A new species of Isospora Schneider, 1881 (Apicomplexa: Eimeriidae) from the Bali (Rothschild's) mynah Leucopsar rothschildi (Passeriformes: Sturnidae), and comments concerning the genera Atoxoplasma Garnham, 1950 and Isospora

A QPCR ASSAY AND TESTING GUIDELINES FOR THE MOLECULAR DIAGNOSIS OF SYSTEMIC ISOSPOROSIS (FORMERLY ATOXPLASMOSIS) IN PASSERINE BIRDS

Systemic isosporosis (formerly atoxoplasmosis), is a protozoal infection that causes death in nestling and fledgling passerine birds impacting ex situ breeding and reintroduction programs. Because current antemortem diagnostic tests lack sensitivity, a qPCR was developed for detection of Isospora spp. using primers and a fluorescent-tagged MGB probe targeting the large subunit (28s) ribosomal RNA gene (assay efficiency = >100%; sensitivity = <1 dsDNA copy). The assay was used to screen postmortem frozen or formalin-fixed paraffin-embedded tissue samples from passerine birds (n = 24; 12 with confirmed systemic isosporosis), whole blood and feces (n = 38) from live passerines, and other tissues infected with phylogenetically similar protozoa. The qPCR identified Isospora sp. DNA in tissues from 21/24 birds including 12/12 birds with cytologically-histologically confirmed infection (100% sensitivity) and 9/12 birds lacking microscopic organisms. The assay also amplified Eimeria sp. DNA; however, sequence analysis ruled out infection in the passerine cases. Blood and/or feces were positive in 30/38 birds, and in only 7/38 birds, blood and feces both contained Isospora sp. DNA. Finally, the qPCR was utilized to screen 30 consecutive daily fecal samples from live passerines (n = 20) to determine optimal sampling protocols. One or more of the daily fecal samples were positive in all 20 birds. In individual birds, the interval between positive qPCR amplification results ranged from 0 to 23 days, with an average of 5.85 days. Simulated application of 13 potential sample collection schedules was used to identify the sensitivity of repeated testing for identification of infected birds. Increased sampling days resulted in higher sensitivity but increased both cost and animal handling requirements. Based on statistical analysis and clinical considerations, the testing recommendation for detection of fecal shedding was collection and assay of five consecutive daily fecal samples, which had an average diagnostic sensitivity of 0.86.

Clinical and Pathological Aspects of Systemic Isospora Infection in Blue-crowned Laughing Thrushes (Garrulax courtoisi) at Jersey Zoo

Based on a review of species mortalities, systemic Isospora species was identified as the primary cause of death in 22% (19 of 87) of blue-crowned laughing thrushes (BCLTs; Garrulax courtoisi) at the Jersey Zoo between 1997 and 2016. Fifty-eight percent of the affected birds were between 1 and 2 years old, and in 89% of cases, death occurred between August and December. Abnormal clinical findings in BCLTs with Isospora species infections included hepatomegaly and pectoral muscle myositis in 79% of the cases. The results of diagnostic blood testing in 90% of infected BCLTs 30 days before death were consistent with a severe leukocytosis with greater than 20% of mononuclear cells infected by merozoites. The most common lesions identified during gross necropsy examination were splenomegaly (100%), hepatomegaly (95%), and multifocal, raised, white foci in pectoral (84%) and heart (79%) muscle. Lymphohistiocytic inflammation was identified in the liver, heart, spleen, lung, striated muscle, and kidney tissue of birds with positive results for Isospora species. Merozoites were often observed in spleen, liver, pectoral muscle, and hearts of infected BCLTs. Polymerase chain reaction diagnostic testing that targeted the cytochrome c oxidase subunit, followed by Sanger sequencing, was used to confirm Isospora species in all 14 birds tested. Of samples tested, the highest genetic correlation was with GenBank accession number KT203397 (Isospora species JRB-2016 mitochondrion).

Isospora dipperia n. sp. (Apicomplexa: Eimeriidae) from the American dipper Cinclus mexicanus Swainson (Passeriformes: Cinclidae) in Yosemite National Park, USA

