CN110042169A - A kind of T. grubii group specific molecular marker primer, kit and identification method - Google Patents
A kind of T. grubii group specific molecular marker primer, kit and identification method Download PDFInfo
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- CN110042169A CN110042169A CN201910472846.8A CN201910472846A CN110042169A CN 110042169 A CN110042169 A CN 110042169A CN 201910472846 A CN201910472846 A CN 201910472846A CN 110042169 A CN110042169 A CN 110042169A
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Abstract
The invention discloses a kind of T. grubii group specific molecular marker primer, kit and identification method, primer ThtC1010, ThtC1029, ThtC1034;Wherein, ThtC1010 primer sequence is as shown in SEQ ID NO.1-2, and ThtC1029 primer sequence is as shown in SEQ ID NO.3-4, and ThtC1034 primer sequence is as shown in SEQ ID NO.5-6.The present invention is the new method of the differentiation T. grubii group established for the first time based on Protocols in Molecular Biology principle both at home and abroad, it is on the basis of T. grubii EST data, successfully develop EST-SSR label, and the genetic background of the group of T. grubii is analyzed with part label, have found the specific marker that can distinguish 3 groups, wherein the site THC1010 and the site THC1029 can accurately distinguish Gen He group and other Liang Ge groups, the site THC1034 can distinguish three groups, with accuracy height, technique reproducible is good, the high advantage of cost performance.
Description
Technical field
The present invention relates to a kind of T. grubii group specific molecular marker primer, kit and identification methods, belong to
Technical field of molecular biology.
Background technique
T. grubii Thymallus arcticus grubei (Dybowski) category salmon shape mesh (Salmoniformes),
Grayling section (Thymallidae), grayling category (Thymallus), are commonly called as: spot trout, red squama fish are distributed in Eurasia, at me
For state's NATURAL DISTRIBUTION in the tributary of Heilongjiang river, fine and tender taste, delicious flavour are that Heillongjiang River system is distinctive rare cold aqueous
Fish.The fish requires harshness to environmental condition, is hardly formed large-scale groups in its natural state, can not form certain catch
Fishing amount.Simultaneously because the variation of environmental condition, habitat fisherman catches and builds reservoir and water conservancy projects in the migration phase, changes
The oviposition of T. grubii is become, has ingested, overwintering environment, it is bred and existence causes extreme influence, leads to wild resource
It is exhausted.T. grubii artificial propagation at present has been successful, and artificial fecundation, which releases, gradually to be carried out.Fish population divides
Fish germ plasma resource is protected and manages significant, only understands the genetic background and resource of T. grubii population in depth
Situation understands fully group source, could preferably protect T. grubii, carries out T. grubii breeding and resource repair.
Molecular labeling has a wide range of applications in Germplasm Resources Diversity research.The polymorphism of DNA level mainly shows
In the difference of nucleotide sequence, the difference of any kind of nucleotide sequence can carry out it with molecular marking technique
Detection.Wherein simple repeated sequence (Simple Sequence Repeats, SSR) is also referred to as microsatellite DNA, usually by 1~
6 nucleotide are the tandem sequence repeats DNA sequence dna of recurring unit, have quantity more, polymorphism height are disclosed, in spies such as codominant inheritances
Point has been widely used in the research such as the assignment of genes gene mapping, fingerprint map construction, genetic map construction and germplasm identification.This hair
Bright library EST (Express sequence tag, EST) that T. grubii is obtained by high-flux sequence, is excavated
The EST-SSR of T. grubii is marked, and analyzes the genetic background of different groups T. grubii, it is distinctive to find different groups
EST-SSR label provides basic data for further analysis, Germplasm Identification and molecular marker assisted selection breeding etc..
Summary of the invention
For the discrimination method for lacking T. grubii group, the object of the present invention is to provide a kind of T. grubii groups
Specific molecular marker primer, kit and identification method can accurately distinguish the T. grubii group in different basins.
To achieve the goals above, the technical scheme adopted by the invention is that:
A kind of T. grubii group specific molecular marker primer, primer ThtC1010, ThtC1029,
ThtC1034;Wherein, the upstream primer sequence of ThtC1010 is as shown in SEQ ID NO.1, downstream primer sequence such as SEQ ID
Shown in NO.2, the upstream primer sequence of ThtC1029 is as shown in SEQ ID NO.3, downstream primer sequence such as SEQ ID NO.4 institute
Show, the upstream primer sequence of ThtC1034 is as shown in SEQ ID NO.5, and downstream primer sequence is as shown in SEQ ID NO.6.
