{"@context":{"aiiso":"http:\/\/purl.org\/vocab\/aiiso\/schema#","arm":"https:\/\/ld4p.github.io\/arm\/core\/ontology\/0.1\/","bf":"http:\/\/id.loc.gov\/ontologies\/bibframe\/","bib":"https:\/\/bibliotek-o.org\/","bibo":"http:\/\/purl.org\/ontology\/bibo\/","cito":"http:\/\/purl.org\/spar\/cito\/","classSchemes":"http:\/\/id.loc.gov\/vocabulary\/classSchemes","dbo":"http:\/\/dbpedia.org\/ontology\/","dce":"http:\/\/purl.org\/dc\/elements\/1.1\/","dcmitype":"http:\/\/dublincore.org\/documents\/2000\/07\/11\/dcmi-type-vocabulary\/#","dcterms":"http:\/\/purl.org\/dc\/terms\/","ebucore":"http:\/\/www.ebu.ch\/metadata\/ontologies\/ebucore\/ebucore","edm":"http:\/\/www.europeana.eu\/schemas\/edm\/","foaf":"http:\/\/xmlns.com\/foaf\/spec\/#","frap":"http:\/\/purl.org\/cerif\/frapo","identifiers":"http:\/\/id.loc.gov\/vocabulary\/identifiers","ids":"http:\/\/id.loc.gov\/vocabulary\/identifiers\/","opaque":"http:\/\/opaquenamespace.org\/","pcdm":"http:\/\/pcdm.org\/models#","phaidra":"https:\/\/phaidra.org\/ontology\/","rdam":"http:\/\/rdaregistry.info\/Elements\/m\/","rdau":"http:\/\/rdaregistry.info\/Elements\/u\/","rdax":"http:\/\/rdaregistry.info\/Elements\/x\/","rdf":"http:\/\/www.w3.org\/1999\/02\/22-rdf-syntax-ns#","rdfs":"https:\/\/www.w3.org\/TR\/rdf-schema\/","relators":"http:\/\/id.loc.gov\/vocabulary\/relators","role":{"@context":{"aut":{"@container":"@list","@id":"http:\/\/id.loc.gov\/vocabulary\/relators\/aut"}}},"schema":"http:\/\/schema.org\/","skos":"http:\/\/www.w3.org\/2004\/02\/skos\/core#","skosxl":"http:\/\/www.w3.org\/2008\/05\/skos-xl"},"@id":"https:\/\/phaidra.vetmeduni.ac.at\/o:4007","bf:note":[{"@type":"bf:Summary","skos:prefLabel":[{"@language":"eng","@value":"The zoonotic pathogen S. Infantis is of emerging importance, making detection in poultry critical. Phenotypic changes, which are significant for standardized control programs via EN\/ISO 6579-1:2017, could lead to pathogens remaining undetected, increasing the risk of food-borne outbreaks. This study investigates an S. Infantis strain with both normal growth (NCP) and atypical HAS-negative colony variant (ACV) from an Austrian broiler farm. NCP and ACV underwent comprehensive analyses, including stability tests, electron microscopy, whole-genome sequencing, transcriptomics, and proteomics. Our findings demonstrate a stable atypical colony variant exhibiting acquired resistance against cefoxitin in ACV. Genomic analysis identified 9 single nucleotide polymorphisms (SNPs) and two deletions, affecting genes involved in porphyrin and sulfur metabolism. Key factors were a mutation disrupting cysG, which is essential for siroheme biosynthesis and a vital cofactor in sulfur metabolism, and a stop codon in menD (2-oxoglutarate decarboxylase), crucial for small colony variant appearance. Consequently, we hypothesize that these mutations lead to a deficiency in siroheme, as well as anaerobic sulfur respiration altogether resulting in the HAS-negative phenotype. Functional network analysis highlighted compensatory upregulation of alternative metabolic pathways, including nitrate metabolism, propanoate metabolism and mixed-acid fermentation, which may aid ACV's persistence and adaptation under anaerobic conditions. Reduced flagellin expression suggests a mechanism for immune evasion. These genetic and metabolic adaptations likely respond to environmental stressors, such as oxidative stress from disinfectants or antimicrobial pressure, leading to the emergence of the HAS-negative phenotype. Consequently, this study provides insights into the genetic and biochemical adaptations of an atypical S. Infantis variant."