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The bacteriome profiles of each matrix as well as of negative controls (NCs) were examined using 16S rRNA amplicon sequencing.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>Bacteriome profiles of cystic fluids differed from NCs in 79% of cases. The number of distinct amplicon sequence variants and Shannon index detected in cystic fluids and cryopulverized teeth were significantly lower than in paired supragingival plaque samples. Gram\u2010negative genera and anaerobic genera were more abundant in cystic fluids than in paired cryopulverized teeth or their supragingival plaques. The relative abundances of the genera <jats:italic>Prevotella_7\/Prevotella<\/jats:italic>, <jats:italic>Fusobacterium<\/jats:italic> and <jats:italic>Porphyromonas<\/jats:italic> were higher in cystic fluids than in paired cryopulverized teeth and NCs; their relative abundances dominated (&gt;20%) in individual cystic fluids. Also, DNA from the genus <jats:italic>Fretibacterium<\/jats:italic> was significantly more commonly found in cryopulverized teeth and cystic fluids than in supragingival plaque samples. The relative abundances of this gram\u2010negative bacterial genera in cryopulverized teeth differed from NCs; the difference from cystic fluids was borderline insignificant.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusions<\/jats:title><jats:p>Although the alpha\u2010diversity in the cystic fluids is much lower compared to supragingival plaques, most cystic fluids are not sterile. DNA from specific anaerobic gram\u2010negative bacterial genera dominated the fluids from AP\u2010related RCs.<\/jats:p><\/jats:sec>","DOI":"10.1111\/iej.14220","type":"journal-article","created":{"date-parts":[[2025,3,11]],"date-time":"2025-03-11T15:47:44Z","timestamp":1741708064000},"page":"902-915","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":7,"title":["Bacterial genera in the fluids from apical periodontitis\u2010related radicular cysts: An observational study"],"prefix":"10.1111","volume":"58","author":[{"given":"David","family":"Szaraz","sequence":"first","affiliation":[{"name":"Clinic of Maxillofacial Surgery University Hospital Brno  Brno Czech Republic"},{"name":"Clinic of Maxillofacial Surgery, Faculty of Medicine Masaryk University  Brno Czech Republic"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jan","family":"Bohm","sequence":"additional","affiliation":[{"name":"RECETOX, Faculty of Science Masaryk University  Brno Czech Republic"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sabina","family":"Cerulova","sequence":"additional","affiliation":[{"name":"RECETOX, Faculty of Science Masaryk University  Brno Czech Republic"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lenka","family":"Bodokyova","sequence":"additional","affiliation":[{"name":"RECETOX, Faculty of Science Masaryk University  Brno Czech Republic"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zdenek","family":"Danek","sequence":"additional","affiliation":[{"name":"Clinic of Maxillofacial Surgery University Hospital Brno  Brno Czech Republic"},{"name":"Clinic of Maxillofacial Surgery, Faculty of Medicine Masaryk University  Brno Czech Republic"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ctirad","family":"Machacek","sequence":"additional","affiliation":[{"name":"Department of Pathology University Hospital Brno  Brno Czech Republic"},{"name":"Department of Pathology, Faculty of Medicine Masaryk University  Brno Czech Republic"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0953-3615","authenticated-orcid":false,"given":"Petra","family":"Borilova Linhartova","sequence":"additional","affiliation":[{"name":"Clinic of Maxillofacial Surgery University Hospital Brno  Brno Czech Republic"},{"name":"RECETOX, Faculty of Science Masaryk University  Brno Czech Republic"},{"name":"Clinic of Stomatology, Faculty of Medicine Masaryk University  Brno Czech Republic"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2025,3,9]]},"reference":[{"key":"e_1_2_13_2_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0255485"},{"key":"e_1_2_13_3_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.joen.2008.12.022"},{"key":"e_1_2_13_4_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.joen.2015.03.008"},{"key":"e_1_2_13_5_1","unstructured":"Blighe K.&Lun A.(2021)PCAtools: PCAtools: everything principal components analysis. 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