CN105420354B - Conventional rice variety Huaihe River rice No. 5 and Huaihe River rice No. 18 identification methods based on InDel label - Google Patents
Conventional rice variety Huaihe River rice No. 5 and Huaihe River rice No. 18 identification methods based on InDel label Download PDFInfo
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- CN105420354B CN105420354B CN201510804539.7A CN201510804539A CN105420354B CN 105420354 B CN105420354 B CN 105420354B CN 201510804539 A CN201510804539 A CN 201510804539A CN 105420354 B CN105420354 B CN 105420354B
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- 235000007164 Oryza sativa Nutrition 0.000 title claims abstract description 130
- 235000009566 rice Nutrition 0.000 title claims abstract description 129
- 238000000034 method Methods 0.000 title claims abstract description 21
- 241000209094 Oryza Species 0.000 title claims abstract 34
- 230000003321 amplification Effects 0.000 claims abstract description 21
- 108020004414 DNA Proteins 0.000 claims abstract description 19
- 238000003199 nucleic acid amplification method Methods 0.000 claims abstract description 17
- 240000008467 Oryza sativa Japonica Group Species 0.000 claims abstract description 11
- 238000001962 electrophoresis Methods 0.000 claims abstract description 11
- 238000004458 analytical method Methods 0.000 claims abstract description 8
- 238000003780 insertion Methods 0.000 claims abstract description 6
- 230000037431 insertion Effects 0.000 claims abstract description 6
- 238000012217 deletion Methods 0.000 claims abstract description 5
- 239000012634 fragment Substances 0.000 claims abstract description 5
- 108091028043 Nucleic acid sequence Proteins 0.000 claims abstract description 4
- 230000037430 deletion Effects 0.000 claims abstract description 4
- 238000007400 DNA extraction Methods 0.000 claims abstract description 3
- 238000013467 fragmentation Methods 0.000 claims abstract description 3
- 238000006062 fragmentation reaction Methods 0.000 claims abstract description 3
- 238000003752 polymerase chain reaction Methods 0.000 claims abstract description 3
- 238000000926 separation method Methods 0.000 claims abstract description 3
- 238000004925 denaturation Methods 0.000 claims description 8
- 230000036425 denaturation Effects 0.000 claims description 8
- 238000001502 gel electrophoresis Methods 0.000 claims description 6
- 208000002109 Argyria Diseases 0.000 claims description 5
- 102000016928 DNA-directed DNA polymerase Human genes 0.000 claims description 4
- 108010014303 DNA-directed DNA polymerase Proteins 0.000 claims description 4
- 239000000872 buffer Substances 0.000 claims description 4
- 230000004087 circulation Effects 0.000 claims description 4
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- 238000004153 renaturation Methods 0.000 claims description 4
- LZZYPRNAOMGNLH-UHFFFAOYSA-M Cetrimonium bromide Chemical compound [Br-].CCCCCCCCCCCCCCCC[N+](C)(C)C LZZYPRNAOMGNLH-UHFFFAOYSA-M 0.000 claims description 2
- 108091093105 Nuclear DNA Proteins 0.000 claims description 2
- 210000000056 organ Anatomy 0.000 claims description 2
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- 238000001228 spectrum Methods 0.000 claims 1
- 239000013615 primer Substances 0.000 abstract description 26
- 108020001019 DNA Primers Proteins 0.000 abstract description 2
- 239000003155 DNA primer Substances 0.000 abstract description 2
- 238000004166 bioassay Methods 0.000 abstract description 2
- 238000012797 qualification Methods 0.000 abstract description 2
- 238000012360 testing method Methods 0.000 abstract description 2
- 240000007594 Oryza sativa Species 0.000 description 97
- 235000013339 cereals Nutrition 0.000 description 5
