CN104846113A - PCR kit capable of simultaneously detecting fecal pollution of dogs, pigs and chickens in water and detection method thereof - Google Patents

PCR kit capable of simultaneously detecting fecal pollution of dogs, pigs and chickens in water and detection method thereof Download PDF

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CN104846113A
CN104846113A CN201510305364.5A CN201510305364A CN104846113A CN 104846113 A CN104846113 A CN 104846113A CN 201510305364 A CN201510305364 A CN 201510305364A CN 104846113 A CN104846113 A CN 104846113A
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primer
fecal pollution
pcr
water
water body
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CN104846113B (en
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张徐祥
何席伟
陈慧梅
于红霞
史薇
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Nanjing University
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Abstract

The invention discloses a PCR kit capable of simultaneously detecting fecal pollution of dogs, pigs and chickens in water and a detection method thereof, belonging to the field of detection of water body fecal pollution. The kit capable of simultaneously detecting fecal pollution of dogs, pigs and chickens in water comprises a primer, dNTP, PCR buffer, a Mg<2+> solution and ddH20. The method for detecting the water body fecal pollution by utilizing the kit comprises the following steps: extracting DNA of a to-be-detected water sample, taking the DNA as a template, performing PCR amplification by utilizing the primer, dNTP, PCR buffer, Taq enzymes, Mg<2+> solution and ddH20 provided in the kit, performing agarose gel electrophoresis on the PCR product, observing under an ultraviolet lamp, wherein if stripes of 390bp, 490bp and 783bp occur, fecal pollution of dogs, pigs and chickens respectively exists in the water. According to the kit, the fecal pollution of dogs, pigs and chickens, which independently exists or exists in a random combination manner in water can be accurately detected, more than three types of fecal pollution can be simultaneously detected at most, the detection time and cost can be greatly saved when a fecal pollution source is checked, and the method has good application prospects.

Description

A kind of PCR kit and detection method thereof simultaneously detecting dog, pig, chicken fecal pollution in water
Technical field
The present invention relates to water pollution detection field, more particularly, relate to a kind of PCR kit and the detection method thereof that detect dog, pig, chicken fecal pollution in water simultaneously.
Background technology
In recent years, along with the growth of demographic and economic, water pollution situation is on the rise, and wherein fecal pollution is particularly outstanding.Fecal pollution thing not only can increase water body nitrogen and phosphorus content after entering water body, cause body eutrophication, and the pathogenic bacterium that may exist in ight soil can be brought into, diseases induced water body is propagated (Baldursson S and Karanis P.Waterborne transmission ofprotozoan parasites:Review of worldwide outbreaks ?An update 2004 ?2010.Water Research 2011; 45 (20): 6603 ?6614.).Therefore the control of water body fecal pollution is carried out very urgent.
The potential pollution source of fecal pollution is of a great variety, the excrement of the common species such as the pig in livestock and poultry breeding industry, chicken, owing to lacking suitable process, usually directly be discharged in environment, cause water body fecal pollution, in addition, along with the quantity of pet (especially pet dog) gets more and more, its excrement produced also becomes one of source of water body fecal pollution.In point source, the simultaneous situation of pollution of area source, lack the accurate grasp to fecal pollution source and location, make control function rest on " seeing dirty pollution treatment " stage, add the cost of Pollution abatement to a certain extent.How to find and distinguish and fast, accurately locate the fecal pollution source in water body, becoming the key of dealing with problems.
Tradition fecal pollution detection method judges water body fecal pollution situation by detecting fecal pollution indicator (as intestinal bacteria, faecalis etc.) in water, length consuming time and cannot distinguish source of pollution.By detecting water body host specificity microorganism or chemical marker, the object that fecal pollution is traced to the source can be reached, but some existing microorganisms and chemical marker specificity not high, often cause the generation of false positive results.Exist in a large number from the Mitochondrial DNA of the intestinal cell that comes off in ight soil, because the Mitochondrial DNA of different plant species is different, wherein there is a large amount of mononucleotide polymorphic site in specific fragment, Mitochondrial DNA is made to have species specificity, can reach by the mitochondria DNA fragment in fecal pollution water body the object (Caldwell J, PaymentP and Villemur R (2011) Mitochondrial DNA as Source Tracking Markers of Fecal Contamination.) that fecal pollution traces to the source by detecting.
