mentioned above. A four-year study of the sylvatic transmission cycles of T. cruzi, performed in Argentina, concluded that cingulate and marsupials other than the genus Didelphis spp. displayed higher infectivity potential in comparison to Didelphis albiventris, classically described as the main T. cruzi reservoir [31]. Concerning domestic animals, dogs in Santiago del Estero (Argentina) demonstrated to be highly infective [32] in contrast to dogs in Brazil that rarely display high parasitemia [33, 34].

The T. cruzi enzootic transmission cycle and its idiosyncrasies

Trypanosoma cruzi enzootic transmission has been demonstrated to occur all over Brazil. Table 1 shows that 17% of the 6431 examined wild mammals had been exposed to T. cruzi infection as revealed by serological methods. Concerning Chiroptera, given their particularities, besides being the ancestral hosts and harboring numerous species of the T. cruzi clade, data referring this taxon are being presented in a separate table.

Table 1

Trypanosoma cruzi natural infection in free-living wild mammals of Brazilian biomes: consolidated results showing the total number of non-volant mammalian orders, genera and species examined by blood cultures and serological tests (indirect immunofluorescence test, IFAT)

Biomes	No. of orders	No. of genera	No. of species	HC(+)/ specimens tested (%) [95% CI]	IFAT(+)/ specimens tested (%) [95% CI]	χ2-valuea	P-value
Amazon Forest	7	33	31	90/402 (22)[18–26]	168/398 (42)[37–47]	35.968	<0.0001
Atlantic Forest	5	44	53	205/2416 (8)[7–9]	340/2375 (14)[12–15]	40.388	<0.0001
Caatinga	5	24	23	99/1005 (10)[8–11]	225/952 (24)[20–26]	67.235	<0.0001
Cerrado	7	54	67	47/1973 (2)[1, 2]	191/1838 (10)[10–12]	132.321	<0.0001
Pampa	4	10	8	0	15/106 (14)	16.142
Pantanal	5	27	19	75/791 (9)[7–11]	155/762 (20)[17–23]	36.278	<0.0001
Total				516/6587 (8)	1094/6431 (17)	762.23	<0.0001

adf =1

Difference between the rates of animals with positive blood cultures and positive serology among biomes were tested by ANOVA (F = 12.61, P = 0.0075). Comparison between the rates of animals with positive blood cultures and positive serology among biomes using Chi-square test (HC: χ2 = 34.532, df = 5, P < 0.000; IFAT: χ2 = 30.36, df = 5, P < 0.0001).

Abbreviations: CI, confidence interval; HC(+), number of specimens with positive hemocultures; IFAT(+), number of specimens with positive IFAT test

Positive hemocultures, i.e. infectivity potential, was observed in 8% of all 6587 examined animals distributed in all biomes. These data suggest that only 8% of individuals with infective competence are sufficient to maintain the widely dispersed and complex cycle of T. cruzi transmission. The lack of species-specific reagents impaired the performance of serological tests of all mammalian taxa. Even so, the sample of individuals that we were able to test was expressive and showed that 17% of them were seroreagent for T. cruzi showing that the infection of the majority of the infected mammals is expressed by positive serology (χ2 = 197.36, df = 1, P < 0.0001). It is worth noting that infected animals were distributed in all biomes. The rate (percentage) of mammals displaying positive blood cultures was considerably higher in the Amazon in comparison to the other biomes (Table 1).

All mammalian orders (Artiodactyla, Chiroptera, Primates, Carnivora, Rodentia, Cingulata, Pilosa and Didelphimorphia) demonstrated to be involved in the transmission cycle of T. cruzi to a greater or lesser degree and in distinct time- and space scales (Tables 2, 3, 4, 5, 6 and 7). Thus, the lowest number of infected mammals has been observed in the Cerrado, contrasting with the Amazon biome, where T. cruzi infection rates were the highest. The following taxa may be considered as key reservoir taxa due to the higher rates of parasitemia (as expressed by positive hemocultures) and competence in maintaining a higher diversity of T. cruzi DTUs, as well as other Trypanosoma species: Primates, Didelphimorphia, Chiroptera, and the Carnivora species Nasua nasua. Mixed T. cruzi DTU infections are frequent, notably in generalist (concerning habitats and feeding habits) mammal species [2]. That means that, besides environmental conditions (habitats, climate, anthropogenic influence, etc.) both diversity and faunal composition are indicators of a more or less robust T. cruzi transmission cycle in a given area.

Table 2

Trypanosoma cruzi natural infection in free-living wild mammals from the Amazon Forest biome: taxonomic identification of the examined mammals, results of hemocultures, indirect immunofluorescence tests and characterization of parasites. In the case of insufficient blood for hemocultures and serological tests, we prioritized the blood cultures

Order	Genus	Species	No. of genera (%)a	No. of specimens	HC(+)/ specimens tested (%)	IFAT(+)/ specimens tested (%)	DTU (n)
Artiodactyla	Sus	Sus scrofa	11	11	0	8 (73)
Cingulata	Dasypus	Dasypus novemcinctus	1/3 (33)	1	1 (100)	nd	TcIV (1)
		Dasypus sp.		2	0	nd
	Euphractus	Euphractus sexcinctus	1	1	0	nd
Didelphimorphia	Caluromys	Caluromys philander	2/8 (25)	1	0	1 (100)
		Caluromys sp.		7	2 (29)	3 (43)	TcI (1)
	Didelphis	Didelphis albiventris	24/64 (37)	4	0	0
		Didelphis marsupialis		58	24 (41)	44 (76)	TcI (16); TcII (1); TcI+T. rangeli (1); TcI+TcII (2); TcI+TcIII (1); T. rangeli (1)
		Didelphis sp.		2	0	1 (50)
	Gracilinanus	Gracilinanus sp.	1/17 (6)	17	1 (6)	2 (12)	TcI (1)
	Marmosa	Marmosa murina	25	7	0	2 (29)	TcI (1)
		Marmosa sp.		18	0	3 (16)
	Marmosops	Marmosops parvidens	1/12 (8)	1	0	1 (100)
		Marmosops sp.		11	1 (9)	3 (27)	TcI (1)
	Metachirus	Metachirus nudicaudatus	6	6	0	0
	Micoureus	Micoureus demerarae	1/9 (11)	2	1 (50)	1 (50)	TcI (1)
		Micoureus sp.		7	0	0
	Monodelphis	Monodelphis domestica	2/12 (16)	7	0	1 (14)
		Monodelphis sp.		5	2 (40)	2 (40)	TcI (1); TcI+TcIV (1)
	Philander	Philander opossum	23/67 (34)	57	18 (32)	42 (74)	TcI (14); TcI+TcII (2); T. rangeli (1)
		Philander sp.		10	5 (50)	7 (70)	TcI (3); TcI+TcIII/TcIV (1); TcI+T. rangeli (1)
Lagomorpha	Sylvilagus	Sylvilagus brasiliensis	1	1	0	nd
Pilosa	Tamandua	Tamandua mirim	1/2 (50)	2	1 (50)	nd	TcI (1)
Primates	Alouatta	Alouatta belzubul	3/11 (27)	6	2 (33)	6 (100)	TcI+TcIV (2)
		Alouatta caraya		5	1 (20)	2 (40)	TcI+TcIV (1)
	Sapajus	Sapajus libidinosus	25/46 (54)	46	25 (54)	10 (22)	TcI (2); TcI+T. rangeli (10); T. rangeli (4)
Rodentia	Akodon	Akodon sp.	1/8 (12)	7	0	0
		Akodon lindberghi		1	1 (100)	0	TcI (1)
	Cerradomys	Cerradomys sp.	1	1	0	1 (100)
	Coendou	Coendou prehensilis	2/6 (33)	6	2 (33)	4 (67)	TcI+T. rangeli (1)
	Dasyprocta	Dasyprocta prymnolopha	3	2	0	1 (50)
		Dasyprocta sp.		1	0	0
	Euryoryzomys	Euryoryzomys sp.	1	1	0	0
	Holochilus	Holochilus sp.	1	1	0	1 (100)
	Hylaeamys	Hylaeamys megacephalus	11	4	1 (25)	1 (25)	TcI (1)
		Hylaeamys sp.		7	0	0
	Mus	Mus musculus	1	1	0	0
	Necromys	Necromys lasiurus	3	2	0	0
		Necromys sp.		1	0	0
	Nectomys	Nectomys rattus	6	4	0	0
		Nectomys sp.		2	0	0
	Oecomys	Oecomys sp.	4	4	0	0
	Oligoryzomys	Oligoryzomys sp.	1	1	0	0
	Oryzomys	Oryzomys sp.	10	10	0	1 (10)
	Oxymycterus	Oxymycterus sp.	3	3	0	2 (67)
	Proechimys	Proechimys roberti	2/47 (4)	3	0	3 (100)
		Proechimys sp.		40	1 (3)	13 (33)	TcI+TcIII/TcIV (1)
		Proechimys gr. cuvieri		2	1 (50)	1 (50)	TcI (1)
		Proechimys gr. goeldii		1	0	0
		Proechimys gr. guianensis		1	0	1 (100)
Total: 7	31			401	90/402 (22)	168/398 (42)	P <0.0001

aNumber of genera with infected species/number of genera examined

Abbreviations: HC(+), number of specimens with positive hemocultures; IFAT(+), number of specimens with positive IFAT test; DTU, Discrete Typing Units; n, number of isolates; nd, not done

