CN104328117A - Tugarinovia mongolica microsatellite sites, primers for microsatellite sites and application of microsatellite sites and primers - Google Patents

Tugarinovia mongolica microsatellite sites, primers for microsatellite sites and application of microsatellite sites and primers Download PDF

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CN104328117A
CN104328117A CN201410641082.8A CN201410641082A CN104328117A CN 104328117 A CN104328117 A CN 104328117A CN 201410641082 A CN201410641082 A CN 201410641082A CN 104328117 A CN104328117 A CN 104328117A
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tugarinovia
mongolica
microsatellite
sites
primers
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智颖飙
张保卫
赵利清
路战远
杨永华
李红丽
张荷亮
雷达
张德健
姚一萍
崔艳
赵凯
王强
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Abstract

The invention discloses tugarinovia mongolica microsatellite sites, primers for the microsatellite sites and application of the microsatellite sites and the primers. The tugarinovia mongolica microsatellite sites include 12 stable polymorphic microsatellite sites of which the sequences are respectively shown in SEQ ID NO:1-SEQ ID NO:12. The invention discloses 12 microsatellite sequences and 12 pairs of microsatellite primers of tugarinovia mongolica. These sites take an important role in conservation genetics research, germplasm resource investigation and assistant breeding of tugarinovia mongolica and provide basis materials for research on the drought resistance mechanism of plant; through analyzing genetic typing results of 18 tugarinovia mongolica individuals, the number of alleles is 3-12, expected heterozygosity He is 0.586-0.905, observed heterozygosity Ho is 0.5-1. All the sites show relatively high polymorphism and the requirement for individual identification is reached.

