One health system supporting surveillance during COVID-19 epidemic in Abruzzo region, southern Italy.

The Istituti Zooprofilattici Sperimentali (IZSs) are public health institutes dealing with the aetiology and pathogenesis of infectious diseases of domestic and wild animals. During Coronavirus Disease 2019 epidemic, the Italian Ministry of Health appointed the IZSs to carry out diagnostic tests for the detection of SARS-CoV-2 in human samples. In particular, the IZS of Abruzzo and Molise (IZS-Teramo) was involved in the diagnosis of SARS-CoV-2 through testing nasopharyngeal swabs by Real Time RT-PCR. Activities and infrastructures were reorganised to the new priorities, in a "One Health" framework, based on interdisciplinary, laboratory promptness, accreditation of the test for the detection of the RNA of SARS-CoV-2 in human samples, and management of confidentiality of sensitive data. The laboratory information system - SILAB - was implemented with a One Health module for managing data of human origin, with tools for the automatic registration of information improving the quality of the data. Moreover, the "National Reference Centre for Whole Genome Sequencing of microbial pathogens - database and bioinformatics analysis" - GENPAT - formally established at the IZS-Teramo, developed bioinformatics workflows and IT dashboard with ad hoc surveillance tools to support the metagenomics-based SARS-CoV-2 surveillance, providing molecular sequencing analysis to quickly intercept the variants circulating in the area. This manuscript describes the One Health system developed by adapting and integrating both SILAB and GENPAT tools for supporting surveillance during COVID-19 epidemic in the Abruzzo region, southern Italy. The developed dashboard permits the health authorities to observe the SARS-CoV-2 spread in the region, and by combining spatio-temporal information with metagenomics provides early evidence for the identification of emerging space-time clusters of variants at the municipality level. The implementation of the One Health module was designed to be easily modelled and adapted for the management of other diseases and future hypothetical events of pandemic nature.

"SILAB for Africa": An Innovative Information System Supporting the Veterinary African Laboratories.

Introduction: To support African veterinary laboratory services, the Istituto Zooprofilattico Sperimentale dell'Abruzzo e del Molise puts in place an operational system called "SILAB for Africa" (SILABFA); this is a web application used by a laboratory information management system to support laboratory diagnostic activities and to meet the needs of various African countries. SILABFA was designed to collect and manage all necessary information on samples, tests, and test results.Methods: The system involves the entry of sample data on arrival, the tracking of samples through the various sections of the laboratory, and the collection of test results. It automates the generation of test reports and monitors outbreaks through data interrogation functions and eliminates multiple registrations of the same data on paper records. SILABFA is currently installed in Namibia, Botswana, Zambia, Zimbabwe, Tanzania, Uganda, Kenya, Ethiopia, and Cameroon, and installation in Senegal and Ivory Coast is planned for the next few months. After some years of SILABFA usage, it was natural to want to utilize more and more data collected in a homogeneous and consistent way for epidemiological purposes and to cover informative debts toward ministries and other organizations.Conclusion: To improve the availability of good, detailed, and reliable data, as the epidemiological information, SILABFA has been linked to the local animal identification, registration, and traceability system and other relevant national information systems.

A geographical information system for the management of the aquaculture data in the Adriatic Sea - the Strengthening of Centres for Aquaculture Production and Safety surveillance in the Adriatic countries experience: Present capabilities, tools and functions.

The European Commission (EC) regulation no. 854/2004 requires a systematic monitoring of chemical and microbiological contaminants in live bivalve molluscs, live echinoderms, live tunicates and live marine gastropods for human consumption through surveillance plans to be implemented in all European Union (EU) countries.A consortium of five Adriatic countries was set up in the framework of the Instrument of Pre-accession Assistance Adriatic Cross-border Cooperation Programme (IPA Adriatic CBC) 2007- 2013 with the aim of collecting data and distribute information on harvesting and production in mollusc areas. A web-based geographical information system (GIS) application was developed to support the partners to manage data and to make these data available to final users, policy makers and to risk assessors. The GIS for the Strengthening of Centres for Aquaculture Production and Safety surveillance in the Adriatic countries (CAPS2) is divided into two levels, the national and the supranational one, and it distributes spatial and epidemiological information coming from various data acquisition and management sites. The great innovation is the possibility for each country to use online drawing, modifying and change of the geographic areas according to national surveillance needs. Currently it hosts data coming from about 230 production and relay areas with more than 29,478 laboratory tests performed on collected samples since August 2014. Data collected are used by each national competent authority to classify production or relay areas according to the EC regulation mentioned and to conduct risk assessment studies to evaluate the level of consumers' exposure to contaminants in the consumption of bivalve mollusc products.