Table 3

Trypanosoma cruzi natural infection in free-living wild mammals from the Caatinga biome: taxonomic identification of the examined mammals, results of hemocultures, indirect immunofluorescence tests, and characterization of parasites. In the case of insufficient blood for hemocultures and serological tests, we prioritized the blood cultures

Order	Genus	Species	No. genera (%)a	No. of specimens	HC(+)/ specimens tested (%)	IFAT(+)/ specimens tested (%)	DTU (n)
Artiodactyla	Pecari	Pecari tajacu	1	1	0	0
	Sus	Sus scrofa	1	1	0	0
Carnivora	Conepatus	Conepatus semistriatus	3	3	0	0
	Cerdocyon	Cerdocyon thous	1	1	0	0
Cingulata	Dasypus	Dasypus novemcinctus	1/2 (50)	2	1 (50)	nd	TcIII (1)
	Euphractus	Euphractus sexcinctus	51	51	0	nd
Didelphimorphia	Didelphis	Didelphis albiventris	49/134 (36)	127	49 (39)	67 (53)	TcI (34); TcI+T. rangeli (1); TcII+TcV/VI (2); T. rangeli (1)
		Didelphis sp.		7	0	4 (57)
	Gracilinanus	Gracilinanus agilis	26	13	0	2 (15)
		Gracilinanus sp.		13	0	0
	Marmosops	Marmosops incanus	10	10	0	0
	Monodelphis	Monodelphis domestica	7/94 (7)	80	6 (8)	9 (11)	TcI (1); TcIV (1); TcI+T. rangeli (1)
		Monodelphis sp.		14	1 (7)	2 (14)	nd
	Thylamys	Thylamys velutinus	2	1	0	0
		Thylamys sp.		1	0	0
Rodentia	Calomys	Calomys expulsus	10	9	0	0
		Calomys sp.		1	0	0
	Galea	Galea spixii	1/47 (2)	38	1 (3)	0
		Galea sp.		9	0	0
	Kerodon	Kerodon rupestris	2	2	0	0
	Mus	Mus musculus	1/15 (7)	15	1 (7)	1 (7)	nd
	Necromys	Necromys lasiurus	14	14	0	0
	Oligoryzomys	Oligoryzomys sp.	8	8	0	1 (13)
	Oryzomys	Oryzomys aff. subflavus	13	13	0	0
	Proechimys	Proechimys sp.	2	2	0	0
	Rattus	Rattus rattus	15/71 (21)	71	15 (21)	49 (69)	TcI (10); TcII (1)
	Rhipidomys	Rhipidomys macrurus	26	24	0	8 (33)
		Rhipidomys sp.		2	0	0
	Thrichomys	Thrichomys laurentius	25/466 (5)	434	23 (5)	72 (17)	TcV (1);TcI+TcIV (1); TcIV (2)
		Thrichomys inermis		15	0	6 (40)
		Thrichomys apereoides		5	1 (20)	2 (40)	nd
		Thrichomys sp.		12	1 (8)	1 (8)	nd
	Trinomys	Trinomys sp.	1	1	0	0
	Wiedomys	Wiedomys pyrrhorhinos	5	3	0	1 (33)
		Wiedomys sp.		2	0	0
Total: 5	24			1005	99/1005 (10)	225/952 (24)	P <0.0001

aNumber of genera with infected species/number of genera examined

Abbreviations: HC(+), number of specimens with positive hemocultures; IFAT(+), number of specimens with positive IFAT test; DTU, Discrete Typing Units; n, number of isolates; nd, not done

Table 4

Trypanosoma cruzi natural infection in free-living wild mammals from the Pantanal biome: taxonomic identification of the examined mammals, results of hemocultures, indirect immunofluorescence tests (IFAT), and characterization of parasites. In the case of insufficient blood for hemocultures and serological tests, we prioritized the blood cultures

Order	Genus	Species	No. of genera (%)a	No. of specimens	HC(+)/ specimens tested (%)	IFAT(+)/ specimens tested (%)	DTU (n)
Artiodactyla	Sus	Sus scrofa	1/9 (11)	9	1 (11)	0	TcIII (1)
	Tayassu	Tayassu tajacu	32	4	0	0
		Tayassu pecari		28	0	0
Carnivora	Cerdocyon	Cerdocyon thous	3/114 (3)	96	0	53 (55)
	Leopardus	Leopardus pardalis	28	28	0	3 (11)
	Nasua	Nasua nasua	49/189 (26)	189	49 (26)	52 (28)	T. rangeli (2); TcI (33); TcI+T. rangeli (4); TcI+TcII (5); TcII (1); TcII+T. rangeli (1)
	Procyon	Procyon cancrivorus	2/15 (13)	15	2 (13)	9 (60)	TcI (1)
Cingulata	Cabassous	Cabassous unicinctus	3	3	0	nd
	Dasypus	Dasypus novemcinctus	2/2 (100)	2	2 (100)	nd	TcIII (2)
	Euphractus	Euphractus sexcinctus	1/14 (7)	14	1 (7)	nd	TcIII (1)
	Priodontes	Priodontes maximus	10	10	0	nd
Didelphimorphia	Didelphis	Didelphis albiventris	2	2	0	1 (50)
	Gracilinanus	Gracilinanus agilis	4/17 (23)	3	3 (100)	0	TcI (2); TcI+TcII (1)
		Gracilinanus sp.		14	1 (7)	0	TcI (1)
	Marmosa	Marmosa sp.	1/5 (20)	5	1 (20)	1 (20)	nd
	Marmosops	Marmosops sp.	1	1	0	0
	Monodelphis	Monodelphis sp.	2/14 (14)	7	1 (14)	1 (14)	nd
		Monodelphis domestica		7	1 (14)	0	TcI (1)
	Philander	Philander frenatus	1/1 (100)	1	1 (100)	0	TcI+TcIV (1)
	Thylamys	Thylamys sp.	2/11 (18)	11	2 (18)	1 (9)	TcI (2)
Rodentia	Calomys	Calomys sp.	6	6	0	0
	Cerradomys	Cerradomys sp.	10	10	0	0
	Clyomys	Clyomys laticeps	39	2	0	2 (100)
		Clyomys sp.		37	0	0
	Dasyprocta	Dasyprocta azarae	8	3	0	0
		Dasyprocta sp.		5	0	2 (40)
	Holochilus	Holochilus sp.	2	2	0	0
	Marmosa	Marmosa sp.	1	1	0	0
	Oecomys	Oecomys mamorae	9/34 (26)	34	9 (100)	0	TcI (5); TcIV (3)
	Oryzomys	Oryzomys sp.	19	19	0	4 (21)
	Thrichomys	Thrichomys fosteri	2/216 (1)	138	2 (1)	3 (2)	TcI (1)//TcIV (1)
		Thrichomys sp.		78	0	23 (29)
	Thylamys	Thylamys sp.	7	7	0	0
Total: 5	27			791	75/791 (9)	155/762 (20)	P <0.0001

aNumber of genera with infected species/number of genera examined

Abbreviations: HC(+), number of specimens with positive hemocultures; IFAT(+), number of specimens with positive IFAT test; DTU, Discrete Typing Units; n, number of isolates; nd, not done

Table 5

Trypanosoma cruzi natural infection in free-living wild mammals from the Cerrado biome: taxonomic identification of the examined mammals, results of hemocultures, indirect immunofluorescence tests (IFAT), and characterization of parasites. In the case of insufficient blood for hemocultures and serological tests, we prioritized the blood cultures

