CN106148526B - One kind molecular labeling Hf1-Indel relevant to watermelon flesh hardness and its application - Google Patents
One kind molecular labeling Hf1-Indel relevant to watermelon flesh hardness and its application Download PDFInfo
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Abstract
The invention discloses a kind of molecular labeling Hf1-Indel relevant to watermelon flesh hardness and its applications.The present invention is based on 97103 whole genome sequences and PI296341-FR weight sequencing informations, it is designed and is marked according to insertion and deletion site, finely positioning, the molecular labeling Hf1-Indel of the close linkage of exploitation are carried out to the hard meat gene of watermelon by the recombinant inbred lines offspring target group after hybridizing using wild hard flesh watermelon PI296341-FR with cultivated watermelons 97103.Be experimentally confirmed: molecular labeling Hf1-Indel of the invention can carry out the initial screening of watermelon flesh hardness kind, achieve the purpose that marker assisted selection.
Description
Technical field
The invention belongs to field of biotechnology, and in particular to a kind of molecular labeling Hf1- relevant to watermelon flesh hardness
Indel and its application.
Background technique
Watermelon (Citrullus lanatus) belongs to Curcurbitaceae important crops, accounts for the 7% of world's vegetable crop area, entirely
Ball annual output is about 90,000,000 tons (http://faostat.fao.org).China's watermelon volume of production and marketing is located at the first in the world,
It is the Horticultural crop that China has international competitiveness and larger economic growth space.With the hair of watermelon whole genome sequence
How cloth excavates critical function gene, and improving Watermelon Fruit quality is the key that molecular breeding work.How control watermelon is found
The key gene of important character is the primary content of current watermelon molecular biology research.
Watermelon flesh hardness is important commodity property.Existing market favors the harder variety of watermelon of pulp, this veriety
The resistance to storage and transportation of fruit, and convenient for fruit slice and assorted cold dishes；And major part traditional cultivation kind pulp is crisp.How hard meat is effectively cultivated
Kind is the hot spot of current watermelon breeding work.Breeding cycle can be greatly shortened using molecular mark, raising is educated
Kind efficiency, and determine the position of Watermelon Fruit hardness control gene, it is before this works that available molecular labeling is stablized in exploitation
It mentions.It is less to the correlative study of Watermelon Fruit hardness gene both at home and abroad at present, hardness gene can be not yet accurately positioned.
Summary of the invention
It is an object of the present invention to provide it is a kind of detect watermelon to be measured whether the new use of the substance containing DNA fragmentation first
On the way.
The present invention provides watermelon to be measured is detected, whether the substance containing DNA fragmentation first is at least one in following (1)-(6)
Application in kind:
(1) it identifies or assists to identify watermelon flesh hardness to be measured；
(2) preparation identification or auxiliary identify the product of watermelon flesh hardness to be measured；
(3) it identifies or assists to identify that watermelon to be measured is non-hard meat variety of watermelon or hard meat variety of watermelon；
(4) preparation is identified or assists to identify the product that watermelon to be measured is non-hard meat variety of watermelon or hard meat variety of watermelon；
(5) the non-hard meat variety of watermelon of breeding；
(6) the hard meat variety of watermelon of breeding.
In above-mentioned application, detection watermelon to be measured whether the substance containing DNA fragmentation first that be PCR amplification contain is described
The primer of DNA fragmentation first.
In above-mentioned application, the primer be it is following 1) or 2):
1) single strand dna group shown in sequence 2 in the single strand dna as shown in sequence 1 in sequence table and sequence table
At primer pair A；
2) the primer pair B that single strand dna shown in the single strand dna shown in sequence A and sequence B forms；
The sequence A is sequence 1 to be deleted to or increase or change one or several nucleotide, and have with sequence 1 identical
The nucleotide of function；
The sequence B is sequence 2 to be deleted to or increase or change one or several nucleotide, and have with sequence 2 identical
The nucleotide of function.
It is a further object to provide a kind of methods that watermelon flesh hardness to be measured is identified in identification or auxiliary.
