coccidia are a diverse group of protozoan parasites within the phylum apicomplexa and include pathogenic species of significance to animal and human health . atoxoplasma ) , primarily parasitize a single host throughout their life cycle and include important avian pathogens ( mcdougald , 1998 , barta et  al . , 2005 , berto et al . , 2011 ) . heteroxenous coccidian protozoa including toxoplasma gondii , neospora caninum and sarcocystis neurona infect multiple hosts throughout their life cycle and their transmission is facilitated by predator prey relationships ( sibley , 2003 ) . in the intermediate host ( often herbivorous or omnivorous ) , infectious stages are formed within tissue cysts that can be ingested by the definitive host ( often a carnivorous predator ) . the definitive host is so called because the parasite life cycle is perpetuated through sexual multiplication in these animals . definitive hosts shed environmentally - resistant oocysts , ( or sporocysts from sporulated oocysts in the case of s.  neurona ) , which are infective after sporulation for intermediate hosts that ingest fecally - contaminated food or water ( sibley , 2003 ) . although the only known definitive hosts of t.  gondii , n.  caninum and s.  neurona are terrestrial animals , specifically felids , canids and opossums ( didelphis spp . ) , respectively , there is evidence that marine mammals can also become infected with these and other related coccidia ( dubey et  al . , 2000 , , 2001a , dubey et  al . , 2001b , tenter et  al . , 2000 , dubey et  al . , 2003 , , 2011 , gibson et  al . , 2011 , carlson - bremer et  al . , the most likely modes of transmission of these pathogens to aquatic animals are via ingestion of water - borne oocysts or sporocysts originating in land - based surface runoff , or infected prey ( miller et  al . , 2002 , conrad et  al . , 2005 , massie et  al . , 2010 , gibson et  al . , 2011 , one of the most serious consequences of s.  neurona and t.  gondii infection in marine mammals is fatal protozoal encephalitis which has been described most commonly in cetaceans , including southern sea otters ( enhydra lutris nereis ) , california sea lions ( zalophus californianus ) and pacific harbor seals ( phoca vitulana richardsi ) ( thomas and cole , 1996 , lapointe et  al . , 1998 , cole et  al . , 2000 , miller et  al , 2001a , dubey et  al . , 2003 , kreuder et  al . , 2003 , miller et  al . , 2004 , miller et  al . , 2009 , miller et  al . , 2010 , gibson et  al . , 2011 ) . more recently , severe myositis in a hospitalized california sea lion was recognized as a new clinical syndrome associated with s.  neurona infection ( carlson - bremer et  al . , 2012b ) . pathogenic infections with other , less well characterized , tissue - encysting coccidia have also been documented in marine mammals in association with protozoal lymphadenitis , hepatitis , myocarditis , encephalitis and non - suppurative necrotizing meningoencephalitis ( dubey et  al . , 2003 , lapointe et  al . , 2003 , california sea lions inhabit waters of the pacific coast of north america between southwestern canada and baja california ( lowry et  al . , 1992 ) . as long - lived coastal residents with large fat stores and piscivorous prey preferences that are shared with humans , sea lions have the potential to act as sentinel species , or indicators of aquatic ecosystem and human health ( bossart , 2011 ) . during postmortem examination of rescued california sea lions that died at the marine mammal center ( tmmc , sausalito , california ) , sexual and asexual stages of three novel coccidia with genetic similarity to neospora spp . were identified in sea lion enterocytes , and these organisms were putatively named coccidia a , b and c ( colegrove et  al . , 2011 , carlson - bremer et  al . , 2012a ) . subsequent fecal analysis of stranded and rehabilitated sea lions sampled between 2007 and 2009 confirmed that sea lions shed coccidia a and b , particularly as yearlings , and that shedding of coccidia a could be detected in feces for up to 22 days ( carlson - bremer et  al . , 2012a ) . evidence to date suggests that california sea lions act as both definitive and intermediate hosts of novel protozoa in the absence of clinical signs or pathologic evidence of disseminated infection . yet , the identification of severe protozoal hepatitis , myocarditis and encephalitis in a neonatal harbor seal infected with coccidia c is of particular concern because it indicates that sea lions may be capable of shedding coccidian protozoa that are pathogenic to harbor seals and perhaps other aquatic wildlife ( colegrove et  al . , 2011 ) . a better understanding of the biology , epidemiology , and pathogenesis of tissue - encysting coccidian organisms that parasitize marine mammals is needed to properly assess the risks and burden of protozoal disease in aquatic ecosystems such as the pacific coast of north america . as part of ongoing health surveillance in aquatic species of the pacific ocean , and accompanying studies of pathogen pollution in near - coastal california waters , we examined the diversity of coccidian parasites shed by hospitalized and free - ranging sea lions at coastal haul - out locations in central california . in addition , we characterized the phenotypes of sea lion - derived coccidian protozoa in both a mouse model of pathogenesis and in mammalian cell culture . staff at tmmc collected fecal samples from individual california sea lions ( csl ) stranded along the central and northern california coast between september 2010 and may 2012 as previously described ( carlson - bremer et  al . , 2012a ) . samples were typically collected within the first week of hospital admission , although some animals were sampled up to 3 weeks later . animals and corresponding fecal samples when coccidial oocysts were identified at tmmc , one or more fecal samples from an individual animal were shipped on cold packs to the university of california davis for oocyst harvesting and genetic characterization . age classifications for sea lions ( adult , subadult , juvenile , yearling , and pup ) were estimated as previously described ( carlson - bremer et  al . , 2012a ) . between may 2011 and