Order	Genus	Species	No. of genera (%)a	No. of specimens	HC(+)/ specimens tested (%)	IFAT(+)/ specimens tested (%)	DTU (n)
Artiodactyla	Pecari	Pecari tajacu	1	1	0	0
Carnivora	Cerdocyon	Cerdocyon thous	59	59	0	22 (37)
	Chrysocyon	Chrysocyon brachyurus	91	91	0	6 (6)
	Conepatus	Conepatus semistriatus	2	2	0	nd
	Eira	Eira barbara	5	5	0	nd
	Leopardus	Leopardus pardalis	2/3 (67)	3	2 (67)	1 (33)	TcI (2)
	Lontra	Lontra longicaudis	1	1	0	nd
	Lutra	Lutra longicaudis	1	1	0	nd
	Nasua	Nasua nasua	3	3	0	nd
	Puma	Puma concolor	2	2	0	2 (100)
	Pseudalopex	Pseudalopex vetulus	3/74 (4)	48	2 (4)	22 (46)	TcIII (2);
Cingulata	Cabassous	Cabassous unicinctus	2	2	0	nd
	Dasypus	Dasypus novemcinctus	2	2	0	nd
	Euphractus	Euphractus sexcinctus	5	5	0	nd
Didelphimorphia	Caluromys	Caluromys philander	1/10 (10)	10	1 (10)	0	TcI (1)
	Chironectes	Chironectes minimus	4	4	0	0
	Cryptonanus	Cryptonanus agricolai	3	3	0	0
	Didelphis	Didelphis albiventris	9/118 (7)	104	9 (9)	30 (29)	TcI (4)
		Didelphis sp.		14	0	4 (29)
	Gracilinanus	Gracilinanus agilis	10/191 (5)	92	2 (2)	5 (5)	TcI (2)
		Gracilinanus sp.		99	8 (8)	14 (14)	TcI (4); TcI+TcIII/TcIV (3); TcI+TcIV (1)
	Lutreolina	Lutreolina crassicaudata	1	1	0	0
	Marmosa	Marmosa murina	59	38	0	1 (4)
		Marmosa sp.		21	0	0
	Micoureus	Micoureus demerarae	2/11 (18)	3	0	0
		Micoureus travassosi		4	2 (50)	3 (75)	TcI (2)
		Micoureus sp.		4	0	0
	Monodelphis	Monodelphis cf. americana	4/121 (3)	1	0	0
		Monodelphis domestica		93	2 (2)	1 (1)	TcIII (1)
		Monodelphis kunsi		2	0	0
		Monodelphis sorex		1	0	0
		Monodelphis sp.		24	2 (8)	0	TcI (2)
	Philander	Philander sp.	2	2	0	1 (50)
	Thylamys	Thylamys sp.	2	2	0	0
Pilosa	Myrmecophaga	Myrmecophaga tridactyla	3	3	0	nd
	Tamandua	Tamandua tetradactyla	2	2	0	nd
Primates	Alouatta	Alouatta caraya	5	5	0	1 (20)
	Callithrix	Callithrix penicillata	3	3	0	1 (33)
	Cebus	Cebus apella	35	33	0	9 (27)
		Cebus sp.		2	0	1 (50)
Rodentia	Akodon	Akodon montensis	2/51 (4)	1	0	0
		Akodon sp.		50	2 (4)	0	TcI (2)
	Brucepattersonius	Brucepattersonius sp.	8	8	0	0
	Calomys	Calomys expulsus	3/286 (1)	51	0	0
		Calomys tener		39	1 (3)	1 (3)	TcI (1)
		Calomys sp.		196	2 (1)	6 (3)	TcI (2)
	Cerradomys	Cerradomys maracajuensis	1/28 (3)	5	0	0
		Cerradomys marinhus		9	0	1 (11)
		Cerradomys megacephalus		1	0	0
		Cerradomys scotti		6	0	0
		Cerradomys subflavus		7	1 (14)	0	TcI (1)
		Cerradomys sp.		27	2 (7)	1 (4)	TcI (2)
	Dasyprocta	Dasyprocta azarae	3	2	0	nd
		Dasyprocta sp.		1	0	nd
	Hydrochoerus	Hydrochoerus hydrochaeris	2	2	0	0
	Hylaeamys	Hylaeamys megacephalus	3/108 (3)	51	3 (6)	3 (6)	nd
		Hylaeamys sp.		57	0	0
	Juliomys	Juliomys sp.	1	1	0	0
	Mus	Mus musculus	1	1	0	0
	Necromys	Necromys lasiurus	171	166	0	1 (0.6)
		Necromys sp.		5	0	2 (40)
	Nectomys	Nectomys rattus	45	28	0	7 (25)
		Nectomys squamipes		3	0	0
		Nectomys sp.		13	0	0
	Oecomys	Oecomys bicolor	2/94 (2)	27	2 (7)	0
		Oecomys concolor		10	0	0
		Oecomys sp.		57	0	3 (5)
	Oligoryzomys	Oligoryzomys fornesi	2/175 (1)	16	0	0
		Oligoryzomys moojeni		3	0	0
		Oligoryzomys nigripes		8	0	0
		Oligoryzomys sp.		148	2 (1)	3 (2)	TcII (1)
	Oryzomys	Oryzomys subflavus	42	1	0	0
		Oryzomys megacephalus		15	0	4 (27)
		Oryzomys scotti		2	0	1 (50)
		Oryzomys sp.		24	0	3 (13)
	Oxymycterus	Oxymycterus sp.	9	9	0	1 (11)
	Proechimys	Proechimys roberti	42	25	0	1 (4)
		Proechimys sp.		17	0	2 (12)
	Rattus	Rattus norvegicus	1/15 (7)	2	0	0
		Rattus rattus		13	1 (8)	7 (54)	nd
	Rhipidomys	Rhipidomys cf. mastacalis	1/26 (4)	9	0	0
		Rhipidomys macrurus		2	0	0
		Rhipidomys sp.		15	1 (7)	5 (33)	nd
	Sooretamys	Sooretamys sp.	1	1	0	0
	Sphiggurus	Sphiggurus sp.	1	1	0	0
	Thrichomys	Thrichomys aff. inermis	41	7	0	2 (29)
		Thrichomys apereoides		2	0	0
		Thrichomys sp.		32	0	9 (28)
	Wiedomys	Wiedomys sp.	2	2	0	0
Total: 7	52			1973	47/1973 (2)	191/1838 (10)	P <0.0001

aNumber of genera with infected species/number of genera examined

Abbreviations: HC(+), number of specimens with positive hemocultures; IFAT(+), number of specimens with positive IFAT test; DTU, Discrete Typing Units; n, number of isolates; nd, not done

Table 6

Trypanosoma cruzi natural infection in free-living wild mammals from the Pampa biome: taxonomic identification of the examined mammals and indirect immunofluorescence tests (IFAT)

Order	Genus	Species	No. of genera (%)	No. of specimens	IFAT(+)/ specimens tested (%)
Carnivora	Cerdocyon	Cerdocyon thous	2	2	1 (50)
	Leopardus	Leopardus geoffroyi	1	1	0
	Pseudalopex	Pseudalopex gymnocercus	4	4	3 (75)
Didelphimorphia	Didelphis	Didelphis albiventris	26	26	8 (31)
Primates	Alouatta	Alouatta sp.	2	2	nd
Rodentia	Akodon	Akodon sp.	2	2	0
	Mus	Mus musculus	40	40	0
	Rattus	Rattus rattus	2	1	1 (100)
	Scapteromys	Scapteromys aquaticus	28	28	2 (7)
	Sooretamys	Sooretamys angouya	2	2	0
Total	10	8		108	15/106 (14)

Abbreviations: IFAT(+), number of specimens with positive IFAT test; nd, not done

Table 7

Trypanosoma cruzi natural infection in free-living wild mammals from the Atlantic Forest biome: taxonomic identification of the examined mammals, results of hemocultures, indirect immunofluorescence tests (IFAT), and characterization of parasites. In the case of insufficient blood for hemocultures and serological tests, we prioritized the blood cultures