Isospora dipperia n. sp. is described from the feces of the American dipper Cinclus mexicanus Swainson collected in Yosemite National Park, California, USA. Sporulated oöcysts of the new species are subespherical, 20-24 × 17-21 (20.9 × 18.7) μm, with a length/width (L/W) ratio of 1.0-1.1 (1.1); one polar granule is present, but micropyle is absent. Sporocyts are lemon-shaped, 14-16 × 8-11 (15.5 × 9.8) μm, with a L/W ratio of 1.6; prominent Stieda and sub-Stieda bodies are both present, but para-Stieda body is absent. Sporocyst residuum of many scattered granules is present and the sporozoites have prominent anterior and posterior refractile bodies. The mean dimensions (15.9 × 13.8 µm) of unsporulated oöcysts of I. cincli Gottschalk, 1972 from the white-throated dipper C. cinclus (L.) in Europe, appear to be considerably smaller than those in I. dipperia n. sp. Comparisons of Isospora dipperia n. sp. with two species of Isospora Schneider, 1881 described in the Americas from birds of the family Sturnidae, related to Cinclidae, revealed that the mean dimensions of the sporulated oöcysts in the new species are considerably smaller than those in I. graculai Bhatia, Chauhan, Arora & Agrawal, 1973 from Gracula religiosa (24.6 × 22.4 µm) and I. rothschildi Upton, Wilson, Norton & Greiner, 2001 from Leucopsar rothschildi (22.3 × 21.6 µm). The new species is the first species of Isospora recorded in a bird of the family Cinclidae in the New World.

Isospora toxostomai n. sp. (Apicomplexa: Eimeriidae) from the curved-billed thrasher Toxostoma curvirostre (Swainson) (Passeriformes: Mimidae) at the Central highlands of Mexico

Isospora toxostomai n. sp. (Apicomplexa: Eimeriidae) is described based on material from the curved-billed thrasher Toxostoma curvirostre (Swainson) in the Central Highlands of Mexico. The new species possesses subspherical oöcysts, with a smooth, bi-layered wall. Sporulated oöcysts measure 22-25 × 21-24 (23.4 × 22.3) µm; length/width (L/W) ratio of 1.0-1.1 (1.1). Sporocysts are ellipsoidal, 15-17 × 10-11 (15.8 × 10.5); L/W ratio of 1.3-1.6 (1.5). Micropyle and oöcyst residuum are both absent, and a polar granule present (many fibrils). Mean dimensions of both sporulated oöcysts and sporocysts of I. toxostomai n. sp. appear to be considerably larger than those of Isospora mimusi Coelho, Berto, Neves, Oliveira Flausino & Lopes, 2011 from the tropical mockingbird Mimus gilvus (Vieilot) in Brazil. This is the second species of Isospora Schneider, 1881 infecting a host of the Mimidae in the Americas.

The complete mitochondrial genome sequences of two Isospora species (Eimeriidae, Eucoccidiorida, Coccidiasina, Apicomplexa) causing coccidiosis in superb glossy starlings, Lamprotornis superbus (Aves: Sturnidae)

Complete mitochondrial genomes are reported for two Isospora species causing systemic coccidiosis in Superb Glossy Starlings (Aves: Sturnidae). The A/T rich (34.7% G/C) genomes were 6223 bp in length for Isospora greineri and 6217 bp for Isospora superbusi. Each encoded 3 protein-coding genes, (COI, COIII and CytB) plus 18 LSU and 14 SSU rDNA fragments. Arrangement of protein- and rRNA-coding regions was identical to known Eimeria sp. mt genomes; start codon usage was conventional. The mitochondrial genome structures of Isospora and Eimeria species are conserved and reflect the close phylogenetic association between these eimeriid genera of apicomplexan parasites.

The complete mitochondrial genome sequence of an Isospora sp. (Eimeriidae, Eucoccidiorida, Coccidiasina, Apicomplexa) causing systemic coccidiosis in domestic Canaries (Serinus canaria Linn.)

We report a complete mitochondrial genome sequence for an Isospora sp. causing systemic coccidiosis in canaries, Serinus canaria. The A + T rich (65.2%) genome was 6216 bp in length and possessed 3 protein-coding genes, (COI; COIII and CytB), 19 LSU and 14 SSU rDNA fragments, including 1 newly identified putative LSU fragment. Arrangement of coding regions was identical to that of available Eimeria sp. mt genomes and start codon usage for protein-coding genes was conventional. The similar mitochondrial genome sequences and structures of Isospora and Eimeria species confirm the close relationship between these eimeriid genera of apicomplexan parasites.

Description of two new Isospora species causing visceral coccidiosis in captive superb glossy starlings, Lamprotornis superbus (Aves: Sturnidae)

Isospora greineri sp. n. and Isospora superbusi sp. n. are described from captive superb glossy starlings, Lamprotornis superbus, from the Toronto Zoo succumbing to visceral coccidiosis. Sequence data from nuclear 18S recombinant DNA (rDNA) and mitochondrial cytochrome c oxidase subunit I (COI) loci from sporulated oocysts and infected tissues (liver, lung, or spleen) demonstrated two distinct Isospora sp. genotypes that varied in their relative abundance. In the tissues of one affected bird, as well as its associated fecal sample, two distinct COI sequences (1.7% divergence) and two distinct 18S rDNA sequences (0.6% divergence) were found at almost the same abundance; in other specimens, one of the 18S and one of the COI sequences were less abundant than the other. In the tissues of some birds, only a single COI and single 18S sequence were present. In all cases, the same pair of 18S rDNA and COI sequences fluctuated in abundance in parallel, indicating that there were two distinct species present rather than one species with more than one COI or 18S locus. The oocysts of these new species cannot be differentiated morphologically. Sporulated oocysts of both were spherical to subspherical measuring 17.7 ± 0.22 μm by 17.1 ± 0.20 μm with a mean L/W ratio of 1.03 ± 0.004. Sporocysts were ovoid measuring 13.5 ± 0.17 μm by 9.3 ± 0.15 μm with a mean L/W ratio of 1.4 ± 0.02. Sporocysts had a small Stieda body with indistinct sub-Stieda body; each sporocyst had a compact residuum. Two morphologically similar but genetically divergent Isospora species were shown to cause simultaneous enteric and extraintestinal infections in captive superb glossy starlings.