october 2012 , sea lion fecal samples from free - ranging animals were also collected from coastal haul out sites at ao nuevo state park ( 37.108 , 122.337 ) , white rock ( 35.532 , 121.088 ) , and seal rock at point lobos ( 36.516 , 122.336 ) , placed into individual 50  ml conical vials and kept at 4  c during transport to uc davis for oocyst detection , harvesting and genetic characterization . coccidial oocysts were harvested from fecal samples by a double centrifugation flotation method as described by dabritz and co - authors ( dabritz et  al . , 2007 ) with some modifications . a detailed protocol for oocyst harvesting from sea lions is available in the supplemental information associated with this article ( see supplementary data ) . when quantities were sufficient , a portion of freshly - harvested oocysts were not frozen , but were reserved and sporulated for bioassay in mice and inoculation into cell cultures . newly - harvested oocysts were washed two times in sterile pbs , and the final pellet resuspended in 5  ml pbs , to which was added clorox bleach at a final concentration of 10% . following 20  min incubation with occasional gentle mixing , the sample was washed 3 times in 50  ml molecular biology grade water , with each centrifugation at 1000  g for 10  min . after final centrifugation , supernatant was carefully removed and the pellet mixed with 35  ml pbs ( higher volume for samples with higher oocyst concentration ) . approximately 1  ml of oocyst suspension in pbs was added to 5  ml filtered seawater ( 0.22  m , acrodisc syringe filters , pall corporation ) with 250  l amphotericin b ( 250  g / ml ) in a t-25 tissue culture flask with ventilated lid . each flask was set on a gentle rocker at rt and visually inspected every 2 days by light microscopy for evidence of sporulation . sporulated oocysts were washed two times in 40  ml sterile pbs , counted , and prepared for oral inoculation into mice . for excystation and preparation for cell culture , sporulated oocysts were suspended in 0.5  ml warm ( 37  c ) dulbecco 's minimum essential media ( dmem , gibco ) , supplemented with 10% ( v / v ) heat - inactivated fetal bovine serum , 2  mm l - glutamine , 100  u / ml penicillin , 100  g / ml streptomycin , 10  mm hepes and 55  m 2-mercaptethanol and transferred to 2  ml screw cap tubes containing 350  mg of 200400  mm sterile acid - washed glass beads ( thermofisher scientific ) . oocyst disruption and sporozoite release was accomplished through vortexing in the presence of glass beads for 2030  s. to confirm the presence of free sporozoites , a 5  l aliquot of the suspension was examined following each 10  s of vortexing . when sporozoites were visible , the sample was immediately transferred to monolayer cultures of embryonic monkey kidney ( ma104 ) cells ( biowhittaker , walkersville , md ) and incubated for 2  h at 37  c in 5% co2 , after which the inoculum was removed and replaced with fresh 37  c prepared dmem . cells were checked 3 times weekly for parasite growth alongside uninoculated ma104  cells . when zoites became visible in cell culture , supernatant was collected and pelleted for dna extraction , cryopreservation , and antigen slide preparation for serological testing . during microscopic analysis of oocysts isolated from sea lion feces , multiple photomicrographs were taken at 4001000 magnification using a camera ( spot rt3 scientific digital ccd camera , spot imaging solutions  , sterling heights , mi ) mounted on a zeiss axioskop epifluorescent microscope equipped with a uv emission filter set ( emitter 460/50  nm band pass filter ; chroma # 11000 v3 ) . micrographs were used to measure the long axis and short axis lengths of oocysts ( in unsporulated and sporulated forms ) and sporocysts ( in sporulated forms ) using spot advanced software ( spot imaging solutions , sterling heights , mi , usa ) . the mean and standard deviation of 1020 sporulated and unsporulated oocysts were calculated separately for each coccidian species . in oocyst - inoculated cell cultures , approximately 10 zoites per culture were measured at 200 magnification from photomicrographs using spot software . all animal experiments were conducted with the approval and oversight of the institutional animal care and use committee at the university of california , davis , which is accredited by the association for assessment and accreditation of laboratory animal care , international ( iacuc # 17501 ) . mouse strains were chosen based on known susceptibility to t.  gondii ( rytel and jones , 1966 , villegas et  al . , 2002 , gavrilescu and denkers , 2003 ) . prior to inoculation , 68 week old female mice were screened by the indirect fluorescent antibody test ( ifat , see methods below ) using a 1:40 serum dilution to ensure seronegativity to t.  gondii , n.  caninum and s.  neurona . approximately 1000 sporulated oocysts were inoculated into two mice of each genetic background : b6.129s7-ifng / j ( c57bl/6 background ) , cba / caj ( the jackson laboratory , bar harbor , me ) and swiss webster ( cfw ) ( charles river laboratories , wilmington , ma ) . of the two mice in each genetic background group , one was orally inoculated by gastric lavage and the other was subcutaneously inoculated in the interscapular region as previously described ( fritz et  al . , 2012 ) . control mice of each genetic background were given inocula free of oocysts consisting of clinicare canine / feline liquid diet ( abbott health care ) for gastric lavage controls or pbs for subcutaneous controls . mice were checked once per week for clinical signs of disease and were bled at 3 and 6 weeks post - infection for ifat serology . mice were humanely euthanized by co2 asphyxiation for necropsy at 5070 days post - inoculation , at which time additional blood was collected from the heart cavity for ifat serology . during necropsy , portions of the tongue , heart , and brain were collected , divided into three pieces , and frozen at  80  c until dna extraction . a portion of the mouse brains was homogenized , trypsinized and placed over monolayer cultures of ma104  cells for coccidial parasite detection as previously described ( miller et  al . , 2001b ) . remaining mouse