Order	Genus	Species	No. of genera (%)a	No. of specimens	HC(+)/ specimens tested (%)	IFAT(+)/ specimens tested (%)	DTU (n)
Carnivora	Cerdocyon	Cerdocyon thous	1	1	0	0
	Galictis	Galictis vittata	1/2 (50)	1	1 (100)	nd	TcIII (1)
		Galictis cuja		1	0	nd
	Leopardus	Leopardus pardalis	4	2	0	2 (100)
		Leopardus tigrinus		2	0	2 (100)
	Procyon	Procyon cancrivorus	2	2	0	0
	Puma	Puma yagouaroundi	2	2	0	1 (50)
Cingulata	Dasypus	Dasypus septemcinctus	4	1	0	nd
		Dasypus novemcinctus		1	0	nd
		Dasypus sp.		2	0	nd
Didelphimorphia	Didelphis	Didelphis albiventris	77/409 (19)	44	2 (5)	11 (25)	nd
		Didelphis aurita		271	69 (25)	81 (30)	TcI (11); TcII (1); TcIV (1); TcI+TcII (2); TcI+TcII+TcIII/TcIV (1); TcI+TcIV (2);TcIII/TcIV (1); TcI+TcII+T. rangeli (1); TcI+T. rangeli (1); T. rangeli (1);
		Didelphis sp.		94	6 (6)	19 (20)	nd
	Gracilinanus	Gracilinanus microtarsus	7	1	0	0
		Gracilinanus sp.		6	0	0
	Marmosa	Marmosa paraguayana	6	1	0	0
		Marmosa sp.		8	0	3 (37)
	Marmosops	Marmosops incanus	2/14 (14)	3	0	1 (33)
		Marmosops paulensis		6	1 (17)	1 (17)	TcI (1)
		Marmosops sp.		5	1 (20)	1 (20)	nd
	Metachirus	Metachirus nudicaudatus	1/15 (7)	15	1 (8)	3 (23)	nd
	Micoureus	Micoureus paraguayanus	1/7 (14)	7	1 (14)	0	TcIV (1)
		Micoureus demerarae		8	0	3 (37)
	Monodelphis	Monodelphis americana	2/27 (7)	2	1 (50)	0
		Monodelphis dimidiata		8	0	0
		Monodelphis domestica		3	1 (33)	0	TcI (1)
		Monodelphis sp.		14	0	0
	Philander	Philander frenatus	22/106 (21)	67	19 (28)	8 (12)	TcI (7); TcII (4)
		Philander opossum		2	0	0
		Philander sp.		37	3 (8)	7 (19)	TcI (1)//TcIV (1); TcI+T. rangeli (1)
Primates	Callithrix	Callithrix jacchus	2/4 (50)	1	1 (100)	0	TcI (1)
		Callithrix geoffroy		2	1 (50)	nd
		Callithrix sp.		1	0	0
	Cebus	Cebus apella	1/1 (100)	1	1 (100)	0	TcII (1)
	Leontopithecus	Leontopithecus chrysomelas	91/374 (24)	87	39 (45)	48 (55)	TcI (1);TcII (14)
		Leontopithecus chrysopygus		1	1 (100)	0
		Leontopithecus rosalia		286	51 (18)	94 (33)	TcI (4); TcII (26); TcI+TcII (1)
Rodentia	Abrawayaomy	Abrawayaomys sp.	1	1	0	0
	Akodon	Akodon cursor	2/529 (0.4)	7	0	0
		Akodon montensis		57	0	0
		Akodon paranaensis		7	0	0
		Akodon sp.		458	2 (0.5)	20 (4)	TcI (1)
	Brucepattersonius	Brucepattersonius sp.	24	24	0	0
	Calomys	Calomys sp.	4	4	0	1 (25)
	Cavia	Cavia sp.	2	2	0	1 (50)
	Cerradomys	Cerradomys sp.	1	1	0	0
	Coendou	Coendou sp.	1	1	0	0
	Delomys	Delomys dorsalis	1	1	0	0
	Euryoryzomys	Euryoryzomys russatus	9	9	0	0
	Euryzygomatomys	Euryzygomatomys spinosus	3	3	0	0
	Galea	Galea spixii	1	1	0	0
	Hyleamys	Hyleamys sp.	1	1	0	0
	Juliomys	Juliomys pictipes	1	1	0	0
	Mus	Mus musculus	16	15	0	0
		Mus sp.		1	0	0
	Necromys	Necromys lasiurus	12	12	0	2 (16)
	Nectomys	Nectomys squamipes	3/135 (2)	30	1 (3)	4 (13)	TcI (1)
		Nectomys rattus		6	0	1 (17)
		Nectomys sp.		99	2 (2)	1 (1)	TcI (1)
	Oligoryzomys	Oligoryzomys flavescens	479	1	0	0
		Oligoryzomys nigripes		116	0	3 (3)
		Oligoryzomys sp.		362	0	1
	Oryzomys	Oryzomys sp.	4	4	0	0
	Oxymycterus	Oxymycterus judex	32	14	0	0
		Oxymycterus sp.		18	0	3 (17)
	Rattus	Rattus rattus	35	35	0	9 (26)
	Rhipidomys	Rhipidomys sp.	3	3	0	1 (33)
	Sooretamys	Sooretamys angouya	12	12	0	0
	Sphiggurus	Sphiggurus villosus	1	1	0	0
	Thaptomys	Thaptomys nigrita	81	81	0	0
	Thrichomys	Thrichomys apereoides	8	6	0	2 (33)
		Thrichomys sp.		2	0	0
	Trinomys	Trinomys iheringi	24	3	0	0
		Trinomys paratus		10	0	2 (20)
		Trinomys sp.		11	0	4 (36)
Total: 5	43			2416	205/2416 (8.5)	340/2375 (14)	P <0.0001

aNumber of genera with infected species/number of genera examined

Abbreviations: HC(+), number of specimens with positive hemocultures; IFAT(+), number of specimens with positive IFAT test; DTU, Discrete Typing Units; n, number of isolates; nd, not done

The T. cruzi infection rate of free-living mammals in the Amazon biome was significantly higher than observed in other biomes, both in relation to blood cultures and serology (IFAT). Free living mammals of Caatinga, Pantanal and Atlantic forest displayed comparable rates of positive hemocultures (Table 1; P < 0.0001). Moreover, the distribution of T. cruzi DTUs in Brazilian biomes is apparently non-homogeneous. As an example, the DTU TcII that was rarely found in the Amazon and even then, in localities that are distant from each other (Table 2). This observation raises the question of how is a T. cruzi DTU that is only sporadically isolated, maintained and dispersed in the natural environment? Actually, there is still much to learn about the ecology of T. cruzi and its DTUs.

In the Cerrado, most trapped and examined mammals were rodents (54.6%) (Table 5). Primates accounted for only 2.3% of the examined mammals, while marsupials and carnivores constituted 27.4 and 15.6% of sampled animals, respectively (Table 5). Only 2% of all examined mammals displayed positive hemocultures in this biome, which was statiscally different from other biomes (Table 1; P < 0.0001).

It is worth noting that although the number of examined mammals and study areas is large, these are still not representative considering the huge diversity and number of the extant mammalian fauna and the huge ecological diversity and dimensions of the country. It was not possible for our group to test all of the examined wild mammal species by serological methods due to the lack of species-specific conjugates and/or insufficient amount of serum. Actually, blood cannot be collected from very small-sized animals in sufficient quantities for blood cultures (one pair of tubes with 300 μl each) and serology (50 μl sera).

Trypanosoma cruzi transmission among mammals with low parasitemia

In the Pampa biome, 14% of the animals demonstrated positive serology but none displayed positive blood culture (Table 6). The questions that immediately arise are: how is transmission possible as it depends on high parasitaemia, and what is the strategy that ensures the permanence of the parasite in this scenario? In contrast, in the Amazon, 22% of mammals including those using all forest strata presented high parasitaemia expressed by positive blood cultures in a classical epizootic scenario (Table 2). A hypothesis we favor is that the mammal fauna in the Pampa display only short periods of high parasitaemia, i.e. the transmission window of these individuals is narrow, and it is the assemblage of mammals at different stages of infection that ensures the persistence of T. cruzi in nature [2]. In areas in which mammalian fauna display low parasitemia, the transmission of T. cruzi may also rely on ecological features of hosts and triatomine, e.g. in higher host-vector contact as is the case of nesting animal species such as coatis, hoary foxes and golden lion tamarins.

The overall low T. cruzi infection rates observed in the order Rodentia that are highly susceptible to experimental infection suggest that these mammals play a secondary role as reservoirs in the wild (Tables 2, 3, 4, 5, 6, 7 and 8). This was especially striking in the Cerrado biome, as expressed by their low infection rates (3.7% of positive serological tests and 0.7% of positive hemocultures) (Table 5). Two hypotheses may explain these findings: (i) the infected animals do not resist the infection and die; or (ii) rodents are not exposed to infection in the studied Cerrado regions. Finally, these findings are similar to what was observed in the Pantanal biome [15] and support the hypothesis that, in fact, wild rodents only exceptionally play an important role as T. cruzi reservoirs.