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- 238000005215 recombination Methods 0.000 description 2
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- 241000894007 species Species 0.000 description 2
- HRPVXLWXLXDGHG-UHFFFAOYSA-N Acrylamide Chemical compound NC(=O)C=C HRPVXLWXLXDGHG-UHFFFAOYSA-N 0.000 description 1
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- ISWSIDIOOBJBQZ-UHFFFAOYSA-N Phenol Chemical compound OC1=CC=CC=C1 ISWSIDIOOBJBQZ-UHFFFAOYSA-N 0.000 description 1
- 244000184734 Pyrus japonica Species 0.000 description 1
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- 239000002689 soil Substances 0.000 description 1
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
- C12Q1/6895—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for plants, fungi or algae
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2600/00—Oligonucleotides characterized by their use
- C12Q2600/156—Polymorphic or mutational markers
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- Bioinformatics & Cheminformatics (AREA)
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Abstract
Description
Number | Primer pair title | Forward primer sequence (5'- > 3') | Reverse primer sequences (5'- > 3') |
1_1 | chr01-1 | gttgttcagtcaaaagtttcagc | tccttatgtgaagtggaagtataac |
1_2 | chr01-2 | atcggtagcactaaatctttcc | gatagggttttaggtttttcgag |
2_1 | chr02-1 | gtaagactagctgtttcaatcacag | gtatgaggtatagacatgggagaac |
2_2 | chr02-2 | agttgagatgaatagctagatggag | aacttgaggaggatcggtatc |
3_1 | chr03-1 | ggatcaagtagcacgataagc | acctattggttgtgtgtcttgtag |
3_2 | chr03-2 | tgtctcattcagagtatggagttc | ttagattggagctatagttgaggac |
4_1 | chr04-1 | cattgacttttcaacacattgg | cataaatttccaggccatatactac |
4_2 | chr04-2 | aacaaccgaaaggtatatgacac | gaatccttaaaattgtaccgtagtg |
5_1 | chr05-1 | gaactcttgctcttcatagaaaatg | taatactcatcctctccgatcc |
5_2 | chr05-2 | cctaaaacctttatcccaaagc | gatcatgtagaaatgaacggc |
6_1 | chr06-1 | cacttagacagcacaaaaatatacc | actaattaaagtcgacacatgacag |
6_2 | chr06-2 | ctaatttgctacacttctgtcgtc | tgtaaagcatatagcaccaagttac |
7_1 | chr07-1 | gtgtgccagttatatttcactttag | ctgagttgacattgagaaaacaatc |
7_2 | chr07-2 | gcgatcaaagtctataaaacatctg | atatctgcagtagctgtcaaaaag |
8_1 | chr08-1 | ttctattaaagtcacaaggctcac | aatacaggcatatctaaaggttgtc |
8_2 | chr08-2 | gtaaagtttgtgtgttcaaaggag | agtcgagtacgtctatcacacatc |
9_1 | chr09-1 | tagggtgttgtataaatggtattgc | ccattagtttacatgtggaatgtc |
9_2 | chr09-2 | cacatttcgttgtcttatctgag | atctttgacctggcactcttac |
10_1 | chr10-1 | ggtaaaactaatcatatcgaggaag | tactgttatatgttggatggtgaac |
10_2 | chr10-2 | gacgatcttaaactaaaacatgagc | atccaacaacaggatattactatgg |
11_1 | chr11-1 | agtgagaaccaatgttgagatg | cattataaaagaacccatagagagc |
11_2 | chr11-2 | aactaaacccataagtcagtgtagc | ctattcactactcacctaccatgtc |
12_1 | chr12-1 | atcctatatcatgtgtttcacacc | atatcactttgacctttttccctc |
12_2 | chr12-2 | cttagcctcttctgttgaaaattg | gcaactgaaactacatgactagaag |
Number | Primer pair title | Forward primer sequence (5'- > 3') | Reverse primer sequences (5'- > 3') |
1-1 | chr01-1 | gttgttcagtcaaaagtttcagc | tccttatgtgaagtggaagtataac |
1-2 | chr01-2 | atcggtagcactaaatctttcc | gatagggttttaggtttttcgag |
2-1 | chr02-1 | gtaagactagctgtttcaatcacag | gtatgaggtatagacatgggagaac |
2-2 | chr02-2 | agttgagatgaatagctagatggag | aacttgaggaggatcggtatc |
3-1 | chr03-1 | ggatcaagtagcacgataagc | acctattggttgtgtgtcttgtag |
3-2 | chr03-2 | tgtctcattcagagtatggagttc | ttagattggagctatagttgaggac |
4-1 | chr04-1 | cattgacttttcaacacattgg | cataaatttccaggccatatactac |
4-2 | chr04-2 | aacaaccgaaaggtatatgacac | gaatccttaaaattgtaccgtagtg |
5-1 | chr05-1 | gaactcttgctcttcatagaaaatg | taatactcatcctctccgatcc |
5-2 | chr05-2 | cctaaaacctttatcccaaagc | gatcatgtagaaatgaacggc |