tissues were placed in 10% formalin and submitted to the california animal health and food safety laboratory ( cahfs , davis , ca ) for histological and immunohistochemical analysis . the following mouse tissues were fixed in 10% neutral buffered formalin and examined histologically : liver , kidney , heart , lung , spleen , subcutaneous fat , skeletal muscle , pancreas , salivary gland , uterus , lymph node , thymus , multiple sections of gastrointestinal tract and brain , gonad , trachea , adrenal gland . formalin - fixed tissues were trimmed , routinely processed for paraffin embedding , sectioned at 5  m , and stained with hematoxylin and eosin . immunohistochemical staining for the presence of t.  gondii , s. neurona and n. caninum antigen was performed as previously described ( miller et  al . , 2001b ) on selected sections of formalin - fixed , paraffin - embedded tissues . antigen slides for ifat analysis were prepared with parasites harvested from the supernatants of ma104 cultures containing visible zoites using previously described methods ( miller et  al . , 2001b ) . mouse blood was collected by venipuncture , cardiac puncture or retro - orbital bleed , allowed to clot , and centrifuged at 1000  g for 10  min . sea lion serum was similarly separated after collection via venipuncture of the caudal gluteal vein during hospitalization at tmmc and was shipped to uc davis for ifa testing . serum was serially diluted in pbs from 1:40 to 1:81,920 and screened for immunoreactivity to t.  gondii , s.  neurona and n.  caninum antigen using a fluorescein isothiocyanate ( fitc)-conjugated rabbit anti - canine igg ( jackson immunoresearch laboratories , west grove , pa ) . mouse sera were screened at a 1:40 dilution for immunoreactivity to antigens of the same three parasites using fitc - conjugated goat anti - mouse igg ( jackson immunoresearch laboratories ) . test controls consisted of previously analyzed animal sera with titers ranging from 1:12801:10,240 ( positive controls ) or titers < 1:40 ( negative controls ) . sea lion and mouse serum specimens that showed no reactivity at 1:40 dilution were considered test - negative . for the purpose of this study , sea lion sera that were reactive to t.  gondii antigen at 1:640 dilution were considered test - positive to identify sea lions likely infected with t.  gondii . sea lion sera that were reactive to s.  neurona antigen at 1:320 were considered test - positive as has been used previously to identify s.  neurona infection in sympatric species ( kreuder et  al . , 2005 , prior to dna extraction , frozen , pelleted oocysts that had been harvested from sea lion feces were subjected to a single freeze dna was extracted from oocysts and mouse tissues using the qiagen dneasy blood and tissue kit using manufacturer 's recommendation for animal tissues . two out of three mouse tissue sections were analyzed per tissue type per mouse , with preference for mice that demonstrated histological lesions , leading to a total of 164 individual samples , including controls , which were extracted and analyzed by pcr . negative controls ( water ) were included in the extraction process to monitor for environmental contamination . for molecular characterization of coccidian dna in oocysts , mouse tissues and zoite cultures , nested pcr was performed using pan - coccidian primers that span the internal transcribed spacer 1 ( its-1 ) region , and s.  neurona / s . falcatula - specific primers ( its1500 ) that amplify 500  bp of the its1 region in those organisms ( miller et  al . , 2009 , gibson et  al . , 2011 ) . for characterization of s.  neurona - like dna , pcr protocols were employed to amplify microsatellites sn7 ( nested pcr ) and sn9 ( hemi - nested pcr ) , ( asmundsson and rosenthal , 2006 , rejmanek et  al . , 2010 ) and surface antigens snsag3 , snsag4 ( nested pcr ) ( rejmanek et  al . , 2010 ) and either snsag1 , snsag5 , or snsag6 which amplify using snsag1 - 5 - 6 primers ( wendte et  al . , 2010 ) . additional primers were used to amplify a secondary region of s.  neurona its-1 , approximately 150  bp upstream of the area amplified by its1500 primers : snits1-f , ccgggatgatgtcgtcaag and snits1-r , acagatgatgtgccccgc ( carlson - bremer , 2011 ) . all pcr reactions were performed using qiagen hotstar taq plus ( qiagen , valencia , ca ) according to manufacturer 's recommendations , utilizing 5  l of template dna . the following reaction conditions were used for all primer sets : initial denaturation at 95  c for 5  min , followed by 35 cycles at 94  c for 40  s , 58  c for 40  s ( external primers or non - nested pcr ) or 59  c for 40  s ( internal primers for nested / hemi - nested pcr ) , and 72  c for 90  s , followed by a 10  min extension at 72  c . in the case of nested or hemi - nested pcr protocols , 1  l of first round pcr product was added to the second round master mix . positive controls for pcr included either hammondia heydorni dna isolated from a domestic dog , neospora hughesi isolated from a horse , and/or s.  neurona strain snucd-1 ( rejmanek et  al . pcr products were purified using the qiaquick pcr purification kit ( qiagen ) and were sequenced by the ucdna sequencing facility ( davis , ca ) . forward and reverse sequences were assembled into contigs using geneious pro v. 5.3.4 ( drummond et  al . , 2009 ) . consensus sequences were aligned to reference sequences obtained from ncbi ( http://www.ncbi.nlm.nih.gov/nuccore ) using muscle or mafft ( katoh et  al . , 2002 , edgar , 2004 ) with default parameters , followed by manual editing . posterior sets of phylogenetic trees were generated using mrbayes ( huelsenbeck and ronquist , 2001 ) implemented in geneious pro v. 5.3.4 and run for 1,000,000 generations using the gtr  +  g nucleotide substitution model . trees were sampled every 1000 generations and 25% of trees were discarded from the initial burn - in period . pairwise genetic distance values were determined through uncorrected - p distance matrices generated in paup * ( sinaeur associates inc . ) using prepared alignments of 420  bp for its-1 . individual sequences were analyzed using blast ( basic local alignment search tool ) available on the ncbi website