Abstract
BackgroundThe top of the olecranon honey peach (Prunus persica L.) fruit appears similar to an eagle’s beak. In this study, a single olecranon honey peach with a round-type fruit was observed in our fruit orchard. To explore the genetic mechanism of olecranon formation, we performed full-length transcriptome sequencing analysis of olecranon and round peaches as well as a genome-wide association study of the association of olecranon-type trait loci.ResultsThe gene locus was 26,924,482 base pairs in NC_034014.1. Transcriptome sequencing showed that the clean sequencing data of each sample reached 7.10GB, with 14,360 genes and 23,167 transcripts expressed in both the olecranon honey peach and round peach. Among the 11 differentially expressed genes selected as candidate genes, six were highly expressed in olecranon peach and named as LOC18775282, LOC18772209, LOC18773929, LOC18772013, LOC18773401, and ONT.13798.5. Five genes were highly expressed in round peach and named as LOC18773079, LOC18773525, LOC18773067, LOC18775244, and LOC18772236. Notably, ONT.13798.5 was not previously identified. The genes were within 1 Mb up- or down-stream of the main genome-wide association study locus for olecranon-type traits.ConclusionsThis study revealed loci associated with olecranon and provides useful information for analysis and breeding of olecranon honey peach.
Highlights
The top of the olecranon honey peach (Prunus persica L.) fruit appears similar to an eagle’s beak
We analyzed the distribution of polymorphisms in each genomic region and found that averages of 96,783, 51,340, 85,430, and 63,805 SNPs were within intergenic regions, introns, upstream regions, and downstream regions (within 5 kb Patterns of LD across peach genome Linkage disequilibrium (LD) analysis indicated that the physical distance between SNPs occurred at ~ 53.76 kb (r2 = 0.33) for Amygdalus persica L. (Table 1), which was slightly higher than that of wild peach (~ 35 kb) [7] and consistent with the narrow domestication bottleneck
DEG and Differentially expressed genes/transcripts (DETs) analysis We found 14,360 genes and 23,167 transcripts expressed in both olecranon and round peach (Fig. 3 A, 3B)
Summary
The top of the olecranon honey peach (Prunus persica L.) fruit appears similar to an eagle’s beak. A single olecranon honey peach with a round-type fruit was observed in our fruit orchard. To explore the genetic mechanism of olecranon formation, we performed full-length transcriptome sequencing analysis of olecranon and round peaches as well as a genome-wide association study of the association of olecranon-type trait loci. The shape of Genome-wide association studies (GWAS) were used to identify flat- and round-related loci or genes, indicating that PpCAD1 (ppa003772m, designated as PpCAD1) and 25,060,196 base pairs (bp) of scaffold Pp06 play important roles in the fruit shape [5]. The molecular features affecting the shape of olecranon honey peach have not been evaluated in genetic or transcriptome studies
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