The detection that the fast development of the Protocols in Molecular Biology based on PCR is water body fecal pollution provides strong instrument.But the fecal pollution source tracing method of at present conventional PCR-based means can only detect separately source of pollution usually (Caldwell JMand Levine JF.Domestic wastewater influent profiling using mitochondrial real ?time PCR for sourcetracking animal contamination.Journal of microbiological methods 2009; 77 (1): 17 ?22.Schill WBand Mathes MV.Real ?time PCR detection and quantification of mine potential sources of fecalcontamination by analysis of mitochondrial cytochrome b targets.Environmental science & technology 2008; 42 (14): 5229 ?5234.).Not yet openly can distinguish the detection method of multiple source of pollution at present.The present invention is by the mtdna sequence of comparison different plant species, have found dog, pig, specific chicken DNA fragmentation, and devise Auele Specific Primer for different fragments, and the expanding fragment length of different primers has certain gap, district pig, dog, chicken three kinds of fecal pollution sources in a PCR reaction system are made to become possibility.
Summary of the invention
The problem that 1, will solve
The PCR method of current detection water body fecal pollution is normally investigated one by one to potential pollution source, consuming time for a long time and cost is high.For this problem, the invention provides and a kind ofly can detect dog in water body, pig, the PCR kit of chicken fecal pollution and detection method thereof simultaneously, can reach fast, accurate investigation or detect the object in water body fecal pollution source.
2, technical scheme
Object of the present invention is achieved through the following technical solutions
Detect PCR method and the test kit of dog, pig, chicken fecal pollution in water simultaneously, comprise primer, Taq enzyme, dNTP, PCR buffer, Mg 2+solution and ddH 20, wherein primer comprises:
Primer 1:5 ’ ?CTGTGCTATGTCAGTATCTCCAG ?3 ';
Primer 2: 5 ’ ?GGCTGATTAGTCATTAGTCCATCG ?3 ';
Primer 3:5 ’ ?CTACTCATACCCAGCAAGCC ?3 ';
Primer 4:5 ’ ?TAGGAATTAATAGGGCGGGTG ?3 ';
Primer 5:5 ’ ?CACATGTTATCTGCACCAGC ?3 ';
Primer 6:5 ’ ?GTTAAGGGTACGAGTTTGTCG ?3 '.
Further, described PCR buffer is 10 × PCR buffer, dNTP concentration is each 2.5mmol/L, and Taq enzyme concentration is 5U/ul, Mg 2+strength of solution is 25mmol/L.。
Adopt the method for the detection water body fecal pollution of above-mentioned PCR kit, concrete steps are as follows: extract water sample DNA to be measured, with water sample DNA to be measured for template, utilize the primer 1 that provides in mentioned reagent box ?6, dNTP, PCR buffer, Mg 2+solution and ddH 20 carries out pcr amplification, and PCR primer exists situation by observing band after agarose gel electrophoresis under ultraviolet lamp, judges water body fecal pollution situation with this.
Concrete, the method utilizing mentioned reagent box to detect water body fecal pollution is:
(1) water sample DNA is extracted;
(2) with water sample DNA for template, utilize provide in test kit primer, dNTP, PCR buffer, Mg 2+solution and ddH 20 carries out pcr amplification, and reaction system is: 10 × PCR buffer of 5ul; 5ul dNTP; 0.25ul Taq enzyme; 4ul Mg 2+; The mix primer 1 of 3ul ?6, wherein the concentration of each primer is 10umol/L; 4ul template DNA; Sterilizing ddH 2o complements to 50ul; Reaction conditions is 95 DEG C, denaturation 5min; 95 DEG C of 30s, 59 DEG C of 30s, 72 DEG C of 45s, 40 circulations; 72 DEG C of 7min, 4 DEG C of preservations;
(3) detect pcr amplification product: 5ul PCR primer is carried out 1% agarose gel electrophoresis, 1 × TAE is as electrophoresis apparatus, and EB dyes, and deposition condition is voltage 80V, electric current 400mA, time 25min.(4) electrophoresis observes gel after terminating under ultraviolet lamp; The band of 390bp, 490bp and 783bp that gel occurs, respectively corresponding instruction dog, pig, chicken fecal pollution.