The method that identification provided by the invention or auxiliary identify watermelon flesh hardness to be measured is whether detection watermelon to be measured contains
There is DNA fragmentation first,
If watermelon to be measured does not contain DNA fragmentation first, watermelon to be measured is or candidate is hard meat variety of watermelon；
If watermelon to be measured contains DNA fragmentation first, watermelon to be measured is or candidate is non-hard meat variety of watermelon.
In the above method, whether the method containing DNA fragmentation first is following X1 to the detection watermelon to be measured) or X2):
X1) the genomic DNA of direct Sequencing watermelon individual；
X2 the pcr amplification product containing DNA fragmentation first) is sequenced；
Primer used in the pcr amplification product be it is following 1) or 2):
1) single strand dna group shown in sequence 2 in the single strand dna as shown in sequence 1 in sequence table and sequence table
At primer pair A；
2) the primer pair B that single strand dna shown in the single strand dna shown in sequence A and sequence B forms；
The sequence A is sequence 1 to be deleted to or increase or change one or several nucleotide, and have with sequence 1 identical
The nucleotide of function；
The sequence B is sequence 2 to be deleted to or increase or change one or several nucleotide, and have with sequence 2 identical
The nucleotide of function.
It is a still further object of the present invention to provide the products that watermelon flesh hardness to be measured is identified in a kind of identification or auxiliary.
It is provided by the invention to identify or assist whether the product for identifying watermelon flesh hardness to be measured contains for detection watermelon to be measured
There is the substance of DNA fragmentation first.
In the said goods, whether the substance containing DNA fragmentation first is following Y1 to detection watermelon to be measured) or Y2) or Y3)
Or Y4):
Y1) single strand dna group shown in sequence 2 in the single strand dna as shown in sequence 1 in sequence table and sequence table
At primer pair A；
Y2) the primer pair B that single strand dna shown in the single strand dna shown in sequence A and sequence B forms；
The sequence A is sequence 1 to be deleted to or increase or change one or several nucleotide, and have with sequence 1 identical
The nucleotide of function；
The sequence B is sequence 2 to be deleted to or increase or change one or several nucleotide, and have with sequence 2 identical
The nucleotide of function；
Y3) contain Y1) the primer pair A or Y2) the primer pair B PCR reagent；
Y4) contain Y1) the primer pair A or Y2) the primer pair B or Y3) and the PCR reagent kit.
Above-mentioned DNA fragmentation first also belongs to protection scope of the present invention.
Final object of the present invention is to provide the method or a kind of hard meat of breeding of a kind of non-hard meat variety of watermelon of breeding
The method of variety of watermelon.
The method of the non-hard meat variety of watermelon of breeding provided by the invention is the watermelon that breeding contains DNA fragmentation first；
The method of the hard meat variety of watermelon of breeding provided by the invention is the watermelon that breeding does not contain DNA fragmentation first.
In above-mentioned application or the above method or the said goods,
The nucleotides sequence of the DNA fragmentation first is classified as the dye of watermelon genome (watermelon 97103genome v1) the 6th
The 20300025th to the 20300132nd of colour solid, also sequence 3 as in sequence table.
The non-hard meat watermelon is that flesh firmness value is less than 12.5Kg/cm2Watermelon；
The hard meat watermelon is that flesh firmness value is greater than or equal to 12.5Kg/cm2Watermelon.
In above-mentioned application or the above method or the said goods, the flesh firmness value be using hand sclerometer (KMH-51,
KIYA SEISAKUSHD, LTD.) the fruit center flesh of watermelon to be measured is detected, obtained numerical value.
The present invention is based on 97103 whole genome sequences and PI296341-FR weight sequencing informations, according to insertion and deletion site
(InDel, Insertion/Deletion) design label, by utilizing wild hard flesh watermelon PI296341-FR and cultivated watermelons
Recombinant inbred lines offspring target group after 97103 hybridization carries out finely positioning to the hard meat of watermelon (Hard flesh, Hf) gene,
The molecular labeling Hf1-Indel of the close linkage of exploitation.Be experimentally confirmed: molecular labeling Hf1-Indel of the invention can be with
The initial screening for carrying out watermelon flesh hardness kind, achievees the purpose that marker assisted selection.
Detailed description of the invention
Fig. 1 is hardness of fruit gene QTL positioning result figure.
