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Introduction and objective. It is easier and non-invasive to obtain faecal samples compared with blood samples. Molecular techniques may enable detection of parasites even in tiny amounts of blood-containing faeces. We aimed to compare the sensitivity of detection of three Babesia species and Hepatozoon canis in blood and faecal samples, including samples derived from naturally infected hosts. Materials and method. Three groups were involved: 1) Nine BALB/c mice infected with Babesia microti sampled during acute (n=3), post-acute (n=3) and chronic phases of infection (n=3); 2) Eight dogs with symptoms of babesiosis; 3) Six red foxes infected with B. vulpes, one fox infected with B. canis, four foxes infected with H. canis. Genomic DNA was extracted from blood and faeces by use of commercial kits and amplified with genus-specific primers in one-step or nested PCR reactions. Selected PCR products were sequenced. Results. No positive results for faecal samples were obtained from H. canis-positive foxes in contrast to Babesia spp. infections. Positive results from PCRs were obtained for all BALB/c mice (100%), five dogs (62.5%) and four of seven foxes (57.1%). Successful sequencing was obtained for six selected murine samples (B. microti), four canine samples (B. canis) and for one fox sample (B. vulpes). The success of B. microti detection in murine faecal samples from acute, post-acute and chronic phases was identical (100%). Conclusions. Detectability of Babesia spp. infections was lower in naturally infected dogs and foxes, compared to experimentally infected mice. Detection of DNA in faecal samples can be useful in the detection of Babesia infection in populations from which blood samples are hard to obtain, but due regard must be given to the possibility that prevalence of infection may be severely underestimated. [ABSTRACT FROM AUTHOR]

Genetic sampling from faeces is a useful method for obtaining DNA samples non-invasively. The quantity and quality of DNA isolated from faecal samples is, however, an important factor affecting the success of downstream analyses. Commercial DNA isolation kits offer an efficient and convenient means for recovering DNA, but the kit methodology can influence the quantity and quality of DNA obtained. Comparisons of kit performance for the isolation of DNA from non-invasive sources for ecological studies based on genetic analysis are uncommon in the literature. This study compared the quantity and quality of DNA isolated from surface washings of fresh koala (Phascolarctos cinereus) faecal pellets (scats) using four commercial DNA isolation kits: Axygen® AxyPrep™ MAG Soil, Stool, and Water DNA Kit (AX), Bioline ISOLATE Fecal DNA Kit (BL), Qiagen QIAamp® Fast DNA Stool Mini Kit (QFS), and Qiagen QIAamp® DNA Stool Mini Kit (QS). DNA quantitation, standard PCR and electrophoresis, real time PCR and replicate genotyping using capillary electrophoresis were used to compare the performance of resultant DNA isolates. The performance of DNA isolated from koala scats varied substantially with the DNA kit utilised. All kits provided accurate genotypes but with differing amounts of missing data. Overall, kit AX performed best, providing DNA isolates of higher quantity and quality compared to kit QS, which has previously been thoroughly assessed for genotyping reliability using DNA from koala scats. Given the high variability noted, assessing kit performance is an important way to maximise data quality from non-invasively sourced DNA. [ABSTRACT FROM AUTHOR]

Large‐scale genomic studies of wild animal populations are often limited by access to high‐quality DNA. Although noninvasive samples, such as faeces, can be readily collected, DNA from the sample producers is usually present in low quantities, fragmented, and contaminated by microorganism and dietary DNAs. Hybridization capture can help to overcome these impediments by increasing the proportion of subject DNA prior to high‐throughput sequencing. Here we evaluate a key design variable for hybridization capture, the number of rounds of capture, by testing whether one or two rounds are most appropriate, given varying sample quality (as measured by the ratios of subject to total DNA). We used a set of 1,780 quality‐assessed wild chimpanzee (Pan troglodytes schweinfurthii) faecal samples and chose 110 samples of varying quality for exome capture and sequencing. We used multiple regression to assess the effects of the ratio of subject to total DNA (sample quality), rounds of capture and sequencing effort on the number of unique exome reads sequenced. We not only show that one round of capture is preferable when the proportion of subject DNA in a sample is above ~2%–3%, but also explore various types of bias introduced by capture, and develop a model that predicts the sequencing effort necessary for a desired data yield from samples of a given quality. Thus, our results provide a useful guide and pave a methodological way forward for researchers wishing to plan similar hybridization capture studies. [ABSTRACT FROM AUTHOR]

The aim of this study was to assess behavioural and glucocorticoid changes in blackand- white ruffed lemur females transported for breeding purposes between Czech ZOOs. The frequency of the presented behaviour elements was recorded via direct observation. The faecal samples were collected from the floor and subsequently the faecal glucocorticoid values were determined using specifically designed assays for faecal glucocorticoid metabolite (FGM) analysis. While the frequency of certain comfort behaviour patterns decreased (P < 0.05) in response to transport and change of the environment, grooming, resting, sleeping as well as playful behaviour (chasing, climbing) were not affected (P < 0.05). No changes were found in the frequency of behaviour connected to metabolic events with the exception of defecation. Lemur females defecated more frequently (P < 0.05) in their new environment. The frequency of neither fear nor exploratory behaviour differed (P < 0.05) before and after transport. The positive effect of the novelty was shown by the reduction (P < 0.01) of behavioural signs of frustration and stereotypical behaviour after transport. In response to transport, a significant (P < 0.05) increase of FGM levels was found the second day after the transport, reaching peak levels in the morning and starting to decline to baseline levels in the afternoon. The results of both behaviour and adrenocortical activity analysis suggest that despite some presented changes in the monitored indices prior and after transport, the transportation under the studied conditions presented only a mild stressor with limited behavioural and glucocorticoid responses. [ABSTRACT FROM AUTHOR]

