Mutagenic Effect of Three Ion Beams on Rice and Identification of Heritable Mutations by Whole Genome Sequencing

Zheng, Yunchao; Li, Shan; Huang, Jianzhong; Fu, Haidong; Zhou, Libin; Furusawa, Yoshiya; Shu, Qingyao

doi:10.3390/plants9050551

Cited by 20 publications

(26 citation statements)

References 39 publications

(65 reference statements)

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“…Dwarf rice plants caused by ion beam, as observed in the present study was previously reported by Oono et al (2020). Zheng et al (2020) showed that heavy-ion beam irradiation was effective in inducing mutations in rice, and revealed the characteristics of mutations at the genome level.…”

Section: Evaluation Of M2 Generationsupporting

confidence: 84%

Evaluation of Toraja (Indonesia) local aromatic rice mutant developed using heavy-ion beam irradiation

et al. 2021

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Abstract. Okasa AM, Sjahril R, Riadi M, Mahendradatta M, Sato T, Toriyama K, Ishii K, Hayashi Y, Abe T. 2021. Evaluation of Toraja (Indonesia) local aromatic rice mutant developed using heavy-ion beam irradiation. Biodiversitas 22: 3474-3481. The aromatic local Toraja rice "Pare Bau" has a good grain quality and aroma. However, it has some disadvantages, including a late heading and low yield for a modern farming system. This study aims to evaluate and select early heading as well as high yield mutant lines induced by heavy-ion beam irradiation. Furthermore, dry seeds of Pare Bau were irradiated with Argon-ion (300 keV/?m) and Carbon-ion (30 keV/?m) at RI-beam factory, RIKEN Nishina Center, Japan. The germination percentages of the M1 seeds were 49% for Pare Bau irradiated with Argon-ion (PB-A), 53% for Pare Bau irradiated with Carbon-ion (PB-C), and 70% for the Control. The 13 PB-A and 13 PB-C M1 plants were selected, and the seeds were sampled in the paddy field of Hasanuddin University (20 m asl.), Makassar. During the following planting season, the M2 generation plant was examined in Enrekang District (650 m asl.), South Sulawesi, Indonesia. Based on the early heading and a larger number of panicles, the 18 PB-A and one PB-C M3 line were selected from a total of 404 M2 survival plants. The selected lines and control were grouped into seven clusters based on the quantitative phenotypic traits, indicating the existence of genetic variability. The plant yield was significantly correlated with plant height, the number of tillers, the number of panicles, as well as grain weight per panicle, which showed that these traits are good criteria for selection.

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Section: Evaluation Of M2 Generationsupporting

confidence: 84%

Evaluation of Toraja (Indonesia) local aromatic rice mutant developed using heavy-ion beam irradiation

et al. 2021

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“…They minimize weed control costs and use less water (Oladosu et al 2014). The TGW has no significant difference (Figure 5(b)), and the results were kept decreasing from 60 to 100 Gy as reported by Zheng et al (2020), the values decreased as the dose increased. Significant differences in FR were observed between the control and all the treatments except for the two optimum doses, 40 and 60 Gy based on Tukey's HSD test (Figure 5(c)).…”

Section: Effect Of Carbon Ion Beam Irradiation On the Morpho-agronomical Traitsmentioning

confidence: 65%

“…The biological effects of ion-beams have also been investigated and observed to show a high relative biological effectiveness (RBE) in lethality, mutation and also to transfer high energy to the target compared to low LET radiation such as Gamma-rays, X-rays and electrons (Tanaka et al 2010). Since then, carbon ion beams have been used in rice breeding programs, and several useful mutant lines have been created, including low cadmium rice, UVB-tolerant mutants, and extremely late heading mutants (Zheng et al 2020).…”

Section: Introductionmentioning

confidence: 99%

Carbon-Ion Beam Radiosensitivity Study and Biological Responses of High-Yielding Rice Line, MR219-PL-5

