In:
PeerJ, PeerJ, Vol. 8 ( 2020-06-05), p. e9114-
Abstract:
The sweet cherry ( Prunus avium ) is one of the most economically important fruit species in the world. However, there is a limited amount of genetic information available for this species, which hinders breeding efforts at a molecular level. We were able to describe a high-quality reference genome assembly and annotation of the diploid sweet cherry (2 n = 2 x = 16) cv. Tieton using linked-read sequencing technology. We generated over 750 million clean reads, representing 112.63 GB of raw sequencing data. The Supernova assembler produced a more highly-ordered and continuous genome sequence than the current P. avium draft genome, with a contig N50 of 63.65 KB and a scaffold N50 of 2.48 MB. The final scaffold assembly was 280.33 MB in length, representing 82.12% of the estimated Tieton genome. Eight chromosome-scale pseudomolecules were constructed, completing a 214 MB sequence of the final scaffold assembly. De novo, homology-based, and RNA-seq methods were used together to predict 30,975 protein-coding loci. 98.39% of core eukaryotic genes and 97.43% of single copy orthologues were identified in the embryo plant, indicating the completeness of the assembly. Linked-read sequencing technology was effective in constructing a high-quality reference genome of the sweet cherry, which will benefit the molecular breeding and cultivar identification in this species.
Type of Medium:
Online Resource
ISSN:
2167-8359
DOI:
10.7717/peerj.9114/fig-1
DOI:
10.7717/peerj.9114/fig-2
DOI:
10.7717/peerj.9114/fig-3
DOI:
10.7717/peerj.9114/table-1
DOI:
10.7717/peerj.9114/table-2
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10.7717/peerj.9114/table-3
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10.7717/peerj.9114/table-4
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10.7717/peerj.9114/table-5
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10.7717/peerj.9114/table-6
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10.7717/peerj.9114/table-7
DOI:
10.7717/peerj.9114/supp-1
DOI:
10.7717/peerj.9114/supp-2
DOI:
10.7717/peerj.9114/supp-3
DOI:
10.7717/peerj.9114/supp-4
DOI:
10.7717/peerj.9114/supp-5
DOI:
10.7717/peerj.9114/supp-6
DOI:
10.7717/peerj.9114/supp-7
DOI:
10.7717/peerj.9114/supp-8
DOI:
10.7717/peerj.9114/supp-9
Language:
English
Publisher:
PeerJ
Publication Date:
2020
detail.hit.zdb_id:
2703241-3
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