CN106811551A - The primer pair of the type aviadenovirus of fluorescence quantitative PCR detection FAdV 4, probe, kit and method - Google Patents

The primer pair of the type aviadenovirus of fluorescence quantitative PCR detection FAdV 4, probe, kit and method Download PDF

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CN106811551A
CN106811551A CN201710173030.6A CN201710173030A CN106811551A CN 106811551 A CN106811551 A CN 106811551A CN 201710173030 A CN201710173030 A CN 201710173030A CN 106811551 A CN106811551 A CN 106811551A
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魏晓锋
蔡骁垚
熊炜
胡建华
张泉
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Shanghai Veterinary Research Institute CAAS
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Abstract

Primer pair, probe, kit and method the invention discloses a kind of type aviadenovirus of fluorescence quantitative PCR detection FAdV 4, the detection method is the SEQ ID No with sample DNA as template:1 and SEQ ID No:2 is primer, SEQ ID No:3 is probe, carries out fluorescent quantitative PCR, gathers fluorescence signal.Fluorescent quantitative PCR detection method of the invention can realize it is quick, accurate, convenient and swift, specifically detected for the type aviadenovirus nucleic acid of FAdV 4, sensitivity is high, high specificity, reproducible, has broad application prospects.

Description

Primer pair, probe, the kit of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus And method
Technical field
The invention belongs to technical field of bioengineering, more particularly to a kind of fluorescence quantitative PCR detection FAdV-4 types fowl adenopathy The primer pair of poison, probe, kit and method.
Background technology
Aviadenovirus (Fowl adenovirus, FAdV) belongs to Adenoviridae, and A~E groups can be divided into according to antigenicity.From chicken It is one of common infectious disease pathogens of the birds such as chicken, duck, goose that I crowds of FAdV of separation have 12 serotypes (FAdV 1-12).From Since 2013, the country has broken out a kind of highly pathogenic FAdV for causing IBH and HPS and has infected, and mainly encroaches on 3~5 week old young Chicken, especially encroaches on 4 week old.To in June, 2015, the disease is popular on a large scale in the whole nation, more in acute onset, and it is multiple be born in 20~ 30 Day-old Broiler Chickens, 4~8d is peak mortality after morbidity, and 8~15d of the course of disease, the death rate is 20%~100%, is caused to poultry husbandry Serious economic loss.Ox steps on cloud et al. and gathered 240 parts of samples in east and North China region in 2015, wherein being separated to 30 plants I group I fowl adenovirus strain, the Phylogenetic tree through hexon genes shows that separation strains are respectively I crowds of C and the genotype of E two, FAdV- 4 and FAdV-8b type serotypes, and 4 type strains than 8b type strains popular, more commonly 9~December is the sick high-incidence season, China The popularity in middle area is even more serious.Recent years, FAdV infection has been in Global prevalence, and atypia lesion and Asia can be caused to face Bed symptom, shows as hepatitis, alpastic anemia, bleeding, slight breathing problem and egg production and declines, and serious causes chicken Inclusion body hepatitis (IBH), pericarditis syndrome (HPS), gizzard erosion and ulcer (GEU) etc..
Since FAdV-4 types aviadenovirus breaks out, also without a kind of method of effective quick diagnosis.Detection at present FAdV-4 type aviadenovirus, mainly still SPF chicken embryos expand poison and regular-PCR conventional method, but, the SPF chicken embryos expansion poison cycle is long, Operation is more complicated, cumbersome, and regular-PCR it is very low for viral level in the case of be difficult to detect, therefore be badly in need of setting up a kind of Easy to operate, quick, high sensibility detection method.
The content of the invention
The technical problem to be solved in the present invention is to provide a kind of primer of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus To, probe, kit and method, the kit and method can it is easy, rapidly, sensitively, specifically to FAdV-4 type aviadenovirus Detected.
In order to solve the above-mentioned technical problem, the present invention is achieved through the following technical solutions:
In one aspect of the invention, there is provided a kind of primer pair of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus, The primer pair has such as SEQ ID No:1 and SEQ ID No:Base sequence shown in 2.
