Mitochondrial orf463 causing male sterility in radish is possessed by cultivars belonging to the ‘Niger’ group

Yamagishi, Hiroshi; Tanaka, Yoshiyuki; Shiiba, S.; Hashimoto, Ayako; Fukunaga, Asumi; Terachi, Toru

doi:10.1007/s10681-019-2437-y

Cited by 6 publications

(24 citation statements)

References 21 publications

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“…A sequence analysis indicated that the orf463a sequence in R. maritimus contains nine nucleotide substitutions, seven of which are nonsynonymous. This is consistent with the recent results of a study of RS-5 in R. raphanistrum [21]. However, we revealed that the orf463a in R. raphanistrum is identical to the orf463a sequences in the mitogenomes of the NWB CMS line, six black Spanish radish accessions (R. sativus var.…”

Section: Discussionsupporting

confidence: 93%

“…Our data appear to indicate that the NWB CMS and black radish (AP012990) mitogenomes are identical. Yamagishi et al recently reported that black radish (AP012990) and DCGMS lines carry coexisting mitogenomes and they hypothesized that the mechanism underlying the rearrangement of these two mitochondrial types is mediated by the 9730-bp and 512-bp repeats [21]. However, these possible recombinations were not verified by PCR.…”

Section: Discussionmentioning

confidence: 99%

“…With the exception of YB-A, all varieties contained normal cytoplasm and lacked Rf genes (Table S1). To investigate the distribution of orf463, orf463-specific primers [20,21] were used to amplify the DNA from 93 radish accessions representing natural populations [22].…”

Section: Plant Materialsmentioning

confidence: 99%

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Mitochondrial Genome Sequencing Reveals orf463a May Induce Male Sterility in NWB Cytoplasm of Radish

Wang

et al. 2020

Genes

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Radish (Raphanus sativus L.) is an important root vegetable worldwide. The development of F1 hybrids, which are extensively used for commercial radish production, relies on cytoplasmic male sterility (CMS). To identify candidate genes responsible for CMS in NWB cytoplasm, we sequenced the normal and NWB CMS radish mitochondrial genomes via next-generation sequencing. A comparative analysis revealed 18 syntenic blocks and 11 unique regions in the NWB CMS mitogenome. A detailed examination indicated that orf463a was the most likely causal factor for male sterility in NWB cytoplasm. Interestingly, orf463a was identical to orf463, which is responsible for CMS in Dongbu cytoplasmic and genic male sterility (DCGMS) radish. Moreover, only structural variations were detected between the NWB CMS and DCGMS mitochondrial genomes, with no nucleotide polymorphisms (SNPs) or meaningful indels. Further analyses revealed these two mitochondrial genomes are coexisting isomeric forms belonging to the same mitotype. orf463a was more highly expressed in flower buds than in vegetative organs and its expression was differentially regulated in the presence of restorer of fertility (Rf) genes. orf463a was confirmed to originate from Raphanus raphanistrum. In this study, we identified a candidate gene responsible for the CMS in NWB cytoplasm and clarified the relationship between NWB CMS and DCGMS.

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Section: Discussionsupporting

confidence: 93%

Section: Discussionmentioning

confidence: 99%

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Mitochondrial Genome Sequencing Reveals orf463a May Induce Male Sterility in NWB Cytoplasm of Radish

Wang

et al. 2020

Genes

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“…And a kind of medicinal plant, Marchantia polymorpha L. (183 kb), is the smallest [2]. The in-depth study also found that crop cytoplasmic male sterility (CMS) is closely related to the structural changes of the mitochondrial genome [3], and CMS is widely used in heterosis breeding to signi cantly increase crop yield [4][5][6][7][8]. Therefore, it is important to study the mitochondrial genome of crops and plants.…”

Section: Introductionmentioning

confidence: 99%

Comparative Analysis of the Mitochondrial Genome Sequences of two Medicinal Plants: Arctium Lappa and A. Tomentosum

