Analysis of genetic diversity among Indian short-day onion (<i>Allium cepa</i>L.) cultivars using RAPD markers.

Kutty, M. Sangeeta; Gowda, Rame; Anand, Lalitha

doi:10.1080/14620316.2006.11512136

Cited by 20 publications

(5 citation statements)

References 10 publications

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“…DNA-based molecular markers have been extensively used to accelerate plant breeding programs through marker-assisted selection for improving germplasm efficiency, and to understand the molecular mechanisms underlying genetic traits. Numerous genetic markers, including simple sequence repeats (SSRs) [ 7 ], expressed sequence tag SSRs (EST SSRs) [ 8 ], Inter-simple sequence repeats (ISSRs) [ 9 ], amplified fragment length polymorphisms (AFLPs) [ 10 ], randomly amplified polymorphic DNA (RAPD) [ 11 ] and single nucleotide polymorphisms (SNPs) [ 12 ] have been developed and used to determine genetic diversity, construct genetic linkage maps, and conduct phylogenetic analyses of onion germplasm [ 13 ]. SNPs are considered to be the most reliable genetic markers, with advantages of flexibility, cost-effectiveness, rapid, and low error rate [ 14 ].…”

Section: Introductionmentioning

confidence: 99%

SNP discovery of Korean short day onion inbred lines using double digest restriction site-associated DNA sequencing

et al. 2018

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Onion (Allium cepa L.) is an economically important vegetable crop around the world. Genetic and genomic research into various onion accessions will provide insights into the onion genome to enhance breeding strategies and improve crops. However, the onion’s large genome size means that studies of molecular markers are limited in onion. This study aimed to discover high quality single nucleotide polymorphisms (SNPs) from 192 onion inbred lines relating to short-day cultivation in Korea. Paired-end (PE) double digested restriction site-associated DNA sequencing (ddRAD-seq) was used to discover SNPs in onion. A total of 538,973,706 reads (25.9 GB), with an average of 2,658,491 high-quality reads, were generated using ddRAD-seq. With stringent filtering, 1904 SNPs were discovered based on onion reference scaffolds. Further, population structure and genetic relationship studies suggested that two well-differentiated sub-populations exist in onion lines. SNP-associated flanking sequences were also compared with a public non-redundant database for gene ontology and pathway analysis. To our knowledge, this is the first report to identify high-quality SNPs in onion based on reference sequences using the ddRAD-seq platform. The SNP markers identified will be useful for breeders and the research community to deepen their understanding, enhance breeding programs, and support the management of onion genomic resources.

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Section: Introductionmentioning

confidence: 99%

SNP discovery of Korean short day onion inbred lines using double digest restriction site-associated DNA sequencing

et al. 2018

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“…Diversity analysis of seven cultivars of A. cepa and single cultivar of Japanese bunching onion, chive, leek and a wild relative of onion (A. roylei) by RAPD showed A. roylei as the closest relative of A. cepa, questioning the current classification of A. cepa in the section Rhizideum (Susan et al 1993). 90 RAPD primers grouped 24 onion cultivars into northern and southern regions of India (Sangeeta et al 2006). Ten varieties of onion (A. cepa L.) were analysed, Bermis and India-2 were more dissimilar and Faridpuri and Bhati were the most genetically similar (Maniruzzaman et al 2010).…”

Section: Diversity Analysis and Varietal Identification Of Alliumsmentioning

confidence: 99%

Molecular markers in the improvement of Allium crops

Chinnappareddy¹,

Khandagale²,

Chennareddy³

et al. 2013

Czech J. Genet. Plant Breed.

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Chinnappareddy L.R.D., Khandagale K., Chennareddy A., Ramappa V.G. (2013) The genus Allium (Family: Alliaceae) is the most important among the bulbous vegetable crops. Characterization of Alliums based on phenotypic traits is influenced by the environment and leads to biased diversity estimates. Recognizing the potential of DNA markers in plant breeding, researchers have adopted the molecular markers for marker-assisted selection (MAS), quantitative trait loci (QTL) mapping and characterization of different quality traits in Alliums. This review presents details about the use of DNA markers in Alliums for cultivar identification, diversity studies, SSR development, colour improvement, total soluble solids (TSS), cytoplasmic male sterility (CMS) and efforts of DNA sequencing. As there are no such reports to describe the above work under a single heading, we decided to mine literature for those who are working in onion, garlic, chives and leek improvement to generate new insights in the subject.

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“…Several molecular markers were also used to estimate the genetic diversity of onions. These include random amplified polymorphic DNA (RAPD) [ 108 , 109 ], inter simple sequence repeat (ISSR) [ 110 , 111 ], restriction fragment length polymorphism (RFLP) [ 112 ], amplified fragment length polymorphism (AFLP) [ 113 , 114 ], and simple sequence repeat (SSR) [ 45 , 115 ].…”

Section: Effects Of Drought On Onionsmentioning

confidence: 99%

Onion (Allium cepa L.) and Drought: Current Situation and Perspectives

Sansan,

Ezin,

Ayenan

et al. 2024

Scientifica

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Onions (Allium cepa L.) are the second most commonly produced and consumed vegetable worldwide due to their economic, nutritional, and medicinal benefits. However, drought hinders vegetative growth, lowers yields and bulb quality, reduces photosynthetic activity, and alters the onion plant’s metabolism. This review provides a summary of global research on the impact of drought on onions. It specifically seeks to shed light on aspects that remain unclear and generate research avenues. Relevant scientific articles were sourced from the AGORA database, Web of Science (WoS), and search engines such as Google Scholar, Scopus, MEDLINE/PubMed, and SCImago to achieve this objective. A total of 117 scientific articles and documents related to onion and drought were critically examined. The review revealed agromorphological, physiological, biochemical, and genomic studies depicting factors that contribute to drought tolerance in onion genotypes. However, there was little research on the physiological, biochemical, and genetic characteristics of drought tolerance in onions, which need to be deepened to establish its adaptation mechanisms. Understanding the mechanisms of onion response to water stress will contribute to fast-tracking the development of drought-tolerant genotypes and optimize onion production. Future research should be more focused on investigating onion drought tolerance mechanisms and structural and functional genomics and identifying genes responsible for onion drought tolerance.

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

Cited by 20 publications

References 10 publications

SNP discovery of Korean short day onion inbred lines using double digest restriction site-associated DNA sequencing

SNP discovery of Korean short day onion inbred lines using double digest restriction site-associated DNA sequencing

Molecular markers in the improvement of Allium crops

Onion (Allium cepa L.) and Drought: Current Situation and Perspectives

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