A kind of kit of T. grubii group identification, including primer ThtC1010, ThtC1029, ThtC1034.
Mentioned reagent box further includes 2 × Taq PCR Mix and ultrapure water.
A kind of identification method for T. grubii group, comprising the following steps:
(1) sample collection: the grayling sample in acquisition Heilungkiang difference basin;
(2) grayling sample DNA extracting genome DNA: is extracted using phenol chloroform method;
(3) PCR amplification: using the genomic DNA of extraction as template, PCR amplification is carried out using the primer of claim 1;
(4) electrophoresis dying compare map: PCR after reaction, takes PCR product electrophoresis detection, according to electrophoresis result with mention
The standard diagram of confession compares, and is identified.
The reaction system of PCR amplification is 20 μ l, each ingredient are as follows: 2 × Taq PCR Mix, 10 μ l, 50ng/ μ l genomic DNA
2 μ l, each 0.5 μ l of 10 μM of upstream and downstream primers, supply 20 μ l with ultrapure water.
The response procedures of PCR amplification are as follows: 95 DEG C of initial denaturation 3min;95 DEG C of denaturation 30s, 60 DEG C of annealing 30s, 72 DEG C extend
30s, 25 circulations;72 DEG C of last extension 5min.
Different basins are root river, Tao'erhe River and the Wusuli River.
In standard diagram,
The pcr amplification product of primer ThtC1010 is Gen He group for A band;Pcr amplification product is wash one's face for B band
Er He group and/or Wusuli River group;
The pcr amplification product of primer ThtC1029 is Gen He group for C band;Pcr amplification product is wash one's face for D band
Er He group and/or Wusuli River group;
The pcr amplification product of primer ThtC1034 be in E, F and G band 1 or 2 be Gen He group;PCR amplification produces
Object is Tao'erhe River group for H band;It is Wusuli River group that pcr amplification product, which is I band or I and H band,.
A kind of application of above-mentioned primer in the identification of T. grubii group germplasm.
A kind of application of above-mentioned primer in the molecular marker assisted selection breeding of T. grubii group.
The invention has the advantages that:
The present invention is the new of the differentiation T. grubii group established for the first time based on Protocols in Molecular Biology principle both at home and abroad
Method is to successfully develop EST-SSR label, and with part label to Heilungkiang on the basis of T. grubii EST data
The genetic background of the group of grayling is analyzed, and the specific marker that can distinguish 3 groups is had found, and wherein THC1010
Point and the site THC1029 can accurately distinguish Gen He group and other Liang Ge groups, have A (109bp), C (198bp) band
Individual is Gen He group, and the individual with B (114bp), D (184bp) band is Tao'erhe River group and Wusuli River group;
The site THC1034 can distinguish three groups, with 1 or 2 in any E (174bp), F (168bp) and G (164bp) band
A individual is Gen He group, and only having H (152bp) band is Tao'erhe River group, and Wusuli River group is in addition to I
Outside (156bp) band, partial mass also has H band.Wherein, THC1034 pair of primers can be by Gen He group, Tao'erhe River group
Body and Wusuli River group distinguish, and have accuracy high, and technique reproducible is good, the high advantage of cost performance, can be simultaneously to big
Amount sample is detected, and the complexity of T. grubii germ plasm resource and group's judge is reduced.
Detailed description of the invention
Fig. 1 is THC1010 primer amplification map.
Fig. 2 is THC1029 primer amplification map.
Fig. 3 is THC1034 primer amplification map.
Specific embodiment
Specific embodiments of the present invention will be described in further detail with reference to embodiments.
Embodiment 1
1, design of primers
T. grubii RNA is sequenced, the library EST of T. grubii is obtained, in the library EST search have 2,3,4,
The microsatellite locus of 5 repetitive sequences.50 sequences are randomly selected, with 3 design primer of Primer, primer length 19-25bp, GC
Content 50-60%.There is group's specificity to 50 pairs of primer screening discovery ThtC1010, ThtC1029 and ThtC1034 labels.