}]}],"bf:provisionActivity":[{"@type":"bf:Publication","bf:agent":[{"@type":"schema:Organization","schema:name":[{"@value":"Elsevier"}]}]}],"dce:rights":[{"@language":"eng","@value":"© 2025 The Authors"}],"dce:subject":[{"@type":"skos:Concept","skos:prefLabel":[{"@language":"eng","@value":"Enterica Serovar Typhimurium"}]},{"@type":"skos:Concept","skos:prefLabel":[{"@language":"eng","@value":"Small-Colony Variants"}]},{"@type":"skos:Concept","skos:prefLabel":[{"@language":"eng","@value":"Hydrogen-Sulfide"}]},{"@type":"skos:Concept","skos:prefLabel":[{"@language":"eng","@value":"Electron-Acceptor"}]},{"@type":"skos:Concept","skos:prefLabel":[{"@language":"eng","@value":"Ethanolamine"}]},{"@type":"skos:Concept","skos:prefLabel":[{"@language":"eng","@value":"Resistance"}]},{"@type":"skos:Concept","skos:prefLabel":[{"@language":"eng","@value":"Emergence"}]},{"@type":"skos:Concept","skos:prefLabel":[{"@language":"eng","@value":"Men"}]}],"dce:title":[{"@type":"bf:Title","bf:mainTitle":[{"@language":"eng","@value":"Comprehensive phenotyping combined with multi-omics of<i> Salmonella<\/i> Infantis and its H2S negative variant- Resolving adaption mechanisms to environmental changes"}]}],"dcterms:accessRights":[{"@type":"skos:Concept","skos:exactMatch":["https:\/\/pid.phaidra.org\/vocabulary\/QW5R-NG4J"],"skos:prefLabel":[{"@language":"eng","@value":"open access"}]}],"dcterms:issued":["2025"],"dcterms:language":["eng"],"dcterms:type":[{"@type":"skos:Concept","skos:exactMatch":["https:\/\/pid.phaidra.org\/vocabulary\/69ZZ-2KGX"],"skos:prefLabel":[{"@language":"eng","@value":"Text"},{"@language":"deu","@value":"Text"},{"@language":"ita","@value":"Testo"}]}],"ebucore:filename":["F_108284.pdf"],"ebucore:hasMimeType":["application\/pdf"],"edm:hasType":[{"@type":"skos:Concept","skos:exactMatch":["https:\/\/pid.phaidra.org\/vocabulary\/VKA6-9XTY"],"skos:prefLabel":[{"@language":"eng","@value":"journal article"},{"@language":"deu","@value":"Wissenschaftlicher Artikel"},{"@language":"ita","@value":"Articolo di rivista"}]}],"edm:rights":["http:\/\/creativecommons.org\/licenses\/by\/4.0\/"],"oaire:version":[{"@type":"skos:Concept","skos:exactMatch":["https:\/\/pid.phaidra.org\/vocabulary\/PMR8-3C8D"],"skos:prefLabel":[{"@language":"eng","@value":"version of record (published version)"}]}],"rdam:P30004":[{"@type":"ids:doi","@value":"10.1016\/j.fm.2025.104744"}],"rdau:P60193":[{"@type":"schema:CreativeWork","bibo:volume":["129"],"dce:title":[{"@type":"bf:Title","bf:mainTitle":[{"@language":"eng","@value":"Food Microbiology"}]}],"dcterms:issued":["2025"],"ids:issn":["1095-9998"]}],"role:aut":[{"@type":"schema:Person","schema:affiliation":[{"@type":"schema:Organization","schema:name":[{"@value":"University of Veterinary Medicine Vienna"}],"skos:exactMatch":["https:\/\/ror.org\/01w6qp003"]}],"schema:familyName":[{"@value":"Drauch"}],"schema:givenName":[{"@value":"Victoria"}],"skos:exactMatch":[{"@type":"ids:orcid","@value":"0000-0003-3891-1208"}]},{"@type":"schema:Person","schema:affiliation":[{"@type":"schema:Organization","schema:name":[{"@value":"University of Veterinary Medicine Vienna"}],"skos:exactMatch":["https:\/\/ror.org\/01w6qp003"]}],"schema:familyName":[{"@value":"Palmieri"}],"schema:givenName":[{"@value":"Nicola"}]},{"@type":"schema:Person","schema:affiliation":[{"@type":"schema:Organization","schema:name":[{"@value":"University of Veterinary Medicine Vienna"}],"skos:exactMatch":["https:\/\/ror.org\/01w6qp003"]}],"schema:familyName":[{"@value":"Spergser"}],"schema:givenName":[{"@value":"Joachim"}],"skos:exactMatch":[{"@type":"ids:orcid","@value":"0000-0002-0164-0179"}]},{"@type":"schema:Person","schema:affiliation":[{"@type":"schema:Organization","schema:name":[{"@value":"University of Veterinary Medicine Vienna"}],"skos:exactMatch":["https:\/\/ror.org\/01w6qp003"]}],"schema:familyName":[{"@value":"Hummel"}],"schema:givenName":[{"@value":"Karin"}],"skos:exactMatch":[{"@type":"ids:orcid","@value":"0000-0001-5833-6832"}]},{"@type":"schema:Person","schema:familyName":[{"@value":"Brandstetter"}],"schema:givenName":[{"@value":"Marlene"}]},{"@type":"schema:Person","schema:familyName":[{"@value":"Kornschober"}],"schema:givenName":[{"@value":"Christian"}]},{"@type":"schema:Person","schema:affiliation":[{"@type":"schema:Organization","schema:name":[{"@value":"University of Veterinary Medicine Vienna"}],"skos:exactMatch":["https:\/\/ror.org\/01w6qp003"]}],"schema:familyName":[{"@value":"Hess"}],"schema:givenName":[{"@value":"Michael"}],"skos:exactMatch":[{"@type":"ids:orcid","@value":"0000-0002-6991-0120"}]}],"schema:numberOfPages":["12"]}