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Development method of strawberry functional gene linked SSR marker

A technology for functional genes and strawberries, which is applied in the development of strawberry functional gene-linked SSR markers, can solve the problems that the development of SSR markers has not yet been reported, and achieves the effects of high polymorphism and good repeatability.

Pending Publication Date: 2021-02-09
JIANGSU POLYTECHNIC COLLEGE OF AGRI & FORESTRY
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Problems solved by technology

[0006] At present, the development of SSR markers related to strawberry functional genes has not been reported

Method used

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  • Development method of strawberry functional gene linked SSR marker
  • Development method of strawberry functional gene linked SSR marker
  • Development method of strawberry functional gene linked SSR marker

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Embodiment Construction

[0026] like Figure 1-4 As shown, combined with the published strawberry genome (https: / / www.ncbi.nlm.nih.gov / bioproject / ?term=PRJNA5083890), use the Fastq-Dump program to convert the SRA format data into Fastq format files, and use parallel The cleaning channel cleans up the converted files to control data quality, including Q20 (1% base error rate) cleaning and L40 (length ≥ 40bp) filtering, and removes polyT, polyA sequences and carrier sequences at the 5 and 3 ends. Subsequently, Trinity software was used to assemble and assemble the quality-controlled sequences according to the default parameters, and remove redundant sequences to obtain unigene. Use the MISA software (http: / / pgrc.ipk-gatersleben.de / misa / ) to identify the SSR site of the unigene sequence. The identification condition is that the single nucleotide repeat is not less than 10 times, and the dinucleotide repeat is not less than low At 8 times, trinucleotide repeats are not less than 7 times, tetranucleotide ...

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Abstract

The invention discloses a development method of a strawberry functional gene linked SSR marker. The development method comprises the following steps: (1) acquiring strawberry genome public data; (2) performing quality control processing on the data, assembling and splicing the processed sequences, and identifying a microsatellite sequence; (3) designing primers on a flanking sequence of the microsatellite sequence; (4) performing transcriptome sequencing, splicing and gene annotation of different strawberry varieties; and (5) carrying out electronic PCR anchoring on primers to specific genes.The SSR marker of the method has the advantages of high polymorphism, good codominance, good repeatability and the like. 2468 SSR markers and primers thereof are provided for strawberries, and the markers are all related to functional genes, so that a favorable tool is provided for strawberry breeding and gene mining related to agricultural traits.

Description

technical field [0001] The invention relates to a screening method for molecular markers, in particular to a method for developing strawberry functional gene-linked SSR markers. Background technique [0002] Molecular markers are genetic markers based on nucleotide sequence variation in an individual's genetic material. Molecular marker technology has been widely used in genetic map construction, phylogenetic analysis, population genetic analysis and so on. In recent years, the application of molecular marker methods in hybrid identification has become more and more common. Compared with morphological identification, molecular marker identification is fast, accurate and reproducible. With the development of molecular technology, there are more and more methods for molecular marker identification, and more than 60 molecular markers have been developed, including molecular markers based on traditional Southern hybridization, such as RFLP, SS-CP-RFLP, DGGE-RFLP, etc.; PCR-ba...

Claims

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Application Information

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IPC IPC(8): G16B20/30C12Q1/6895
CPCG16B20/30C12Q1/6895C12Q2600/13C12Q2600/156
Inventor 陈曦戚维聪张德海顾淑淑陈洁
Owner JIANGSU POLYTECHNIC COLLEGE OF AGRI & FORESTRY
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