Parasitic infections are endemic worldwide and have been described as constituting the greatest single cause of illness and disease especially in the tropics. Fulani herdsmen belong to a tribe that lives a secluded life style with little information on their intestinal parasitic infections status. This study aimed at assessing the burden of intestinal parasites and risk factors associated with intestinal parasites transmission among Fulani herdsmen in Kwara State. Stool samples were collected from patients that attended three primary healthcare facilities in Ifelodun Local Government Area and one hospital in Moro Local Government Area. The 505 stool samples were collected and examined by both wet mount preparation and formol-ether concentration methods. Questionnaire on bio- data and other information on factors associated with transmission of intestinal parasitic infections was administered on the patients. Prevalence of intestinal parasitic infections was 60.4% among the Fulani. High proportion of the patients had coccidian parasites such as Cryptosporidium, Cyclospora and Isospora, than other protozoan and helminthic parasites. Factors like unsafe water sources, improper disposal of human and animal wastes, drinking unpasteurized fresh milk and poor personal hygiene were considered contributing factors to the high prevalence of intestinal parasites among the nomad Fulani. The study provided a new insight into burden of intestinal parasites among Fulani herdsmen and factors associated with their transmission and spread. [ABSTRACT FROM AUTHOR]

Abstract Shiga toxin-producing Escherichia coli (STEC) are zoonotic pathogens that live in the gastrointestinal tract of wildlife and cattle without causing disease. In humans, their colonization and infection lead to life-threatening disease. We investigated the occurrence of STEC in wild ungulates (wild boar, red deer and roe deer) inhabiting areas differently impacted by anthropogenic activities. STEC were detected in 9% (n = 6) of the samples and were recovered from the three species: 1 of wild boar, 4 of red deer and 1 of roe deer. All the isolates (n = 7) were non-O157 STEC encoding stx1 (n = 2; 29%) and/or stx2 genes (n = 6; 86%). O27:H30 was the most frequent serotype identified, followed by O146:H21 and O146:H28. Two STEC were O-untypable: ONT:H28 and ONT:H52. The phylo-groups identified were B1 (n = 3), E (n = 3) and F (n = 1). All the isolates recovered were susceptible to the different classes of antibiotics tested, although resistance genes were found in two strains. Apart from stx , all STEC encode many virulence factors (VF), particularly adhesins and/or other toxins. A strain with 13 VF collected from roe deer has a high enterohemorrhagic risk due to the presence of intimin, hemolysin and protease effectors genes. Enterohemorrhagic E. coli (EHEC) are implicated in the major cases of human infection and mortality, highlighting the zoonotic potential of wildlife-associated STEC. Wild ungulates are reservoirs of STEC potentially pathogenic to humans. Therefore, following the One Health concept, it is crucial to establish worldwide local monitoring programs that will benefit human, animal and environmental health. Graphical abstract Unlabelled Image Highlights • 9% of wild ungulates were non-O157 STEC carriers. • Serotypes O27:H30, O146:H21, O146:H28, ONT:H28 and ONT:H52 were identified. • stx2 genes (86%) were more frequent than stx1 (29%). • A highly virulent strain (containing 13 virulence factors) was isolated from roe deer. [ABSTRACT FROM AUTHOR]

Contents: As the natural habitat of more and more species becomes depleted, captive breeding programmes have become established to bring species back from the brink of extinction. Monitoring the reproductive status of an individual is essential in order to improve breeding success. Traditional methods have involved stressful blood sampling, and thus noninvasive methods have been proven to be reliable alternatives for monitoring reproductive function in both captive and free‐ranging animals. Subsequently, noninvasive methods have become an invaluable tool in longitudinal studies and conservation efforts, as animals can be observed without, or minimal human contact. The Beira antelope is a small antelope endemic to the northern part of the Horn of Africa. Population numbers of the Beira have been declining over the last few decades due to habitat fragmentation. We show here that the reproductive cycle of female Beira antelopes can be monitored noninvasively, by using faecal samples to analyse oestrogen (fEM) as well as progestagen (fPM) metabolites. The profiles of fPM and fEM of both females showed regular cyclic patterns in which the follicular and luteal phases could be distinguished. The overall mean cycle length is 22 days (range: 21–25 days), with a mean length of the follicular phase of 6 days (range: 4–7 days) and a mean length for the luteal phase being 15 days (range: 12–16 days). The suitability of these noninvasive techniques should assist in optimizing breeding efforts of this endemic small antelope in captivity. Being noninvasive, this method could also be a useful tool for monitoring reproductive function in the dwindling wild populations. [ABSTRACT FROM AUTHOR]