In another aspect of this invention, a kind of probe of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus is additionally provided, The probe has such as SEQ ID No:Base sequence shown in 3.
Preferably, the 5 ' of the probe are combined with FAM, and the 3 ' of the probe is combined with BHQ1.
In another aspect of this invention, a kind of reagent of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus is additionally provided Box, the kit includes such as SEQ ID No:1 and SEQ ID No:Primer pair and SEQ ID No shown in 2:Shown in 3 Probe.
Preferably, the kit also includes:Containing FAdV-4 type aviadenovirus ON1 strain hexon genes the 852nd~ 1518 positive recombinant plasmid standard items of nucleotide sequence.
In another aspect of this invention, a kind of method of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus is additionally provided, Comprise the following steps:With sample DNA as template, SEQ ID No:1 and SEQ ID No:2 is primer, SEQ ID No:3 is spy Pin, carries out fluorescent quantitative PCR, gathers fluorescence signal.
Wherein in some embodiments, the reaction system of the fluorescent quantitative PCR is:Premix Ex Taq 10μ The μ L of L, ROX Reference Dye II 0.2, the μ L of DNA profiling 2, SEQ ID No:The μ L of 1 primer 0.4, SEQ ID No:2 primers 0.4μL、SEQ ID No:The μ L of 3 probe 0.8, plus sterile purified water to 20 μ L.
Wherein in some embodiments, the reaction condition of the fluorescent quantitative PCR is:95 DEG C of predegeneration 30sec;95 DEG C denaturation 5sec, 60 DEG C annealing extend 34sec, 40 circulation.
Compared with prior art, the invention has the advantages that:
1st, fluorescent quantitative PCR detection method of the invention need to only be collected can extract the tissue of minim DNA, collection port Chamber and cloacal swabs just can be detected, be adapted to quick epidemiology disease and learn investigation;
2nd, fluorescent quantitative PCR detection method of the invention only needs synthetic primer pair, probe to be made kit, just can be square Just thousands of samples are efficiently detected, it is convenient cheap;
3rd, the minimum detectable template concentrations of fluorescence quantitative RT-PCR detecting method of the invention are 22.8 copy/μ L, than Conventional PCR method is higher by about 100 times, and other common poultry diease viruses do not find cross reaction, in batch without specific amplification 1% is respectively less than with interassay coefficient of variation, detection method of the invention is illustrated and kit sensitivity is high, high specificity, repeatability It is good, have broad application prospects.
Brief description of the drawings
The present invention is further detailed explanation with reference to the accompanying drawings and detailed description.
Fig. 1 is the PCR amplification figures of the embodiment of the present invention 1;
Fig. 2 be the embodiment of the present invention 1 FAdV-4 qPCR melt curve analysis and canonical plotting;
Fig. 3 is the FAdV-4TaqMan probe qPCR dynamic curve diagrams of the embodiment of the present invention 2;
Fig. 4 is the specific outcome figure of the FAdV-4Taqman fluorescent quantitative PCR detection methods of the embodiment of the present invention 3;
Fig. 5 is that the embodiment of the present invention 4 attacks toxin expelling scatter diagram after poison;
Fig. 6 is that the HN viruses of the embodiment of the present invention 4 respectively organize organ distribution result figure in chicken body.
Specific embodiment
In the following example, the experimental technique of unreceipted actual conditions, generally routinely condition, such as《Molecular Cloning: A Laboratory Guide》(Pehanorm Brooker J, Russell D W, are write, Huang Peitang, and Wang Jiaxi, Zhu Houchu are waited and translated Molecular Cloning:A Laboratory guides, the 3rd Version, Beijing:Science Press, 2002) described in method carry out.