T. grubii group specific molecular marker primer sequence:
ThtC1010 upstream primer: 5 '-TCAGGTTGTGCAAAATCTCGA-3 ' (SEQ ID NO.1)
Downstream primer: 5 '-GGCCAGCAGAACCAGAATCA-3 ' (SEQ ID NO.2)
ThtC1029 upstream primer: 5 '-GTGTTTCTTCCTGGCAGGGA-3 ' (SEQ ID NO.3)
Downstream primer: 5 '-TGGTGGTTAAGACTCAGAGACC-3 ' (SEQ ID NO.4)
ThtC1034 upstream primer: 5 '-TGGTGACACTGAAGAGGGGA-3 ' (SEQ ID NO.5)
Downstream primer: 5 '-AGCGTGTTATTACCAGTGCT-3 ' (SEQ ID NO.6)
2, sample collection
The wild T. grubii of acquisition Heillongjiang River system preserved egg Jiangxi source Nenjiang right bank maximum tributary Tao'erhe River, black dragon respectively
The wild T. grubii in one of maximum tributary in river Eergounahe River root river is wild black with the tributary Wusuli River, Chinese Heilungkiang
Longjiang grayling fin ray sample is saved with 95% (v/v) ethyl alcohol.
3, extracting genome DNA
The T. grubii DNA of above-mentioned different groups is extracted using phenol chloroform method, dilution 50ng/ μ l is spare.
4, pcr amplification reaction
Reaction system is 20 μ l, each ingredient are as follows: 2 × Taq PCR Mix, 10 μ l, 2 μ l of 50ng/ μ l genomic DNA, 10 μM
Each 0.5 μ l of upstream and downstream primer supplies 20 μ l with ultrapure water.
Response procedures are as follows: 95 DEG C of initial denaturation 3min;95 DEG C of denaturation 30s, 60 DEG C of annealing 30s, 72 DEG C of extension 30s, 25 are followed
Ring;72 DEG C of last extension 5min.
5, electrophoresis dying compares map
PCR after reaction, take 1.5 μ l PCR products with 8% non denatured polyacrylate hydrogel electrophoresis detection, 220V, electricity
Swim 3h, and silver staining photographs to record.It is compared, is identified according to electrophoresis result and the standard diagram of offer.In standard diagram,
The pcr amplification product of primer ThtC1010 is Gen He group for A band (109bp's);Pcr amplification product is B item
Band (114bp) is Tao'erhe River group and/or Wusuli River group (Fig. 1);
The pcr amplification product of primer ThtC1029 is Gen He group for C band (198bp's);Pcr amplification product is D item
Band (184bp) is Tao'erhe River group and/or Wusuli River group (Fig. 2);
The pcr amplification product of primer ThtC1034 is E (174bp), 1 or 2 in F (168bp) and G (164bp) band
Be Gen He group;Pcr amplification product is Tao'erhe River group for H band (152bp's);Pcr amplification product is I band
(156bp) or I and H band are Wusuli River group (Fig. 3).
Embodiment 2
The fin ray sample for acquiring 20 tail of root river grayling, 26 tail of 20 tail of Tao'erhe River grayling and Wusuli River grayling, utilizes implementation
The identification method of example 1, is identified.It is compared according to electrophoresis result and the standard diagram of offer, finds primer ThtC1010 root river
The amplified band size 109bp identical as A of 20 tail grayling of group, 26 tail fennel of 20 tail grayling of Tao'erhe River group and Wusuli River group
The amplified band size of fish 114bp identical as B;The amplified band size and C phase of 20 tail grayling of primer ThtC1029 Gen He group
Same 198bp, the amplified band size 184bp identical as D of 26 tail grayling of 20 tail grayling of Tao'erhe River group and Wusuli River group;Draw
Object ThtC1034 Gen He group amplified band size identical as E, F and G is respectively 174bp, 168bp and 164bp, wherein 5 tails have
There is E band, 4 tails have E and F band, and 5 tails have F band, and remaining 6 tails have F and G band, 20 tail grayling of Tao'erhe River group
Amplified band size 152bp identical as H, 26 tail grayling of Wusuli River group all has I band 156bp, wherein 10 tail graylings are same
When there are H band 152bp.Primer ThtC1010 and primer ThtC1029 can be by Gen He group and other Liang Ge groups, accuracy
Up to 100%;Primer ThtC1034 can distinguish three groups, accuracy 100%.
