Fine mapping of Pa-6 gene for purple apiculus in rice

Xu, Lai; Sun, Xu; Wang, Wenying; Ding, Hanfeng; Liu, Wei; Li, Guangxian; Jiang, Mingsong; C, Zhu; Yao, Fangyin

doi:10.1007/s12374-011-0276-z

Cited by 14 publications

(10 citation statements)

References 16 publications

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“…The results of this study were consistent with those of related reports (Yue et al 2006;Fan et al 2008;Liu et al 2012;Zhao et al 2016), suggesting that qPS-1-1 and qPA-1-1 were the C (chromogen for anthocyanin) gene in rice. Moreover, the OsC1 locus appeared to be a pleiotropic gene for the colouration of the apiculus and the colouration of the stigma.…”

Section: Discussionsupporting

confidence: 93%

“…The physical distance between LR41 and LRM43 was approximately 125 kb. Liu et al (2012) mapped the purple-stigma gene Pa-6 (Purple apiculus-6) to an interval of 41.7 kb between L02 and RM19561 on chromosome 6. Sequence analysis revealed that ORF5 in the target region is the C (chromogen for anthocyanin) gene, and it is presumed to be the candidate https://doi.org/10.17221/20/2021-CJGPB gene for Pa-6.…”

Section: Discussionmentioning

confidence: 99%

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Mapping of quantitative trait loci for purple stigma and purple apiculus in rice by using a Zhenshan 97B/Minghui 63 RIL population

Tong¹,

Han²,

Han³

2021

CZECH J GENET PLANT

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Anthocyanin pigmentation is an important morphological marker that is commonly used to identify rice varieties and for linkage analysis. The following study investigates the genetic factors involved in the purple stigma (Ps) and purple apiculus (Pa) traits of an important indica rice cross between Zhenshan 97 (purple stigma and purple apiculus) and Minghui 63 (grey stigma and colourless apiculus). A recombinant inbred line (RIL) population derived from this cross was used for quantitative trait loci (QTL) mapping of the purple stigma and purple apiculus traits. As a result, one major QTL for the purple stigma trait, temporarily designated qPS-1-1, and one major QTL for the purple apiculus trait, temporarily designated qPA-1-1, were mapped to the short arm of chromosome 6 in the interval between the two markers Y4073L and *P. The LOD peaks of qPS-1-1 and qPA-1-1 were 44.0127 and 173.3585, respectively. In addition, qPS-1-1 and qPA-1-1 explained 66.7416% and 98.6441% of the total phenotypic variance, respectively. The Zhenshan 97 allele increased the purple stigma trait by approximately 8.0355% (for qPS-1-1) and 9.8863% (for qPA-1-1). Moreover, since qPS-1-1 and qPA-1-1 were strongly correlated, they were also located in the same vicinity of the C gene on the short arm of chromosome 6, which suggested that the two QTL might be the same. By comparing these and previous results, it was deduced that qPS-1-1 or qPA-1-1 was the C gene and was pleiotropic for both the colouration of the apiculus and the colouration of the stigma in rice.

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Section: Discussionsupporting

confidence: 93%

Section: Discussionmentioning

confidence: 99%

Mapping of quantitative trait loci for purple stigma and purple apiculus in rice by using a Zhenshan 97B/Minghui 63 RIL population

Tong¹,

Han²,

Han³

2021

CZECH J GENET PLANT

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“…Although the spatiotemporal regulation of anthocyanin biosynthesis has been well documented and the chromogen C gene, a major coloration gene, has also been fine mapped in cultivated rice [20,32,33], the allele in wild rice or full functional allele of C gene in rice has not been cloned. Our study identified a functional C gene, which encodes a R2R3-MYB transcription factor in wild rice.…”

Section: Discussionmentioning

confidence: 99%

“…In a previous study, OsC1, OsRb and OsDFR were identified as the determinants of anthocyanin biosynthesis in rice leaves [18]. The R2R3-MYB gene OsC1 was previously isolated from cultivated rice through comparative mapping between rice and maize or according to the nucleotide sequence homology with known maize orthologues [19,20], and was also cloned from cultivated rice using various methods recently [21,22]. Several studies determined that OsC1 acted as a chromogen gene and mainly functioned in apiculus and leaf sheath [23][24][25][26][27].…”