http://blast.ncbi.nlm.nih.gov/blast.cgi . kp999999 and kp990539 for t.  gondii m4 and ao11 , respectively ) , and snsag3 ( kr011915 for sarcocystis sp . groups were compared for significant differences using the two - tailed two - sample test of proportions ( stata / ic v. 11.0 , statacorp lp , college station , tx ) . fecal samples collected from 139 sea lions stranded in nine counties located on the california coast between 2010 and 2012 were screened upon hospitalization for the presence of coccidian oocysts . the majority of animals stranded in monterey ( n  =  48 ) , san luis obispo ( n  =  36 ) and santa cruz ( n  =  32 ) counties , followed by san mateo ( n  =  7 ) , san francisco ( n  =  5 ) , sonoma ( n  =  4 ) , marin ( n  =  4 ) , mendocino ( n  =  2 ) and humboldt ( n  =  1 ) . coccidian oocysts were identified in the feces of 16 of the 139 ( 11.5% ) sea lions sampled the majority of which were from monterey ( 8.3% , 4/48 ) and san luis obispo ( 13.9% , 5/36 ) counties . only one of the 32 stranded animals ( 3.1% ) from santa cruz county was shedding oocysts . table  1 describes the clinical status and results of serological testing and coccidian oocyst dna analysis for the 16 sea lions that had oocysts detected in their feces upon presentation at tmmc . oocysts observed in the feces of 16 stranded sea lions ( table  1 ) were 810  m in diameter . sporocysts were not observed by light microscopy following fecal flotation in any of the sea lions sampled . a similar proportion of males ( 9/89 ) and females ( 7/51 ) shed oocysts ( p  =  0.518 ) . yearlings most commonly shed oocysts ( 8/33 , 24.2% ) followed by subadults ( 2/16 , 12.5% ) , pups ( 2/19 , 10.5% ) , juveniles ( 3/50 , 6.0% ) and adults ( 1/21 , 4.8% ) . the proportion of yearlings shedding oocysts ( 8/33 ) was significantly greater than the proportion of all other age classes shedding oocysts ( 8/106 ; p  =  0.009 ) . 1 shows the close relationship of coccidian dna sequences amplified from fecal samples of the stranded hospitalized sea lions in this study ( e.g. csl ncmmc1047 humboldt and csl9878 monterey ) to n.  caninum and dna sequences amplified from marine mammal fecal samples and tissues in previous studies ( colegrove et  al . , 2011 , gibson et  al . , 2011 , carlson - bremer et  al . , 2011 ) , coccidia a ( csl ncmmc1047 ) and b ( csl9878 ) its-1 sequences shared 79.6% and 78.8% pairwise nucleotide similarity , respectively , to n.  caninum and 74.1% and 71.8% similarity , respectively , to t.  gondii . based on sequence analysis of the its-1 locus from the 16 hospitalized sea lions that were shedding coccidia during this study , 6 ( 37.5% ) animals were confirmed to be shedding coccidia a , 6 ( 37.5% ) were shedding coccidia b , and 2 ( 12.5% ) were shedding both a and b simultaneously , indicating dual infections ( table  1 ) . sera from 5 ( 31.3% ) of these sea lions had antibodies to t.  gondii antigens detectable by ifat , but only one of these animals ( csl9830 ) had an antibody titer above 1:640 ( table  1 ) . one animal from monterey ( csl9878 ) was seroreactive to s.  neurona antigen at a 1:2560 dilution . no animals tested during this time period were seroreactive to n.  caninum despite the apparent genetic relatedness of coccidia a and b to neospora spp . at the its-1 locus ( fig .  1 ) ( colegrove et  al . , 2011 , carlson - bremer et  al . , unsporulated oocysts had a round to ovoid shape and autofluoresced under uv illumination ( fig . 2 ) as observed for t.  gondii and other coccidian oocysts ( lindquist et  al . , 2003 ) . unsporulated coccidia a oocysts averaged 9.9    0.59  m in length and 9.5    0.69  m in width ( n  =  20 oocysts from csl ncmmc 1047 , measured at 200 magnification ) . unsporulated coccidia b oocysts averaged 8.9    0.31  m in length and 8.5    0.51  m in width ( n  =  20 oocysts from csl9878 , measured at 1000 magnification ) ( fig .  2 ) . coccidian oocysts a and b were previously identified in the feces of stranded california sea lions surveyed at tmmc between 2007 and 2009 ( carlson - bremer et  al . , 2012a ) . here , we summarized shedding prevalence for all sea lions sampled between 2007 and 2012 ( table  2 ) . over the six year period , 558 sea lions were sampled , 31 ( 5.6% ) of which were shedding coccidia a or b , in similar frequency . hospitalized stranded sea lions were typically diagnosed with malnutrition and trauma with no apparent clinical effects attributed to protozoal infection ( table  1 ) . between august 2011 and september 2012 , california sea lion fecal samples were collected from coastal haul - out sites located at ao nuevo state reserve ( n  =  48 ) , white rock ( n  =  94 ) and point lobos ( n  =  70 ) and the samples were screened for oocysts . the prevalence of oocysts identified by microscopy during isolation was 8.3% ( 4/48 ) at the ao nuevo haul - out site , 3.2% ( 3/94 ) at white rock , and 8.6% ( 6/70 ) at point lobos ( table  3 ) . sporocysts were not observed by light microscopy following fecal flotation in any of the free - ranging sea lion samples . dna amplification and sequence alignment revealed that both coccidia a and b were present in fecal samples collected at ao nuevo and point lobos , while only coccidia a was identified in samples collected at white rock ( table  3 ) . fecal sample 11 collected at ao nuevo state park ( ao11 ) represented a novel sequence type with 9798% pairwise similarity at the its-1 locus to previously published coccidian dna isolates in guadalupe fur seal tissues ( see neospora sp . the csl ao11 isolate had 92% pairwise similarity to coccidia a and b and shared even less similarity ( 87.7% ) to coccidia c at the its-1 locus . this sequence as well as representative sequences of coccidia a and b dna isolated from field - collected specimens ( csl ao53 and csl ao50 , respectively ) are shown in fig .  