Construction of an Almond Linkage Map in an Australian Population Nonpareil X Lauranne

Overview

Journal BMC Genomics

Publisher Biomed Central

Specialty Genetics

Date 2010 Oct 12

PMID 20932335

Citations 10

Authors

Iraj Tavassolian

Gholmereza Rabiei

Davina Gregory

Mourad Mnejja

Michelle G Wirthensohn

Peter W Hunt

John P Gibson

Christopher M Ford

Margaret Sedgley

Shu-Biao Wu

Affiliations

Soon will be listed here.

Abstract

Background: Despite a high genetic similarity to peach, almonds (Prunus dulcis) have a fleshless fruit and edible kernel, produced as a crop for human consumption. While the release of peach genome v1.0 provides an excellent opportunity for almond genetic and genomic studies, well-assessed segregating populations and the respective saturated genetic linkage maps lay the foundation for such studies to be completed in almond.

Results: Using an almond intraspecific cross between 'Nonpareil' and 'Lauranne' (N x L), we constructed a moderately saturated map with SSRs, SNPs, ISSRs and RAPDs. The N x L map covered 591.4 cM of the genome with 157 loci. The average marker distance of the map was 4.0 cM. The map displayed high synteny and colinearity with the Prunus T x E reference map in all eight linkage groups (G1-G8). The positions of 14 mapped gene-anchored SNPs corresponded approximately with the positions of homologous sequences in the peach genome v1.0. Analysis of Mendelian segregation ratios showed that 17.9% of markers had significantly skewed genotype ratios at the level of P < 0.05. Due to the large number of skewed markers in the linkage group 7, the potential existence of deleterious gene(s) was assessed in the group. Integrated maps produced by two different mapping methods using JoinMap® 3 were compared, and their high degree of similarity was evident despite the positional inconsistency of a few markers.

Conclusions: We presented a moderately saturated Australian almond map, which is highly syntenic and collinear with the Prunus reference map and peach genome V1.0. Therefore, the well-assessed almond population reported here can be used to investigate the traits of interest under Australian growing conditions, and provides more information on the almond genome for the international community.

Citing Articles

Construction of a highly saturated linkage map in Japanese plum (Prunus salicina L.) using GBS for SNP marker calling.

Carrasco B, Gonzalez M, Gebauer M, Garcia-Gonzalez R, Maldonado J, Silva H PLoS One. 2018; 13(12):e0208032.

PMID: 30507961 PMC: 6277071. DOI: 10.1371/journal.pone.0208032.

Mapping X-Disease Phytoplasma Resistance in .

Lenz R, Dai W Front Plant Sci. 2017; 8:2057.

PMID: 29238359 PMC: 5712551. DOI: 10.3389/fpls.2017.02057.

Genotyping by Sequencing in Almond: SNP Discovery, Linkage Mapping, and Marker Design.

Goonetilleke S, March T, Wirthensohn M, Arus P, Walker A, Mather D G3 (Bethesda). 2017; 8(1):161-172.

PMID: 29141988 PMC: 5765344. DOI: 10.1534/g3.117.300376.

Characterizing the transcriptome and microsatellite markers for almond ( L.) using the Illumina sequencing platform.

Zhang L, Yang X, Qi X, Guo C, Jing Z Hereditas. 2017; 155:14.

PMID: 29075165 PMC: 5649074. DOI: 10.1186/s41065-017-0049-x.

Evaluation of multiple approaches to identify genome-wide polymorphisms in closely related genotypes of sweet cherry ( L.).

Hewitt S, Kilian B, Hari R, Koepke T, Sharpe R, Dhingra A Comput Struct Biotechnol J. 2017; 15:290-298.

PMID: 28392892 PMC: 5376269. DOI: 10.1016/j.csbj.2017.03.002.

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