Section: Introductionmentioning

confidence: 99%

A functional chromogen geneCfrom wild rice is involved in a different anthocyanin biosynthesis pathway inindicaandjaponica

Qiao

Wang

et al. 2020

Preprint

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Accumulation of anthocyanin is a desirable trait to be selected in rice domestication, but the molecular mechanism of anthocyanin biosynthesis in rice remains largely unknown. In this study, a novel allele of chromogen gene C , OrC1, from Oryza rufipongon was cloned and identified as a determinant regulator of anthocyanin biosynthesis. Although OrC1 functions in purple apiculus, leaf sheath and stigma in indica background, it only promotes purple apiculus in japonica . Transcriptome analysis revealed that OrC1 regulates flavonoid biosynthesis pathway and activates a few bHLH and WD40 genes of ternary MYB-bHLH-WD40 complex in indica . Differentially expressed genes and metabolites were found in the indica and japonica backgrounds, indicating that OrC1 activated the anthocyanin biosynthetic genes OsCHI , OsF3H , OsANS , OsINS and OsANR and produced six metabolites independently. Artificial selection and domestication of C1 gene in rice occurred on the coding region in the two subspecies independently. Our results reveal the regulatory system and domestication of C1 , provide new insights into MYB transcript factor involved in anthocyanin biosynthesis, and show the potential of engineering anthocyanin biosynthesis in rice.

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“…In our study, we identified the qPa-6-2 for purple apiculus, which was also located in the same region. Meanwhile, the Pa-6 gene was also mapped to the same region with a genetic distance of 41.7 kb (Liu et al, 2012). It is well known that male sterile lines play very important in hybrid rice.…”

Section: Discussionmentioning

confidence: 99%

Development and Evaluation of Chromosome Segment Substitution Lines Carrying Overlapping Chromosome Segments of the Whole Wild Rice Genome

Yang

Zheng

et al. 2016

Front. Plant Sci.

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Common wild rice (Oryza rufipogon Griff.) represents an important resource for rice improvement. Genetic populations provide the basis for a wide range of genetic and genomic studies. In particular, chromosome segment substitution lines (CSSLs) are most powerful tools for the detection and precise mapping of quantitative trait loci (QTLs). In this study, 146 CSSLs were produced; they were derived from the crossing and back-crossing of two rice cultivars: Dongnanihui 810 (Oryza sativa L.), an indica rice cultivar as the recipient, and ZhangPu wild rice, a wild rice cultivar as the donor. First, a physical map of the 146 CSSLs was constructed using 149 molecular markers. Based on this map, the total size of the 147 substituted segments in the population was 1145.65 Mb, or 3.04 times that of the rice genome. To further facilitate gene mapping, heterozygous chromosome segment substitution lines (HCSSLs) were also produced, which were heterozygous in the target regions. Second, a physical map of the 244 HCSSLs was produced using 149 molecular markers. Based on this map, the total length of substituted segments in the HCSSLs was 1683.75 Mb, or 4.47 times the total length of the rice genome. Third, using the 146 CSSLs, two QTLs for plant height, and one major QTL for apiculus coloration were identified. Using the two populations of HCSSLs, the qPa-6-2 gene was precisely mapped to an 88 kb region. These CSSLs and HCSSLs may, therefore, provide powerful tools for future whole genome large-scale gene discovery in wild rice, providing a foundation enabling the development of new rice varieties. This research will also facilitate fine mapping and cloning of quantitative trait genes, providing for the development of superior rice varieties.

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Fine mapping of Pa-6 gene for purple apiculus in rice

Cited by 14 publications

References 16 publications

Mapping of quantitative trait loci for purple stigma and purple apiculus in rice by using a Zhenshan 97B/Minghui 63 RIL population

Mapping of quantitative trait loci for purple stigma and purple apiculus in rice by using a Zhenshan 97B/Minghui 63 RIL population

A functional chromogen geneCfrom wild rice is involved in a different anthocyanin biosynthesis pathway inindicaandjaponica

Development and Evaluation of Chromosome Segment Substitution Lines Carrying Overlapping Chromosome Segments of the Whole Wild Rice Genome

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