1 , and the geographic distribution of coccidian oocyst species shed by free - ranging animals is shown in fig . when sufficient quantities were available , oocysts harvested from fecal samples were sporulated and inoculated into mice to investigate coccidian parasite infectivity and pathogenesis . sporulated coccidia a oocysts were , on average , 9.8    0.83  m in length and 8.6    0.68  m in width , with sporocysts measuring 5.3    0.69  m long and 4.0    0.53  m wide ( n  =  20 oocysts from csl ncmmc1047 , measured at 4001000 magnification ) ( fig . sporulated coccidia b oocysts were 9.9    0.88  m in length and 9.0    1.2  m in width , with sporocysts measuring 6.0    0.4  m long and 4.6    0.5  m wide ( n  =  10 oocysts from csl9878 , measured at 4001000 magnification ) ( fig . sufficient quantities of oocysts from animals that were shedding either coccidia a or b ( or both ) including csl9830 , csl9878 , csl ncmmc1047 , csl10089 , csl10092 , and csl10100 , were available for mouse bioassay . all mice were seronegative for t.  gondii , s.  neurona and n.  caninum prior to inoculation and at 3 weeks and 6 weeks post - inoculation , as well as at the time of necropsy ( 5070 days post - inoculation ) . no clinical signs were observed in coccidia a- and b- inoculated or mock - inoculated control mice throughout the observation period . mouse tissues were generally unremarkable histologically , although one or more of the following histological changes were observed in approximately 40% of mice : slight nephritis , slight pneumonia , inflammation in the lung , spleen or lymph node , and steatitis . mouse brain , heart and tongue tissues tested negative for the presence of coccidia a or b dna using pan - coccidian primers that span the its-1 region . in an effort to propagate and isolate coccidian protozoa identified by light microscopy in sea lion feces , sporulated oocysts from csl10089 ( coccidia a ) , csl10092 ( coccidia a & b ) , csl10100 ( coccidia a & b ) , and csl10266 ( coccidia a ) were prepared and inoculated into flasks containing ma104  cells . all cultures were fed and examined for the presence of live coccidian zoites three times per week . after 14 days , 21 days and 35 days of observation , cell cultures inoculated with sporulated oocysts from csl10089 , csl10100 , and csl10092 , respectively , showed propagating organisms with morphologic similarity to sarcocystis spp . extracellular zoites were 811  m in length and 12  m in width when measured with spot advanced software at 200 magnification . schizonts were seen periodically as the culture matured and the number of free zoites increased ; suggesting that these were merozoites produced by schizogony . free zoites had active , circumaxial motility characteristic of s.  neurona merozoites observed in  vitro ( miller et  al . , 2001a ) . similar organisms did not grow in cultures inoculated with sporulated oocysts from a fourth sea lion , csl10266 or in un - inoculated cultures of ma104  cells ( table  4 ) . by ifat , antigen slides prepared from zoite cultures of all three sea lions , csl10089 , csl10092 and csl10100 , tested positive using serum from a horse with equine protozoal myeloencephalitis ( fig . the horse 's s.  neurona infection was confirmed by ifat and western blot on serum ( 1:320 titer to laboratory strain snucd-1 ) and cerebral spinal fluid , and by immunohistochemistry used to detect s.  neurona merozoites in the lumbar spine . in addition , all three zoite isolates from sea lion oocyst cultures reacted to sera from hospitalized sea lion csl9878 ( table  4 ) which was itself seroreactive to merozoites of snucd-1 ( 1:2560 ) ( table  1 and fig . sea lion culture antigen was ifat - negative ( < 1:40 ) to goat serum containing t.  gondii - reactive antibodies , bovine fetal serum containing n.  caninum - reactive antibodies , and , as shown in fig . 5e , to horse serum that was seronegative to s.  neurona and n.  hughesi . as soon as zoites were observed , supernatant from the ma104  cell cultures inoculated with sporulated , excysted oocysts from the fecal samples of csl10089 , csl10100 and csl10092 were collected for molecular characterization approximately once per week for 1114 weeks . pan - coccidian primers that span the its-1 region produced a 1000  bp band when dna was amplified from zoites taken from cultures from the 3 sea lions throughout their collection period . this is the expected band size for amplification of s.  neurona dna using pan - coccidian its-1 primers ( gibson et  al . , 2011 ) . in addition , a second band 400  bp in size was amplified simultaneously in culture supernatant of csl10100 and csl10092 using the pan - coccidian primers , but only in the first week of sample collection following zoite observation ( table  4 ) . four hundred basepairs is the expected band size for amplification of coccidia a , b or c using pan - coccidian its-1 primers ( colegrove et  al . , 2011 , gibson et  al . , 2011 ) . in culture csl10266 , in which no zoites ( only oocysts ) were observed , only the 400  bp band was amplified by pcr during the first two weeks of incubation . subsequent supernatant samples of culture csl10266 and all uninoculated ma104 control cultures were pcr - negative ( table  4 ) . sequence analysis confirmed that the 400  bp amplicon dna generated in early sampling of cultures csl10100 , csl10092 and csl10266 was identical to dna amplified from frozen , pelleted oocysts originally harvested from the same animal ; namely , coccidia a alone ( in the case of csl10092 and csl10266 ) or a dual infection with coccidia a and b ( in the case of csl10100 ) ( table  4 ) . by blast analysis , good quality partial sequences ( 700  bp ; abbreviated due to the presence of a homopolymer region ) generated from the 1000  bp amplicon in csl10089 , csl10092 and csl10100 zoite cultures were 99% similar to s. neurona dna isolated from horses ( af204230 & af081944 ) and from a skunk ( ay082648 ) ( see supplementary data ) . dinucleotide mixtures in the its-1 sequences indicated the presence of at least two s.  neurona - like genotypes in the sea lion cultures . these polymorphic regions shared nucleotide similarity to horse strains snucd-1 ( af081944 ) and sn - mu1 ( af204230 ) , sea otter strains so3639 ( dq084486 ) and so5259 , and a skunk isolate ( ay082648 ) ( see supplementary data ) . to further characterize the s.  neurona - like organisms cultured from sea lion feces , we amplified seven additional genetic loci in dna extracted from zoites in the sea lion oocyst culture supernatant . table  4 displays the pcr and sequencing