Laboratory information management system: an example of international cooperation in Namibia.

The authors describe the project undertaken by the Istituto G. Caporale to provide a laboratory information management system (LIMS) to the Central Veterinary Laboratory (CVL) in Windhoek, Namibia. This robust laboratory management tool satisfies Namibia's information obligations under international quality standard ISO 17025:2005. The Laboratory Information Management System (LIMS) for Africa was designed to collect and manage all necessary information on samples, tests and test results. The system involves the entry of sample data on arrival, as required by Namibian sampling plans, the tracking of samples through the various sections of the CVL, the collection of test results, generation of test reports and monitoring of outbreaks through data interrogation functions, eliminating multiple registrations of the same data on paper records. It is a fundamental component of the Namibian veterinary information system.

The national information system for the notification of animal diseases in Italy.

This paper describes the national system for the notification and management of outbreaks of animal diseases in Italy (Sistema Informativo Nazionale Malattie Animali: SIMAN). The main objective of the system is to provide a tool for the management of epidemic emergencies and to fulfil the information obligations towards international organisations, such as the European Commission and World Organisation for Animal Health (Office International des Épizooties: OIE). SIMAN was thus designed to collect all relevant information on outbreaks of animal diseases and to provide a useful tool for the management of activities to be implemented in emergencies. SIMAN is able to collect and report information concerning suspected or confirmed animal outbreaks in a consistent way and allows veterinary services to enter data electronically, instead of using paperwork, within the framework of the process of e-government and dematerialisation of the administrative acts. Data are immediately accessible for local and national authorities. The system provides the relevant national authorities with information relative to the planning of control measures in case epidemic emergencies. SIMAN is part of the e-government process that involves all public administrations of the European Union (EU) and refers to the use of information and communication technologies for the digital processing of documents so as to simplify the system and to make administrative procedures on the Internet much easier to follow.

Prevalence of thermotolerant Campylobacter in broiler flocks and broiler carcasses in Italy.

In accordance with European Union regulations, from 5 February until 15 December 2008, sampling and analysis activities were conducted in Italy to assess the extent of contamination caused by thermotolerant Campylobacter in broiler chickens farmed nationwide. The survey involved 48 poultry slaughterhouses distributed across eleven regions of Italy, where the caeca and carcasses of 393 slaughter batches were sampled. A total of 284 batches (72.3%) gave positive results for Campylobacter spp. as follows: 52.1% were contaminated by C. jejuni, 55.6% by C. coli and 1.1% by C. lari. C. jejuni and C. coli were isolated together in 37 batches (13% of positive results). Campylobacter spp. was isolated only from the caeca in 251 slaughter batches (63.9%) including caecal isolates of C. jejuni (48.2%), C. coli (50.6%), and C. lari (1.2%). Carcasses from 182 batches (46.3%) were contaminated by C. jejuni in 40.7% of cases, C. coli in 57.7% and the absence of C. lari from all batches examined. The contamination level observed in the carcasses ranged between 10 and 1.6 × 10(7) cfu/g.

A Web-based geographic information system for the management of animal disease epidemics.

Outbreaks of highly contagious animal diseases severely affect the global economy, seriously disrupting domestic economies and the international trade of livestock and animal commodities. Italy has a series of contingency plans for the management of outbreaks of all major animal diseases. Disease control measures are mainly based on a traditional approach and eradication policies range from culling and stamping-out to movement restrictions of animals and commodities. Given the marked terrain differences in Italy, the uneven distribution of farms and animal population, the presence of potential disease hotspots constituted by high-density clusters of farms and animals, etc., maps have always been a common working tool for the Italian veterinary services to identify location of premises, define the perimeter of the infected and control zones, etc. The Italian Ministry of Health has requested an integrated system for the management of veterinary emergencies. One of the main features of the system is an interactive, customisable and user-friendly Web-based geographic information system (GIS). The Istituto Zooprofilattico Sperimentale dell'Abruzzo e del Molise 'G. Caporale' has been entrusted with the development of a system that provides different administrative levels with a spatial decisional and management tool to assist them in case of epidemics. A Web-based GIS has been designed to integrate epidemiological information with the corresponding geographic component. The system works on a disease basis (disease-specific maps) for fifteen of the most contagious diseases and is accessible through the Web, allowing for real-time recording of new outbreaks.