Sequence table
<110>Heilongjiang Inst. of Aquatic Products, Chinese Academy of Aquatic Products Scie
<120>a kind of T. grubii group specific molecular marker primer, kit and identification method
<160> 6
<170> SIPOSequenceListing 1.0
<210> 1
<211> 21
<212> DNA
<213>artificial sequence ()
<400> 1
tcaggttgtg caaaatctcg a 21
<210> 2
<211> 20
<212> DNA
<213>artificial sequence ()
<400> 2
ggccagcaga accagaatca 20
<210> 3
<211> 20
<212> DNA
<213>artificial sequence ()
<400> 3
gtgtttcttc ctggcaggga 20
<210> 4
<211> 22
<212> DNA
<213>artificial sequence ()
<400> 4
tggtggttaa gactcagaga cc 22
<210> 5
<211> 20
<212> DNA
<213>artificial sequence ()
<400> 5
tggtgacact gaagagggga 20
<210> 6
<211> 20
<212> DNA
<213>artificial sequence ()
<400> 6
agcgtgttat taccagtgct 20
Claims (10)
1. a kind of T. grubii group specific molecular marker primer, which is characterized in that primer ThtC1010,
ThtC1029,ThtC1034;Wherein, the upstream primer sequence of ThtC1010 is as shown in SEQ ID NO.1, and downstream primer sequence is such as
Shown in SEQ ID NO.2, the upstream primer sequence of ThtC1029 is as shown in SEQ ID NO.3, downstream primer sequence such as SEQ ID
Shown in NO.4, the upstream primer sequence of ThtC1034 is as shown in SEQ ID NO.5, downstream primer sequence such as SEQ ID NO.6 institute
Show.
2. a kind of kit of T. grubii group identification, which is characterized in that including primer described in claim 1.
3. kit according to claim 2, which is characterized in that further include 2 × Taq PCR Mix and ultrapure water.
4. a kind of identification method for T. grubii group, which comprises the following steps:
(1) sample collection: the grayling sample in acquisition Heilungkiang difference basin;
(2) grayling sample DNA extracting genome DNA: is extracted using phenol chloroform method;
(3) PCR amplification: using the genomic DNA of extraction as template, PCR amplification is carried out using the primer of claim 1;
(4) electrophoresis dying compares map: PCR after reaction, takes PCR product electrophoresis detection, according to electrophoresis result and offer
Standard diagram comparison, is identified.
5. identification method according to claim 4, which is characterized in that the reaction system of PCR amplification is 20 μ l, each ingredient
Are as follows: 2 × Taq PCR Mix, 10 μ l, 2 μ l of 50ng/ μ l genomic DNA, each 0.5 μ l of 10 μM of upstream and downstream primers are mended with ultrapure water
20 μ l of foot.
6. identification method according to claim 4, which is characterized in that the response procedures of PCR amplification are as follows: 95 DEG C of initial denaturations
3min;95 DEG C of denaturation 30s, 60 DEG C of annealing 30s, 72 DEG C of extension 30s, 25 recycle;72 DEG C of last extension 5min.
7. identification method according to claim 4, which is characterized in that different basins are root river, Tao'erhe River and the Wusuli River.
8. identification method according to claim 7, which is characterized in that in standard diagram,
The pcr amplification product of primer ThtC1010 is Gen He group for A band;Pcr amplification product is Tao'erhe River for B band
Group and/or Wusuli River group;
The pcr amplification product of primer ThtC1029 is Gen He group for C band;Pcr amplification product is Tao'erhe River for D band
Group and/or Wusuli River group;
The pcr amplification product of primer ThtC1034 be in E, F and G band 1 or 2 be Gen He group;Pcr amplification product is
H band is Tao'erhe River group;It is Wusuli River group that pcr amplification product, which is I band or I and H band,.
9. a kind of application of primer as described in claim 1 in the identification of T. grubii group germplasm.
10. a kind of application of primer as described in claim 1 in the molecular marker assisted selection breeding of T. grubii group.
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