results for these additional loci . using its1500 primers , with known specificity for s.  neurona or sarcocystis falcatula ( gibson et  al . , 2011 ) , a 500  bp product was consistently amplified in all culture supernatant samples from csl10089 , csl10092 , csl10100 in which zoites had been observed . by blast analysis , good quality partial its1500 amplicon sequences ( 300  bp , abbreviated due to the presence of a homopolymer region ) were 98% identical to s.  neurona isolated in southern sea otters including isolates so3528 , so3539 , so3485 , and so3501 ( genbank dq084485  dq084488 ) . microsatellite primers amplified 150  bp products containing di - nucleotide repeats ca17 ( sn7 ) and gt18 ( sn9 ) found in s.  neurona strain sn - mu1 and other s.  neurona strains isolated from opossums , sea otters , and cats ( rejmanek et  al . , 2010 ) . merozoite surface antigen sag1 gene sequences of csl10089 , csl10092 and csl10100 , amplified by snsag 1 - 5 - 6 primers , were 100% identical across 959  bp to s.  neurona strain snucd-1 ( af401682 ) ( ellison et  al . , 2002 ) and 99% similar across 968  bp to the representative sequence of the snsag1 allele amplified in samples from terrestrial and marine mammals ( gq851951 ) ( wendte et  al . , 2010 ) . sea lion cultures csl10089 , csl10092 and csl10100 were identical to each other across a 948  bp sequence of the merozoite surface antigen gene snsag4 and 100% identical to sequences of s.  neurona isolated from a sea otter ( so3106 , gq851957 ) and an opossum ( op134 , gq386979 ) . a unique sequence in sea lion s.  neurona - like isolates was identified in the merozoite surface antigen 3 ( snsag3 ) locus in which csl10089 was confirmed by bi - directional sequencing to contain an at insertion at positions 519520 ( table  5 ) . the same insert was observed in single direction sequencing for csl10092 but could not be confirmed in csl10100 due to poor sequence quality . the same insert was not identified in snsag3 sequences available in genbank originating in a variety of host species including sea otters , opossums and horses ( table  5 ) . lack of the position 519520 insert in laboratory strain snucd-1 , derived from a horse in california ( table  5 ) , ruled out the possibility that s.  neurona growth in sea lion oocyst cultures was due to laboratory contamination . at other polymorphic snsag3 nucleotide positions , including 239 and 1059 , sea lion s.  neurona - like isolates were similar to published opossum and sea otter isolates ( table  5 ) . in light of the unexpected findings revealed during cell culture analysis of fecal samples from stranded hospitalized sea lions , we screened all dna extracted from frozen , pelleted oocysts of both hospitalized and field - collected fecal samples using s.  neurona / s .  falcatula - specific its1500 primers . while none of the additional frozen , pelleted oocyst samples collected from hospitalized animals were pcr - positive for s.  neurona - like dna ( including those remaining for csl10089 , csl10092 and csl10100 ) , two fecal samples collected at point lobos ( fig .  3 , samples pl11 and pl27 ) produced 500  bp products in the its1500 pcr reaction ( table  3 ) . additional primers ( sn - its ) targeting the its-1 region of s.  neurona produced amplicons with sequences identical to hospitalized sea lion zoites collected in the present study as well as s.  neurona isolated in other animals ( see supplementary data ) . all other attempts to amplify s.  neurona in samples pl11 and pl27 using alternative primers failed with the exception of microsatellite sn7 which , in sample pl27 , produced a sequence containing the di - nucleotide repeat ca17 found in s.  neurona and zoites isolated in csl10089 , csl10092 and csl10100 ( table  4 ) . the investigation of infectious diseases in coastal aquatic wildlife allows us to probe the relationships between terrestrial - origin pathogen distribution , patterns of overland water runoff , and the risk of pathogen pollution in the coastal and ocean environment . the present research was undertaken to investigate the role of california sea lions in the dispersal and life cycle of terrestrial and aquatic coccidian parasites that pose a risk to marine mammal health , and to genetically and phenotypically characterize protozoa shed by sea lions . building on data acquired from previous protozoal pathogen surveillance efforts in california sea lions from the coastal waters of california ( carlson - bremer et  al . , 2012a ) , we confirmed that oocysts ( 810  m in size ) that are morphologically similar to , but genetically distinct from , t.  gondii and n.  caninum are frequently shed by stranded sea lions that are hospitalized and by free - ranging populations . genetic variability in the partial its-1 region of these coccidia a and b isolates was not observed within this study or in previous reports ( colegrove et  al . , 2011 , carlson - bremer et  al . , consistent with other studies of stranded sea lions , shedding of coccidia a and b occurred primarily in yearlings , and those shedding oocysts had stranded due to causes other than protozoal infection . while our data further establish that sea lions are naturally asymptomatic definitive hosts of coccidia a and b , the pathogenic potential of these protozoa in other aquatic species requires further investigation , particularly considering the known virulence of coccidia c and other novel tissue - cyst forming coccidia in harbor seals and guadalupe fur seals ( colegrove et  al . phylogenetic analyses of the its-1 locus performed here and elsewhere ( gibson et  al . , 2011 , carlson - bremer et  al . , 2012a ) demonstrate that coccidia a , b , c , csl ao11 , and isolates from a harbor seal and guadalupe fur seals share a common ancestor with n.  caninum . morphologically , however , coccidia a and b measured in this study were smaller than n.  caninum oocysts and had < 80% pairwise similarity to n.  caninum at the its-1 locus . while unsporulated coccidia a and b oocysts shed by sea lions are 810  m in diameter , unsporulated n.  caninum oocysts shed by dogs are typically 1011  m in diameter ( mcallister et  al . , 1998 ) . sporulated n.  caninum oocysts are reportedly