The foundation of embodiment 1FAdV-4 type aviadenovirus TaqMan real-time fluorescence quantitative PCR detection methods
1. material
1.1 main agents and instrument
Fluorescent quantitation TaqMan Universal PCR Master Mi × be purchased from Applied Biosystems companies; The type fluorescent quantitation instruments of Applied Biosystems 7500;RNA reverse transcription reagent box Prime Script RT kit are purchased from Takara companies;TIANamp viral RNAs extracts kit is purchased from QIAGEN companies.
1.2 virus stains
HN strains (FAdV) and DAdV-8b from being clinically separated gained 2016.6 months, MD-CIV988, CLV-J, NDV, IBV, MG, H9N2, H5N6 are provided by Shanghai veterinary institute.
2. method
2.1 standard plasmids build and design of primers
With reference to FAdV-4 types aviadenovirus ON1 strain hexon gene (accession number in GenBank:GU188428 852)~ Specific primer, FAdV-4-F1 are designed at 1518bp:5'-CAACTACATCGGGTTCAGGGATAACTTC-3'(SEQ ID NO:4);FAdV-4-667R:5'CCAGTTTCTGTGGTGGTTGAAGGGGTT-3'(SEQ ID NO:5) purpose fragment, is expanded It is 667bp.Isolated viral DNA, amplification, recovery purifying PCR primer are extracted using genome DNA extracting reagent kit, and is connected to PGEM-Teasy carriers, build pGEM-Teasy-hexon plasmids and using it as standard items.Meanwhile, by BLAST in NCBI Compare analysis and look for conservative specific regions, specific primer and Taqman probes, sequence such as table 1 below are designed in this place.
The specific primer of table 1 and Taqman probe sequences
The extraction of 2.2 sample nucleics
DNA nucleic acid extractions are carried out to chicken sample lapping liquid and DNA virus, extracting method is taken out with reference to Ezup pillar viral DNAs Extraction reagent kit specification.For RNA virus, with reference to viral RNA extracts kit specification, extract RNA is carried out anti-extracting method Transcription synthesis cDNA:Template is the viral RNA for extracting, and influenza virus primer is Unit12A, remaining RNA virus reverse transcription primer It is Olig (dT)18
Reverse transcription synthesis cDNA is carried out, reverse transcription system (50 μ L) is RNA templates 10 μ L, primer 2 μ L, 5 × reverse transcription 10 μ L, d NTP (10mmol/L) of Buffer 2 μ L, Ribonuclease Inhibitor (40U/ μ L) 1 μ L, reverse transcriptase M- The 24 μ L of μ L, DEPCH2O of MLV (200U) 1.42 DEG C of 1h, 70 DEG C of water-baths 4min, 10 DEG C of 4min.- 20 DEG C save backup.
2.3qPCR reaction systems and condition
FAdV-4 TaqMan fluorescent quantitative PCR reaction systems:2×Premi×E×Taq(Probe qPCR)10μ L, 50 × RO × μ L of Reference Dye II 0.2, μ L, Hexon-1293F, Hexon-1387R primers (10 μ of DNA profiling 2 Mol/L) 0.8 μ L of each 0.4 μ L, FAM-probe (10 μm of ol/L), are mended to 20 μ L with sterilizing ddH2O.Reaction condition after optimization For:95℃30sec;95 DEG C of 5sec, 60 DEG C of 35sec, and gather 40 circulations of fluorescence.
3. result
The structure and PCR results of 3.1pGEM-Teasy-hexon
Extract FAdV DNA PCR and expand 667bp fragments (see Figure 1A), recovery product connects pGEM-Teasy carriers, uses Blue hickie screening, chooses positive bacteria sequencing, correct plasmid is sequenced and is named as pGEM-Teasy-hexon plasmids.Plasmid is built with 10 Dilute again, take 2.28 × 109~2.28copies/ μ L concentration enters performing PCR with Hexon-1293F, Hexon-1387R as primer Amplification.Result is shown in that Figure 1B shows, PCR most low energy detects 2.28 × 103copies/μL.In Figure 1A, M:DNA molecular amount standard (DL2000);1:Positive control;2:Hexon genes.In Figure 1B, 1~12 is respectively the dilution of pGEM-Teasy-Hexon plasmids 2.28×109~2.28copies/ μ L;M:DNA molecular amount standard (DL2000).