Fig. 2 is primer pair Hf1-Indel F and Hf1-Indel R in embodiment 1 to male parent (hard meat), maternal (non-hard meat)
And F1 generation, 21 parts of electrophoretograms for resurveying sequence group pcr amplification reaction band.Wherein, 97 writing a Chinese character in simplified form for parent 97103, PI are parent
This PI296341-FR's writes a Chinese character in simplified form.
Fig. 3 is Hf1-Indel F and Hf1-Indel R in embodiment 1 to the electricity of the pcr amplification reaction band of natural population
Swimming figure.Wherein, 97 writing a Chinese character in simplified form for parent 97103, PI are writing a Chinese character in simplified form for parent PI296341-FR.
Specific embodiment
Experimental method used in following embodiments is conventional method unless otherwise specified.
The materials, reagents and the like used in the following examples is commercially available unless otherwise specified.
Quantitative test in following embodiments, is respectively provided with three repeated experiments, and results are averaged.
The acquisition of the relevant molecular labeling Hf1-Indel of embodiment 1, watermelon flesh hardness
One, material to be tested
Material to be tested includes male parent, female parent, F1 generation, RILs group；
Male parent are as follows: PI296341-FR, for typical agriotype watermelon material, the hardness of fruit is high, and sugar content is low；
It is maternal are as follows: 97103, it is typical East Asia type watermelon cultivars, pulp is crisp easy to crack, and sugar content is high；
F1 generation are as follows: the F1 generation of hybridization acquisition is carried out for female parent with above-mentioned PI296341-FR male parent, 97103；
RILs group are as follows: above-mentioned F1 generation is selfed the RILs group obtained in mostly generation, totally 103 plants (see Table 1 for details)；
21 parts are resurveyed sequence group are as follows: certified watermelon core authors (see Table 2 for details)；
Above-mentioned each material to be tested is the germplasm that Vegetable Research Centre, Beijing Academy of Agriculture and Forest Sciences's germplasm resource bank saves
Resource material.
Table 1, watermelon RILs material and its single plant flesh firmness qualification result
(label detection A is non-hard meat banding pattern, and B is hard meat banding pattern, and AB is that two kinds of banding patterns all have)
Table 2,21 genome weight sequencing materials of watermelon and its single plant flesh firmness qualification result
(label detection A is non-hard meat banding pattern, and B is hard meat banding pattern, and AB is that two kinds of banding patterns all have)
| Material number | Title material | Flesh firmness (Kg/cm2) | Mark result |
| 1 | 97103 | 3.2 | A |
| 2 | 900 | 3.1 | A |
| 3 | 901 | 5.3 | A |
| 4 | Sugarlee | 5.3 | A |
| 5 | JX-2 | 3.9 | A |
| 6 | JLM | 3.1 | A |
| 7 | JXF | 3.1 | A |
| 8 | XHBMB | 3.5 | A |
| 9 | Calhoun_Gray | 5.1 | A |
| 10 | Black Diamond | 3.6 | A |
| 11 | PI296341FR | 18.2 | B |
| 12 | PI595203 | 10.2 | A |
| 13 | PI386019 | 15.6 | B |
| 14 | PI482271 | 3.2 | A |
| 15 | PI482303 | 15.2 | B |
| 16 | PI482276 | 16.9 | B |
| 17 | 904304 | 2.9 | A |
| 18 | PI-249010 | 6.5 | A |
| 19 | PI248178 | 8.2 | A |
| 20 | PI189317 | 9.2 | A |
| 21 | PI482326 | 13.7 | B |
Two, the acquisition of the relevant molecular labeling Hf1-Indel of watermelon flesh hardness
1, the single plant flesh firmness identification of RILs group
Using the RILs group and 21 in hand sclerometer (KMH-51, KIYA SEISAKUSHD, LTD.) detecting step one
Part resurveys the fruit center flesh of sequence population material, and obtaining the numerical value of flesh firmness, (flesh firmness value is less than 12.5Kg/cm2West
Melon is non-hard meat variety of watermelon, and flesh firmness value is greater than or equal to 12.5Kg/cm2Watermelon be hard meat variety of watermelon).Respectively for examination
Material plants be averaged three times respectively, to ensure the accuracy of flesh firmness numerical value.RILs group and 21 parts resurvey sequence group
Single plant flesh firmness qualification result difference it is as shown in Table 1 and Table 2.