an average of 11.7    11.3  m ( lindsay et  al . , 1999 ) while sporulated forms of coccidia a and b are an average of 9.8    8.6  m , and 9.9    9.0  m , respectively . by comparison , unsporulated t.  gondii oocysts are 10    12  m in diameter and sporulated forms are 11    13  m in diameter ( dubey et  al . , 1998 ) . more detailed genetic and morphologic studies ( e.g. whole genome sequencing , electron microscopy , and histological examination of life stages in situ ) are necessary to clarify the taxonomy of novel coccidia identified in aquatic animals , and will likely reveal that these organisms belong to either new neospora species or a new genus within the family sarcocystidae . at the phenotypic level , we observed that the sporulated oocysts of coccidia a and b were not cultivable in the african green monkey kidney cell line , ma104 , commonly used to propagate other tissue - cyst - forming coccidia including t.  gondii , n. caninum and s.  neurona ( miller et  al . , 2001a , miller et  al . , 2004 , holmberg et  al . , 2006 ) . while coccidia a dna was detectable by pcr in a culture prepared from oocyst isolate csl10266 for up to two weeks after inoculation , no protozoal organisms were ever observed . in ma104 cultures of oocyst isolates csl10092 and csl10100 , coccidia a and b dna as well as s.  neurona - like dna were amplified for up to 56 weeks post - inoculation ; after which time only s.  neurona - like dna and live s.  neurona - like zoites were detected for the duration of observation . while it is possible in the latter cases that coccidia a and b did not replicate in  vitro due to competition from the sarcosystsis sp . during co - culture , we hypothesize , rather , that the ma104  cell line may not be susceptible to infection with coccidia a and b , or the culture conditions were not optimal for these parasites . other cell culture systems should be investigated for their propagation , particularly in the interest of developing a serological assay for the purpose of screening marine mammals for infections with these and other potentially pathogenic protozoa . coccidia a and b did not cause disease in mice with known susceptibility to t.  gondii including b6.129s7-ifng / j , cba / caj and swiss webster ( cfw ) ( rytel and jones , 1966 , villegas et  al . , 2002 , gavrilescu and denkers , 2003 ) . surprisingly , coccidia a and b were not pathogenic to cba / caj mice despite previous studies showing that cba / ca mice can be used as a model of n.  caninum pathogenesis ( mcguire et  al . these findings , taken together with the lack of growth in ma104  cells or reactivity of serum from coccidia a- and b - infected sea lions with n.  caninum , t.  gondii or s.  neurona antigen by ifat , is further evidence of the taxonomic divergence of the sea lion parasites from known tissue - cyst forming coccidia with terrestrial life cycles . a significant outcome of this study was the discovery of s.  neurona or s.  neurona - like zoites growing in cell cultures inoculated with fecal material ( including sporulated , excysted oocysts of coccidia a and b ) prepared from three stranded hospitalized sea lions sampled between 2010 and 2012 . the cultivation of live protozoal zoites with strong genetic similarity to s.  neurona across multiple genes during parasite isolation from sea lion feces , particularly in the absence of microscopic evidence of sarcocystis sp . a possible explanation for these findings is that samples taken for microscopic observation during fecal flotation only represent a small portion of the overall feces sampled and the overall pool of oocysts being shed . if the original pool of isolated protozoa from feces consisted of a mixture of variable numbers of coccidian oocysts ( coccidia a and/or b ) and sporocysts ( s.  neurona - like ) , it is possible that the subdivision of the oocyst pool for flotation and microscopy , pelleting / freezing , sporulation for mouse bioassay , and sporulation / excystation for cell culture , could explain discrepancies in the ability to detect different parasites , depending on the sensitivity of each assay . we hypothesize that a small number of s.  neurona - like sporocysts existed in the pool of protozoa prepared for cell culture , but were not present in the subsamples designated for microscopy , pelleting and freezing or mouse bioassay . in addition , in  vitro cultivation may have facilitated the expansion of small numbers of s.  neurona sporozoites that were able to develop into schizonts that produced merozoites . the isolation of s.  neurona - like dna from feces of two free - ranging sea lions at point lobos indicates that the organism may occur naturally in sea lions , as opposed to occurring via nosocomial exposure in the hospitalized setting . exposure of sea lions to s.  neurona , or an s.  neurona - like organism , most likely occurs in coastal waters contaminated with opossum feces transported from land - to - sea via freshwater run - off ( carlson - bremer et  al . , 2012b , shapiro et  al . , 2012 ) or may be concentrated in sea lion prey , as has been shown with t.  gondii shed by terrestrial felids ( miller et  al . , 2002 , johnson et  al . , 2009 ) . although the extent of environmental contamination with s.  neurona sporocyts has not been documented , infections in southern sea otters and a number of other marine mammals of the pacific northwest have been reported ( miller et  al . , 2001b , miller et  al . , 2009 , miller et  al . , 2010 , all mouse tissues were pcr - negative for s.  neurona using its1500 primers , indicating that the sea lion s.  neurona - like sporocysts were either not present in the inoculum , were present but below the threshold of infection , or the mice utilized were not susceptible . because of the similarity of coccidia a and b to t.  gondii , mice in this study were selected for their susceptibility to t.  gondii , not s.  neurona . shed by sea lions would benefit from the utilization of interferon gamma gene knock - out mice ( e.g. c57bl/6-black ) with well - characterized susceptibility to s.  neurona ( dubey et  al . sarcocystis neurona is the etiologic agent of equine protozoal myeloencephalitis  a serious and progressively