Table 8

Trypanosoma cruzi natural infection in free-living wild mammals of Brazilian biomes: mammalian taxa that present the highest competencies for infection as expressed by positive blood cultures

Order	Genus	Biome	No. of specimens	HC(+)/ specimens tested (%)	IFAT(+)/ specimens tested (%)	P-value
Didelphimorphia	Didelphis	Amazon Forest	64	24 (37)	45 (70)	0.0001
	Philander		68	24 (35)	50 (73)	<0.0001
	Didelphis	Atlantic Forest	410	77 (19)	111 (27)	0.004
	Philander		106	22 (20)	15 (14)	0.2776
	Didelphis	Caatinga	134	49 (36)	71 (53)	0.0099
	Didelphis	Cerrado	118	9 (8)	34 (29)	<0.0001
Primates	Leontopithecus	Atlantic Forest	374	91 (24)	205 (55)	<0.0001
	Sapajus	Amazon Forest	46	25 (54)	10 (22)	0.0026
	Alouatta		11	3 (27)	8 (73)	0.0881
Carnivora	Nasua	Pantanal	230	76 (33)	77 (33)	0.9212

Abbreviations: HC(+), number of specimens with positive hemocultures; IFAT(+), number of specimens with positive indirect immunofluorescence test (IFAT)

The miscellaneous, focal and aggregated character of the T. cruzi transmission cycle in the wild environment can be observed in two biomes. In the Atlantic Forest, of the 8.5% of the mammals showing positive blood cultures, 44.4% were constituted by two species of tamarins: 37.6% by Didelphis spp. and 10.7% by Philander spp. Overall, in the Atlantic Forest, only 0.35% of the rodents displayed positive blood cultures (Table 7). In the Caatinga, we observed one rodent species (Rattus rattus) with high rates of positive blood cultures (21%, Table 3), showing how important it is to look at every forest fragment as a singularity. Transmission patterns may change in time as revealed by studies of Trypanosoma spp. infection in coatis of a Pantanal region termed Nhecolandia. Initially, high rates of infection with T. evansi were observed (Table 4) [35]. The continued monitoring of this same coati population resulted in successful isolations of T. cruzi and also T. rangeli [30]. More recently, coatis demonstrated to be again infected with T. evansi and to a lesser extent with T. cruzi or T. rangeli [2]. It is tempting to hypotethize that climatic alterations resulted in this process, but which ones? Trypanosoma evansi and T. cruzi display distinct transmission strategies T. evansi being mechanically transmitted by hematophagous dipterans and T. cruzi and T. rangeli, by triatomine vectors. All these data together show that host-parasite systems are complex and unpredictable.

An example of independent transmission cycles occurring in the same forest fragment was observed in a rainforest fragment in the Atlantic Forest biome where a conservation program of the endangered golden lion tamarin (GLT) species, Leontophithecus rosalia, is maintained [25]. The study of T. cruzi infection of GLTs and sympatric mammals revealed that only GLTs were infected with T. cruzi DTU TcII and all other species of local mammals showed infections with TcI (Table 7) [25].

Of the examined infected mammals, those species that demonstrated the higher infectivity potential, as expressed by high rates of positive hemocultures throughout Brazilian biomes will be highlighted here. These mammal taxa are Didelphimorphia (Didelphis spp. and Philander spp.), procyonid carnivores (N. nasua) and primates (Table 8). It is worth mentioning that representatives of the Didelphimorphia displayed the highest infective competence in the Amazon, Atlantic Forest and Caatinga (along with primates in the first two biomes). In the Pantanal, N. nasua plays this role. Bats were distinguished for presenting the highest diversity of Trypanosoma spp. infection in simple and mixed infections and are discussed separately (Table 9).

Table 9

Trypanosoma spp. natural infection in Chiroptera from Brazilian biomes: partial results of characterization of Trypanosoma spp. isolates derived from 1218 bats collected in five Brazilian biomes Parasite molecular target (V7V8 SSU rRNA / Cytb / 18S)

Biome	Genus	Species	No. of genera (%)a	No. of specimens	HC(+)/ specimens tested (%)	Trypanosoma spp. or T. cruzi DTU (n)
Amazon Forest	Anoura	Anoura caudifer	1	2	1 (50)	T. cruzi TcI (1)
	Artibeus	Artibeus lituratus	127 (15.7)	59	6 (10)	Trypanosona sp. (1); T. cruzi TcIV (2); T. cruzi TcI (3)
		Artibeus cf. fimbriatus		1	1 (100)	T. cruzi TcI (1)
		Artibeus obscurus		5	1 (20)	Trypanosona sp. (1)
		Artibeus planirostris		62	12 (19)	Trypanosona sp. (4); T. c. marinkellei (2); T. cruzi TcI (4); T. rangeli (sub-população A) (1); T. dionisii (1)
	Carollia	Carollia perspicillata	131 (25.1)	118	29 (24)	T. cruzi TcI (20); T. dionisii (3); T. rangeli (subpopulation A) (1); Trypanosona sp. (4); Trypanosoma sp. + T. cruzi TcI (1)
		Carollia cf. beikeith		1	1 (100)	T. cruzi TcI (1)
		Carollia brevicauda		12	3 (25)	T. cruzi TcI (3)
	Chiroderma	Chiroderma villosum	3	3	0
	Dermanura	Dermanura cinereus	13 (7.0)	13	1 (7)	T. cruzi TcI (1)
	Desmodus	Desmodus rotundus	2	2	0
	Diaemus	Diaemus youngi	1	1	0
	Eptesicus	Eptesicus brasiliensis	3 (33.3)	3	1 (33)	Trypanosona sp. (1)
	Glossophaga	Glossophaga soricina	11 (18.2)	11	2 (18)	T. cruzi TcIV (1); T. cruzi TcI (1)
	Lasiurus	Lasiurus blossevillii	2 (50.0)	2	1 (50)	T. cruzi TcI (1)
	Lonchophylla	Lonchophylla thomasi	5 (20.0)	5	1 (20)	T. cruzi TcI (1)
	Lophostoma	Lophostoma silvicolum	3 (66.7)	3	2 (66)	T. c. marinkellei (2)
	Mesophylla	Mesophylla macconelli	2	2	0
	Micronycteris	Micronycteris megalotis	1	1	0
	Molossus	Molossus aff. rufus	3	3	0
	Noctilio	Noctilio albiventris	1	1	0
	Mimom	Mimom crenulatum		1	0
	Phyllostomus	Phyllostomus discolor	32 (53.1)	7	6 (85)	T. cruzi TcI (2); T. c. marinkellei (2); Trypanosona sp. (2)
		Phyllostomus elongatus		12	2 (16)	Trypanosona sp. (1); T. c. marinkellei (1)
		Phyllostomus hastatus		13	9 (69)	Trypanosona sp. (3); T. c. marinkellei (5); T. cruzi TcIV + T. c. marinkellei (1)
	Plathyrhinus	Plathyrhinus infuscus	3 (33.3)	2	1 (50)	T. cruzi TcI (1)
		Plathyrhinus incarum		1	0
	Rhynophylla	Rhynophylla pumilio	9	5	0
		Rhinophylla fischerae		4	0
	Saccopteryx	Saccopteryx leptura	1	1	0
	Sturnira	Sturnira lilium	6 (33.3)	2	1 (50)	Trypanosona sp. (1)
		Sturnira tildae		4	1 (25)	T. dionisii (1)
	Tonatia	Tonatia saurophila	3 (33.3)	3	1 (33)	T. cruzi TcI (1)
	Trachops	Trachops cirrhosus	3 (100)	3	3 (100)	T. cruzi TcI (2); T. dionisii (1)
	Uroderma	Uroderma bilobatum	13 (7)	13	1 (7)	T. cruzi TcI (1)
	Vampyrum	Vampyrum spectrum	1	1	0
	Vampyrodes	Vampyrodes caraccioli	1	1	0
	Vampyressa sp.	Vampyressa sp.	1 (100)	1	1 (100)	T. cruzi TcI (1)
Atlantic Forest	Ametrida	Ametrida centurio	1	1	0
	Anoura	Anoura caudifer	21 (14.2)	11	1 (9)	Trypanosona sp. (1)
		Anoura geoffroyi		10	2 (20)	T. dionisii (2)
	Artibeus	Artibeus cinereus	305 (1.3)	21	0
		Artibeus fimbriatus		6	1 (16)	T. cruzi TcI (1)
		Artibeus lituratus		81	2 (2)	T. cruzi TcIII (1); T. cruzi TcIII/V (1)
		Artibeus obscurus		4	0
		Artibeus planirostris		193	1 (0.5)	T. cruzi TcI (1)
	Carollia	Carollia perspicillata	133 (18.0)	133	24 (18)	T. cruzi TcIV (1); T. dionisii (20); Trypanosoma sp. (1); Trypanosoma rangeli D (1); Trypanosoma rangeli B (1)
	Chrotopterus	Chrotopterus auritus	1	1	0
	Dermanura	Dermanura cinerea	22	22	0
	Desmodus	Desmodus rotundus	30 (16.7)	30	5 (16)	T. cruzi TcIII/V (1); T. cruzi TcI (1); Trypanosoma sp. (1); T. dionisii (2)
	Lonchorrina	Lonchorrina aurita	1	1	0
	Glossophaga	Glossophaga soricina	23 (4.3)	23	1 (4)	T. dionisii (1)
	Glyphonycteris	Glyphonycteris sylvestris	1	1	0
	Lophostoma	Lophostoma silvicolum	1	1	0
	Micronycteris	Micronycteris microtis	1/3 (33.3)	2	0
		Micronycteris minuta		1	1 (100)	T. cruzi TcI/III (1)
	Mimon	Mimon bennettii	2	2	0
	Myotis	Myotis nigricans	10 (40.0)	10	4 (40)	T. dionisii (3); T. cruzi TcIII/V (1)
	Phyllostomus	Phyllostomus discolor	23 (13.0)	11	3 (27)	T. cruzi TcI (1); T. c. marinkellei (2)
		Phyllostomus hastatus		12	0
	Platyrrhinus	Platyrrhinus lineatus	9	9	0
		Platyrrhinus recifinus		1	0
	Rinophyla	Rinophyla pumilio	5	5	0
		Rinophyla sp.	1 (5.9)	1	0
	Sturnira	Sturnira lilium	41 (12.1)	40	5 (12)	T. dionisii (4); Trypanosona sp. (1)
		Sturnira tildae		1	0
	Tonatia	Tonatia bidens	3 (33.3)	3	1 (33)	T. dionisii (1)
	Tracops	Tracops cirrhosus	1 (100)	1	1 (100)	Trypanosoma sp. (1)
	Vampyressa	Vampyressa pusilla	1	1	0
Caatinga	Phyllostomus	Phyllostomus sp.	2	2	0
	Molossus	Molossus sp.	3	3	0
Cerrado	Artibeus	Artibeus lituratus	49 (10.2)	11	1 (9)	Trypanosoma sp. (1)
		Artibeus planirostris		37	4 (10)	Trypanosoma sp. (3); T. c. marinkellei (1)
		Artibeusaff. Obscurus		1	0
	Carollia	Carollia perspicillata	24 (4.0)	24	1 (4)	Trypanosoma sp. (1)
	Desmodus	Desmodus rotundus	4 (25.0)	4	1 (25)	Trypanosoma sp. (1)
	Glossophaga	Glossophaga soricina	7 (14.0)	7	1 (14)	Trypanosoma sp. (1)
	Molossops	Molossops sp.	2	2	0
	Phyllostomus	Phyllostomus albicola	12 (83.3)	1	1 (100)	Trypanosoma sp. (1)
		Phyllostomus discolor		1	1	Trypanosoma sp. (1)
		Phyllostomus hastatus		11	9 (81)	Trypanosoma sp. (4)
	Platyrhinus	Platyrhinus lineatus	7	7	0
	Sturnira	Sturnira lilium	4 (25.0)	4	1 (25)	T. dionisii (1)
	Eptesicus	Eptesicus brasiliensis	3	3	0
	Eumops	Eumops sp.	6	6	0
	Myotis	Myotis nigricans	1	1	0
	Rhynchonycteris	Rhynchonycteris naso	1 (5.9)	1	0
Pantanal	Artibeus	Artibeus jamaicensis	16 (18.7)	1	1 (100)	Trypanosoma sp. (1)
		Artibeus planirostris		15	2 (13)	Trypanosoma sp. (1); T. c. marinkellei (1)
	Carollia	Carollia perspicillata	4 (5.9)	4	0
	Chrotopterus	Chrotopterus autirus	1 (5.9)	1	0
	Desmodus	Desmodus rotundus	18 (16.6)	18	3 (16)	T. c. marinkellei (1); Trypanosoma sp. (2)
	Glossophaga	Glossophaga soricina	3	3	0
	Lophostoma	Lophostoma silvicolum	5	5	0
	Molossops	Molossops temminckii	1	1	0
	Molossus	Molossus molossus	2	2	0
	Myotis	Myotis migricans	1	1	0
	Noctilio	Noctilio albiventris	2	2	0
	Platyrrhinus	Platyrrhinus lineatus	9	9	0
	Phyllostomus	Phyllostomus hastatus	5 (60.0)	5	3 (60)	Trypanosoma sp. (1); T. c. marinkellei (2)
	Sturnira	Sturnira lilium	3 (33.3)	3	1 (33)	T. dionisii (1)
Total	76	94	1218 (5.9)	1219	168 (14)