2, the Primary Location analysis of watermelon flesh hardness gene
Using Joinmap4.0 software to height constructed by the flesh firmness phenotypic data of RILs group and the RILs group
Density molecular marks genetic map to carry out genetic linkage analysis, Primary Location target gene section.High Density Molecular label heredity
The construction method of map is recorded in document " AHigh Resolution Genetic Map Anchoring Scaffolds of
The Sequenced Watermelon Genome, PLoS One, 2012 " in.By flesh firmness gene Hard flesh (Hf)
It is located on No. 6 and No. 9 chromosomes of watermelon, is respectively designated as Hf1, Hf2, Fig. 1 are watermelon flesh hardness gene Primary Location knot
Fruit figure.
3, the acquisition of candidate InDel
Sequence is resurveyed using watermelon full genome as a result, to 21 parts of materials of sequence have been resurveyed in natural resources in Primary Location base
Because carrying out genome sequence comparison in section, find have the variation of InDel and pulp at one hard in No. 6 dyeing in just positioning section
It spends chain.The site sequence in harder meat kind, there is the sequence deletion of 16bp in the site in non-hard meat kind.It obtains and west
The candidate site InDel that melon material phenotypic character complies fully with.
4, using the watermelon whole genome sequence information announced on the net, (watermelon complete genome sequence information derives from watermelon gene
Group information website, website are http://www.iwgi.org), for the design of the above-mentioned candidate site InDel and watermelon flesh hardness
Gene Hardflesh1 (Hf1) chain molecular labeling Hf1-Indel:
Hf1-Indel-F (upstream primer sequence): 5 '-GAACTGCATCCTTCCTGAGC-3 ' (sequence 1)；
Hf1-Indel-R (downstream primer sequence): 5 '-CACAGCTTTATTGAACCGCA-3 ' (sequence 2).
Above-mentioned primer is synthesized by Shanghai Sangon Biotech Company's Beijing combining unit.
Three, the preliminary identification of Hf1-Indel label
Male parent, female parent, F1 generation and RILs group are verified using Hf1-Indel label, the results are shown in Table 2.Knot
Fruit shows that be located at the insertion that occurs on No. 6 chromosomes of watermelon genome isolates with flesh firmness flavor, Hf1-Indel label and
The watermelon flesh hardness gene Hf1 close linkage being located on No. 6 chromosome；Illustrate the site InDel and utilizes the InDel
The label of Hf1-Indel designed by site has higher utility value on identifying watermelon flesh hardness, can effectively use
In watermelon marker assisted selection.Specific step is as follows:
1, extracting genome DNA
The genomic DNA of RILs group is extracted respectively；DNA extraction method is in the method referring to (1980) such as Murry
(Murray M,Thompson W F.Rapid isolation of high molecular weight plant DNA[J]
.Nucl Acid Res, 1980,8:668-673) on the basis of improve；Specific step is as follows:
I takes 1.5 grams of blade of above-mentioned each material to be tested, and the grind into powder in liquid nitrogen adds 9ml 2%CTAB and mentions
Take liquid (2%CTAB, 1.4mM NaCl, 100mM Tris-HCl pH8.0,20mM EDTA pH8.0,1%PVP-40,0.2%
Beta -mercaptoethanol), mix, in 65 DEG C water-bath 1 hour, obtain mixture A；
Said mixture A is stopped water-bath by II, the liquor kalii acetici of the 5M of 1/3 volume is added, ice bath 20 divides after mixing
Clock；It adds isometric chloroform/isoamyl alcohol (24:1) extracting twice, obtains supernatant A；
2/3 volume isopropanol is added into above-mentioned supernatant A and is used to precipitate DNA by III；Again with washing buffer (75% ethyl alcohol,
10mM ammonium acetate) it washed once, after drying plus TE buffer (10mM Tris-HCl, 1mM EDTA, pH7.4) dissolves, and obtains molten
Liquid A；
RNase A is added into above-mentioned solution A by IV, makes its final concentration up to 100 μ g/ml, then mixes 37 DEG C of water-baths 1 hour；
It is extracted once with isometric chloroform/isoamyl alcohol (24:1) again, obtains supernatant B；
1/2 volume 7.5M ammonium acetate, 2 times of volume dehydrated alcohols are added into above-mentioned supernatant B by V, obtain DNA precipitating；
The VI above-mentioned DNA of 70% ethanol washing is precipitated, and appropriate ddH is added after drying2O dissolving DNA obtains respective gene
Group DNA；Again with ultraviolet specrophotometer (Shimadzu UV-1201, Japan) with the OD260 value measurement respective gene
The concentration of DNA is organized, then detects the extraction quality of respective genomic DNA with 1.2% agarose gel electrophoresis.Above-mentioned biochemical reagents
Purchased from Beijing Yili Fine Chemicals Co., Ltd..