Highlights • A RRLC-DAD method was set up and validated for 19 isoprenoids in a faecal matrix. • The method shows good analytical validation parameters in a run time of only 28 min. • 25 carotenoids isomers, 9 chlorophylls derivatives and 2 tocopherols are identified. • The method is suitable for isoprenoids bioaccessibility evaluation in human studies. Abstract An analytical method was validated for the quantitative determination of isoprenoids compounds in faecal samples, based on liquid-liquid extraction from a small aliquot (0.3-0.5 g of sample) and subsequent analysis by Rapid Resolution Liquid Chromatography (RRLC) on a C30 column. An excellent linear response was observed over the range specified for all dietary isoprenoids, as confirmed by the correlation coefficient, which ranged from 0.9977 to 0.9999. LODs ranged from 0.002 μg to 0.036 μg for lutein and α-tocopherol, respectively. Depending on the compound, LOQs ranged from 0.001 μg (lutein) to 0.120 μg (α-tocopherol). For accuracy testing, spiking of faeces samples with trans-β-apo-8′-carotenal, α-tocopherol and chlorophyll a were performed (three concentration levels). Excellent recoveries were obtained in all levels (>90%). The intra-day RSD% ranged from 0.86 to 9.78%. The inter-day RSD% was not higher than 10%, except to α-tocopherol (11.34%). In order to assess the applicability of the method faecal samples from a baby fed with different purees formulated from various vegetables were analysed during a six month period. α-carotene, β-carotene, capsanthin, lycopene, lutein, phytoene, phytofluene, violaxanthin, zeaxanthin and ζ-carotene), and their isomers were identified and quantified using this method. Besides, 2 tocopherols and 9 chlorophylls and derivatives were identified and quantified in the faecal samples analysed. This method is suitable to determine dietary isoprenoids from complex matrices such as human faeces within 28 min. [ABSTRACT FROM AUTHOR]

Previous studies of Eurasian tundra reindeer (Rangifer tarandus tarandus) in Norway indicate that their rumen microbiota play a key role in degrading lichen secondary metabolites. We investigated the presence of usnic acid and atranorin in faecal samples from Svalbard reindeer (R. tarandus platyrhynchus). Samples were collected in Bolterdalen valley together with vegetation samples from the study site. The mesic tundra in this area was dominated by vascular plants (59% of vegetation cover). Bryophytes (16%) and lichens (25%) were also present. Qualitative and quantitative analyses of usnic acid and atranorin in lichen and faeces samples were performed using high-performance liquid chromatography. Contents of atranorin averaged 12.49 ± 0.41 mg g–1 in the thalli of Stereocaulon alpinum, while the average level of usnic acid was lowest in Cladonia mitis (12.75 ± 2.86 mg g–1) and highest in Flavocetraria cucullata (34.87 ± 0.47 mg g–1). Atranorin and usnic acid were detected in the faecal samples, averaging 0.41 ± 0.53 and 0.74 ± 1.11 (mean ± SD) mg g–1 dry matter, respectively. The presence of lichen secondary compounds in faeces from Svalbard reindeer shows that lichens are indeed included in their diet, although probably in small amounts because of depleted pastures. Contrary to previous findings in reindeer on mainland Norway, atranorin and usnic acid are not completely degraded or absorbed in Svalbard reindeer. To elucidate the mechanisms behind detoxification of lichen secondary compounds in reindeer, more research is needed on their respective rumen microbiomes and digestive enzymes. [ABSTRACT FROM AUTHOR]

This study aimed to characterise the gut microbiome composition of European hares (Lepus europaeus) and its potential changes after a short-term diet modification. The high sensitivity of European hare to habitat changes makes this species a good model to analyse possible alterations in gut microbiome after the introduction of additional nourishment into the diet. In total, 20 pairs were chosen for the experiments; 10 pairs formed the control group and were fed with standard fodder. The other 10 pairs represented the experimental group, whose diet was integrated with apples and carrots. The DNA from fresh faecal pellets collected after 4 days from the start of the experiment was extracted and the V3-V4 hypervariable regions were amplified and sequenced using the Illumina MiSeq® platform. The obtained amplicon sequence variants were classified into 735 bacterial genera belonging to 285 families and 36 phyla. The control and the experimental groups appeared to have a homogenous dispersion for the two taxonomic levels analysed with the most abundant phyla represented by Bacteroidetes and Firmicutes. No difference between control and experimental samples was detected, suggesting that the short-term variation in food availability did not alter the hares’ gut microbiome. Further research is needed to estimate significant time threshold.

Faecal samples from 297 farm animals were collected from 18 households in distinct sites of the Łęczyńsko-Włodawskie Lake District of eastern Poland. They included samples from 86 cattle ( Bos taurus ), 84 pigs ( Sus scrofa f. domestica ), 81 sheep ( Ovis aries ), 10 horses ( Equus caballus ), and 36 dogs ( Canis lupus familiaris ). The samples were examined for the presence of Giardia intestinalis by the Direct Fluorescence Assay (DFA) and semi-nested PCR. All amplicons were sequenced on both strands. By DFA, cysts of Giardia spp. were detected in 66 of 297 faecal samples (22.2%). Positive specimens for Giardia spp. were derived from 29.8% of examined pigs, 21.0% of sheep, 18.6% of cattle, 10% of horses, and 19.4% of dogs. Based on the detection of the β-giardin gene by PCR, 39 (13.1%) of the 297 examined samples were recognized as positive. Detection of the presence of Giardia cysts by DFA test was overall significantly higher compared to PCR (p=0.0045). By PCR, Giardia was found in 28.1% of sheep, 11.6% of cattle, 10% of horses, 9.5% of pigs and 5.6% of dogs. Partial β-giardin gene sequences were obtained for 73.7% of the PCR positive samples. From sequenced samples derived from the studied animals, Giardia were identified as assemblage A (8 samples), B (1 sample) and E (18 samples). As assemblages A and B may be zoonotic, the farm animals living in eastern Poland could be regarded as a potential source of Giardia infection for humans.