Description

Tugarinovia mongolica microsatellite locus, primer and uses thereof
Technical field
The present invention relates to biological technical field, in particular Tugarinovia mongolica microsatellite locus, primer and uses thereof.
Background technology
Tugarinovia mongolica (Tugarinovia mongolica) is current is composite family chrysanthemum Ba Yake welted thistle race Tugarinovia plant, belongs to strong xerophyte.For perennial herb, the loose thick root of tool, be born in rocky soil hill hillside fields, low mountain and the grit quality of desert band and desertification steppe band, local can form micro-strands.Be the endemic species being confined to the northern desert steppe in West Dongting Lake Region, eastern Alxa and the Yinshan Mountains and steppificated desert area, its geographical components is fixed tentatively as West Dongting Lake Region one eastern Alxa one Wu Late endemic genus.Tugarinovia mongolica has following features: dioecy, and staminiferous plant head inflorescence is less, has the hermaphrodite flower of most similar shape, shaky; Female plant head inflorescence is comparatively large, has the degeneration hermaphrodite flower (i.e. female flower) of most similar shape, solid.Blade keratin, simultaneously root system carnification, form water tissue etc.
Artificial destruction in recent years, overgraze, make it be in Critical Condition, and oneself is listed in national secondary national key protected plant.Tugarinovia is the endemic genus plant of Mongolian plat flora, has important value to the origin of plant in the middle part of Study In Asian and Flora.
Arid is one of most serious problems of facing of world's husbandry.Particularly the northern area of China arid is especially serious.Even if in China humid and semi-humid region, be also usually subject to the invasion and attack of drought.The impact of arid on world crop output, ranks first in Natural stress, and its harm is equivalent to the conjunction of other natural disasteies.Therefore, plant drought Journal of Sex Research is the major issue that various countries scientist pays close attention to always, is the focus of current research.To Tugarinovia mongolica microsatellite polymorphism the research research that can be research plant drought mechanism base mateiral is provided.
Summary of the invention
Technical problem to be solved by this invention provides Tugarinovia mongolica microsatellite locus, primer and uses thereof for the deficiencies in the prior art.
Technical scheme of the present invention is as follows:
The present invention provide firstly Tugarinovia mongolica microsatellite locus, and comprise 12 stable polymorphic micro-satellite sites, its sequence is respectively as shown in SEQ ID NO:1-SEQ ID NO:12.
Present invention also offers the primer of described Tugarinovia mongolica microsatellite locus, its sequence is respectively as shown in SEQ ID NO:13-SEQ ID NO:36.
Described Tugarinovia mongolica microsatellite locus or the purposes of described primer, comprise molecular ecology research, pedigree analysis, Germplasm Resource Investigation, assistant breeding and individual recognition, described 12 stable polymorphic micro-satellite Sites Combination use, or the combination of primers of its correspondence uses.
12 microsatellite sequences of Tugarinovia mongolica disclosed by the invention and 12 pairs of micro-satellite primers.These sites play an important role, also for the research of research plant drought mechanism provides base mateiral studying the conservative genetics of Tugarinovia mongolica, in Germplasm Resource Investigation and assistant breeding.By the analysis of the genotypic results to 18 Tugarinovia mongolica individualities, number of alleles is 3-12, expect that heterozygosity He is 0.586-0.905, observation heterozygosity Ho is that 0.5-1. all sites all shows more much higher state property, reaches the requirement (table 3) of individual recognition.
Embodiment
Below in conjunction with specific embodiment, the present invention is described in detail.
1, DNA extracting
Use silica dehydrator after sample collecting, adopt DNA of plants extraction agent box to carry out DNA extracting
2, the structure of Tugarinovia mongolica enriched microsatellite library
Utilize and extract genomic dna, adopt AFLP Rapid Isolation (Fast Isolation by AFLP of Sequences Containing repeats, FIASCO) enriched microsatellite library is built, detailed process is as follows: get genomic dna about 250ng, use Mse I digestion, connect with the AFLP acceptor joint (5 ,-TAC TCA GGA CTC AT-3 '/5 '-GAC GAT GAG TCC TGA G-3') of Mse I simultaneously.Digestion product is diluted after ten times, do pcr amplification with the primer (5 '-GAT GAG TCC TGA GTA AN-3 ' is called for short MseI-N) of AFLP receptor-specific.Amplified production 1% agarose gel electrophoresis after 30 minutes for being greater than the dispersion plating of 200bp.
