Overview
Genome Size
239.34 Mb
Date performed
2021
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Publication
Abstract
Background: Peach (Prunus persica L.) is a widely cultivated deciduous fruit tree in the Rosaceae family. The release of the peach genome has significantly promoted gene mapping progress. However, existing peach genomes all contain multiple gaps, which may lead to inaccurate gene annotation or gene mapping.
Results: A gap-free genome of 'Zhaoshouhong' (ZSH) peach, a pillar type with double flowers, was assembled using Nanopore ultra-long and Hi-C reads, with a total size of 239.34 Mb and contig N50 of 29.67 Mb. Mitochondrial and chloroplast genomes were also assembled. Repeat elements, telomeric satellites, candidate centromeres, and 24,901 protein-coding genes (23,253 functionally annotated) were identified, with high assembly quality confirmed by BUSCO, LTR assembly index, etc. For branch angle, structural variations in PpTAC1 (with an 11 bp deletion in the promoter and a 4422 bp insertion in the exon) were associated with the pillar type. For single/double flower traits, mutations in miR172d (5033 bp and 1210 bp insertions) and PpAP2 (994 bp deletion and a G/T SNP) were identified as related factors.
Conclusions: A complete gap-free peach genome was obtained with manually refined gene structures. Variations in PpTAC1, miR172d, and PpAP2 were associated with branch angle and single/double flower traits. This gap-free genome provides a valuable resource for genetic improvement of peach and related species.
