Cultivar Identification and Genetic Diversity in Onion (Allium cepa L.) as Evaluated by Random Amplified Polymorphic DNA (RAPD) Analysis

Tanikawa, Tsuyoshi; Takagi, Motoki; Ichii, Masahiko

doi:10.2503/jjshs.71.249

Cited by 28 publications

(13 citation statements)

References 11 publications

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“…Diversity assessment on the basis of molecular markers is preferred because of their highly polymorphic nature, codominant inheritance, frequent occurrence in genome, selective neutral behaviour, easy access, easy and fast assay, high reproducibility and easy exchange of data between laboratories (Joshi et al 1999). Molecular characterization on the basis of RAPD (Tanikawa et al 2002), RFLP (Havey 1991a;Bradeen and Havey 1995) and recently on the basis of SSR and SNP's McCallum et al 2008) has been published in long day onion. Microsatellite markers have become the markers of choice because they are locus-specific, codominant, PCR-based, highly polymorphic and useful at a range of scales from individual identification to fine-scale phylogenies.…”

Section: Introductionmentioning

confidence: 99%

Microsatellite marker based analysis of genetic diversity in short day tropical Indian onion and cross amplification in related Allium spp.

Khar

Lawande

Negi

2010

Genet Resour Crop Evol

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This paper deals with the diversity assessment of tropical Indian onion and cross amplification of genomic and EST-SSR markers in distantly related native wild species. Out of 60 SSRs, 10% genomic SSRs were able to amplify as compared to EST-SSR where 53.3% primers were able to reveal amplicons. Clustering revealed five groups and indigenous short day onion formed separate cluster from the exotic short day and long day onions. A. roylei accessions exhibited a dissimilarity index of 35.5% between themselves whereas 'Pran' and A. 9 proliferum grouped together at a genetic distance of 0.4. A. fistulosum accessions formed a tight cluster and distantly related wild species A. carolinianum, A. chinense and A. hookeri formed neutral nodes. Present results are important to aid in analyzing the diversity present in short day onion and its utilization in breeding programs. Further, this is the first time that three accessions of A. roylei Stearn were used and rare alleles amplified in wild species will aid in detecting population structure and molecular marker aided selection for interspecific hybrid development.

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Section: Introductionmentioning

confidence: 99%

Microsatellite marker based analysis of genetic diversity in short day tropical Indian onion and cross amplification in related Allium spp.

Khar

Lawande

Negi

2010

Genet Resour Crop Evol

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“…It was reported that A. fistulosum formed subclusters with A. altaicum whereas it was distinct from A. cepa based on both RFLPs of mt and cpDNAs (Yamashita et al 2001). In bulb onion, several studies of variety classification based on RAPD markers have been reported (Wilkie et al 1993, Le Thierry D'ennequin et al 1997, Tanikawa et al 2002. Tanikawa et al (2002) reported 22 varieties that were categorized into six groups by cluster analysis.…”

Section: Discussionmentioning

confidence: 99%

“…In bulb onion, several studies of variety classification based on RAPD markers have been reported (Wilkie et al 1993, Le Thierry D'ennequin et al 1997, Tanikawa et al 2002. Tanikawa et al (2002) reported 22 varieties that were categorized into six groups by cluster analysis. Le Thierry D'ennequin et al (1997) also reported that the seedpropagated shallot is more closely related to bulb onion than to vegetatively propagated shallot.…”

Section: Discussionmentioning

confidence: 99%

Classification and identification of bunching onion (Allium fistulosum) varieties based on SSR markers

et al. 2010

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We investigated the correspondence between classifications based on simple sequence repeat (SSR) markers and on morphological traits for 30 bunching onion (Allium fistulosum L.) varieties. We also examined applicability of an assignment test for variety identification in bunching onion. Cluster analysis based on the allele frequency data at 29 SSR loci classified most of the varieties except for 'Iwatsuki-2' into the predicted variety groups, 'Kaga', 'Senju' or 'Kujo', which were categorized based on morphological traits. Although 'Iwatsuki-2' has been regarded as a member of 'Kaga' group, molecular data suggested the variety belonging to 'Kujo' rather than 'Kaga'. In the assignment test at the individual level, 89.1% of the individuals were assigned to their original variety. When the assignment was conducted based on groups each consisting of four individuals, the percentage of correct assignments was considerably improved (99.3%). These results suggested that the assignment test approach will be useful for variety identification in allogamous bunching onions, which have large within-variety genetic diversity. On the other hand, it was also suggested that sampling of true source varieties will be fundamental to avoid misjudgment.

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“…RAPD markers have also been used to assess the integrity of inbreds used to generate onion hybrids (Bradeen and Havey, 1995), and recently to assess diversity among Japanese onion lines (Tanikawa et al, 2002).The present study was aimed at assessing genetic relatedness among a set of 24 Indian short-day onion genotypes using RAPD markers. *Author for correspondence.…”

mentioning

confidence: 99%

Analysis of genetic diversity among Indian short-day onion (Allium cepaL.) cultivars using RAPD markers.

Kutty

Gowda

Anand

2006

The Journal of Horticultural Science and Biotechnology

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Cultivar Identification and Genetic Diversity in Onion (Allium cepa L.) as Evaluated by Random Amplified Polymorphic DNA (RAPD) Analysis

Cited by 28 publications

References 11 publications

Microsatellite marker based analysis of genetic diversity in short day tropical Indian onion and cross amplification in related Allium spp.

Microsatellite marker based analysis of genetic diversity in short day tropical Indian onion and cross amplification in related Allium spp.

Classification and identification of bunching onion (Allium fistulosum) varieties based on SSR markers

Analysis of genetic diversity among Indian short-day onion (Allium cepaL.) cultivars using RAPD markers.

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