Identification of a novel mitochondrial genome type and development of molecular markers for cytoplasm classification in radish (Raphanus sativus L.)

Kim, Sunggil; Lim, Heerae; Park, Suhyung; Cho, Kang-Hee; Sung, Soon-Kee; Oh, Deog‐Hwan; Kim, Ki-Taek

doi:10.1007/s00122-007-0639-5

Cited by 56 publications

(30 citation statements)

References 40 publications

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“…For instance, restoration of fertility in common bean is related with the suppression of copy number of a substoichiometric CMSassociated ORF by the action of a restorer gene (Janska et al 1998). Recent studies in radish also showed that a CMS-associated ORF exists even in a normal cytoplasm, although the copy number of this ORF is maintained at a very low level (Kim et al 2007b). The substoichiometric copy number of mitochondrial DNA molecules can be stably maintained through generations by unknown mechanisms (Kim et al 2007b).…”

Section: Introductionmentioning

confidence: 94%

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Development of a CMS-specific marker based on chloroplast-derived mitochondrial sequence in pepper

Jeong

Kang

2009

Plant Biotechnol Rep

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Molecular markers developed from the flanking sequences of two cytoplasmic male sterility (CMS)-associated genes, orf456 and watp6-2, have been used for marker-assisted selection of CMS in pepper. However, in practice, the presence of orf456 and watp6-2 at substoichiometric levels even in maintainer lines hampers reliable selection of plants containing the CMS gene. In this study, we developed a novel CMS-specific molecular marker, accD-U, for reliable determination of CMS lines in pepper, and used the newly and previously developed markers to determine the cytoplasm types of pepper breeding lines and germplasms. This marker was developed from a deletion in a chloroplast-derived sequence in the mitochondrial genome of a CMS pepper line. CMS pepper lines could be unambiguously determined by presence or absence of the accD-U marker band. Application of orf456, watp6-2 and accD-U to various pepper breeding lines and germplasms revealed that accD-U is the most reliable CMS selection marker. A wide distribution of orf456, but not watp6-2, in germplasms suggests that the pepper cytoplasm containing both orf456 and watp6-2 has been selected as CMS cytoplasm from cytoplasm containing only orf456. Furthermore, factors other than orf456 may be required for the regulation of male sterility in pepper.

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Section: Introductionmentioning

confidence: 94%

“…Recent studies in radish also showed that a CMS-associated ORF exists even in a normal cytoplasm, although the copy number of this ORF is maintained at a very low level (Kim et al 2007b). The substoichiometric copy number of mitochondrial DNA molecules can be stably maintained through generations by unknown mechanisms (Kim et al 2007b).…”

Section: Introductionmentioning

confidence: 95%

Development of a CMS-specific marker based on chloroplast-derived mitochondrial sequence in pepper

Jeong

Kang

2009

Plant Biotechnol Rep

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“…Previously, we classified radish germplasm into four cytotypes (DBRMF1, DBRMF2, Ogura and DCGMS) based on polymorphisms of the mitochondrial genome organizations and non-coding chloroplast sequences (Kim et al 2007(Kim et al , 2009aLee et al Fig. 5 Linkage analysis of the Rfo and Rfd1 loci in the backcross population (MS19 9 (MS19 9 R121)).…”

Section: Inheritance Pattern Of Fertility Restoration Of Cms Induced mentioning

confidence: 99%

“…Specific stoichiometry of sublimons is maintained in plants containing the same type of cytoplasm (cytotypes) through many generations (Sakai and Imamura 1993;Bellaoui et al 1998;Janska et al 1998;Kim et al 2007). However, the stoichiometry can be changed by a phenomenon called substoichiometric shifting.…”

Section: Introductionmentioning

confidence: 99%

Identification of Rfd1, a novel restorer-of-fertility locus for cytoplasmic male-sterility caused by DCGMS cytoplasm and development of simple PCR markers linked to the Rfd1 locus in radish (Raphanus sativus L.)