Two Gram-positive, anaerobic, non-spore-forming and coccoid or oval-shaped bacterial strains, namely, DN0138 T and DN0266, were isolated from faecal samples of healthy Japanese people. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain DN0138 T clustered with a species of the genus Blautia and was closely related to Blautia producta JCM 1471 T , Blautia coccoides JCM 1395 T , Blautia hominis KB1 T and ' Blautia marasmi ' Marseille-P2377, with sequence similarities of 98.6, 98.5, 98.8 and 98.2 %, respectively. The average nucleotide identity values were 85.3 % for B. producta JCM 1471 T , 85.0 % for B. coccoides NCTC 11035 T , 84.3 % for B. hominis KB1 T and 84.3 % for ' B. marasmi ' Marseille-P2377. The major end products of glucose metabolism were acetic acid, lactic acid and succinic acid. The genome length of strain DN0138 T was 6 247 046 bp with 46.7 mol% G+C content of genome sequence. Based on their phenotypic, cellular fatty acid and phylogenetic characteristics, the three isolates represent a novel species within the genus Blautia , for which the name Blautia parvula sp. nov. is proposed. The type strain is DN0138 T (=NBRC 113351 T =BCRC 81349 T ).

Abstract The genetic and morphologic similarities between primates and humans means that much information obtained from primates may be applied to humans, and vice versa. However, habitat loss, hunting and the continued presence of humans have a negative effect on the biology and behaviour of almost all nonhuman primates. Noninvasive methods such as stool collection are among the safest alternative ways to study the multiple aspects of the biology of primates. Many epidemiologic issues (e.g. pathogen detection, microbiota studies) may be easily studied using stool samples from primates. Primates are undoubtedly among the first candidates suspected of becoming the source of one of the next emerging epidemic of zoonotic origin, as has already been observed with HIV, malaria and monkeypox. The Institut Hospitalo-Universitaire Méditerranée Infection in Marseille actively participates in the study, mostly epidemiologic, of nonhuman primates, using mostly stool samples. [ABSTRACT FROM AUTHOR]

Difficult terrain and inclement weather limit our knowledge of large predators, such as the tiger Panthera tigris, in the Himalayas. A lack of empirical data on large carnivores can lead to mismanagement of protected areas and population declines. We used non-invasive genetic and remote sensing data to inform the management of such high-altitude protected areas. We used the tiger as a focal species to investigate prey preference and habitat suitability in India's Buxa Tiger Reserve, which encompasses several eco-geographical regions in the Himalayan and subtropical zones. During 2010–2013, 909 faecal samples were collected, of which 372 were confirmed, using genetic analysis, to be of tiger origin. Fourteen prey species/groups were identified in 240 tiger faecal samples, largely dominated by goats Capra spp. (26.59%), rhesus macaques Macaca mulatta (22.22%) and cattle Bos spp. (20.63%). Considering only the wild prey species for which survey data are available, however, and frequency of occurrence of prey in faecal samples, hog deer Axis porcinus, sambar deer Rusa unicolor and spotted deer Axis axis were the most preferred prey species. Using faecal sample locations to examine the relationship between tiger presence and environmental features indicated that the niche for tigers is narrower than the available protected area: c. 62% of core protected area is suitable, of which only 17% is highly suitable for tigers. Tigers prefer dense vegetation, open forests, riverine vegetation and areas close to water sources. Faecal sample-based studies have the potential to generate data that can help us understand the ecology of elusive carnivore species inhabiting high-altitude landscapes. [ABSTRACT FROM PUBLISHER]

Abstract: Metabarcoding of environmental samples has many challenges and limitations that require carefully considered laboratory and analysis workflows to ensure reliable results. We explore how decisions regarding study design, laboratory set‐up, and bioinformatic processing affect the final results, and provide guidelines for reliable study of environmental samples. We evaluate the performance of four primer sets targeting COI and 16S regions characterizing arthropod diversity in bat faecal samples, and investigate how metabarcoding results are affected by parameters including: (1) number of PCR replicates per sample, (2) sequencing depth, (3) PCR replicate processing strategy (i.e. either additively, by combining the sequences obtained from the PCR replicates, or restrictively, by only retaining sequences that occur in multiple PCR replicates for each sample), (4) minimum copy number for sequences to be retained, (5) chimera removal, and (6) similarity thresholds for Operational Taxonomic Unit (OTU) clustering. Lastly, we measure within‐ and between‐taxa dissimilarities when using sequences from public databases to determine the most appropriate thresholds for OTU clustering and taxonomy assignment. Our results show that the use of multiple primer sets reduces taxonomic biases and increases taxonomic coverage. Taxonomic profiles resulting from each primer set are principally affected by how many PCR replicates are carried out per sample and how sequences are filtered across them, the sequence copy number threshold and the OTU clustering threshold. We also report considerable diversity differences between PCR replicates from each sample. Sequencing depth increases the dissimilarity between PCR replicates unless the bioinformatic strategies to remove allegedly artefactual sequences are adjusted according to the number of analysed sequences. Finally, we show that the appropriate identity thresholds for OTU clustering and taxonomy assignment differ between markers. Metabarcoding of complex environmental samples ideally requires (1) investigation of whether more than one primer sets targeting the same taxonomic group is needed to offset primer biases, (2) more than one PCR replicate per sample, (3) bioinformatic processing of sequences that balance diversity detection with removal of artefactual sequences, and (4) empirical selection of OTU clustering and taxonomy assignment thresholds tailored to each marker and the obtained taxa. [ABSTRACT FROM AUTHOR]

