Biomedical subjects

Jacek Sroka

Publications and source records attributed to Jacek Sroka.

5 recordsLinked to original sources

PubMed2006

XQTav: an XQuery processor for Taverna environment.

UNLABELLED: Taverna workbench is an environment for construction, visualization and execution of bioinformatic workflows that integrate specialized tools available through the internet. It is gaining popularity fast, because of supporting the most important bioinformatic services and its simple, yet robust graphical notation. Here we present XQTav-an extension of Taverna that provides full integration with XQuery (the query language for XML) engine. XQTav allows execution of XQuery scripts in Taverna workflow diagrams. All existing Taverna processors can be accessed in the XQuery scripts. This provides an alternative way of specifying subworkflows in Taverna and is useful when one deals with query-like algorithms (e.g. filters and inner joins). Moreover, XQtav may be used to automatically generate an XQuery script that is equivalent to Taverna's workflow. This constitutes another way of creating and enacting bioinformatic workflows: overall structure of a diagram is drawn in Taverna environment, XQuery code is generated and possibly adjusted by hand. It can be executed by XQuery engines or incorporated into other software environments. AVAILABILITY: XQtav is an open source software. It may be downloaded from http://xqtav.sourceforge.net/. The page also contains various tutorials and examples, including the one described in this report.

Algorithms↗

PubMed2006

Occurrence of Toxoplasma gondii in water from wells located on farms.

Among various species of parasitic protozoans which may contaminate drinking water, Toxoplasma gondii is of a special importance due to the high incidence of infections with this parasite noted in animals and humans. The objective of this study was to determine the frequency of occurrence of T. gondii in drinking water on farms in the area of the Lublin province (eastern Poland) with respect to health risk among the inhabitants, and to assess the role of water in the transmission of Toxoplasma infections in the rural environment. Studies were conducted on 87 farms located in the Lublin province, 14 of which were classified as possessing a good hygienic state, and 73 as possessing a poor hygienic state. A total number of 114 drinking water samples were taken, 80 samples from shallow household wells with a windlass, 16 from deep wells with a pump, and 18 from the water supply system. In microscopic and PCR examinations of 114 water samples, T. gondii was found in 15 (13.2%) and 31 (27.2%) of samples, respectively. The presence of T. gondii DNA detected by PCR test was found significantly more frequently in water samples from the shallow windlass-operated wells than in those from deep wells (p < 0.05) and water supply system (p < 0.01). Water samples collected from shallow wells located on farms of poor hygienic state contained significantly more frequently DNA of T. gondii than samples from shallow wells located on farms of good hygienic state (43.1% vs. 13.3%, p < 0.05). In 26.3% of water samples, oocysts of other protozoans were found belonging to Isospora, Eimeria, and Cryptosporidium. Serologic examinations for the presence of anti-Toxoplasma antibodies conducted among 99 inhabitants of the farms where household wells were used showed 64.6% of seropositive results in IgG class antibodies and 1.0% in IgM class antibodies. Clinical cases of toxoplasmosis were also noted. In the total population examined, a positive correlation was observed between the consumption of unboiled well water and the presence of antibodies against T. gondii (p < 0.05), this correlation being especially strong on farms of poor hygienic state enclosing shallow wells (p < 0.001). In conclusion, the recorded presence of T. gondii in well water provides an evidence of the potential risk of waterborne infection for humans and animals. Therefore, it seems necessary to implement prophylactic actions on the endangered farms.

Animals↗

PubMed2003

Ixodes ricinus as a potential vector of Toxoplasma gondii.

The presence of Toxoplasma gondii DNA was detected by polymerase chain reaction (PCR) test in 2 out of 92 Ixodes ricinus ticks (2.8%) collected in the woodlands of eastern Poland. This suggests that ticks of this species may be involved in the spread of toxoplasmosis under natural conditions.

Animals↗

PubMed2003

Toxoplasmosis in rabbits confirmed by strain isolation: a potential risk of infection among agricultural workers.

The presence of anti-Toxoplasma gondii IgG antibodies in a high titer of 1:8,000 was found in 2 out of 9 examined rabbits (22.2%), kept on a farm where cases of human toxoplasmosis were noted. A virulent Toxoplasma gondii strain was isolated in mice from the brain of a seropositive rabbit that showed clinical signs of disease: apathy, weight loss, skin lesions. The presence of T. gondii DNA in the peritoneal exudate of mice inoculated with the brain suspension of the dissected rabbit was confirmed by the positive results of PCR test. No toxoplasmas were found in mice inoculated with suspensions of other organs of the examined rabbit (liver, spleen, kidneys, lungs, heart, skeletal muscles). In the sections of the rabbit's brain the typical cysts of Toxoplasma gondii were found, filled with bradyzoites. On the basis of strain isolation and microscopic findings, toxoplasmosis of the central nervous system was diagnosed in the rabbit. The results of this study suggest that rabbits should be considered as a potential source of Toxoplasma infection among agricultural workers.

Agriculture↗

PubMed2003

[The prevalence of anti-Toxoplasma gondii antibodies among abattoir workers in Lublin].

Abattoir workers are occupationally exposed to Toxoplasma gondii by the contact with raw meat. One hundred and seven abattoir workers from the Meat Factory in Lublin were examined for the presence of anti-Toxoplasma antibodies. Sixty-one blood donors were also tested as the reference group. Sera from workers and referents were tested by direct agglutination with 2-mercaptoethanol (DA-2ME), and also by ELFA IgG and ELFA IgM tests (Vidas Toxo IgM, Vidas Toxo IgG, bioMerieux, France). In the workers group, out of 107 tested sera, 70 were found positive (65.4%). The highest percentage of seropositive results was found in the Cured Meat Division--76.2%. In the Meat Production Division 66.6% of seropositive results were found, and in the Slaughter Division--46.1%. Three persons with the presence of IgM antibodies were found in the Cured Meat Division. In the reference group, 34 out of 61 sera (55.7%) were positive. The difference in seropositivity between Cured Meat Division workers and reference group was statistically significant (p < 0.05). The high percentage of seropositive reactions among the workers of Cured Meat Division and the presence of persons in early stage of invasion suggest an increased risk of exposure to T. gondii in this section.

Abattoirs↗