et al. 2010

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Previously, novel cytoplasmic male-sterility (CMS) caused by DCGMS cytoplasm was discovered in radish (Raphanus sativus L.) introduced from Uzbekistan. We performed extensive progeny tests and identified two fertility restorer lines ('R171' and 'R121') for this new CMS. Two F 1 hybrid populations were self-pollinated and backcrossed to produce F 2 and BC populations. Inheritance patterns of male-sterility in segregating populations varied depending on paternal lines. Segregation of malesterility in F 2 populations originating from the cross between MS19 and R121 showed that a single locus was involved in fertility restoration. However, populations originating from the cross between MS15 and R171 showed the involvement of more than one restorer-of-fertility genes. The single fertility restorer locus identified in the cross between MS19 and R121 was designated Rfd1 locus. Bulked segregant analysis was performed using RAPD and AFLP, which identified one marker each. Both RAPD and AFLP markers were converted into simple PCR-based co-dominant markers after their isolated flanking sequences were analyzed. Indels 773-bp and 67-bp in length were identified between two Rfd1 allele-linked flanking sequences of the RAPD and AFLP fragments, respectively, then utilized to develop simple PCR markers. In addition, we prove that the newly identified Rfd1 locus is independent of the Rfo locus, another radish fertility restorer for CMS caused by Ogura cytoplasm.

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“…Even the stoichiometry of subgenomes varies at an intraspecific level (Palmer 1988;Allen et al 2007). Specific stoichiometry of subgenomes is maintained through generations, but can be changed by triggers such as tissue culture and nuclear genes (Sakai and Imamura 1993;Bellaoui et al 1998;Janska et al 1998;Kim et al 2007). Nuclear genes controlling stoichiometry of subgenomes such as Msh1 (Abdelnoor et al 2006), RecA (Shedge et al 2007), and OSB1 (Zaegel et al 2006) have been reported.…”

Section: Introductionmentioning

confidence: 99%

Construction of a high-resolution linkage map of Rfd1, a restorer-of-fertility locus for cytoplasmic male sterility conferred by DCGMS cytoplasm in radish (Raphanus sativus L.) using synteny between radish and Arabidopsis genomes

et al. 2012

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Cytoplasmic male sterility caused by Dongbu cytoplasmic and genic male-sterility (DCGMS) cytoplasm and its nuclear restorer-of-fertility locus (Rfd1) with a linked molecular marker (A137) have been reported in radish (Raphanus sativus L.). To construct a linkage map of the Rfd1 locus, linked amplified fragment length polymorphism (AFLP) markers were screened using bulked segregant analysis. A 220-bp linked AFLP fragment sequence from radish showed homology with an Arabidopsis coding sequence. Using this Arabidopsis gene sequence, a simple PCR marker (A220) was developed. The A137 and A220 markers flanked the Rfd1 locus. Two homologous Arabidopsis genes with both marker sequences were positioned on Arabidopsis chromosome-3 with an interval of 2.4 Mb. To integrate the Rfd1 locus into a previously reported expressed sequence tag (EST)-simple sequence repeat (SSR) linkage map, the radish EST sequences located in three syntenic blocks within the 2.4-Mb interval were used to develop single nucleotide polymorphism (SNP) markers for tagging each block. The SNP marker in linkage group-2 co-segregated with male fertility in an F(2) population. Using radish ESTs positioned in linkage group-2, five intron length polymorphism (ILP) markers and one cleaved amplified polymorphic sequence (CAPS) marker were developed and used to construct a linkage map of the Rfd1 locus. Two closely linked markers delimited the Rfd1 locus within a 985-kb interval of Arabidopsis chromosome-3. Synteny between the radish and Arabidopsis genomes in the 985-kb interval were used to develop three ILP and three CAPS markers. Two ILP markers further delimited the Rfd1 locus to a 220-kb interval of Arabidopsis chromosome-3.

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Identification of a novel mitochondrial genome type and development of molecular markers for cytoplasm classification in radish (Raphanus sativus L.)

Cited by 56 publications

References 40 publications

Development of a CMS-specific marker based on chloroplast-derived mitochondrial sequence in pepper

Development of a CMS-specific marker based on chloroplast-derived mitochondrial sequence in pepper

Identification of Rfd1, a novel restorer-of-fertility locus for cytoplasmic male-sterility caused by DCGMS cytoplasm and development of simple PCR markers linked to the Rfd1 locus in radish (Raphanus sativus L.)

Construction of a high-resolution linkage map of Rfd1, a restorer-of-fertility locus for cytoplasmic male sterility conferred by DCGMS cytoplasm in radish (Raphanus sativus L.) using synteny between radish and Arabidopsis genomes

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