This study was carried out to detect the prevalence of intestinal parasites of camels in Diwanyiah city in 2016 by faecal examination. . A total of 110 faecal samples were examined, among them,95 camels were found infected with intestinal parasites by one or more species with percentage reach to 86.36% , Fasciola spp was maximum (31%), followed by Eimeria spp (26%) ,Cryptosporidium spp (17.89%) ,Nematodirus spp(7.36%),Trichostrongylus spp (6.31%) ,Moneizia spp(5.26%) and Trichuris spp (3.1%).Due to the lack of available studies on infected the camales by internal parasites in Al- diwaniya government This study was conducted for the purpose of diagnosis of the most important internal parasites in camales.

A total of 150 samples of raw milk, 75 each of farm and market milk were collected from different farms and supermarkets in Beni-Suef Governorate, in addition to 30 stool samples from milk handlers and 25 milker's hand swabs were examined for the presence of Escherichia coli, E. coli O157:H7, Salmonella, Aeromonas and Yersinia. Isolates were identified biochemically and serologically. The obtained results revealed that E. coli was detected in a percentage of 26.7% and 16% in the examined raw market and bulk farm milk respectively, while in stool and hand swabs samples were 16.6% and 16%, respectively. E. coli O157:H7 and Salmonella spp. failed to be detected in any of the examined samples. Additionally, 45% and 16.7% of the recovered E. coli strains from the examined raw market and farm milk samples were enteropathogenic O166, while 55% and 83.3 were untypable, respectively. On the other hand 60% of human stool samples isolates were O 148 and 40% of the isolates were untypable, while 100% of the hand swab isolates were untypable. The results also exhibits isolation rate of Aeromonas hydrophila in a percentage of 24%, 13.3%, 10% and 16% from market milk, farm milk samples, stool and hand swabs respectively. While Yersinea enterocolitica represent 3.3% in the stool samples only. The public health significance of isolated strains as well as suggested control measures were discussed.

Information on the occurrence, diversity and economic losses due to Eimeria infection on cattle farms is lacking in Western Iran. The principal aim of this study was to determine the prevalence and diversity of Eimeria species in cattle in Hamedan province, Western Iran. In a cross-sectional study performed from June 2010 to April 2013, 400 faecal samples were collected randomly from animals without clinical signs from different cattle farms of Hamedan province and examined for Eimeria species infection using parasitology methods. The overall infection rate of Eimeria species was 8.25%. Nine species of Eimeria were identified including: E. bovis (23.7%), E. zuernii (19.2%), E. canadensis (12.6%), E. ellipsodalis (11.4%), E. alabamensis (10.4%), E. pellita (9.1%), E. auburnensis (6.8%), E. cylindrica (4.6%) and E. bukidnonensis (2.3%). There were statistically significant differences with respect to Eimeria infection and age group (P < 0.0001, OR = 6), although no statistically significant relationships were found for sex (P = 0.35) or faecal consistency (P = 0.587). In conclusion, this study is the first to report the prevalence and diversity of Eimeria species in cattle in Hamedan province. Infection with pathogenic Eimeria spp. was asymptomatic in all animals; this is the reason for the transmission of infection by carriers in this region. Therefore, integrated strategies should be utilised to prevent and control Eimeria spp. infection on cattle farms.

A total of 145 faecal samples were collected from the dogs suspected for canine parvovirus (CPV) infection over a period of one year from April, 2016 to March, 2017. The faecal samples were screened by HA, Scan Vet Parvo kit and PCR. Out of 145 dog faecal samples screened, 63 samples were positive with an overall prevalence of 43.44 %. Breed wise analysis of data indicated higher prevalence in indigenous breeds (46.67%) than the exotic breeds (42.00%). CPV infection in relation to age was highest (54.05%) in 0-2 months and least (30.43%) in above 4-6 months old dogs. Sex wise analysis revealed the higher prevalence (48.15%) in female dogs than male (40.66%). Month wise prevalence of CPV infection was found highest (65.00%) in February and lowest (12.50%) in June. The prevalence of CPV infection was high (44.03%) in unvaccinated dogs than the vaccinated dogs (36.36%). The findings suggested need of adopting rigorous control and preventive measures against this disease particularly in young dogs. [ABSTRACT FROM AUTHOR]

Ancylostoma caninum, a blood feeding nematode parasite (Family: Ancylostomatidae, Superfamily: Ancylostomatoidea) can cause anaemia, dark reddish-brown to black haemorrhagic diarrhoea, dehydration, wasting and deaths due to heavy blood loss. Adult hook worm parasites recovered from the intestine of a stray dog at the time of necropsy were identified as A. caninum based on morphological characters and morphometric observations involving scanning electron microscopy (SEM). Different developmental stages of hookworm eggs viz. 8 cell stage, morula, gastrula and vermiform were observed during the culture process of faecal sample. High quality SEM photographs showed teeth of dimensions 52.5, 42.3 and 23.5 μm on one side and 55.4, 43.8 and 21.0 μm on the other side along with the presence of characteristic transverse cuticular striations on body surface of A. caninum parasites. [ABSTRACT FROM AUTHOR]

A case study of strategies for use of suiformes conservation DNA utilization. Topics discussed include evolution and sustainable management of specific wildlife species, genomic DNA extraction from muscular tissue, and using innovative MDA methods to amplify human DNA from various sources, including blood.