Use probe (AC) 12or (AG) 12cut after connecting fluid pcr amplified fragment hybridizes with enzyme, use magnetic bead to carry out absorb-elute, the micro-satellite repetitive sequence of required strand can be obtained.With the DNA caught for template, be that primer carries out double-stranded DNA recovery with MseI-N.PCR reaction volume is 50 μ L, and reaction system consists of: dNTP 5 μ L, Buffer 5 μ L, rTaq 0.5 μ L, MseI-N Primer 2 μ L, magnetic bead elutriant 5 μ L.PCR is circularly set as 95 DEG C of denaturation 5min; 95 DEG C of sex change 30sec; 60 DEG C of annealing 30sec; 72 DEG C extend 45sec, carry out 5 circulations; Carry out other 92 DEG C of sex change 30sec; 60 DEG C of annealing 30sec; 30 circulations of 72 DEG C of extension 45sec, 72 DEG C extend 10min.
PCR primer is through PCR cleaning agents box (Axygen) purifying, and by 2% agarose-EB gel detection, result is that the dispersion plating being greater than 200bp is then considered as successfully.Double-strand after purifying is recovered transform in DH5-α competent cell (Takara) after product is connected with pMD19-T carrier (Takara).The competent cell transformed is coated on the Amp+LB flat board of interpolation 0.5mM IPTG and 0.5 μ g/mL X-Gal, at 37 DEG C, cultivate 13h, obtain the micro-satellite library comprising AC, AG two kinds repetition.
3, the screening of positive colony, order-checking and design of primers
The full bacterium colony of picking white is placed in Amp+LB liquid nutrient medium enlarged culturing (37 DEG C, 5h).Tri-Primer-PCR (Zane et al, 2002) is adopted to detect the positive recombinant containing micro-satellite fragment.The probe (AC) of the lifeless matter element mark of M13 carrier universal primer (M13-47) and clone's correspondence is selected in experiment 12/ (AG) 12react.If product occurs that two or more band can think that this mono-clonal contains aim sequence, otherwise then thinks without aim sequence.Successfully checked out the positive recombinant 105 of aim sequence by three-primer method, these recons are checked order.
The preliminary screening of 4, sequential analysis, design of primers and microsatellite locus
Check sequencing result, after removing the carrier sequence of M13, use TRF software (Tandem Repeats Finder, Version3.2.1) to find the sequence (Benson, 1999) wherein containing micro-satellite repeating unit.Use PRIMER5 software (Lalitha, 2000; Singh et al., 1998) in the flanking sequence of repeating unit sequence upstream and downstream, design primer, object fragment is set between 100-200bp.24 micro-satellites are selected to repeat site as alternate labels altogether.
5, the reading of genotype data and the acquisition of microsatellite locus
Fluorescent mark (FAM/HEX/TAMRA) is carried out to the one-sided primer 5 ' end of 24 microsatellite locus just selected, then the DNA of 50 Tugarinovia mongolica individualities is used to carry out amplification screening to above-mentioned microsatellite locus, process is as follows: the pcr amplification first treating bit selecting point, is circularly set as 95 DEG C of denaturation 5min; 95 DEG C of sex change 30sec, anneal at Tm temperature 60sec, and 72 DEG C extend 60sec, react 30 circulations; 72 DEG C extend 10min.Amplified production uses Tamara350 fluorescence molecule amount standard to use polyacrylamide gel to carry out gene type in ABI 377DNA sequenator, and the result of genetic analysis uses Genescan 2.0 software to read.The analysis of genotypic results, removes following alternative site: without the site of genotypic results; At arbitrary individual allelic number in plural site; In 18 sites of Tugarinovia mongolica allelic below two.After screening, the microsatellite locus that final acquisition 12 is stable, microsatellite sequence is as follows:
TIL-AC-111
TAGGATTTCCTAAGAGTAAAGTTCTTGTATTTTTCAGAGAATTTTCTAAGAGCAGAGCTAAGCCTCAATTGATCAAAGTATGTATTATGCTTCAAGACTTCCTACTTTCCGGAGAGGTATAGTGCGCGCGCGCACTCACACACACACACACACACACACACACACACACACACACACACACACACACACACACATATATATATATGCATCATTCGCTAACCGTTTTACACAAGTTAGTTACTCAATTTCCAAAACCCACCAATTCAAGAACTCTAGAIATTTCCCGAGTTTTGTTTACTCAACTTTGCCTTGGT
TIL-AG-111
AGAAATGGACCTTTGGAACATGAACCAGAGAAGGAAGGATGACGAGGATGACAAGGAGCCAACAIAGCCTCCCTCTACTTGAAAGTCCACACCCGAGCAACGTCAGGTACGAACGAGATGCTAATCTTCAATCCAATGTTCTTTAGTATTTTCTTACTTAGAIAAIACTACAATGACCCCTATAATCTTGTATGATTTCTCTAAACCTTTTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCGCCAACCATAATTTCAACTCTTGAAAAATATGAIAAATAATATAACTCAACAAAAGCGAGGTGTCCCCTTTTGTTTTAAGTCCTATGGTTGGCCACCATGAGAGGGACAGGAGAGGTCAAAAGCCAACCCAIACCTCCCATACTCGCCTAAATAATATCATATATCCCATGCTTTGGTTGTA
TIL-AG-2038
TAATCAACTAACCACCTAATGAACACATAATGCTGACGTGAAGATCCCAGCACATCTTATAGAACTATTAGATACATAAAAAAACAAACACACACACACACACACACACACACACACACACACGCATACGGTTACAGAGAGACAAGACAAGAAAAATGGAGAGCATAGAGCACAAGGTACATGCAAGAGTGGGGCTGTTGGGAAATCCAAGCGATGTGTATTTCGGCAATACAATATCTTTCAGTCTCGGCAATTTCTGGGCTTCCGT
