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Adherence of <jats:italic>C. glabrata<\/jats:italic> to host cells is mediated by adhesin\u2010like proteins (ALPs), about half of which are encoded in the subtelomeres. We performed a de novo assembly of two <jats:italic>C. glabrata<\/jats:italic> strains, BG2 and BG3993, using long single\u2010molecule real\u2010time (SMRT) reads, and constructed high\u2010quality telomere\u2010to\u2010telomere assemblies of all 13 chromosomes to assess differences between <jats:italic>C. glabrata<\/jats:italic> strains. We documented variation between strains, and in agreement with earlier studies, found high (~0.5%\u20131%) frequencies of SNVs across the genome, including within subtelomeric regions. We documented changes in ALP gene structure and complement: there are large length differences in ALP genes in different strains, resulting from copy number variation in tandem repeats. We compared strains to characterize chromosome rearrangement events including within the poorly characterized subtelomeric regions. We show that rearrangements within the subtelomere regions all affect ALP\u2010encoding genes, and 14\/16 involve just the most terminal ALP gene. We present evidence that these rearrangements are mediated by break\u2010induced replication. This study highlights the constrained nature of subtelomeric changes impacting ALP gene complement and subtelomere structure.<\/jats:p>","DOI":"10.1111\/mmi.14707","type":"journal-article","created":{"date-parts":[[2021,3,13]],"date-time":"2021-03-13T16:50:10Z","timestamp":1615654210000},"page":"260-276","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":33,"title":["Cell wall protein variation, break\u2010induced replication, and subtelomere dynamics in <i>Candida glabrata<\/i>"],"prefix":"10.1111","volume":"116","author":[{"given":"Zhuwei","family":"Xu","sequence":"first","affiliation":[{"name":"Department of Molecular Biology and Genetics Johns Hopkins University School of Medicine Baltimore MD USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Brian","family":"Green","sequence":"additional","affiliation":[{"name":"Department of Molecular Biology and Genetics Johns Hopkins University School of Medicine 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