Pathogenic diseases may threaten the viability of wild animal populations, especially when already vulnerable. The mitigation of risks associated with pathogenic infections in populations is an important factor in conservation strategies. Koalas are of conservation concern across the north of their range and are affected by two main pathogens; Chlamydia pecorum and the koala retrovirus (KoRV). This study tested whether DNA from C. pecorum and KoRV could be detected in genetic material isolated from koala scats. Detection of C. pecorum in scat isolated DNA samples was compared with results obtained from urogenital swabs collected from the same individuals as part of an independent study. The ability to detect KoRV in scats from both northern and southern regions of the koala's range was also assessed. There was a high level of concordance (5/6) between the detection of C. pecorum in DNA isolated from scats and urogenital swabs from the same individual. In positive samples, C. pecorum ompA genotypes were identical between DNA from scats and urogenital swabs in two out of three cases. In samples from the south of the koala's range, KoRV copy number was higher in DNA isolated from scats compared to DNA isolated from ear tissue, potentially indicating the detection of horizontally acquired infections. Our results demonstrate the ability to detect C. pecorum and KoRV in DNA isolated from koala scats. This method will be useful for studying the prevalence, transmission and impact of these pathogens in wild populations which may subsequently inform conservation management strategies. [ABSTRACT FROM AUTHOR]

Aim: To isolate and identify Shigella species from faecal samples based on cultural and biochemical tests. Material and Methods: For the isolation of Shigella spp., faecal samples from cattle, poultry and humans were collected from various locations of Pantnagar. Fecal specimens were processed according to standard protocols. Results: Out of 511 fecal samples (311 human, 100 cattle and 100 poultry faecal samples) analyzed, 8 isolates of Shigella species were confirmed on the basis of Gram stain, morphology, cultural identification and biochemical characters. All the 8 Shigella isolates were obtained from human stool samples giving a prevalence rate of 2.57%. Conclusion: Under the conditions of the current study, Shigella species were prevalent in human population although in small numbers, whereas it was not isolated from cattle and poultry samples. [Vet World 2013; 6(7.000): 376-379]

The majority of rural households in developing countries own village chickens that are reared under traditional scavenging systems with few inputs and exposure to various parasitic infestations. Understanding of the village chicken farming system and its influence on helminth infestation is a prerequisite for optimal prevention and control strategies. This study investigated the village chicken production system and associated gastrointestinal parasites in 87 households from Limpopo (n = 39) and KwaZulu-Natal (n = 48) provinces of South Africa. A total of 191 village chicken faecal samples and 145 intestines were collected to determine the prevalence of gastrointestinal parasites in villages of Limpopo and KwaZulu-Natal provinces, respectively. The faecal floatation analysis of samples from Limpopo and KwaZulu-Natal provinces indicated infestations by Ascaridia galli (18.77%), Heterakis gallinarum (15.56%) and Capillaria spp. (4.00%); tapeworms Choanotaenia infundibulum (2.10%) and Raillietina cesticillus (6.00%) and Eimeria spp. (29.46%). Mixed infestations were observed in five (4.90%) samples from Limpopo province and in only four (4.49%) from KwaZulu-Natal province, of which 1.12% were a mixture of C. infundibulum and Eimeria spp. and 3.37% a combination of H. gallinarum and Eimeria spp. In Limpopo, 2.94% of the chickens were positive for H. gallinarum and Eimeria spp., whilst 0.98% had A. galli and Capillaria spp. infestations. Further investigation is needed to understand the impact of gastrointestinal parasites on village chicken health and production and develop appropriate intervention and control strategies feasible for smallholder farmers. Keywords: Helminthes; Village chickens; Smallholder farming systems; Faecal samples

African swine fever ( ASF) is a viral, highly lethal haemorrhagic disease of swine with no available vaccine or effective treatment. Introduction of ASF into a country triggers immediate restriction measures that cause significant economic losses and threatens spread to neighbouring countries. Wild boar populations have been recently assigned an essential role in the spread of African swine fever virus ( ASFV) to European countries. Therefore, effective surveillance and monitoring of wild boar populations is required, but sampling wild boar is logistically challenging and expensive. This study assessed the feasibility of detecting antibodies against ASFV in faeces for later implementation in surveillance and control programmes. Two groups of pigs were experimentally infected with an attenuated ASFV isolate Ken05, and blood, oral fluid and faecal samples were tested for the presence of viral DNA using quantitative real-time polymerase chain reaction (q PCR) to monitor infection progress. Faecal samples were analysed using two indirect enzyme-linked immunosorbent assays ( ELISAs) based on semipurified viral protein (vp) 72 or purified recombinant vp30 expressed in mammalian cells. Faecal samples from 9 of 10 pigs with non-haemorrhagic diarrhoea tested positive for antibodies against ASFV using the two ELISA tests that showed a positive correlation. The serum sample results from the two indirect ELISAs were compared against results from the reference ELISA technique and the immunoperoxidase test. Our findings indicate the feasibility of faecal sampling for detecting anti- ASFV antibodies, which may provide a practical non-invasive alternative for sampling wild boar populations. In conclusion, the application of these ELISA tests to faecal field samples could be particularly useful to screen for the presence of ASF in field conditions. [ABSTRACT FROM AUTHOR]