TIL-AG-2091
TAAGGGCCGTTGTAGAATCCTTCTACAGGTCAAACTCTAAGACTCTTGTCATATTAGTCTTCATCATATATTTTGTTATGATCCTAGTGAATATATATATATATATACACACACACACTCACACACACACACACACACACACACTCTCTATCTCTCTCTTCTCTGAATATGAAGTTCTGTAGAGATGTTGCATCAACATGCAATCTGTCAGATGGTGTGCTAGGTAGCTTTAGTGTCAGGATTTCATACTAGTGTTCCTTATTCTAAGCTCGTGGGTAATCTTTATAGACAAGTTAGATATACGTACATGACATTGCTATACATATGATAAAGATGTATGGT
TIL-AC-3065
TAATCACAGATCCAGTTCAATGTACAAAGATTACGTTTGTGTAAACTTTGAATATGAGCAATCTGAAACAGCCTCAGCTGCGATGATTCATTTTTCTTCAAATAAAATCATCTTCAAGTATCATGTGATATTATATGCATCACAGGCTATAAATTCAGATATCACGACAATGAAACTGATTTGCTCAGCAAAAACTACTCCACATTGTCAAAGAACAAAACATATCAAAACGAAAATAACAAATAAAAACAATGGTGAAAAAAAGTGATGAGTTGAGCATCAGAGAGATTCCCACGGACAATCATCATACTCCAATGGAATGCAGCTGTCCCTGTCGGATTCATCATCATTTGCAGCAAAATCTTCAGTGAAAAAAAAAAGCACACACACACACACACACACACACAAAAAATTTATAGTGCCTCAGATTGACAAATCGATGATTGGCAGT
TIL-AC-3007
TAATCAACTAACCACCTAATGAACACATAATGCTGACGTGAAGATCCCAGCACATCTTATAGAACTATTAGATACATAAAAAAACAAACACACACACACACACACACACACACACACACACACACGCATACGGTTACAGAGAGACAAGACAAGAAAAATGGAGAGCATAGAGCACAAGGTACATGCAAGAGTGGGGCTGTTGGGAAATCCAAGCGATGTGTATTTCGGCAATACAATATCTTTCGGTCTCGGCAATTTCTGGGCTTCCGT
TIL-AC-3099
TAACTATCTCGAGGCATATGCAATTACCTTTTTGTGTTACATCAAAACACAACCGAGGTCGCTCTTAGAAGTGTCGCTGTAGATTTGGTAACCACTCGTCCCAGATGGCAATGTAAGTTTGGGTGCCGTTACCAATCTTTTCTTCAGCTCTTTAAGGAATGAAACTGTTGAAATAGAAAAAGAAATTGGTAAAGTTGGGGATGCAATATTTTTGAAGATGGATACTTTACAACTCAAAGCTGATGATATCGAGAACATTGCAGAAACTTCATTAGACAGACAAAGGCAACTTCTTGAAAGCCAGGCTTCTGCCCTTGACGTTCTCCAGACCATGACAAGTTTTCAGTCCCAAGCACTAGAAGAGAGCAGGTAAGCAGAAAAAGTCACGTTCTCATCAAATTTACAACAGAAGAAAAGCCAAAAAACACACACACACACACACACACACACACACACACACACACACATAGACATATATGTCAAATTTACAACAGGAAAAAAGCAAAAAAAGGACATATATATGTATTTTATATGTATGCATGTATGTACGTACACATGTAT
TIL-AC-288
TAACATTCTTATTCTCCTTATCGCTCGCCTTTGCATATATTGTACCGGCCATGTTGCACACAAACTGTTTCTTCAATACTGTTCCATCCCTATGTTTTTTTTCACAGTCACGACGAACATCAAATCCATCTGATACCCCATACTTTTTGTAAAAATTATATGCATCGTCAATAGTTTTGAAGATCATGTTTAGACGGGGCTTCATGTCATCAGCACATTTTGATACACACACACACACACACACACACACACACACACACACACACACTTTCGGAGACTAATAAGAATCGCCTATACAGTGCCCTGCATGTTCTGATTCATTCACCTCGTCAT
TIL-AC-106
ACCCATTGCTTTATCCTTATACTCATTATCTGTTCTGTTGCGTTTTGTAGGTTGCTTACTGTTTGGTGCCATTTTCTATATCTAATGTCTACTCGAAAACAATCTTTTTACCCCCTGGGCTAGAGGTAAGGCATGCGTACACCATACCCCCAGACCCTACTTTCAAGAGAGATGTACTTGTTCCATTTGGTTTGTTATTTTTATTTATACACACACACACACACACACATAGATAATGTCTGTTCTGTTACGTTTTGCATGTTGCTCACTGCCAAGTGCCATTTTCTATAGCTGACGTTTACTCATAAACAATCTCTCTCCCTA
TIL-AG-2024
TAATGCAAAGAGAAAGTTGGTGAGGAGTGTACCATTATCCAATATAATATTTTTATGAGTGAGTCATCTTTTAGGATGACCATTGCCTCGTTTTGTAATGAGATGTCTTGTCTTAGATAAGACGTATGATATATATATACACACACACACACACACACACACATACATACACACACACACACACATACATACATATACATACATAACGAGAGGGTGAGAAGAGTGAGGTAAGAGAAAGAGAGAGAGAATCACATATCACTGGTGAGTGGTGTAAGTTGAGAGAATACTTCAATTTGCATCTCCAGGTTCTTAGATGGTTTTCATTATAGGTTGAGAGAGAGTGAGAGAGAAGCTCTAAGGGAGCCATAGTCATGAGTTTTTATATAATGTTTTTTTGACAATCAAATAACCTGATTTGTGTTTTGACAATGATGATCATTTGGATTACTCAGTTTATTCGATAAGAGATCTATTCACCCAAGGCTACACACTAGATGAGTTGATACGAAATATTGACTTGAGTGTTTGTGAGGGAGTGTCCCCATATCAATGTATCGGTTTATGTTTGCACCGT
TIL-AC-232
TAACATTCTTATTCTCCTTATCGCTCGCCTTTGCATATATTGTACCGGCCATGTTGCACACAAACTGTTTCTTCAATACTGTTCCATCCCTATGTTTTTTTTCACAGTCACGACGAACATCAAATCCATCTGATACCCCATACTTTTTGTAAAAATTATATGCATCGTCAATAGTTTTGAAGATCATGTTTAGACGGGGCTTCATGTCATCAGCACATTTTGATACACACACACACACACACACACACACACACACACACACACACACTTTCGGAGACTAATAAGAATCGCCTATACAGTGCCCTGCATGTTCTGATTCATTCACCTCGTCAT
TIL-AC-4014
TAACACAAATAATTTCTAATGCAAATTGACCCATTGATTAGACGTTATAACATAAATGGGTAGGATTCCATACCTCTTGAACTCGGTCTGACCCTCAATTCCACTCGGTCATTGCTGCTTTTTGACCTATGCTCAAAATCGCCCTCGTAGAACTCTTTCACTCTTGAGTTTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAAATAGAGAGAAATAAAGAGAGAGAGCGAGAGAGAGAGAGAGAACAAAATAGAGAGAAAGGGAGAGAAAGAGAAAGAGAAATGTGACAATGGGTCTCGGTTTCACCCGTTCGAACGTCGCCTAAGGGTTATCTCCCCTCCCCTTCAACCGTCTCCGTCCTGCTCGGGTCCTATTTTCTTTCTTTTTTCCCCTTGACTATGGTACCCATGACCCT
The primer sequence in table 1 12 sites
The genotypic results of table 2 18 Tugarinovia mongolica individualities
Typing data by analysis after, number of alleles is 3-12, expects that heterozygosity He is 0.586-0.905, and observation heterozygosity Ho is that 0.5-1. all sites all shows more much higher state property, reaches the requirement (table 3) of individual recognition.
Table 3 typing data analytical results
Number of alleles Expect heterozygosity He Observation heterozygosity Ho Polymorphism information amount PIC
TIL-AC-111 4 0.64 0.722 0.563
TIL-AG-111 7 0.803 0.5 0.75
TIL-AG-2038 6 0.775 0.5 0.714
TIL-AG-2091 7 0.8 0.722 0.748
TIL-AC-3065 3 0.586 0.444 0.505
TIL-AC-3007 12 0.905 1 0.87
TIL-AC-3099 4 0.713 0.667 0.632
TIL-AC-288 9 0.881 0.722 0.84
TIL-AC-106 4 0.694 0.667 0.623
TIL-AG-2024 5 0.71 0.5 0.639
TIL-AC-232 9 0.9 0.778 0.856
TIL-AC-4014 7 0.64 0.556 0.593
Should be understood that, for those of ordinary skills, can be improved according to the above description or convert, and all these improve and convert the protection domain that all should belong to claims of the present invention.