6-1 | chr06-1 | cacttagacagcacaaaaatatacc | actaattaaagtcgacacatgacag |
6-2 | chr06-2 | ctaatttgctacacttctgtcgtc | tgtaaagcatatagcaccaagttac |
7-1 | chr07-1 | gtgtgccagttatatttcactttag | ctgagttgacattgagaaaacaatc |
7-2 | chr07-2 | gcgatcaaagtctataaaacatctg | atatctgcagtagctgtcaaaaag |
8-1 | chr08-1 | ttctattaaagtcacaaggctcac | aatacaggcatatctaaaggttgtc |
8-2 | chr08-2 | gtaaagtttgtgtgttcaaaggag | agtcgagtacgtctatcacacatc |
9-1 | chr09-1 | tagggtgttgtataaatggtattgc | ccattagtttacatgtggaatgtc |
9-2 | chr09-2 | cacatttcgttgtcttatctgag | atctttgacctggcactcttac |
10-1 | chr10-1 | ggtaaaactaatcatatcgaggaag | tactgttatatgttggatggtgaac |
10-2 | chr10-2 | gacgatcttaaactaaaacatgagc | atccaacaacaggatattactatgg |
11-1 | chr11-1 | agtgagaaccaatgttgagatg | cattataaaagaacccatagagagc |
11-2 | chr11-2 | aactaaacccataagtcagtgtagc | ctattcactactcacctaccatgtc |
12-1 | chr12-1 | atcctatatcatgtgtttcacacc | atatcactttgacctttttccctc |
12-2 | chr12-2 | cttagcctcttctgttgaaaattg | gcaactgaaactacatgactagaag |
Claims (2)
Priority Applications (1)
Application Number | Priority Date | Filing Date | Title |
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CN201510804539.7A CN105420354B (en) | 2015-11-20 | 2015-11-20 | Conventional rice variety Huaihe River rice No. 5 and Huaihe River rice No. 18 identification methods based on InDel label |
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CN201510804539.7A CN105420354B (en) | 2015-11-20 | 2015-11-20 | Conventional rice variety Huaihe River rice No. 5 and Huaihe River rice No. 18 identification methods based on InDel label |
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CN105420354A CN105420354A (en) | 2016-03-23 |
CN105420354B true CN105420354B (en) | 2018-12-25 |
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CN109666758B (en) * | 2019-02-14 | 2023-03-07 | 四川省农业科学院经济作物育种栽培研究所 | InDel-labeled primer for identifying ligusticum wallichii franchetii and identification method |
CN113308563A (en) * | 2021-05-28 | 2021-08-27 | 扬州大学 | Method for rapidly developing Australian wild rice specific molecular marker |
Citations (2)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN102031253A (en) * | 2010-12-16 | 2011-04-27 | 复旦大学 | Molecular marker method for identifying indica type rice and japonica rice by using rice grain |
CN104789671A (en) * | 2015-04-10 | 2015-07-22 | 上海交通大学 | Identification method for hybrid rice variety hybrid source superior 69 based on InDel (insertion-deletion length polymorphism) marker |
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Publication number | Priority date | Publication date | Assignee | Title |
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CN102031253A (en) * | 2010-12-16 | 2011-04-27 | 复旦大学 | Molecular marker method for identifying indica type rice and japonica rice by using rice grain |
CN104789671A (en) * | 2015-04-10 | 2015-07-22 | 上海交通大学 | Identification method for hybrid rice variety hybrid source superior 69 based on InDel (insertion-deletion length polymorphism) marker |
Non-Patent Citations (1)
Title |
---|
新一代遗传标记——InDel研究进展;孙宽 等;《法医学杂志》;20130430;第29卷(第2期);134-139、143页 * |
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Inventor after: Zhu Mingchao Inventor after: Zhang Dabing Inventor after: Yuan Zheng Inventor after: Yuan Caiyong Inventor after: Wei Jiaojun Inventor after: Ni Xiangqun Inventor after: Wen Zhenghuai Inventor after: Yan Weigu Inventor after: Zhang Jinping Inventor before: Yuan Zheng Inventor before: Zhang Dabing Inventor before: Zhu Mingchao Inventor before: Yuan Caiyong Inventor before: Wei Jiaojun Inventor before: Ni Xiangqun Inventor before: Wen Zhenghuai Inventor before: Yan Weigu Inventor before: Zhang Jinping |
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