Further, this test kit can detect dog that Individual existence in water body or random combine exist, pig, chicken fecal pollution, above three kinds of fecal pollutions can be detected at most simultaneously.
3, beneficial effect
Compared to prior art, the invention has the advantages that and can detect dog, pig, chicken three kinds of fecal pollutions in a PCR reaction simultaneously, the dog of Individual existence or random combine existence in water body, pig, chicken fecal pollution can be detected, for the water body that fecal pollution situation is more complicated, the object getting rid of or determine fecal pollution source as early as possible can be reached, save time and cost.
The Contaminative markers thing that the present invention chooses is the Mitochondrial DNA of different animals, detection method is made to have good specificity, it is more clear that the band that during electrophoresis detection, different animals ight soil is corresponding is separated, and accurately can judge the ownership of different band, reduces the erroneous judgement detecting sample.
Accompanying drawing explanation
Fig. 1: the present invention is to the electrophoresis result figure of dog, pig, chicken manure just independent and random two kinds of combine detection.
Fig. 2: the electrophoresis result figure that the present invention detects dog, pig, chicken mixing ight soil.
Fig. 3: specific assay electrophoresis result figure of the present invention.
Fig. 4: sensitivity assays electrophoresis result figure of the present invention.
Embodiment
Embodiment 1: to dog, pig, chicken manure just independent or random two kinds of combine detection
Detect PCR method and the test kit of dog, pig, chicken fecal pollution in water body simultaneously, comprise primer, Taq enzyme, dNTP, PCRbuffer, Mg 2+solution and ddH 20, wherein primer comprises:
Primer 1:5 ’ ?CTGTGCTATGTCAGTATCTCCAG ?3 '
Primer 2: 5 ’ ?GGCTGATTAGTCATTAGTCCATCG ?3 '
Primer 3:5 ’ ?CTACTCATACCCAGCAAGCC ?3 '
Primer 4:5 ’ ?TAGGAATTAATAGGGCGGGTG ?3 '
Primer 5:5 ’ ?CACATGTTATCTGCACCAGC ?3 '
Primer 6:5 ’ ?GTTAAGGGTACGAGTTTGTCG ?3 '
Above-mentioned PCR primer customizes synthesis by Sangon Biotech (Shanghai) Co., Ltd. and obtains.
Above-mentioned ddH 2o is sterilizing distilled water.Taq enzyme concentration is 5U/ul.Mg 2+the concentration of solution is 25mmol/L, is MgCl 2solution.The concentration of dNTP is 2.5mmol/L.PCR buffer is 10 × PCR damping fluid (buying in Takara, Code No.RR001A)
It is QIAamp DNA Stool Mini Kit that faeces DNA extracts test kit, for extracting different faeces DNA.
Gather fresh dog, pig, chicken manure just, extract DNA with 0.2 gram of ight soil respectively, extract DNA by after two kinds of ight soil mixing at random in addition.Respectively with separately or mixing faeces DNA carry out pcr amplification for template, PCR reaction system is: 10 × PCR damping fluid (PCR buffer, Takara) of 5ul; 5ul deoxyribonucleoside triphosphate (dNTP); 0.25ul Taq enzyme; The 25mmol/L Mg of 4ul 2+solution; 3ul concentration is the mix primer of 10umol/L; 4ul template DNA; Sterilizing ddH 2o complements to 50ul; Reaction conditions is 95 DEG C, denaturation 5min; 95 DEG C of 30s, 59 DEG C of 30s, 72 DEG C of 45s, 40 circulations; 72 DEG C of 7min, 4 DEG C of preservations.
