Identification of two SCAR markers co-segregated with the dominant Ms and recessive ms alleles in onion (Allium cepa L.)

Yang, Yan; Huo, Yu Meng; Miao, Jun; Liu, Bing Jiang; Kong, Su Ping; Gao, Li; Liu, Chang; Wang, Zhen Bao; Tahara, Yasuki; Kitano, Hidemi; Xiong, Wei

doi:10.1007/s10681-012-0842-6

Cited by 33 publications

(32 citation statements)

References 26 publications

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“…() also reported that jnurf13 and their newly developed AcSKP1 marker are considered as the same locus, because both originated from previous study of Yang et al. (). Hence, it can be concluded that PCR markers OPT, DNF‐566, RNS‐357, jnurf12, jnurf13 and AcSKP1 share similarity among each other.…”

Section: Discussionmentioning

confidence: 99%

“…Kim () reported that jnurf13 was developed on the basis of the sequences extended from the initial fragment tagged by Yang et al. (). But owing to the amplification issues with jnurf13, another codominant multiplex PCR marker, AcSKP1, identifying alleles at Ms in a single PCR reaction was developed employing genome walking according to the F1527 sequence (used earlier for developing two SCAR markers and jnurf13 marker).…”

Section: Discussionmentioning

confidence: 99%

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Limitations of PCR‐based molecular markers to identify male‐sterile and maintainer plants from Indian onion (Allium cepa L.) populations

Khar

Saini

2016

Plant Breeding

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The main aim of this study was to validate PCR markers for determining cytoplasm and genotypes at the Ms locus in short-day onion. Three cytoplasmic (OSN, MKFR and accD) and four nuclear (OPT, jnurf13, AcSKP1 and AcPMS1) markers were employed. Sel. 121-1 had 100% S cytoplasm, whereas Sel. 121-2, 'Pusa Red' and 'Pusa Madhavi' had 88%, 33% and 17% S cytoplasm, respectively. 'Early Grano' and 'Pusa Riddhi' did not possess S cytoplasm. Observations in 33 commercial varieties revealed two with sterile (S) cytoplasm. Nuclear markers were not found in linkage disequilibrium with the Ms locus, and the constitution of Ms alleles by OPT was different from other three markers, which were in conformity with each other. The other three markers predicted that most of the plants should be homozygous recessive. Anther colour also did not confirm the sterility status. It can be concluded that accD may be used for cytoplasm determination based on the ease of its use. For the Ms locus tagging, more markers are needed to be evaluated to isolate maintainer lines from open-pollinated populations.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Limitations of PCR‐based molecular markers to identify male‐sterile and maintainer plants from Indian onion (Allium cepa L.) populations

Khar

Saini

2016

Plant Breeding

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“…This marker has limited application in marker-assisted selection, as it is based on RNA expression and only expressed at flowering stage. To overcome these constraints, Yang et al (2013) identified two SCAR markers linked to dominant and recessive Ms loci in different genetic backgrounds, which could be useful to follow markeraided selection of these loci in OP population of diverse origins. Three SNP markers tightly linked with Ms loci were identified that remained in linkage disequilibrium in three OP populations (Havey 2013).…”

Section: Hybrid Productionmentioning

confidence: 99%

Enhancing onion breeding using molecular tools

et al. 2015

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Bulb onion (Allium cepa L.) is an ancient crop that is thought to have originated in Central Asia and has been cultivated for over 5000 years. Classical genetic and plant breeding approaches have been used to improve onion yield, quality, and resistance against biotic and abiotic stresses. However, its biennial life cycle, cross-pollinated nature and high inbreeding depression have proved challenging for the characterization and breeding of improved traits. New technologies, notably next-generation sequencing, are providing researchers with the genomic resources and approaches to overcome these challenges. Using these genomic technologies, molecular markers are being rapidly developed and utilized for germplasm analysis and mapping in onion. These new tools and knowledge are allowing the integration of molecular and conventional breeding to speed up onion improvement programmes. In this review, we outline recent progress in onion genomics and molecular genetics and prospects for enhancing onion yield and quality in the future.

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“…It is based on a 12bp indel identified by Kim (2014) in sequences flanking the jnurf12 marker, a fragment initially tagged by Yang et al (2013). The smaller fragment (229bp) is linked with the ms-allele, while the 241bp product is produced from Ms-genotypes.…”

Section: Preliminary Testing Of Pcr Molecular Markers For Determinatimentioning

confidence: 99%

“…Its coding sequence is predicted to encode a putative S-phase kinase-associated protein 1, which may have functions in pollen development and male fertility in onion according to studies with Arabidopsis homologs. The jnurf13 and AcSKP1 markers are considered as the same locus from a breeding perspective, since both originated from the study performed by Yang et al (2013).…”

Section: Preliminary Testing Of Pcr Molecular Markers For Determinatimentioning

confidence: 99%

The Application of Molecular Markers to Accelerate the Recovery of Cytoplasmic and Nuclear Male Sterility in South African Onion (Allium cepa L.) Hybrid Parental Lines

Gazendam¹,

Greyling²,

Laurie³

2018

JAS

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Male sterility is important to prevent self-pollination and loss of the onion hybrid genotype. Classic methods require 4-8 years of progeny testing before the cytoplasm type can be determined. An accurate and time-saving method was needed. Various types of markers were tested for application to South African onion parental lines of hybrid cultivars, and which could determine male sterility and maintainer genotypes accurately and easily with large numbers of samples. Five cytoplasmic (5'cob, orfA501, orf725, IGS and cob-type 2) and four nuclear markers (jnurf13, isotig34671_610, isotig30856_1351 and isotig29186_1830) were sourced. Genomic DNA was isolated from onion seedlings and young leaves growing from bulbs in the Agricultural Research Council (ARC) research field. PCR marker amplification products were separated by agarose or denaturing polyacrylamide gel electrophoresis (PAGE) gels. Real-time polymerase chain reaction (PCR) was performed with custom TaqMan® SNP genotyping assays containing primer/probe pairs designed to detect single nucleotide polymorphisms (SNPs) linked to the nuclear Ms locus. OrfA501 proved useful as a presence/absence marker for cytoplasmic male sterility, while TaqMan® SNP genotyping assays were superior to the jnurf13 nuclear marker in terms of rapid throughput. PCR molecular markers and custom TaqMan® SNP genotyping assays were efficient in screening the onion lines rapidly and accurately for their cytoplasmic and nuclear male sterility genotype. These methods reduced the time to identify the correct genotype of male sterile and maintainer lines, gave accurate genotypic information and proved to be useful on a larger scale. These molecular marker methods will facilitate the production of the correct seed for commercialization of onion lines worldwide.

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Identification of two SCAR markers co-segregated with the dominant Ms and recessive ms alleles in onion (Allium cepa L.)

Cited by 33 publications

References 26 publications

Limitations of PCR‐based molecular markers to identify male‐sterile and maintainer plants from Indian onion (Allium cepa L.) populations

Limitations of PCR‐based molecular markers to identify male‐sterile and maintainer plants from Indian onion (Allium cepa L.) populations

Enhancing onion breeding using molecular tools

The Application of Molecular Markers to Accelerate the Recovery of Cytoplasmic and Nuclear Male Sterility in South African Onion (Allium cepa L.) Hybrid Parental Lines

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