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Etherington, Graham J., Wu, Pei Shang, Oliferenko, Snezhana, Uhlmann, Frank and Nieduszynski, Conrad A. 
ORCID: https://orcid.org/0000-0003-2001-076X
(2024)
Telomere-to-telomere Schizosaccharomyces japonicus genome assembly reveals hitherto unknown genome features.
Yeast, 41 (3).
pp. 73-86.
ISSN 0749-503X
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Abstract
Schizosaccharomyces japonicus belongs to the single-genus class Schizosaccharomycetes, otherwise known as “fission yeasts.” As part of a composite model system with its widely studied S. pombe sister species, S. japonicus has provided critical insights into the workings and the evolution of cell biological mechanisms. Furthermore, its divergent biology makes S. japonicus a valuable model organism in its own right. However, the currently available genome assembly contains gaps and has been unable to resolve centromeres and other repeat-rich chromosomal regions. Here we present a telomere-to-telomere long-read genome assembly of the S. japonicus genome. This includes the three megabase-length chromosomes, with centromeres hundreds of kilobases long, rich in 5S ribosomal RNA genes, transfer RNA genes, long terminal repeats, and short repeats. We identify a gene-sparse region on chromosome 2 that resembles a 331 kb centromeric duplication. We revise the genome size of S. japonicus to at least 16.6 Mb and possibly up to 18.12 Mb, at least 30% larger than previous estimates. Our whole genome assembly will support the growing S. japonicus research community and facilitate research in new directions, including centromere and DNA repeat evolution, and yeast comparative genomics.
| Item Type: | Article |
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| Additional Information: | Data Availability Statement: All new data for the assembly can be located under ENA Project PRJEB63404. Individual chromosomes and the mitochondrial genome are accessions as OY101111-OY101114, and the unplaced contigs can be found under accession number CATPIX010000000. Funding Information: GE and CN acknowledge funding from the Biotechnology and Biological Sciences Research Council (BBSRC), part of UK Research and Innovation, Core Capability Grant BB/CCG1720/1. This research was supported in part by the NBI Research Computing through the use of the High-Performance Computing system and Isilon storage. Work in SO lab is supported by the Wellcome Trust Investigator Award in Science (220790/Z/20/Z) and BBSRC (BB/T000481/1) to Snezhana Oliferenko. Work in the FU lab is supported by a Wellcome Trust Investigator Award (220244/Z/20/Z) and The Francis Crick Institute, which receives its core funding from Cancer Research UK, the UK Medical Research Council, and the Wellcome Trust (cc2137). |
| Uncontrolled Keywords: | centromere,fission yeast,rdna,schizosaccharomyces japonicus,telomere,trna,biotechnology,bioengineering,biochemistry,applied microbiology and biotechnology,genetics ,/dk/atira/pure/subjectarea/asjc/1300/1305 |
| Faculty \ School: | Faculty of Science > School of Biological Sciences |
| Related URLs: | |
| Depositing User: | LivePure Connector |
| Date Deposited: | 25 Oct 2024 09:30 |
| Last Modified: | 13 Nov 2024 00:53 |
| URI: | https://ueaeprints.uea.ac.uk/id/eprint/97196 |
| DOI: | 10.1002/yea.3912 |
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