A new species of Isospora (Apicomplexa: Eimeriidae) from the greenfinch Carduelis chloris (Passeriformes: Fringillidae)

A new species of isosporan (Apicomplexa: Eimeriidae) is reported from the greenfinch, Carduelis chloris (Passeriformes: Fringillidae), in England. Oocysts of Isospora daszaki n.sp. are spherical to subspherical, 18.8 × 20.3 (16.8-22.4 × 16.8-25.2) μm, with a shape index (length/width) of 1.08 (1.07-1.1). Micropyle, polar granules and oocyst residuum are absent. Sporocysts are 9.4 × 14.8 (8.4-11.2 × 12.6-18.2) μm, a shape index of 1.6, with Stieda and substieda bodies. Gamogony was seen in the ileum, and merozoites were present in blood lymphocytes.

Coccidia of New World passerine birds (Aves: Passeriformes): a review of Eimeria Schneider, 1875 and Isospora Schneider, 1881 (Apicomplexa: Eimeriidae)

In the New World, the avian order Passeriformes comprises 47 families and 2,453 species, yet to date only 21 (45%) of the families and 58 (2%) of the species have been examined for coccidia, and from these only two species of Eimeria Schneider, 1875 and 81 species of Isospora Schneider, 1881 have been described. This review contributes to our understanding of the morphology and systematics of coccidian parasites of passeriforms, providing a scientific basis for the identification of sporulated oöcysts recovered from the faeces of passerine birds from North, Central and South America. To this end, the coccidia were organised and grouped according to the family of the host, following the widely recognised concept of family-specificity and the updated systematics of the class Aves. Details of 83 eimeriid species are presented along with an illustration and tabulated data.

Isospora hypoleucae sp. n. (Apicomplexa: Eimeriidae), a new coccidian parasite found in the Pied Flycatcher (Ficedula hypoleuca)

A new Coccidia species is reported from the natural population of Pied Flycatcher (Ficedula hypoleuca) in northern Germany. Sporulated oocysts were found in faeces from 6 of 8 sampled adults. The spherical oocysts of the new Isospora species have a brownish, smooth, bi-layered wall. Average size of sporulated oocysts was 19.4 x 19.3 microm (17.5-22.8 microm x 17.5-22.8 microm ) with a shape index (length/width) of 1.0. The sporulated oocysts have no micropyle or residuum, but enclose several small polar granules that often cluster into 2-3 dumbbell-shaped formations. Sporocysts are slightly elongated, rounded at the end opposite the Stieda body, 15.3 microm x 9.2 microm in size (13.8-16.1 microm x 8.5-10.3 microm ), and have a shape index of 1.7 (1.6-1.8). The Stieda body has a prominent knob-like cap, whereas the substieda body is absent. Sporocysts contain a small compact sporocyst residuum and 4 sporozoites. COI haplotypes identical to those isolated from faecal oocysts were PCR amplified from the blood of 13-day-old nestlings, suggesting that the newly described species has extra-intestinal stages in blood. This represents the first description of a new avian Isospora species supported by molecular sequence data from the same oocysts that are described morphologically.

Isospora plectrophenaxia n. sp (Apicomplexa: Eimeriidae), a new coccidian parasite found in Snow Bunting (Plectrophenax nivalis) nestlings on Spitsbergen

Faecal samples were collected from four 8 days old snow bunting nestlings from one nest in Ny-Alesund, Spitsbergen, in summer 2006. After sporulation, samples were examined for coccidian parasites using flotation centrifuging. We found isosporan oocysts in three birds, intensity of infection varied between individuals from 35 to 6,000 oocysts per defecation. All oocysts belonged to one species, which is described here as a new species. The spherical or subspherical oocysts (Fig. 1) have a brownish, smooth, relatively thin (about 1.1 microm) bilayered wall. Average size of sporulated oocysts was 26.2 +/- 0.13 x 23.6 +/- 0.16 microm (24.1-28.4 x 21.5-26.9; n = 10) with a shape index (length/width) of 1.11 +/- 0.01 (1.01-1.29). The sporulated oocysts have no micropyle or residuum but enclose one large (3.3 x 2.8 microm) ring-formed polar granule. The sporocysts are ovoidal, slightly pointed at the end opposite the Stieda body, 18.2 +/- 0.06 x 9.9 +/- 0.03 microm (17.1-19.0 x 9.0-10.8; n = 14), shape index 1.85 +/- 0.008 (1.70-1.99). The Stieda body has a prominent knob-like cap and a well-visible round substieda body. Sporocysts contain compact sporocyst residuum composed of small, uniform granules and sporozoits with usually three large refractile bodies and a smaller nucleus. The prepatent period is less than 8 days. This is the first description of an avian isosporan parasite that succeeds transmission while in the High Arctic.