The present was done in sheep in Mathura region to identify the parasitic infections which was proving to be very harmful to them. For this purpose faecal samples were collected and examined. Maximum cases were found to be positive for coccidia. Prevalence of coccidian was further categorized in the basis of age of sheep and months of year. Samples were incubated for their sporulation and the five Eimeria species was identified on their morphology. It was found that maximum infection is in age group of below six months and in month of October. The individual species prevalence was more for Eimeria ovina and that the favorable temperature for all the five species of Eimeria ranged between 30°C and 37°C. [Veterinary World 2010; 3(11.000): 503-505]

Faecal samples from 297 farm animals were collected from 18 households in distinct sites of the Łęczyńsko-Włodawskie Lake District of eastern Poland. They included samples from 86 cattle (Bos taurus), 84 pigs (Sus scrofa f. domestica), 81 sheep (Ovis aries), 10 horses (Equus caballus), and 36 dogs (Canis lupus familiaris). The samples were examined for the presence of Giardia intestinalis by the Direct Fluorescence Assay (DFA) and semi-nested PCR. All amplicons were sequenced on both strands. By DFA, cysts of Giardia spp. were detected in 66 of 297 faecal samples (22.2%). Positive specimens for Giardia spp. were derived from 29.8% of examined pigs, 21.0% of sheep, 18.6% of cattle, 10% of horses, and 19.4% of dogs. Based on the detection of the β-giardin gene by PCR, 39 (13.1%) of the 297 examined samples were recognized as positive. Detection of the presence of Giardia cysts by DFA test was overall significantly higher compared to PCR (p=0.0045). By PCR, Giardia was found in 28.1% of sheep, 11.6% of cattle, 10% of horses, 9.5% of pigs and 5.6% of dogs. Partial β-giardin gene sequences were obtained for 73.7% of the PCR positive samples. From sequenced samples derived from the studied animals, Giardia were identified as assemblage A (8 samples), B (1 sample) and E (18 samples). As assemblages A and B may be zoonotic, the farm animals living in eastern Poland could be regarded as a potential source of Giardia infection for humans. [ABSTRACT FROM AUTHOR]

The prevalence of gastrointestinal parasites and risk factors for shedding of Toxocara eggs were determined for 916 Dutch household dogs older than 6 months. Additionally, the owners answered a questionnaire about their dogs and their attitude towards routine deworming was assessed. Faecal samples were examined using the centrifugal sedimentation flotation method. The overall prevalence of dogs shedding Toxocara eggs was 4.6 %. Multivariable logistic regression analysis revealed that the risk for 1-7-year-old dogs to shed Toxocara eggs was significantly lower (OR 0.38) than that of 6-12-month-old dogs. Compared to dogs walking ≤20 % of the time off-leash, those ranging freely 50-80 % and 80-100 % of the time had a significantly higher risk (OR 10.49 and 13.52, respectively) of shedding Toxocara eggs. Other risk factors were coprophagy (OR 2.44) and recently being kenneled (OR 2.76). Although the applied deworming frequency was not significantly associated with shedding Toxocara eggs, there was a trend towards no shedding in dogs under strict supervision that were dewormed 3-4 times a year. Most dog owners (68 %) recognized 'dog's health' as the main reason for deworming. Only 16 % of dogs were dewormed four times a year. It was concluded that the prevalence of Toxocara egg-shedding household dogs is almost unchanged over recent years and that the knowledge of owners is insufficient to expect sound decisions on routine deworming. [ABSTRACT FROM AUTHOR]

Aims The study aimed to evaluate the effects of probiotic Lactobacillus reuteri DSM 17938 strain supplementation in patients suffering from systemic nickel allergy syndrome, in terms of modulation of faecal LAB population linked to a reduction of GI and cutaneous symptoms and to an increase of patient's quality of life. Methods and Results A preliminary double-blind randomized placebo-controlled study was planned and a culture-independent method based on denaturing gradient gel electrophoresis (DGGE) analysis coupled to the 16S rRNA gene sequencing was applied to investigate on the dynamics of faecal LAB communities before and during a low-Ni diet, supplemented with the probiotic strain. Moreover, the severity and the frequency of GI and cutaneous reactions as well as patient's clinical condition perception (VAS scores) were estimated by statistical analysis. PCR- DGGE fingerprinting obtained using LAB-specific primers revealed significant shift in faecal community with an increase in biodiversity in patients supplemented with probiotic Lact. reuteri strain. In addition, GI reactions such as symptoms related to meals and type of stools significantly improved only in patients treated with Lact. reuteri, while severity and frequency of cutaneous symptoms (urticaria, itch and eczema) and recurrent abdominal pain ( RAP) as well as VAS scores statistically decreased in both groups. Conclusions Our preliminary findings suggest that probiotic Lact. reuteri could be a useful supplementation during a low-Ni diet of patients with SNAS, to increase LAB population diversity, which could contribute to restore the intestinal homoeostasis conditions. Significance and Impact of the Study To date, no information is available on probiotics application and on their effects, in terms of intestinal microbiota modulation, on patients suffering from SNAS. Therefore, the identification of dominant LAB community and the study of its shift during the probiotic supplementation could enhance the knowledge of the SNAS syndrome. [ABSTRACT FROM AUTHOR]

