Method for assistantly screening indica-type rice and japonica rice, and special primer therefor

A technology for indica and japonica rice, applied in biochemical equipment and methods, microbiological determination/inspection, DNA/RNA fragments, etc., can solve the problems of indica and japonica rice with indistinct intermediate types, increased selection of new rice varieties, and new rice varieties Breeding obstacles and other problems, to speed up the breeding speed, reduce breeding costs, short cycle effect

Inactive Publication Date: 2009-07-22
INST OF GENETICS & DEVELOPMENTAL BIOLOGY CHINESE ACAD OF SCI
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

However, due to the complexity of the growth environment, during the long process of indica/japonica rice differentiation, not only typical indica or japonica rice, but also intermediate types with indistinct differentiation between indica and japonica rice were pr...

Method used

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  • Method for assistantly screening indica-type rice and japonica rice, and special primer therefor
  • Method for assistantly screening indica-type rice and japonica rice, and special primer therefor
  • Method for assistantly screening indica-type rice and japonica rice, and special primer therefor

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0027] Example 1. Discovery of different expression patterns of genes of KOME Accession No.AK061072 in indica rice and japonica rice

[0028] The microarray data of indica rice (93-11) and japonica rice (Nipponbare) at different development stages were analyzed, and the expression of gene AK061072 in 93-11 was significantly lower than that in Nipponbare. It was deduced that the cause of differential gene expression might be the insertion / deletion (InDel) in the first intron of the gene.

Embodiment 2

[0029] Example 2, Primer Design for Assisted Screening Indica Rice and Japonica Rice

[0030] Applying the method of comparative genomics, the gene AK061072 (The gene shown in sequence 3 in the sequence listing) was compared with the genome sequences of the indica rice variety 93-11 and the japonica rice variety Nipponbare, and it was found that compared with Nipponbare, there was 139bp in the first intron of the gene in 93-11 The deletion (that is, the 717th-855th nucleotides from the 5' end of the sequence 3 in the sequence listing) ( figure 1 ).

[0031] In order to further verify whether the difference really exists, primers RRMF1 and RRMR1 were designed at both ends of the 139bp deletion according to the Nipponbare sequence (sequences are shown in sequence 1 and sequence 2 in the sequence table, respectively), and the genomic DNA of 93-11 and Nipponbare were used as templates Perform PCR amplification verification. The specific PCR amplification system is as follows: ...

Embodiment 3

[0032] Example 3, Application of primers RRMF1 and RRMR1 to assist in screening rice indica and japonica subspecies

[0033] First, 8 indica rice and its landraces, 9 japonica rice and its landraces, and 2 typical japonica common wild rice were randomly selected through morphological indicators and related literature retrieval. These materials were all from the National Germplasm Bank: 93-11( Indica rice), fine linen oak valley (indica rice), Zinuo (indica rice), Guichao No. 2 (indica rice), narrow leaf green (indica rice), IR24 (indica rice), special green (indica rice), deep water rice (indica rice), Nipponbare (japonica rice), Yuefu (japonica rice), light shell japonica rice (japonica rice), Yunfeng No. 7 (japonica rice), Taipei 309 (japonica rice), Jingxi 17 (japonica rice), Zhonghua 11 (japonica rice), Lijiang (japonica rice), Shennong 265 (japonica rice), Dongxiang common wild rice (japonica common wild rice) and Yuanjiang common wild rice (japonica common wild rice).

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Abstract

The invention discloses a filtration assisting method of Indica and Japonica and a specific primer thereof. The filtration assisting method detects whether segments shown in (a) and (b) are deleted in a protein gene that is shown in sequence 4 of an encoding sequence table in a genome of rice to be detected, and if so, the rice to be detected is Indica candidate, otherwise the rice to be detected is Japonica candidate; wherein, (a) is a DNA segment of 717 to 855 nucleotide from 5'-end in the sequence 3 of the sequence table; and (b) is a DNA segment in a nucleotide sequence that has the homology degree of over 97 percent with sequences that are limited by (a). The filtration assisting method of Indica and Japonica subtypes has important guidance in filtering Indica and Japonica varieties or local varieties in an early development stage, acknowledging the genetic differentiation degree between Indica and Japonica, utilizing the advantages of hybrid varieties Indica and Japonica, and culturing high-yield and high-quality hybrid rice, and can consequently optimize hybrid combinations, quicken breeding speed and lower breeding cost, has the advantages of simple operation, low cost and short period, fits for popularization and application, and provides a fast selection method for the quality identification of rice subtypes Indica and Japonica.

Description

technical field [0001] The invention relates to a method for assisting in screening indica rice and japonica rice and special primers thereof. Background technique [0002] Cultivated rice is one of the most important food crops in the world. It is the main source of heat for more than one-third of the world's population. The improvement of its yield and quality is crucial to the national economy and people's livelihood, social stability and food security. Cultivated rice has a domestication history of more than 11,500 years, and two different ecological types of indica rice and japonica rice have been produced to adapt to different agricultural ecological environments (Morishima et al, Japanese Journal of Breeding, 1981, 31: 402-413; Glaszmann et al, Theoretical and Applied Genetics, 1987, 74:21-30; Blair et al, Theoretical and Applied Genetics, 1999, 98:780-782). During the long evolutionary process, indica and japonica rice have obvious differences in many morphological ...

Claims

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Application Information

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IPC IPC(8): C12Q1/68C12N15/11
Inventor 李德军朱立煌李晓兵
Owner INST OF GENETICS & DEVELOPMENTAL BIOLOGY CHINESE ACAD OF SCI
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