MOLECULAR CHARACTERIZATION OF THE 18S rDNA GENE OF AN AVIAN HEPATOZOON REVEALS THAT IT IS CLOSELY RELATED TO LANKESTERELLA

As a part of intensive study of blood parasite infections in a population of the passerine bird blue tit (Cyanistes caeruleus, Paridae), we detected a parasite species that, based on its morphological similarity, was tentatively identified as Hepatozoon parus, the only species of this parasite genus described from birds of this family. However, morphological measurements show that H. parus is slightly larger than the parasite detected in our population. A molecular characterization of the parasite species was conducted by amplification of the 18S rDNA gene, using primers that were reported previously to amplify in Hepatozoon sp. of water pythons. Additional primers were developed based on the new sequence obtained. The 1,484-bp fragment amplified reveals that the parasite from our bird population is more closely related to Lankesterella minima than to Hepatozoon species from other vertebrates according to analysis using the BLAST comparison method (93% identity). In addition, phylogenetic analyses using parsimony and Kimura procedures unequivocally related the parasite species detected by PCR with L. minima. The bootstrap values obtained were 97% and 100%, respectively. These results imply that this parasite is a species of a lankesterellid instead of Hepatozoon.

ATOXOPLASMOSIS IN TANAGERS

Atoxoplasma spp. (extraintestinal Isospora spp.) are coccidian parasites that infect a variety of passerine species. Atoxoplasmosis has been difficult to diagnose using buffy coat and organ impression smear examinations or histopathologic examination of tissues at necropsy. The prevalence of this parasite was studied in the tanager collection of a zoological park after the death of several tanagers from confirmed and suspected infections. A polymerase chain reaction assay was used to test blood, feces, or tissue samples (or all) from 88 individuals representing 18 species. Twenty-three of 60 (38.3%) blood samples from clinically healthy birds tested positive for Atoxoplasma, and one of six fecal samples was positive. Nineteen of 32 (59.4%) tissue samples from deceased tanagers tested positive. A total of 57 other institutions were also queried regarding the presence of Atoxoplasma. The high number of Atoxoplasma-positive clinically healthy birds suggests that the parasite is prevalent subclinically within tanager collections, with young birds and stressed adults being the most likely to develop clinical disease. Thorough disinfection of enclosures, consideration of enclosure designs, and preventing fecal contamination of food and water are important methods of decreasing transmission. Selective breeding programs and regular screening of breeding pairs may be recommended to decrease transmission to susceptible offspring. Care should also be taken when housing tanagers in mixed species or in outdoor enclosures because the transmission risks between species have not been well established.

MOLECULAR CHARACTERIZATION OF ISOSPOROID COCCIDIA (ISOSPORA AND ATOXOPLASMA SPP.) IN PASSERINE BIRDS

Prevalence and disease caused by isosporoid coccidia in passerine birds are well recognized, but confusion about the life cycles of the parasites has led to taxonomic inconsistencies. In this study, we characterized segments of the chromosomal small and large-subunit ribosomal RNA (rRNA) genes of coccidial parasites from 23 species of passerine birds, as well as heat shock protein 70, apicoplast rRNA, and chromosomal 5.8s rRNA genes from a subgroup of these animals, and we correlated genetic data with morphologic findings for different parasite developmental stages, host phylogeny, and overall taxonomic relations within the phylum Apicomplexa. Our findings indicate that isosporoid coccidia of passerine birds are monophyletic but exhibit substantial diversity, with most avian species having one or several unique parasite lineages that underwent synchronous speciation with their hosts, interrupted by sporadic episodes of lateral transmission across species and families. Molecular analyses support a homoxenous life cycle, with sexual forms occurring chiefly in the intestines and asexual merozoites present systemically. Rarely, extraintestinal sexual stages can occur. The passerine coccidia are genetically most closely related to species of Eimeria rather than Isospora. We suggest that these parasites, whether identified from blood merozoite stages or fecal oocysts, be provisionally grouped as a homogeneous clade of individual species in a single taxon and formally named when reliable criteria allowing reclassification of related genera in the suborder Eimeriina are clarified.