3.2qPCR standard curves and melt curve analysis
PGEM-Teasy-hexon plasmids will be built with 10 times of doubling dilutions, 3 × 10 will be taken7~3 × 100Copies/ μ L, press Above-mentioned 2.3 method carries out FAdV-4 dye method SYBR Green II qPCR, while melt curve analysis analysis is carried out, simple spike, Without non-specific fluorescence (see Fig. 2A), illustrate that primer used is special, it is quantitative accurate without primer dimer.
Next, carrying out FAdV-4TaqManqPCR, the logarithm value and phase of initial template concentration according to above-mentioned reaction condition The Ct values answered draw out standard curve (Fig. 2 B), as a result show:(the R of y=-3.5237 ×+35.9882=0.9976), qPCR expands Increasing Efficiency reaches 92% in 90%-120% is interval, and this shows qPCR response availabilities and different log of gradient values and Ct values Between good linear relationship is presented, with good linearity.
The sensitivity of embodiment 2 is detected with repeatability
With pGEM-Teasy-hexon plasmids as template, by 2.28 × 107~2.28 × 10110 times of dilutions of copies/ μ L, Fluorescent quantitative PCR is carried out respectively, and Ct values are considered as feminine gender more than 35.Draw the standard curve of various concentrations.Result shows:Should Method has sensitivity very high, and minimum detectable template concentrations are 22.8copies/ μ L (Fig. 3), higher than regular-PCR sensitivity 100 times.In Fig. 3,1~7 correspondence standard plasmid is with 10 times of diluted concentrations 2.28 × 107~2.28 × 101copies/μL。
With pGEM-Teasy-hexon plasmids 2.28 × 104With 2.28 × 105The DNA conducts of two dilution factors of copies/ μ L The two dilution factors are carried out 3 replications by template in different time sections, carry out 3 repetitions simultaneously to same template every time 3 repeating holes are determined and set, real-time fluorescence quantitative PCR is carried out according to the amplification system and condition of embodiment 1.Result shows: Within-run and between-run analysis coefficient is respectively less than 1%, illustrates that the FAdV-4 fluorescence quantifying PCR methods set up have preferably repeatability, Result is reliable and stable (table 2).
The repeatability of table 2FAdV-4Taqman fluorescent quantitative PCR detection methods
The specificity experiments of embodiment 3FAdV-4 type aviadenovirus real time fluorescence quantifying PCR methods
Collect laboratory cause the ill common virus MD-CVI988 of poultry, CLV-J, MG, NDV, IBV, H9N2, H5N6, FAdV-8b virus, the specificity for detecting FAdV-4 types aviadenovirus real time fluorescence quantifying PCR method of the present invention, system and Amplification reaction condition is expanded with reference to above example 1.Result as shown in figure 4, MD-CVI988, CLV-J, MG, NDV, IBV, H9N2, H5N6, FAdV-8b, aseptic double-distilled water, without amplification curve, are negative, the positive curve of only FAdV-4 amplifications.Show this Other viruses of fluorescence quantifying PCR method detection do not have cross reaction with FAdV-4, further illustrate the method with very high Specificity.
The TaqMan real time fluorescence quantifying PCR methods of the FAdV-4 type aviadenovirus that embodiment 4 is set up using the present invention enter Row clinical sample is detected
Laboratory clinical separates adenovirus HN strains (KY379035) and takes viral dilution into 1 × 106The μ L of TCID 50/100, 53 week old SPF chickens are injected through chest muscle.The oral cavity of 3 days and cloacal swabs after poison are attacked in collection, plus the aseptic PBS concussions of 1mL are mixed Even 12000rpm 2min, take its 200uL supernatant dirty with reference to DNA kits extraction DNA, and bloodletting 3 chicken tissues of collection Device, weighs plus PBS makes its concentration for 0.33g/mL, takes 100uL lapping liquids and extracts DNA.Using the FAdV- for setting up 4TaqManqPCR methods, detection HN strains are bred and toxin expelling situation in chicken body.