Background Following the first finding of Echinococcus multilocularis in Sweden in 2011, 2985 red foxes (Vulpes vulpes) were analysed by the segmental sedimentation and counting technique. This is a labour intensive method and requires handling of the whole carcass of the fox, resulting in a costly analysis. In an effort to reduce the cost of labour and sample handling, an alternative method has been developed. The method is sensitive and partially automated for detection of E. multilocularis in faecal samples. The method has been used in the Swedish E. multilocularis monitoring program for 2012-2013 on more than 2000 faecal samples. Methods We describe a new semi-automated magnetic capture probe DNA extraction method and real time hydrolysis probe polymerase chain reaction assay (MC-PCR) for the detection of E. multilocularis DNA in faecal samples from red fox. The diagnostic sensitivity was determined by validating the new method against the sedimentation and counting technique in fox samples collected in Switzerland where E. multilocularis is highly endemic. Results Of 177 foxes analysed by the sedimentation and counting technique, E. multilocularis was detected in 93 animals. Eighty-two (88%, 95% C.I 79.8-93.9) of these were positive in the MC-PCR. In foxes with more than 100 worms, the MC-PCR was positive in 44 out of 46 (95.7%) cases. The two MC-PCR negative samples originated from foxes with only immature E. multilocularis worms. In foxes with 100 worms or less, (n = 47), 38 (80.9%) were positive in the MC-PCR. The diagnostic specificity of the MC-PCR was evaluated using fox scats collected within the Swedish screening. Of 2158 samples analysed, two were positive. This implies that the specificity is at least 99.9% (C.I. =99.7 -100). Conclusions The MC-PCR proved to have a high sensitivity and a very high specificity. The test is partially automated but also possible to perform manually if desired. The test is well suited for nationwide E. multilocularis surveillance programs where sampling of fox scats is done to reduce the costs for sampling and where a test with a high sensitivity and a very high specificity is needed. [ABSTRACT FROM AUTHOR]

A previously reported sensitive PCR assay for the detection of Schistosoma mansoni DNA was updated and evaluated. Changes in the DNA extraction method, including the use of a worldwide available commercial kit and the inclusion of additional quality control measures, increased the robustness of the test, as confirmed by the analysis of 67 faecal samples from an endemic area in Brazil. The PCR assay is at hand as a proven, reliable diagnostic test for the control of schistosomiasis in specific settings.

Information on the occurrence, diversity and economic losses due to Eimeria infection on cattle farms is lacking in Western Iran. The principal aim of this study was to determine the prevalence and diversity of Eimeria species in cattle in Hamedan province, Western Iran. In a cross-sectional study performed from June 2010 to April 2013, 400 faecal samples were collected randomly from animals without clinical signs from different cattle farms of Hamedan province and examined for Eimeria species infection using parasitology methods. The overall infection rate of Eimeria species was 8.25%. Nine species of Eimeria were identified including: E. bovis (23.7%), E. zuernii (19.2%), E. canadensis (12.6%), E. ellipsodalis (11.4%), E. alabamensis (10.4%), E. pellita (9.1%), E. auburnensis (6.8%), E. cylindrica (4.6%) and E. bukidnonensis (2.3%). There were statistically significant differences with respect to Eimeria infection and age group (P < 0.0001, OR = 6), although no statistically significant relationships were found for sex (P = 0.35) or faecal consistency (P = 0.587). In conclusion, this study is the first to report the prevalence and diversity of Eimeria species in cattle in Hamedan province. Infection with pathogenic Eimeria spp. was asymptomatic in all animals; this is the reason for the transmission of infection by carriers in this region. Therefore, integrated strategies should be utilised to prevent and control Eimeria spp. infection on cattle farms. [ABSTRACT FROM AUTHOR]

The objective of this study was to evaluate the effect of correcting indigestible neutral detergent fibre (i NDF) for the loss of lignin in predictions of silage organic matter digestibility ( OMD). Twenty-five primary and regrowth grass and red clover silages with known in vivo OMD in sheep were used. Silage and faecal samples were analysed by different lignin assays: the Klason method, acid detergent lignin ( ADL) and permanganate lignin. The methods were evaluated by the Lucas test. The slopes in Lucas fits of primary and regrowth grass and red clover silages did not differ, and faecal recovery of ADL was not different from unity. The i NDF was recovered from 288-h in situ incubations in three dairy cows and analysed for ADL. Recovery of ADL in i NDF was 0·562 and 0·801 for grass and red clover silages. Silage concentration of i NDF performed better compared to the different lignin fractions in predicting OMD. Correcting individual samples for loss of ADL as well as using a general correction based on the Lucas fits of ADL in i NDF of grass and red clover silages lowered the prediction error of OMD, but despite losses of ADL in i NDF, the improvements in predictions of OMD were marginal. [ABSTRACT FROM AUTHOR]