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Infecting about half of all arthropod species, Wolbachia manipulate their hosts in various ways, including cytoplasmic incompatibility. Here, we investigated Wolbachia diversity in Bactrocera and Zeugodacus, two prevalent tephritid fruit fly genera, using molecular methods. Wolbachia was only detected in Zeugodacus apicalis (de Meijere) (Diptera: Tephritidae) and not in the other 7 studied species. This newly discovered strain, named wZap, belongs to supergroup B with a 1.3\u2005Mb genome containing 1,248 genes. Phylogenetic analysis of its cytoplasmic incompatibility factor genes cifA and cifB revealed their placement within the Type I clade. Given the presence of cif genes in the wZap genome, further research into their roles in fruit flies could be crucial for developing pest control strategies that exploit CI mechanisms.<\/jats:p>","DOI":"10.1093\/jee\/toaf054","type":"journal-article","created":{"date-parts":[[2025,3,14]],"date-time":"2025-03-14T09:59:41Z","timestamp":1741946381000},"page":"895-906","source":"Crossref","is-referenced-by-count":1,"title":["Low <i>Wolbachia<\/i> incidence in <i>Bactrocera<\/i> and <i>Zeugodacus<\/i> species from Thailand and genome analysis of <i>Wolbachia<\/i> associated with <i>Zeugodacus apicalis<\/i>"],"prefix":"10.1093","volume":"118","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-4610-4206","authenticated-orcid":false,"given":"Matsapume","family":"Detcharoen","sequence":"first","affiliation":[{"name":"Division of Biological Science, Faculty of Science, Prince of Songkla University , Songkhla","place":["Thailand"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4052-6328","authenticated-orcid":false,"given":"Areeruk","family":"Nilsai","sequence":"additional","affiliation":[{"name":"Department of Biology, Faculty of Science and Digital Innovation, Thaksin University , Phatthalung ,","place":["Thailand"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1074-7282","authenticated-orcid":false,"given":"Narit","family":"Thaochan","sequence":"additional","affiliation":[{"name":"Agricultural Innovation and Management Division, Faculty of Natural Resources, Prince of Songkla University , Songkhla ,","place":["Thailand"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cholakan","family":"Nuansuwon","sequence":"additional","affiliation":[{"name":"Thepha District Agricultural Extension Office , Songkhla ,","place":["Thailand"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2025,3,14]]},"reference":[{"key":"2025042713474579700_CIT0001","doi-asserted-by":"publisher","first-page":"W7","DOI":"10.1093\/nar\/gkq291","article-title":"TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations","volume":"38","author":"Abascal","year":"2010","journal-title":"Nucleic Acids Res"},{"key":"2025042713474579700_CIT0002","doi-asserted-by":"publisher","first-page":"546","DOI":"10.1111\/j.1439-0418.2011.01614.x","article-title":"Transinfection of the olive fruit fly Bactrocera oleae with Wolbachia: towards a symbiont-based population control strategy","volume":"135","author":"Apostolaki","year":"2011","journal-title":"J. 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