{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,21]],"date-time":"2026-09-21T12:14:46Z","timestamp":1789992886117,"version":"4.0.1"},"reference-count":36,"publisher":"MDPI AG","issue":"18","license":[{"start":{"date-parts":[[2026,9,18]],"date-time":"2026-09-18T00:00:00Z","timestamp":1789689600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Outstanding Youth Scientific Research Project of Hunan","award":["23B0978"],"award-info":[{"award-number":["23B0978"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Plants"],"abstract":"<jats:p>Centromeres are essential for chromosome segregation, yet their repetitive nature makes them among the most difficult genomic regions to assemble and interpret. In polyploid plants, centromeres provide a unique record of chromosome evolution because centromeric repeats can be reshaped by polyploidization, subgenome differentiation and chromosomal rearrangement. Here, we combined low-coverage repeatome profiling, genome-wide mapping, fluorescence in situ hybridization (FISH), fiber-FISH and higher-order repeats (HORs) analysis to investigate centromere-associated repeats in Miscanthus sinensis (2n = 2x = 38). We identified MsSat1, a 137 bp satellite repeat representing approximately 2.1% of the genome, as a major centromere-associated satellite repeat. MsSat1 signals overlapped with the Saccharum officinarum centromeric retrotransposon probe and formed continuous tandem arrays on DNA fibers, supporting its association with centromeric domains. MsSat1-based clustering further recovered 13 related satellite variants, many of which showed strongly biased distribution between the A and B subgenomes. Among them, MsSat1-G displayed the most striking pattern, with strong B-subgenome enrichment and chromosome 7-specific localization. Detailed analysis revealed that MsSat1-G was embedded within an expanded MsSat1-rich domain on the fusion-derived chromosome 7, where it showed a more heterogeneous HORs architecture than the major MsSat1 array. These findings suggest that chromosome fusion was accompanied by local centromeric satellite amplification and repeat-architecture remodeling. Together, our study reveals that fusion-derived centromeres can preserve distinct satellite signatures and provides cytogenetic and genomic evidence that centromeric repeats record both subgenome differentiation and chromosome restructuring in M. sinensis.<\/jats:p>","DOI":"10.3390\/plants15182855","type":"journal-article","created":{"date-parts":[[2026,9,21]],"date-time":"2026-09-21T11:05:53Z","timestamp":1789988753000},"page":"2855","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Fusion-Derived Centromeres Reveal Satellite Repeat Remodeling in Miscanthus sinensis"],"prefix":"10.3390","volume":"15","author":[{"given":"Qi","family":"Yang","sequence":"first","affiliation":[{"name":"College of Bioengineering, Hunan Polytechnic of Environment and Biology, Hengyang 421005, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yu","family":"Zhang","sequence":"additional","affiliation":[{"name":"National Engineering Research Center for Sugarcane, Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture and Rural Affairs, Fujian Agriculture and Forestry University, Fuzhou 350002, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhuo","family":"Wang","sequence":"additional","affiliation":[{"name":"National Engineering Research Center for Sugarcane, Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture and Rural Affairs, Fujian Agriculture and Forestry University, Fuzhou 350002, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zetian","family":"Cui","sequence":"additional","affiliation":[{"name":"Guangxi Key Laboratory for Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Liangchang","family":"Zhang","sequence":"additional","affiliation":[{"name":"National Engineering Research Center for Sugarcane, Key Laboratory of Sugarcane Biology and Genetic Breeding, Ministry of Agriculture and Rural Affairs, Fujian Agriculture and Forestry University, Fuzhou 350002, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fengzhen","family":"Li","sequence":"additional","affiliation":[{"name":"College of Bioengineering, Hunan Polytechnic of Environment and Biology, Hengyang 421005, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zehuai","family":"Yu","sequence":"additional","affiliation":[{"name":"Guangxi Key Laboratory for Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,9,18]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"371","DOI":"10.1038\/s41576-025-00923-1","article-title":"A genomic and epigenomic view of human centromeres","volume":"27","author":"Jaggi","year":"2026","journal-title":"Nat. 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