Chinese Bulletin of Botany ›› 2020, Vol. 55 ›› Issue (3): 279-286.DOI: 10.11983/CBB19239
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Liurong Guan1,2,Zupei Liu2,3,Ran Xu2,Penggen Duan2,Guozheng Zhang2,3,Haiyue Yu2,3,Jing Li2,3,Yuehua Luo1,*(),Yunhai Li2,*(
)
Received:
2019-12-25
Accepted:
2020-03-23
Online:
2020-05-01
Published:
2020-07-06
Contact:
Yuehua Luo,Yunhai Li
Liurong Guan, Zupei Liu, Ran Xu, Penggen Duan, Guozheng Zhang, Haiyue Yu, Jing Li, Yuehua Luo, Yunhai Li. Identification of a New OsBRI1 Weak Allele and Analysis of its Function in Grain Size Control[J]. Chinese Bulletin of Botany, 2020, 55(3): 279-286.
Figure 1 Analysis of rice smg12 mutant phenotypes (A) KYJ (wild type) and smg12 mutant phenotype (Bar=10 cm); (B) Grains of KYJ and smg12 (Bars=1 cm); (C) Grain width; (D) Grain length; (E) Number of primary branches; (F) Number of secondary branches; (G) Plant height; (H) Thousand seed weight. Significance is determined using t-test, * indicates significant differences at P<0.05, ** indicates significant differences at P<0.01.
Primer name | Primer sequence (5'→3') | DNA fragment length (bp) | Enzyme |
---|---|---|---|
smg12-1 | CTTTCTCGGCACTTTCCTTG | 154 | HphI |
CTATGGTCACATGGTGGCGGTG |
Table 1 Primer and enzyme for dCAPS analysis
Primer name | Primer sequence (5'→3') | DNA fragment length (bp) | Enzyme |
---|---|---|---|
smg12-1 | CTTTCTCGGCACTTTCCTTG | 154 | HphI |
CTATGGTCACATGGTGGCGGTG |
Figure 2 SMG12 regulates cell size in grain hulls of rice (A) Outer epidermal cell number in the grain-length direction of the glume; (B) Outer epidermal cell number in the grain-width direction of the glume; (C) The longitudinal length of a single cell in the glume; (D) Transverse width of a single cell in the glume; (E) Cytological analysis diagram (Bars= 0.1 mm). ** indicates extremely significant difference between the mutant and the wild type (P<0.01).
Hybrid combinations | Phenotype of F1 | F2 generation | χ23:1 | ||
---|---|---|---|---|---|
Wild-phenotypic plant number | Mutant-phenotypic plant number | Total number | |||
smg12/KYJ | Wild type | 168 | 52 | 220 | 0.151 |
Table 2 Genetic analysis of the rice mutant smg12
Hybrid combinations | Phenotype of F1 | F2 generation | χ23:1 | ||
---|---|---|---|---|---|
Wild-phenotypic plant number | Mutant-phenotypic plant number | Total number | |||
smg12/KYJ | Wild type | 168 | 52 | 220 | 0.151 |
Chromosomal position | Physical location (bp) | Genotype (KYJ/smg12) | Gene location | Gene locus name | Frequency of sequencing (KYJ/smg12) | Mutation type |
---|---|---|---|---|---|---|
Chr. 1 | 15686971 | G/A | Upstream of the gene | LOC_Os01g28040 | 0/6 | / |
Chr. 1 | 27750517 | G/A | In the gene compartment | LOC_Os01g48420; LOC_Os01g48430 | 0/12 | / |
Chr. 1 | 28534819 | G/A | Upstream and downstream of the gene | LOC_Os01g49630; LOC_Os01g49614 | 0/14 | / |
Chr. 1 | 29397508 | G/A | In the gene compartment | LOC_Os01g51140; LOC_Os01g51154 | 0/12 | / |
Chr. 1 | 29788896 | G/A | Upstream of the gene | LOC_Os01g51810 | 0/17 | / |
Chr. 1 | 29929259 | G/A | Exon | LOC_Os01g52050 | 0/19 | Changes in amino acids |
Chr. 1 | 33892012 | T/A | Upstream of the gene | LOC_Os01g58620 | 0/1 | / |
Chr. 1 | 39503252 | G/A | Downstream of the gene | LOC_Os01g67980 | 0/11 | / |
Chr. 1 | 30392222 | G/A | Upstream of the gene | LOC_Os01g52840; LOC_Os01g52851 | 0/5 | / |
Chr. 1 | 33745383 | G/A | Intron | LOC_Os01g58400 | 0/8 | / |
Chr. 3 | 19627588 | C/A | Upstream of the gene | LOC_Os03g35390 | 0/6 | / |
Chr. 6 | 17710551 | G/A | Intron | LOC_Os06g30610 | 0/8 | / |
Table 3 Analysis of the candidate SNPs for the smg12 mutant
Chromosomal position | Physical location (bp) | Genotype (KYJ/smg12) | Gene location | Gene locus name | Frequency of sequencing (KYJ/smg12) | Mutation type |
---|---|---|---|---|---|---|
Chr. 1 | 15686971 | G/A | Upstream of the gene | LOC_Os01g28040 | 0/6 | / |
Chr. 1 | 27750517 | G/A | In the gene compartment | LOC_Os01g48420; LOC_Os01g48430 | 0/12 | / |
Chr. 1 | 28534819 | G/A | Upstream and downstream of the gene | LOC_Os01g49630; LOC_Os01g49614 | 0/14 | / |
Chr. 1 | 29397508 | G/A | In the gene compartment | LOC_Os01g51140; LOC_Os01g51154 | 0/12 | / |
Chr. 1 | 29788896 | G/A | Upstream of the gene | LOC_Os01g51810 | 0/17 | / |
Chr. 1 | 29929259 | G/A | Exon | LOC_Os01g52050 | 0/19 | Changes in amino acids |
Chr. 1 | 33892012 | T/A | Upstream of the gene | LOC_Os01g58620 | 0/1 | / |
Chr. 1 | 39503252 | G/A | Downstream of the gene | LOC_Os01g67980 | 0/11 | / |
Chr. 1 | 30392222 | G/A | Upstream of the gene | LOC_Os01g52840; LOC_Os01g52851 | 0/5 | / |
Chr. 1 | 33745383 | G/A | Intron | LOC_Os01g58400 | 0/8 | / |
Chr. 3 | 19627588 | C/A | Upstream of the gene | LOC_Os03g35390 | 0/6 | / |
Chr. 6 | 17710551 | G/A | Intron | LOC_Os06g30610 | 0/8 | / |
Figure 3 Identification of candidate genes (A) The dCAPS marker was developed to detect the smg12 mutation; (B) Population linkage analysis of the candidate gene LOC_Os01g52050; (C) The LOC_Os01g52050 gene structure, open boxes show the 5' and 3' untranslated regions, the closed box shows the coding sequence, and the start codon (ATG), the stop codon (TAG) and the LOC_Os01g52050 mutation site (C/T) are indicated; (D) Schematic of the LOC_Os01g52050 protein. P/S indicated the LOC_Os01g52050 mutation site.
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