debilitating neurological disease in horses and is one of several coccidian parasites known to cause protozoal encephalitis in pacific harbor seals , southern sea otters , and other marine mammals ( lapointe et  al . , 1998 , rosonke et  al . , 1999 , lindsay et  al . , 2000 , lindsay et  al . , 2001 , miller et  al . , 2001a , lapointe et  al . , 2003 , thomas et  al . , 2007 , gibson et  al . , 2011 , dubey et  al . , 2015 although not frequently reported in the literature , when s.  neurona infections do occur in california sea lions , they are either clinically irrelevant ( gibson et  al . , 2011 ) or associated with myositis ( carlson - bremer et  al . , 2012b ) . tissue cysts caused by other sarcocystis spp . , including sarcocystis canis - like organisms , have been detected in sea lion muscle ( mense et  al . , 1992 , miller , 2008 ) and liver tissue ( mense et  al . , 1992 , the three animals that shed s.  neurona - like protozoa were admitted to tmmc for malnutrition or trauma , and had no overt signs of protozoal infection . lack of serum titers to s.  neurona in these animals indicated that they had not yet mounted a detectable antibody response , or that they never had systemic infections . an elevated s.  neurona titer ( 1:2560 ) was detected in another hospitalized sea lion , csl9878 , but this animal also had no signs of disease and was not shedding detectable levels of s.  neurona - like sporocysts or dna at the time of sampling for this study . overall , findings from this study suggest that california sea lions are likely acting as mechanical vectors of s.  neurona or an s.  neurona - like organism , similar to the way canines can mechanically transmit t.  gondii ( lindsay et  al . , 1997 ) . using a mouse bioassay to detect the presence of infectious t.  gondii oocysts in canine tissues and feces , lindsay et  al . sporulated t.  gondii oocysts can traverse the canine intestinal tract and be excreted in an infectious state  . several experimental outcomes indicate that an s. neurona - like organism is excreted by sea lions in low concentrations , which is expected during mechanical transmission : ( 1 ) s.  neurona - like sporocysts were not observed by light microscopy following fecal flotation ( 2 ) s.  neurona - like dna was not amplified from concentrated oocysts ( pellets ) isolated from hospitalized sea lion fecal samples , ( 3 ) s.  neurona - like dna was only amplified by pcr on high copy number genes in concentrated oocysts isolated from feces of free - ranging animals , and ( 4 ) s.  neurona - like merozoites were only observed after long - term cultivation in ma104  cells . the genetic similarity of sea lion s.  neurona - like isolates to previously characterized protozoa in aquatic and terrestrial animals across much of the genome is not surprising considering the extensive overlap in genetic identity in s.  neurona isolates from the tissues of opossums , sea otters and horses that was previously demonstrated ( rejmanek et  al . , 2010 , the key snsag3 polymorphism that we identified in the zoites from sea lion fecal samples may represent a novel s.  neurona genotype which , in the future , may facilitate identification of the origin of infection . this is particularly important as we seek to understand the flow of terrestrial pathogens into oceans and risk factors for s.  neurona infections in other aquatic species . continued investigations into the pathogenesis of s.  neurona in sea lions through necropsy and systematic surveillance for s.  neurona exposure , shedding , and disease will help clarify the importance of this host species in parasite transmission within the pacific coastal ecosystem . in conclusion , continued surveillance for tissue - cyst forming coccidia in marine mammals should remain a priority for programs that monitor the population health of aquatic wildlife . efforts to explore the distribution , pathogenesis and genetic diversity of sarcocystidae in land and sea isolates promise to improve our understanding of the interconnectedness between terrestrial and aquatic microbial diseases , and to direct interventions that will benefit our oceans and their inhabitants .
tissue - cyst forming coccidia in the family sarcocystidae are etiologic agents of protozoal encephalitis in marine mammals including the federally listed southern sea otter ( enhydra lutris ) . 
 california sea lions ( zalophus californianus ) , whose coastal habitat overlaps with sea otters , are definitive hosts for coccidian protozoa provisionally named coccidia a , b and c. while coccidia a and b have unknown clinical effects on aquatic wildlife hosts , coccidia c is associated with severe protozoal disease in harbor seals ( phoca vitulina ) . in this study , we conducted surveillance for protozoal infection and fecal shedding in hospitalized and free - ranging california sea lions on the pacific coast and examined oocyst morphology and phenotypic characteristics of isolates via mouse bioassay and cell culture . 
 coccidia a and b were shed in similar frequency , particularly by yearlings . 
 oocysts shed by one free - ranging sea lion sampled at ao nuevo state park in california were previously unidentified in sea lions and were most similar to coccidia infecting guadalupe fur seals ( arctocephalus townsendi ) diagnosed with protozoal disease in oregon ( usa ) . 
 sporulated coccidia a and b oocysts did not replicate in three strains of mice or in african green monkey kidney cells . 
 however , cultivation experiments revealed that the inoculum of fecally - derived coccidia a and b oocysts additionally contained organisms with genetic and antigenic similarity to sarcocystis neurona ; despite the absence of detectable free sporocysts in fecal samples by microscopic examination . 
 in addition to the further characterization of coccidia a and b in free - ranging and hospitalized sea lions , these results provide evidence of a new role for sea lions as putative mechanical vectors of s.  neurona , or s.  neurona - like species . 
 future work is needed to clarify the distribution , taxonomical status , and pathogenesis of these parasites in sea lions and other marine mammals that share their the near - shore marine environment .