As a result:HN strains attack poison infection SPF chickens, and toxin expelling (see Fig. 5) have occurred in 2d after infection, oral cavity and cloaca, this Show that virus has infected the gi system of SPF chickens.Respectively organizing internal organs to collection chicken simultaneously carries out the detection discovery of viral level, Virus respectively organizes internal organs in chicken, and reproducible has been bred, wherein liver content highest, next to that duodenum, jejunum and blind Intestines, brain content is minimum (see Fig. 6).
Embodiment described above only expresses embodiments of the present invention, and its description is more specific and detailed, but can not Therefore it is interpreted as the limitation to the scope of the claims of the present invention.It should be pointed out that for the person of ordinary skill of the art, Without departing from the inventive concept of the premise, various modifications and improvements can be made, these belong to protection model of the invention Enclose.Therefore, the protection domain of patent of the present invention should be determined by the appended claims.
Sequence table
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Claims (8)

1. a kind of primer pair of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus, it is characterised in that the primer pair has such as SEQ ID No:1 and SEQ ID No:Base sequence shown in 2.
2. a kind of probe of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus, it is characterised in that the probe has such as SEQ ID No:Base sequence shown in 3.
3. the probe of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus according to claim 2, it is characterised in that institute State the 5 ' of probe and be combined with FAM, the 3 ' of the probe is combined with BHQ1.
4. a kind of kit of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus, it is characterised in that the kit is included such as The probe described in primer pair and Claims 2 or 3 described in claim 1.
5. the kit of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus according to claim 4, it is characterised in that The kit also includes:Contain FAdV-4 type aviadenovirus ON1 strain hexon the 852nd~1518 nucleotide sequence of gene Positive recombinant plasmid standard items.
6. a kind of method of fluorescence quantitative PCR detection FAdV-4 type aviadenovirus, it is characterised in that comprise the following steps:With sample Product DNA is template, SEQ ID No:1 and SEQ ID No:2 is primer, SEQ ID No:3 is probe, carries out quantitative fluorescent PCR Amplification, gathers fluorescence signal.
7. the method for fluorescence quantitative PCR detection FAdV-4 type aviadenovirus according to claim 6, it is characterised in that institute The reaction system for stating fluorescent quantitative PCR is:Premix Ex Taq 10μL、ROX Reference Dye II 0.2μL、 The μ L of DNA profiling 2, SEQ ID No:The μ L of 1 primer 0.4, SEQ ID No:The μ L of 2 primer 0.4, SEQ ID No:The μ L of 3 probe 0.8, plus Sterile purified water is to 20 μ L.
8. the method for fluorescence quantitative PCR detection FAdV-4 type aviadenovirus according to claim 6, it is characterised in that institute The reaction condition for stating fluorescent quantitative PCR is:95 DEG C of predegeneration 30sec;95 DEG C of denaturation 5sec, 60 DEG C of annealing extend 34sec, 40 circulations.
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CN108315479A (en) * 2018-05-10 2018-07-24 佛山科学技术学院 Ankara real-time fluorescence quantitative PCR primer pair and kit
CN108676921A (en) * 2018-07-18 2018-10-19 山东省农业科学院家禽研究所(山东省无特定病原鸡研究中心) A kind of LAMP primer group and detection method and its application for aviadenovirus detection
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CN110373496A (en) * 2019-06-13 2019-10-25 温氏食品集团股份有限公司 Kit and detection method for the detection of 8 type aviadenovirus of I subgroup serum
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CN111926116A (en) * 2020-08-12 2020-11-13 广东省农业科学院动物卫生研究所 Primer and probe for rapidly and quantitatively detecting duck adenovirus type 4, detection method and application thereof
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CN114990262A (en) * 2022-06-20 2022-09-02 云南省畜牧兽医科学院 Primer group for LAMP (loop-mediated isothermal amplification) detection of avian adenovirus serotype 4 and application of primer group

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