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Mango (Mangifera indica L.) germplasm diversity based on single nucleotide polymorphisms derived from the
Amir Sherman1, Mor Rubinstein2, Ravit Eshed3
1Department of Fruit Trees Sciences, Institute of Plant Sciences, Agricultural Research Organization, Volcani Center, Rishon Lezion, Israel. asherman@volcani.agri.gov.il.
BMC Plant Biology
|November 18, 2015
Summary
This study developed new genetic markers, including single-nucleotide polymorphisms (SNPs) and simple-sequence repeats (SSRs), to analyze mango diversity. These markers revealed distinct groupings within the Israeli mango collection, offering insights into mango
Area of Science:
- Plant genetics
- Agricultural science
- Bioinformatics
Background:
- Germplasm collections are crucial for fruit tree breeding due to long juvenile periods.
- Mango diversity studies often use limited genetic markers.
- Understanding mango genetic diversity is vital for crop improvement.
Purpose of the Study:
- To develop novel genetic markers for mango diversity analysis.
- To characterize the genetic diversity within the Israeli mango collection.
- To reconstruct the mango transcriptome for broader genetic resource discovery.
Main Methods:
- De novo transcriptome assembly of mango cultivar 'Keitt'.
- Illumina resequencing for variation discovery (SNPs and SSRs).
- Genotyping of the Israeli mango collection using a subset of novel SNP markers.
Main Results:
- Identified 332,016 single-nucleotide polymorphisms (SNPs) and 1903 simple-sequence repeats (SSRs).
- Mango collection divided into two groups: Southeast Asian/Indian and Floridian/Israeli cultivars.
- Detected slight population differentiation (FST=0.03) and admixture in the Western group.
Conclusions:
- Whole-transcriptome reconstruction significantly expanded mango genetic variation resources (SNPs and SSRs).
- Novel SNP markers are polymorphic and valuable for exploring mango diversity.
- The findings strengthen the understanding of mango's genetic history and diversity.
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