Carrot alternative oxidase gene AOX2a demonstrates allelic and genotypic polymorphisms in intron 3

Physiologia Plantarum
Hélia Guerra CardosoBirgit Arnholdt-Schmitt

Abstract

Single nucleotide polymorphisms (SNPs) and insertion-deletions (InDels) are becoming important genetic markers for major crop species. In this study, we focus on variations at genomic level of the Daucus carota L. AOX2a gene. The use of gene-specific primers designed in exon regions on the boundaries of introns permitted to recognize intron length polymorphism (ILP) in intron 3 AOX2a by simple polymerase chain reaction (PCR) assays. The length of intron 3 can vary in individual carrot plants. Thus, allelic variation can be used as a tool to discriminate between single plant genotypes. Using this approach, individual plants from cv. Rotin and from diverse breeding lines and cultivars were identified that showed genetic variability by AOX2a ILPs. Repetitive patterns of intron length variation have been observed which allows grouping of genotypes. Polymorphic and identical PCR fragments revealed underlying high levels of sequence polymorphism. Variability was due to InDel events and intron single nucleotide polymorphisms (ISNPs), with a repetitive deletion in intron 3 affecting a putative pre-miRNA site. The results suggest that high AOX2a gene diversity in D. carota can be explored for the development of functional markers relate...Continue Reading

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Citations

Jun 19, 2013·Genetica·Alicja Macko-PodgorniDariusz Grzebelus
Oct 22, 2009·Physiologia Plantarum·Alexandre Oliveira FerreiraBirgit Arnholdt-Schmitt
Sep 29, 2009·Physiologia Plantarum·Alexios N PolidorosBirgit Arnholdt-Schmitt
Oct 30, 2009·Physiologia Plantarum·António Miguel FredericoBirgit Arnholdt-Schmitt
Oct 30, 2009·Physiologia Plantarum·António Miguel FredericoBirgit Arnholdt-Schmitt
Oct 15, 2009·Physiologia Plantarum·Maria Doroteia CamposBirgit Arnholdt-Schmitt
Feb 14, 2012·Journal of Plant Physiology·Debabrata SircarBirgit Arnholdt-Schmitt
Oct 22, 2016·PloS One·Tânia NobreBirgit Arnholdt-Schmitt

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