aNumber of genera with infected species/number of genera examined

Abbreviations: HC(+), number of specimens with positive hemocultures; DTU, Discrete Typing Units; n, number of isolates

Didelphimorphia (Didelphis spp. and Philander spp.)

Marsupials comprise a mammal group which presents a peculiar reproduction strategy. These ancient mammals are an evolutionary success since they are extant, with little anatomical change since the Cretaceous [36]. The family Didelphidae includes all representatives of metatherian mammals or marsupials extant in the Americas. Didelphidae includes four subfamilies (Glironiinae, Caluromyniae, Hyladelphinae and Didelphinae), 19 genera and 95 species of which only four do not occur in South America [37].

The species within the genus Didelphis include the largest American marsupials. Didelphis spp. have a pair of scent glands adjacent to the cloaca that are a suitable niche for the multiplication of T. cruzi as epimastigote forms and for its differentiation to infective metacyclic trypomastigotes [4]. Didelphid marsupials have a very short gestation time (in Didelphidae, delivery occurs on average after 13 days of gestation). Individuals are born in an almost embryonic stage; the newborns do not have obvious eyes, ears or hind legs. They are absolutely hairless, and their mouth is a small hole through which the newborn will adhere to a nipple, and to which it will remain attached and totally dependent for six to eight weeks. Nevertheless, the newborn marsupial must climb from the womb without maternal aid to reach the pouch and adhere to a nipple. At this stage, and for the next several weeks, the newborn is totally dependent on the marsupium, and if removed will not survive. Despite the close and long contact between the newborn with the mother, in experimental conditions, we never observed neonatal transmission of T. cruzi in D. aurita [38].

Often described as essentially arboreal, Didelphis spp. use with reasonable frequency the soil, the understory, and the sub-canopy/canopy strata. However, the use of vertical space is not a fixed trait; it depends on the population structure, in that competition between young and adult animals may determine the level of occupation of the vertical space. Interspecific competition may also determine the use of the vertical space by this taxon [39]. In the wild, Didelphis spp. also use tree hollows, wood piles, palm crown and other locations for shelter, all of which are excellent habitats for triatomine species. Didelphidae are classically described as solitary animals with social interactions restricted to the mating season and to young pouch animals. However, this paradigm is being challenged by recent observations suggesting that these animals may display a social behavior pattern [40]. Didelphid marsupials are nocturnal, nomadic (mainly the males) and are agile climbers but quite clumsy when on the ground. Didelphis spp. can become infected orally (preying on small mammals or triatomines); they display high infectivity potential mainly for TcI (with high levels of parasitaemia almost indefinitely) and are able to infect other mammals directly in antagonistic situations as T. cruzi could be present in the secretions from the scent glands that are released by stress.

Trypanosoma cruzi is not homogeneously distributed in the lumen of the scent glands. The epimastigotes are found along the glandular epithelium that is coated by hyaluronic acid. The metacyclic forms are found mainly in the middle of the lumen of the glands and metacyclogenesis occurs regardless of adhesion [41]. This ensures the preferential elimination of infectious trypomastigotes when scent glands are used. All these characteristics have, as a consequence, that didelphids are exposed to all of the T. cruzi transmission cycles that occur in these habitats.

Didelphis spp. are extremely habitat and food resilient and easily adapt to peri-domestic areas. There, they feed on human food remains and also serve as food for humans. This is especially the case among the riverine settlements in the Amazon rainforest. Besides being an important source of protein, Didelphis spp. are also used for medicinal purposes by these populations; the meat is described as tasty and of good quality [42]. The preparation of opossums without the proper care of hygiene also represents a T. cruzi infection risk to humans.

Marsupials of the genus Philander are smaller than Didelphis spp. Philander spp. are extremely agile on the ground and also display remarkable climbing ability. They are also described as the most aggressive didelphids. These opossums are exclusively nocturnal and, although often caught on the soil, they are also arboreal. They live in dense forests or underbrush where they build their nests of leaves but may also eventually use branches or fallen trunks as shelter. Their preferred environments appear to be gallery forests or other more humid environmetns, where they are often found. Philander spp. display quite eclectic feeding habits and predate both on insects and small vertebrates, including mammals. They also feed on fruits and eggs.