2, PCR amplification
The genomic DNA extracted respectively using step 1 is carried out as template using Hf1-Indel-F and Hf1-Indel-R primer
PCR amplification respectively obtains pcr amplification product.
The reaction system of above-mentioned pcr amplification reaction are as follows: 2 μ L MgCl containing 15mM210 × Buffer；2 μ L concentration are
The dNTPs of 2.5mM；1U Taq archaeal dna polymerase；2 μ L concentration are the upstream and downstream 10mM PCR mix primer (each 1 μ of upstream and downstream primer
L)；50ng template DNA；ddH2O is supplied to 20 μ L；Taq archaeal dna polymerase and reaction buffer are purchased from TaKaRa company.dNTPs
Purchased from Beijing Quanshijin Biotechnology Co., Ltd.
The response procedures of above-mentioned pcr amplification reaction are as follows: 1:94 DEG C of initial denaturation 5min of stage；2:94 DEG C of 20s of stage, 56 DEG C
20s, 72 DEG C of 30s are recycled 34 times altogether；3:72 DEG C of extension 5min of stage；4:4 DEG C of stage holding.Wherein PCR instrument be purchased from
The Veriti 96well Thermal Cycler of Applied Biosystems company；
3, the detection of amplified production
The above-mentioned each pcr amplification product of 10 μ L is taken, 1 μ l 10 × Loading Buffer is added, pipettor takes a little after mixing
Enter to carry out electrophoresis (150V electrophoresis, time 90min) in polypropylene electrophoresis and is sequenced.
Fig. 2 be male parent, female parent, F1 and 21 part resurvey sequence group Hf1-Indel mark testing result.Wherein, swimming lane 1 is point
Son amount Marker；Swimming lane 2 is maternal PCR product；Swimming lane 3 is male parent PCR product；Swimming lane 4-21 is 21 parts and resurveys sequence natural resources
PCR product.The result shows that: Hf1-Indel label can be in the non-hard meat material that parents, 21 parts resurvey sequence natural resources
The band that size is 108bp is amplified, and hard meat material does not amplify the band that size is 108bp.Wherein, size is
The nucleotides sequence of the DNA fragmentation of 108bp is classified as No. 6 chromosome of watermelon genome (watermelon 97103genome v1)
The 20300025th to the 20300132nd, also sequence 3 as in sequence table.
Therefore it can identify or assist by the following method to identify that watermelon to be measured is non-hard meat kind or hard meat kind
Method: PCR amplification is carried out to watermelon to be measured with Hf1-Indel label, obtains pcr amplification product；Detect the big of pcr amplification product
It is small；
If the segment that pcr amplification product is 108bp without containing size, watermelon to be measured is or candidate is hard meat watermelon product
Kind；
If pcr amplification product contains the segment that size is 108bp, watermelon to be measured is or candidate is non-hard meat watermelon product
Kind.
The verifying of embodiment 2, Hf1-Indel label
Further to verify the label of the Hf1-Indel in embodiment 1 and the linkage relationship of watermelon flesh hardness gene Hf1,
It is verified using natural population.Specific step is as follows:
1, material to be tested
Material to be tested is natural resources group；Natural population are as follows: in 1484 parts of watermelon resources banks 123 parts it is representative
Watermelon Germplasm constitute natural population (see Table 3 for details)；Each material to be tested is Beijing City Agriculture and Forestry Institute vegetable in table 3
The Germplasms that dish research center germplasm resource bank saves.