After PCR reaction terminates, the PCR primer of getting 5ul tri-kinds of faeces DNAs respectively carries out 1% agarose gel electrophoresis, and deposition condition is voltage 80V, electric current 400mA, time 25min.
After electrophoresis terminates, observe under gel being placed on ultraviolet lamp, glue figure as shown in Figure 1.Respectively with dog, pig, chicken faeces DNA is occurred in the PCR primer of template that length is 390bp, 490bp, with the band of 783bp, dog, occur that length is the band of 390bp and 490bp in the PCR primer of pig mixing faeces DNA, pig, occur that length is the band of 490bp and 783bp in the PCR primer of chicken mixing faeces DNA, dog, occur that length is the band of 390bp and 783bp in the PCR primer of chicken mixing faeces DNA, illustrate that mix primer in the present invention and PCR method used can accurately detect single dog, pig, chicken fecal pollution and random two kinds of mixing fecal pollutions.
Embodiment 2: simultaneously detect dog, pig, chicken manure just
Take 0.05 gram of dog, pig, chicken manure respectively just, extract DNA after mixing, with this hybrid dna for template carries out pcr amplification, PCR reaction system is: 10 × PCR buffer of 5ul; 5ul dNTP; 0.25ul Taq enzyme; The 25mmol/L Mg of 4ul 2+solution; The mix primer 1 of 3ul ?6, wherein the concentration of each primer is; 4ul template DNA; Sterilizing ddH 2o complements to 50ul; Reaction conditions is 95 DEG C, denaturation 5min; 95 DEG C of 30s, 59 DEG C of 30s, 72 DEG C of 45s, 40 circulations; 72 DEG C of 7min, 4 DEG C of preservations.
After PCR reaction terminates, the PCR primer of getting 5ul tri-kinds of faeces DNAs respectively carries out 1% agarose gel electrophoresis, and deposition condition is voltage 80V, electric current 400mA, time 25min.
After electrophoresis terminates, observe under gel being placed on ultraviolet lamp, glue figure as shown in Figure 2.With ddH 20 is without any band in the negative control of template, mixing faeces DNA is occurred in the PCR primer of template that length is the band of 390bp, 490bp and 783bp, illustrates that test kit in the present invention and PCR method used can detect dog, pig, chicken four kinds of fecal pollutions simultaneously.
Embodiment 3: test kit specificity verification
People, ox, sheep, the specificity of duck faeces DNA to test kit in the present invention and PCR method is utilized to verify.Gather Freshman, ox, sheep, duck ight soil extraction DNA, with these four kinds of faeces DNAs for template carries out pcr amplification, mix faeces DNA for positive control, ddH with dog, pig, chicken simultaneously 20 is negative control, and PCR reaction system and condition are with embodiment 2, and Gel electrophoresis conditions is with embodiment 2, and result as shown in Figure 3.Negative control and people, ox, sheep, duck faeces DNA are all without any band in the PCR primer of template, occur in positive control that length is the band of 390bp, 490bp and 783bp, illustrate test kit in the present invention and PCR method specificity used good, there will not be false positive results.
Embodiment 4: test kit susceptibility is verified
Take 0.2 gram of dog, pig, chicken manure respectively and just extract DNA, utilize that NanoDrop 2000 records dog, pig, chicken faeces DNA concentration are respectively 3148.6ng/ul, 96.5ng/ul, 35ng/ul.Carry out 4 times of dilutions by after above-mentioned DNA equal-volume mixing, namely dilute 4 1, 4 2, 4 3, 4 4, 4 5, 4 6doubly, then with each dilution DNA solution for template, carry out pcr amplification, PCR reaction system and condition are with embodiment 2, and Gel electrophoresis conditions is with embodiment 2, and result is as shown in Figure 4.Extension rate is 4 1?4 5pCR primer all occurred that length is respectively the positive band of 390bp, 490bp, 783bp, extension rate is greater than 4 5time there is not band, illustrate test kit in the present invention and the corresponding dog of PCR method, pig, chicken manure detectability be respectively 0.145,0.094,0034ng/ul faeces DNA.