Due to their nomadic character, generalist feeding and housing habits, Philander spp. and Didelphis spp. are exposed to T. cruzi transmission cycles occurring in all forest strata in the wild. Interestingly, species of these two genera of marsupials handle experimental infections with T. cruzi differently. Thus, Didelphis spp. control to subpatent levels infections with the Y strain of T. cruzi (TcII) but maintain indefinitely high parasitaemias (expressed by positive blood cultures) in infections with TcI strains. In contrast, Philander spp. maintain high parasitaemia when inoculated with strain Y (TcII) and control the parasitemia with TcI strains [43]. TcI and TcII are, however, found in mixed infections, and this is the most common and most widely dispersed combination that we found infecting both mammals and vectors [2].

As shown in Table 8, Didelphis spp. and Philander spp. demonstrated high rates of positive blood cultures in the Atlantic Forest and the Amazon. In the semi-arid region of the north-eastern Brazil. Didelphis spp. act as an important reservoir. In the Pantanal, in addition to being uninfected, the relative abundance of these two species was very low. In this immense flood plain region, the primary reservoir of T. cruzi is the procyonid N. nasua.

A very interesting and puzzling finding was reported by Dario et al. [44] who observed one Monodelphis americana (Didelphimorphia) specimen infected simultaneously with T. cascavelli, T. dionisii and Trypanosoma sp. Trypanosoma cascavelli was originally described infecting a Crotalus durissus terrificus [45]. There are three interesting aspects here: (i) the infection of a marsupial with a Trypanosoma species associated exclusively to bats (T. dionisii); (ii) a Trypanosoma species that is able to infect both a mammal and a reptile in a mixed infection with T. dionisii; and (iii) the presence of a still unknown taxonomic unit of Trypanosoma sp. Concerning the second item, Didelphimorphia display lower temperatures in comparison to other mammalian taxa, a feature that could enhance the adaptation chances of T. cascavelli to this mammal taxon. Moreover, transmission may be due to a hematophagous insect that feeds on both marsupials and snakes, or due to predation of Monodelphis spp. by Crotalus sp. Actually, Monodelphis spp. are small-sized marsupials that definitively are not able to feed on rattlesnakes. These findings were only possible because Dario et al. used NGS since T. cascavelli is not cultivable in axenic media. As such, it is clear that we are still underestimating the diversity of Trypanosoma spp. in marsupials.

The infection of marsupials with T. dionisii reinforces this species as a generalist species, since this parasite was already found infecting humans [18]. Actually, humans, bats and marsupials are phylogenetically very distant taxa.

The coati, N. nasua, and other carnivores

Working with carnivores is not easy and requires a complex infrastructure and well-trained experienced professionals. This might explain why most studies of reservoirs of T. cruzi do not include representatives of this group. Most carnivores are adapted to terrestrial life, but they may also be excellent swimmers and climbers. Carnivores use large living areas, are at the top of the food chain and are talented hunters. Consequently, it is very probable that these animals are more prone to infection via the oral route. Not all carnivores are flesh eaters sensu stricto. There are opportunistic carnivore species that also feed on insects and fruits. Only the so-called hypercarnivore (majority of the felids) depend almost exclusively on flesh.

All carnivores, including domestic dogs and cats, may be involved in the transmission cycle of T. cruzi [32, 33, 46]. Concerning wild carnivores, infection with T. cruzi was demonstrated in 15 Brazilian Neotropical wild carnivore species [3]. A link between diet peculiarities and T. cruzi infection rates in these taxa could also be observed. Thus, insectivore canids and hypercarnivores (those that include flesh as more than 70% of their diet) displayed higher T. cruzi infection rates than other carnivores with other types of diet. These findings confirmed that T. cruzi transmission cycles are deeply immersed in the trophic nets. Additionally, differences in infectivity potential across the carnivore species have also been described the Procyonids, mainly N. nasua, N. narica and Procyon lotor, being the carnivore species that display the more expressive infectiveness potential as expressed by high and long-lasting parasitemias [3, 27, 47–49]. Note that Procyonids are omnivores that also feed on both insects and small mammals [50], a trait that enhances their chances of infection with the diverse T. cruzi DTUs.

Coatis are scansorial, diurnal and generalist procyonid carnivores that use both the arboreal and terrestrial strata [50, 51]. They are peculiar mammals in that they construct and use arboreal nests for resting and birthing [52]. One individual may use several nests during its lifespan, or more than one individual or even a whole social group may share the same resting nest. This behavior increases the probability of encounter between coatis and triatomines, since bugs also use these nests as shelter, consequently enhancing T. cruzi transmission chances. Nasua nasua are organized in social groups that include mainly females and young, still immature individuals, and only a few adult males [53]. The birthing nests are constructed by the females that give birth to up to seven pups. In these nests, which are larger than the resting nests, the female remains caring for her cubs for about two months [51, 52].

Encounter rates between free-ranging mammals and vectors are one of the most important and challenging variables to be determined. Actually, animal shelters and nests may be used successively, by several species of living organisms, including triatomine vectors of T. cruzi. Coatis arboreal nests offer shelter for several other animal taxa, forming genuine and complex biocenoses. On dissection, these nests can be found to contain ants, lizards, beetles and triatomines. Arboreal nests of coatis have also been demonstrated to be suitable habitats for Rhodnius stalii and Triatoma sordida, which were described living in sympatry, in a same arboreal coati’s nest. Even a terrestrial rodent has been described visiting a coati’s nest [54]. Probably, this rodent used fallen trunks or vines to reach the nest that was over ten meters above the ground. This report shows that the detection of a particular T cruzi DTU in an individual mammalian host species does not necessarily mean that there is an association between the DTU and that species or forest stratum.

During a study of coati ecology, Santos et al. [55] collected Triatoma sordida (n = 13) and Rhodnius stali (n = 2) from seven coati resting nests. Additionally, 21 nymphs of all stages were collected from these nests, confirming these as suitable habitats for triatomines. Seventeen isolates of T. cruzi derived from insects of four coati nests were obtained, mostly TcI. One single insect was found infected with TcIII, and four individuals displayed mixed infections with TcI and TcIII. The use of these nests by coatis and other animals provides a suitable habitat for the maintenance of the triatome colonies since sufficient food source and shelter is offered.

As avid insect predators [50], coatis may acquire T. cruzi infections via the oral route, which is recognized as highly efficient [56]. In fact, the dense fur of the majority of wild mammal species most probably acts as a barrier against the infection via the contaminative route. Nasua nasua has been described as a competent T. cruzi reservoir due to their long-lasting parasitemia demonstrated by positive hemocultures. Furthermore, N. nasua has been shown to be able to maintain the main genotypes of T. cruzi (TcI and TcII) in mixed or single infections (Table 4). This ability to maintain T. cruzi populations, together with their generalist character, suggests that the coatis may be exposed to many or all of the various transmission cycles of the parasite. Taken all together, this implies that this species may act as a hub of the T. cruzi transmission network and a bio-accumulator of T. cruzi subpopulations [3, 27, 30, 47]. Also of interest is that Rocha et al. [3] observed T. cruzi isolates that did not fit into any of the six recognized DTUs, suggesting that there is still much to learn about the diversity of this parasite. Table 4 shows infection rates and T. cruzi genotypes observed in N. nasua from Pantanal region.

Primates: golden lion tamarins in the Atlantic Forest and Cebidae in the Amazon region

New World primates are essentially arboreal, and some use their prehensile tail as a fifth limb. It is currently accepted that this taxon (as well as caviomorph rodents) have entered the Americas coming from Africa after crossing the Atlantic Ocean 35 MYBP [57, 58]. Very probably, they were included in the T. cruzi transmission cycle maintained at that time by the autochthonous mammalian fauna once they arrived the New World.

Primates of distinct genera and species may act as important reservoirs of T. cruzi (Table 8) with positive hemocultures in 119 of 431 (27.6%) primates examined. These primates were infected with TcI and TcII (Tables 2 and 7). Tamarins (Leontopithecus rosalia and L. chrysomelas) were found infected with T. cruzi in the Atlantic Costal Forest in both the southeast and the northeast regions, mainly with TcII, but also with TcI (Table 7).

Tamarins are diurnal primates that live in social groups of up to ten individuals. Leontopithecus rosalia, the golden lion tamarin (GLT), is an elegant and delicate primate; the adult weighs between 360 and 710 g, and 60 g is considered normal for a GLT puppy. They are endemic to the Atlantic Forest and are in serious danger of extinction. Tamarins can live up to 15 years and are essentially arboreal.