The natural population's single plant material and its single plant flesh firmness qualification result that 3,123 parts of Watermelon Germplasms of table are constituted
(A is non-hard meat banding pattern in label detection, and B is hard meat banding pattern, and AB is that two kinds of banding patterns all have)
Note: title material band " * " label is qualification result and the incongruent resource name of Hardness results.
1, extracting genome DNA
The genomic DNA of natural population is extracted respectively；DNA extraction method is in the method referring to (1980) such as Murry
(Murray M,Thompson W F.Rapid isolation of high molecular weight plant DNA[J]
.Nucl Acid Res, 1980,8:668-673) on the basis of improve；Specific step is as follows:
I takes 1.5 grams of blade of above-mentioned each material to be tested, and the grind into powder in liquid nitrogen adds 9ml 2%CTAB and mentions
Take liquid (2%CTAB, 1.4mM NaCl, 100mM Tris-HCl pH8.0,20mM EDTA pH8.0,1%PVP-40,0.2%
Beta -mercaptoethanol), mix, in 65 DEG C water-bath 1 hour, obtain mixture A；
Said mixture A is stopped water-bath by II, the liquor kalii acetici of the 5M of 1/3 volume is added, ice bath 20 divides after mixing
Clock；It adds isometric chloroform/isoamyl alcohol (24:1) extracting twice, obtains supernatant A；
2/3 volume isopropanol is added into above-mentioned supernatant A and is used to precipitate DNA by III；Again with washing buffer (75% ethyl alcohol,
10mM ammonium acetate) it washed once, after drying plus TE buffer (10mM Tris-HCl, 1mM EDTA, pH7.4) dissolves, and obtains molten
Liquid A；
RNase A is added into above-mentioned solution A by IV, makes its final concentration up to 100 μ g/ml, then mixes 37 DEG C of water-baths 1 hour；
It is extracted once with isometric chloroform/isoamyl alcohol (24:1) again, obtains supernatant B；
1/2 volume 7.5M ammonium acetate, 2 times of volume dehydrated alcohols are added into above-mentioned supernatant B by V, obtain DNA precipitating；
The VI above-mentioned DNA of 70% ethanol washing is precipitated, and appropriate ddH is added after drying2O dissolving DNA obtains respective gene
Group DNA；Again with ultraviolet specrophotometer (Shimadzu UV-1201, Japan) with the OD260 value measurement respective gene
The concentration of DNA is organized, then detects the extraction quality of respective genomic DNA with 1.2% agarose gel electrophoresis.Above-mentioned biochemical reagents
Purchased from Beijing Yili Fine Chemicals Co., Ltd..
2, PCR amplification
The genomic DNA extracted respectively using step 1 is carried out as template using Hf1-Indel-F and Hf1-Indel-R primer
PCR amplification respectively obtains pcr amplification product.
The reaction system of above-mentioned pcr amplification reaction are as follows: 2 μ L MgCl containing 15mM210 × Buffer；2 μ L concentration are
The dNTPs of 2.5mM；1U Taq archaeal dna polymerase；2 μ L concentration are the upstream and downstream 10mM PCR mix primer (each 1 μ of upstream and downstream primer
L)；50ng template DNA；ddH2O is supplied to 20 μ L；Taq archaeal dna polymerase and reaction buffer are purchased from TaKaRa company.dNTPs
Purchased from Beijing Quanshijin Biotechnology Co., Ltd.
The response procedures of above-mentioned pcr amplification reaction are as follows: 1:94 DEG C of initial denaturation 5min of stage；2:94 DEG C of 20s of stage, 56 DEG C
20s, 72 DEG C of 30s are recycled 34 times altogether；3:72 DEG C of extension 5min of stage；4:4 DEG C of stage holding.Wherein PCR instrument be purchased from
The Veriti 96well Thermal Cycler of Applied Biosystems company；
3, the detection of amplified production
The above-mentioned each pcr amplification product of 10 μ L is taken, 1 μ l 10 × Loading Buffer is added, pipettor takes a little after mixing
Enter 8% polyacrylate hydrogel and carries out electrophoresis (150V electrophoresis, time 90min).