Claims (3)

1. Tugarinovia mongolica microsatellite locus, comprise 12 stable polymorphic micro-satellite sites, its sequence is respectively as shown in SEQ ID NO:1-SEQ ID NO:12.
2. the primer of Tugarinovia mongolica microsatellite locus according to claim 1, its sequence is respectively as shown in SEQ ID NO:13-SEQ ID NO:36.
3. the purposes of Tugarinovia mongolica microsatellite locus according to claim 1 or primer according to claim 2, comprise molecular ecology research, pedigree analysis, Germplasm Resource Investigation, assistant breeding and individual recognition, described 12 stable polymorphic micro-satellite Sites Combination use, or the combination of primers of its correspondence uses.
CN201410641082.8A 2014-11-14 2014-11-14 Tugarinovia mongolica microsatellite sites, primers for microsatellite sites and application of microsatellite sites and primers Pending CN104328117A (en)

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Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20100209911A1 (en) * 2009-02-16 2010-08-19 National Taiwan University Microsatellite maker combination and method for identifying Lanyu pig breed
CN104087583A (en) * 2014-07-21 2014-10-08 张保卫 Anthriscimus musk microsatellite locus, primer and application thereof
CN104087584A (en) * 2014-07-21 2014-10-08 张洁 Dasyatis zugei microsatellite sites, primers and application thereof

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20100209911A1 (en) * 2009-02-16 2010-08-19 National Taiwan University Microsatellite maker combination and method for identifying Lanyu pig breed
CN104087583A (en) * 2014-07-21 2014-10-08 张保卫 Anthriscimus musk microsatellite locus, primer and application thereof
CN104087584A (en) * 2014-07-21 2014-10-08 张洁 Dasyatis zugei microsatellite sites, primers and application thereof

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Application publication date: 20150204