A ten-year follow-up of T. cruzi infection revealed that L. rosalia is able to maintain a stable and long-lasting T. cruzi TcII transmission focus. It is interesting to note that in the studied area, only L. rosalia showed infection with this DTU: the other mammals were infected only with TcI. Leontopithecus rosalia infection with TcI was also observed in the area that is made up of a complex of forest fragments designed for tamarin conservation. Still in the Atlantic Forest, but in the northeast of the country, another species of tamarin (L. chrysomelas) also showed high rates of infection with T. cruzi TcII [25]. Such a stable transmission cycle of T. cruzi DTU TcII is not frequently found in the wild environment. What is seen in nature is that TcII infects numerous species of wild mammals distributed in all biomes but at low rates of infection. Trypanosoma cruzi DTU TcI is strongly predominant among free-living wild mammals [2]. An interesting aspect shown by the study of T. cruzi infection in tamarins is that even in a small area (5500 ha), such as the forest fragment where these primates were studied, the T. cruzi infection distribution was aggregated [25].

The congenital infection of L. rosalia is probably not very frequent because T. cruzi infection was not observed in juveniles [25]. Possible sites of infection are the hollows of trees that serve as a night shelter for these animals. Each hollow is shared by a social group in a rotation system of the hollows used. Inside a hollow, animals sleep tightly curled and the younger animals are at the centre. A hollow tree might be a suitable habitat for triatomine bugs in that there is an abundant food supply offered by the tamarins. These hollows are high, deep in the trunks and feature a very narrow entrance. The oral route by ingestion of infected triatomine must also be an important route of infection in tamarins, even if triatomine bugs are not very attractive insects because of their scent glands. The simple act of chewing the insect may result in infection, even if the insect is later ejected. Studies on the health of GLTs infected with T. cruzi based on electrocardiograms, blood tests and electrophoretograms showed that GLTs appear to support the parasitization by T. cruzi without major damage [59].

High rates of T. cruzi infection with high parasitemia were also observed in Sapajus libidinosus (Cebidae) in the Amazon (Tables 2 and 8). This species is the only New World monkey that uses tools in the natural environment to break nuts. Sapajus spp. are strictly diurnal, display arboreal habits and spend most of their time foraging and moving through their life area (~300 ha) [60]. They are extremely social mammals that live in groups of up to 50 individuals, led by a larger, older male. They are also cooperative in raising young and finding food. Cebidas are long-living animals and sexual maturity occurs earlier in females (4–5 years) than in males (8–10 years). These primates do not constitute stable pairs and males and females mate with multiple individuals, making determination of paternity difficult [61, 62].

Cebids are difficult subjects for research and we did not have chance to conduct a long-term study. Concerning T. cruzi infection, S. libidinosus presented TcI in single and mixed infections with T. rangeli. Single infections with T. rangeli have been also observed (Table 2).

All species of Sapajus are omnivorous, but their main diet consists of fruits and insects, in addition to small vertebrates including mammals, which means that the oral route must be important route of infection with T. cruzi in this primate group. Sapajus spp. are arboreal primates and trees are selected in part for food availability. They frequently use palm trees as places to sleep which also provide shelter to triatomine bugs; consequently, infection via the contaminative route during the night is also possible.

Chiroptera

Table 9 and Fig. 1 show the great diversity of Trypanosoma spp. infecting bats and that T. cruzi was the most abundant species of Trypanosoma (37%). Moreover, the richness of Trypanosoma spp. infecting this mammalian taxon is much higher than observed in any other mammalian host. The majority of positive hemocultures of bats revealed the infection by other Trypanosoma spp. and not T. cruzi. These findings show that bats’ role as T. cruzi reservoirs was probably often overestimated at a time when there was still no easy access to sequencing tools. The use of even more sensitive and high-performance tools like NGS would certainly demonstrate even greater diversity of genotypes and species in single and mixed infections in bats. In addition to bats, marsupials have also been found infected with numerous species of Trypanosoma including T. dionisii, a species considered to be an exclusive parasite of bats until recently [44]. An important question concerns the result of such mixed infections in hosts: what are the consequences in the outcome in such mixed infections?

Fig. 1

Distribution of Trypanosoma species and T. cruzi DTUs infecting free-living bats from four Brazilian biomes based on molecular characterization of parasite populations isolated in blood cultures

Bats may be considered as Trypanosoma spp. bio-accumulator hosts. There are plenty of recent descriptions of new species and still undescribed taxonomic units of Trypanosoma spp. infecting chiropterans all over the world. Chiropterans’ longevity and ability to fly, as well as their capacity in maintaining T. cruzi DTUs and other representatives of the T. cruzi clade, imply in that these mammals may act as important dispersers of these flagellates. Molyneux [63], and more recently Hamilton et al. [64] proposed bats as the ancestral hosts of the T. cruzi clade and that terrestrial mammals became infected with T. cruzi as a consequence of several spillover events of the bats trypanosomes. They termed this evolutive path as “the bat seeding hypothesis”. This hypothesis is currently universally accepted based on the description of trypanosomes of the T. cruzi clade infecting African bat species in contrast to the low diversity of T. cruzi clade species other than T. cruzi infecting the American terrestrial mammals.

During the last two decades, we examined a total of 1219 bat specimens distributed in 76 genera and 94 species of five Brazilian biomes (Table 9). High infectivity potential for Trypanosoma spp., as demonstrated by positive hemocultures, was observed in 14% of these mammals. From these, only 5% were infected with T. cruzi, in single or mixed infections. The remaining 9% were infected with other Trypanosoma species such as T. c. marinkellei, T. dionisii and T. rangeli (Fig. 1).

The highest rates of Trypanosoma spp. infections in bats were observed in the Amazon region (22.6% of positive hemocultures), followed by the Cerrado biome (Table 9). As expected, a higher diversity of bats and Trypanosoma spp. species were observed in pristine forest areas in comparison to already altered forest patches. In this sense, a higher variety of bat species was observed in the Amazon in comparison to the Atlantic Forest. This issue is especially striking considering that in the Atlantic Forest the number of examined individuals was almost double that of Amazon (Table 9). Among the infected bats, 62 specimens displayed single or mixed T. cruzi DTU infections and the majority of the chiropterans were infected with TcI, but other T. cruzi DTUs also may infect bats, demonstrating that these animals are rather resilient to T. cruzi genotypes. We did not find T. cruzi TcII infecting Chiroptera, and these data raise doubts on what was previously known about bat Trypanosoma spp. infections and forces us to rethink the subject.

Of the bat species, members of the genera Artibeus, Carollia and Phillostomus (Phyllostomidae) exhibited the highest rates of infection with the different Trypanosoma species. These three genera include generalist species that feed on fruits, but also pollen and insects. Bats are important seed dispersers and probably become infected with T. cruzi through the contaminative and oral routes, the latter by ingestion of infected triatomine bugs and mice, as already demonstrated experimentally [65].

Next generation sequencing (NGS) demonstrated to be a promising tool to answer questions concerning Trypanosoma specificity, ecology and phylogeny. The possibility of detecting trypanosomatids that are not cultivable in axenic media, as well as the possibility of bypassing the selective forces inherent to isolation methods, are highly informative. Dario et al. [66] conducted a study by metabarcoding DNA samples extracted from blood samples of 34 bats of 13 species captured in Atlantic Forest fragments of Espírito Santo state (southeast region of Brazil). The resulting amplicon sequences could be clustered in 14 operational taxonomic units (OTUs). Five OTUs were identified as Trypanosoma cruzi TcI, T. cruzi TcIII/V, T. cruzi marinkellei, T. rangeli and T. dionisii, very common trypanosomatid species in Neotropical bats. However, seven clusters demonstrated to be novel genotypes related to the Neotropical bat genotypes. One OTU was identified as a reptile trypanosome and, surprisingly, another OTU was identified as Bodo saltans, a free-living Kinetoplastea.

The majority of the bat blood samples demonstrated mixed Trypanosoma spp. infections and also mixed OTUs infections by up to eight OTUs. The massive rates of mixed infections are certainly not exceptional in nature and deserve further studies as to evaluate their influence on the course of infection. Actually, these mixed infections cannot be overlooked.

Conclusions

The set of observations presented here is the most complete and comprehensive study on reservoirs and wild hosts of Trypanosoma cruzi. The 20 years of data collection and analyses show that there is no association of Trypanosoma cruzi DTU with mammalian host species in their habitat or the biome of their occurrence. In addition, it was possible to conclude that T. cruzi is transmitted and remains in the wild even if most of the individuals of the wild mammalian species infected have low parasitemias. Mixed Trypanosoma cruzi DTUs and Trypanosoma spp. are very common in the wild, and chiropterans and marsupials are the mammals that present the highest diversity of genotypes and infection rates of T. cruzi and other species of the genus Trypanosoma spp.