Fig. 3 is that natural population's material Hf1-Indel marks testing result.The result shows that: Hf1-Indel is marked in natural group
The band that size is 108bp (sequence 3) can be amplified in the non-hard meat material of body material, and is not expanded in hard meat material
Size is the band of 108bp out.Above-mentioned testing result, which further demonstrates Hf1-Indel label of the invention, can be used for watermelon
The molecular mark of hard meat kind.
Claims (6)
1. detect watermelon to be measured whether application of the substance containing DNA fragmentation first at least one of following (1)-(6):
(1) it identifies or assists to identify watermelon flesh hardness to be measured；
(2) preparation identification or auxiliary identify the product of watermelon flesh hardness to be measured；
(3) it identifies or assists to identify that watermelon to be measured is non-hard meat variety of watermelon or hard meat variety of watermelon；
(4) preparation is identified or assists to identify the product that watermelon to be measured is non-hard meat variety of watermelon or hard meat variety of watermelon；
(5) the non-hard meat variety of watermelon of breeding；
(6) the hard meat variety of watermelon of breeding；
The nucleotides sequence of the DNA fragmentation first is classified as the 20300025th to of No. 6 chromosome of watermelon genome sequence
20300132；
The non-hard meat watermelon is flesh firmness value less than 12.5 Kg/cm2Watermelon；
The hard meat watermelon is that flesh firmness value is greater than or equal to 12.5 Kg/cm2Watermelon.
2. application according to claim 1, it is characterised in that: whether the detection watermelon to be measured contains DNA fragmentation first
Substance is the primer that PCR amplification contains the DNA fragmentation first.
3. application according to claim 2, it is characterised in that:
The primer is single stranded DNA shown in sequence 2 point in the single strand dna as shown in sequence 1 in sequence table and sequence table
Molecular primer pair A.
4. a kind of method that identification or auxiliary identify watermelon flesh hardness to be measured, is whether detection watermelon to be measured contains DNA fragmentation
First；
If watermelon to be measured does not contain DNA fragmentation first, watermelon to be measured is or candidate is hard meat variety of watermelon；
If watermelon to be measured contains DNA fragmentation first, watermelon to be measured is or candidate is non-hard meat variety of watermelon；
The nucleotides sequence of the DNA fragmentation first is classified as the 20300025th to of No. 6 chromosome of watermelon genome sequence
20300132；
The non-hard meat watermelon is flesh firmness value less than 12.5 Kg/cm2Watermelon；
The hard meat watermelon is that flesh firmness value is greater than or equal to 12.5 Kg/cm2Watermelon.
5. according to the method described in claim 4, it is characterized by: whether the detection watermelon to be measured contains DNA fragmentation first
Method is following X1) or X2):
X1) the genomic DNA of direct Sequencing watermelon individual；
X2 the pcr amplification product containing DNA fragmentation first) is sequenced；
Primer used in the pcr amplification product is sequence in the single strand dna as shown in sequence 1 in sequence table and sequence table
The primer pair A of the composition of single strand dna shown in 2.
6. a kind of method of the non-hard meat variety of watermelon of breeding, is the watermelon that breeding contains DNA fragmentation first；
Or a kind of method of the hard meat variety of watermelon of breeding, it is the watermelon that breeding does not contain DNA fragmentation first；
The nucleotides sequence of the DNA fragmentation first is classified as the 20300025th to of No. 6 chromosome of watermelon genome sequence
20300132；
The non-hard meat watermelon is flesh firmness value less than 12.5 Kg/cm2Watermelon；
The hard meat watermelon is that flesh firmness value is greater than or equal to 12.5 Kg/cm2Watermelon.
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| CN112011640B (en) * | 2020-09-09 | 2022-06-10 | 中国农业科学院郑州果树研究所 | KASP molecular marker, primer and application for identifying pH of watermelon fruit |
| CN114606332B (en) * | 2020-12-09 | 2023-11-07 | 北京市农林科学院 | SNP locus for judging pulp hardness of watermelon, hf-KASP1 marker and application thereof |
| CN115449562A (en) * | 2022-10-25 | 2022-12-09 | 中国农业科学院郑州果树研究所 | SNP (Single nucleotide polymorphism) marker related to soluble solid content of watermelon fruit and application thereof |
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