Waitul¹,

Ikmal²,

Ahmad³

et al. 2021

JSM

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The carbon ion-beam has emerged as a novel physical mutagen for creating genetic variability and crop improvement. In this study, seeds of a high-yielding pyramided rice line MR219-PL-5 were exposed to carbon ion beam irradiation at 10, 20, 40, 60, 80, and 100 Gy. The radiosensitivity test was conducted to determine the optimum dose of carbon ion beam irradiation based on the lethal dose 50% (LD50) using Sandwich Blotter Technique. The biological responses of carbon-ion beam irradiation were also observed in other characteristics such as germination rate (GeR), survival rate (SR), growth rate (GRoR), shoot length (SL), root length (RL), seedling height (SH), days to flowering (DTF), fertility rate (FR) and thousand-grains weight (TGW). Based on the polynomial curve of SR graph, the lethal dose 50% (LD50) value was 86.12 Gy. However, the optimum dose range of carbon ion-beam irradiation was between 40 and 60 Gy as these two doses recorded the highest SR, 63 and 67%, respectively. Furthermore, the shoulder dose in this study was 60 Gy since SR decreased significantly at higher doses. M1 individuals irradiated at 40 and 60 Gy had the best biological responses where significant differences were found for SR, SL, RL, GRoR, SH, DTF and FR at these two doses compared to the other doses. Further studies on M2 and M3 populations could help to identify potential individuals as well as to understand the inheritance of each trait of interest from one generation to the next.

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“…The molecular mutation profile at the genome scale can also be used for selecting a proper mutagen for mutation breeding and gene function analysis. Re-sequencing analysis of progeny of mutagenized plant material has provided a new perspective aimed at characterizing the mutation molecular profile of various physical mutagens at the whole-genome scale in the last 10 years [ 31 , 33 , 36 , 40 , 41 , 47 , 54 , 55 , 56 , 57 , 58 , 59 , 60 , 61 ]. In earlier research, only one mutant line was sequenced since it was still costly to perform NGS analysis.…”

Section: Discussionmentioning

confidence: 99%

Frequency and Spectrum of Mutations Induced by Gamma Rays Revealed by Phenotype Screening and Whole-Genome Re-Sequencing in Arabidopsis thaliana

Feng

Wang

et al. 2022

IJMS

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Genetic variations are an important source of germplasm diversity, as it provides an allele resource that contributes to the development of new traits for plant breeding. Gamma rays have been widely used as a physical agent for mutation creation in plants, and their mutagenic effect has attracted extensive attention. However, few studies are available on the comprehensive mutation profile at both the large-scale phenotype mutation screening and whole-genome mutation scanning. In this study, biological effects on M1 generation, large-scale phenotype screening in M2 generation, as well as whole-genome re-sequencing of seven M3 phenotype-visible lines were carried out to comprehensively evaluate the mutagenic effects of gamma rays on Arabidopsis thaliana. A total of 417 plants with visible mutated phenotypes were isolated from 20,502 M2 plants, and the phenotypic mutation frequency of gamma rays was 2.03% in Arabidopsis thaliana. On average, there were 21.57 single-base substitutions (SBSs) and 11.57 small insertions and deletions (InDels) in each line. Single-base InDels accounts for 66.7% of the small InDels. The genomic mutation frequency was 2.78 × 10−10/bp/Gy. The ratio of transition/transversion was 1.60, and 64.28% of the C > T events exhibited the pyrimidine dinucleotide sequence; 69.14% of the small InDels were located in the sequence with 1 to 4 bp terminal microhomology that was used for DNA end rejoining, while SBSs were less dependent on terminal microhomology. Nine genes, on average, were predicted to suffer from functional alteration in each re-sequenced line. This indicated that a suitable mutation gene density was an advantage of gamma rays when trying to improve elite materials for one certain or a few traits. These results will aid the full understanding of the mutagenic effects and mechanisms of gamma rays and provide a basis for suitable mutagen selection and parameter design, which can further facilitate the development of more controlled mutagenesis methods for plant mutation breeding.

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Mutagenic Effect of Three Ion Beams on Rice and Identification of Heritable Mutations by Whole Genome Sequencing

Cited by 20 publications

References 39 publications

Evaluation of Toraja (Indonesia) local aromatic rice mutant developed using heavy-ion beam irradiation

Evaluation of Toraja (Indonesia) local aromatic rice mutant developed using heavy-ion beam irradiation

Carbon-Ion Beam Radiosensitivity Study and Biological Responses of High-Yielding Rice Line, MR219-PL-5

Frequency and Spectrum of Mutations Induced by Gamma Rays Revealed by Phenotype Screening and Whole-Genome Re-Sequencing in Arabidopsis thaliana

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