Telomere-to-telomere genome assembly of Phaeodactylum tricornutum .

Autor:	Giguere DJ; Department of Biochemistry, Schulich School of Medicine and Dentistry, Western University, London, Ontario, Canada., Bahcheli AT; Department of Biochemistry, Schulich School of Medicine and Dentistry, Western University, London, Ontario, Canada., Slattery SS; Department of Biochemistry, Schulich School of Medicine and Dentistry, Western University, London, Ontario, Canada., Patel RR; Department of Biochemistry, Schulich School of Medicine and Dentistry, Western University, London, Ontario, Canada., Browne TS; Department of Biochemistry, Schulich School of Medicine and Dentistry, Western University, London, Ontario, Canada., Flatley M; Suncor Energy, Sarnia, Ontario, Canada., Karas BJ; Department of Biochemistry, Schulich School of Medicine and Dentistry, Western University, London, Ontario, Canada., Edgell DR; Department of Biochemistry, Schulich School of Medicine and Dentistry, Western University, London, Ontario, Canada., Gloor GB; Department of Biochemistry, Schulich School of Medicine and Dentistry, Western University, London, Ontario, Canada.
Jazyk:	angličtina
Zdroj:	PeerJ [PeerJ] 2022 Jul 05; Vol. 10, pp. e13607. Date of Electronic Publication: 2022 Jul 05 (Print Publication: 2022).
DOI:	10.7717/peerj.13607
Abstrakt:	Phaeodactylum tricornutum is a marine diatom with a growing genetic toolbox available and is being used in many synthetic biology applications. While most of the genome has been assembled, the currently available genome assembly is not a completed telomere-to-telomere assembly. Here, we used Oxford Nanopore long reads to build a telomere-to-telomere genome for Phaeodactylum tricornutum . We developed a graph-based approach to extract all unique telomeres, and used this information to manually correct assembly errors. In total, we found 25 nuclear chromosomes that comprise all previously assembled fragments, in addition to the chloroplast and mitochondrial genomes. We found that chromosome 19 has filtered long-read coverage and a quality estimate that suggests significantly less haplotype sequence variation than the other chromosomes. This work improves upon the previous genome assembly and provides new opportunities for genetic engineering of this species, including creating designer synthetic chromosomes. Competing Interests: Martin Flatley is an employee of Suncor Energy. (©2022 Giguere et al.)
Databáze:	MEDLINE
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