Zhang

Xing

Xu³

et al. 2020

Preprint

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Backguound: Mitochondrial genome sequence analysis is of great significance for understanding the evolution and genome structure of different plant species. Arctium lappa and A. tomentosum are distributed in China and frequently used as medicinal plants. People usually think A. tomentosum is an adulterant or substitute of A. lappa as a traditional Chinese Medicine (TCM). It is therefore critically important to identify the different species that are utilized in medicinal applications. This study aims to determine and compare their mitochondrial genomes, gene structure, and phylogenetic relationship. These results may provide additional insights into development of genetic research. Results: We determined the complete sequences of the mitochondrial genomes of A. lappa and A. tomentosum for the first time. The mitochondrial genomes of A. lappa and A. tomentosum were assembled into 2 single circular molecules of 312598 bp and 312609 bp, respectively. A total of 131 and 130 genes were annotated in two plants. 50 pairs of large repeat sequences were detected in A. lappa and A. tomentosum. The number of simple sequence repeats (SSRs) in both species was 192 while the total length of SSR was 2491 bp for A. lappa and 2489 bp for A. tomentosum. Only 51 single nucleotide polymorphisms (SNPs) and 3 insertion-deletions (InDels) were detected between the two plants. The two mitochondrial genome structures were highly similar and highly collinear. Both of the chloroplast genomes and mitochondrial genomes of the two plants had the phenomenon of gene exchange and transfer. Core genes and specific genes were analyzed for A. lappa and A. tomentosum and three closely related Asteraceae species, the specific gene of A. lappa was orf115a. In addition, a phylogenetic tree of the mitochondrial genomes were constructed, which laced the two Arctium species into one branch within Asteraceae. Conclusions: We identified and analyzed the mitochondrial genome features of two species of Arctium in China with implications for species identification and phylogenetic analysis. The mitochondrial genomes of A. lappa and A. tomentosum were very similar in size and structure. The ORF genes of the two were different, which could provide a theoretical basis for the development of molecular markers.

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“… Park et al (2013) sequenced the mitochondrial genome that induced DCGMS, and identified a novel chimeric gene, orf463 , as the causal gene; this is the second CMS gene. We also obtained the complete mitochondrial sequences of the ‘Black radish’ variety, and found that the genome contained orf463 ( Yamagishi et al 2019 ). Interestingly, while orf463 was concentrated uniquely in the black radish cultivars belonging to the ‘Niger’ group, one line of the wild species, Raphanus raphanistrum , also possessed orf463 ( Yamagishi et al 2019 ).…”

Section: Introductionmentioning

confidence: 99%

Appearance of male sterile and black radishes in the progeny of cross between <i>Raphanus raphanistrum</i> and <i>Raphanus sativus</i>

et al. 2020

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In addition to Ogura cytoplasmic male sterility (CMS), which is used extensively for F 1 hybrid seed production in Brassicaceae crops, two other CMS systems, NWB CMS and DCGMS, have also been identified. The causal gene for the latter two CMS systems has been identified as a novel chimeric gene, orf463 . We previously reported that orf463 is specific to black radish cultivars and that it is present in line ‘RS-5’ of Raphanus raphanistrum ; however, the orf463 sequence in ‘RS-5’ differed from that of black radish cultivars. Though, R. raphanistrum with an orf463 sequence identical to that found in black radish cultivars was recently identified. We therefore sought to determine whether the orf463 gene in line ‘RS-5’ induces CMS in radishes. We crossed ‘RS-5’ as a female parent with a cultivated radish, ‘Uchiki-Gensuke’, as a male parent, and examined the gross plant morphology and pollen fertility of the resulting progeny. The F 2 population contained both male sterile plants and plants with black roots. The findings showed that R. raphanistrum contains two types of orf463 genes that induce CMS, and that the origin of black radishes could be attributed to R. raphanistrum having orf463 gene.

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Mitochondrial orf463 causing male sterility in radish is possessed by cultivars belonging to the ‘Niger’ group

Cited by 6 publications

References 21 publications

Mitochondrial Genome Sequencing Reveals orf463a May Induce Male Sterility in NWB Cytoplasm of Radish

Mitochondrial Genome Sequencing Reveals orf463a May Induce Male Sterility in NWB Cytoplasm of Radish

Comparative Analysis of the Mitochondrial Genome Sequences of two Medicinal Plants: Arctium Lappa and A. Tomentosum

Appearance of male sterile and black radishes in the progeny of cross between <i>Raphanus raphanistrum</i> and <i>Raphanus sativus</i>

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