Claims (6)

1. detect a PCR kit for dog, pig, chicken fecal pollution in water simultaneously, comprise primer, dNTP, PCR buffer, Taq enzyme, Mg 2+solution and ddH 20, it is characterized in that: described primer is mix primer, comprising:
Primer 1:5 ’ ?CTGTGCTATGTCAGTATCTCCAG ?3 ';
Primer 2: 5 ’ ?GGCTGATTAGTCATTAGTCCATCG ?3 ';
Primer 3:5 ’ ?CTACTCATACCCAGCAAGCC ?3 ';
Primer 4:5 ’ ?TAGGAATTAATAGGGCGGGTG ?3 ';
Primer 5:5 ’ ?CACATGTTATCTGCACCAGC ?3 ';
Primer 6:5 ’ ?GTTAAGGGTACGAGTTTGTCG ?3 '.
2. the PCR kit simultaneously detecting dog, pig, chicken fecal pollution in water according to claim 1, it is characterized in that, described PCR buffer is 10 × PCR buffer, and described dNTP concentration is each 2.5mmol/L, and described Taq enzyme concentration is 5U/ul, described Mg 2+strength of solution is 25mmol/L.
3. adopt the method for the detection water body fecal pollution of the PCR kit according to any one of claim 1 or 2, it is characterized in that, concrete steps are as follows: extract water sample DNA to be measured, with water sample DNA to be measured for template, utilize the primer 1 that provides in test kit ?6, dNTP, PCR buffer, Mg 2+solution and ddH 20 carries out pcr amplification, and PCR primer exists situation by observing band after agarose gel electrophoresis under ultraviolet lamp, judges water body fecal pollution situation with this.
4. the method for detection water body fecal pollution according to claim 3, is characterized in that, described pcr amplification reaction carries 10 × PCR buffer that system is 5ul; 5ul dNTP; 0.25ul Taq enzyme; 4ul Mg 2+; The mix primer 1 of 3ul ?6, wherein the concentration of each primer is; 4ul template DNA; Sterilizing ddH 2o complements to 50ul; Reaction conditions is 95 DEG C, denaturation 5min; 95 DEG C of 30s, 59 DEG C of 30s, 72 DEG C of 45s, 40 circulations; 72 DEG C of 7min, 4 DEG C of preservations.
5. the method for detection water body fecal pollution according to claim 3, is characterized in that, described gel electrophoresis is 1% agarose gel electrophoresis, and deposition condition is: voltage 120V, electric current 440mA, time 25min.
6. the method for detection water body fecal pollution according to claim 3, it is characterized in that, judge that the method for water body fecal pollution situation is: if there is the band of 390bp, 490bp and 783bp after gel electrophoresis, then there is dog, pig, chicken fecal pollution in corresponding instruction in water respectively.
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CN105603108A (en) * 2016-03-22 2016-05-25 重庆大学 Kit for dog feces pollution detection as well as preparation and application thereof
CN105648097A (en) * 2016-03-22 2016-06-08 重庆大学 Dog feces pollution detection kit and preparation and application thereof
CN106434921A (en) * 2016-09-29 2017-02-22 中国科学院城市环境研究所 Microbial source tracking molecular marker and high-throughput detection method thereof for detecting multiple fecal pollution sources
CN110484637A (en) * 2019-09-19 2019-11-22 南京大学 Primer, kit and the high-throughput source tracing method of a kind of water body fecal pollution detection
CN111321236A (en) * 2020-03-23 2020-06-23 中国科学院大学 Microorganism tracing method for chicken manure pollution
CN111440883A (en) * 2020-04-07 2020-07-24 中国科学院大学 Pig manure polluted microorganism tracing method
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Cited By (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN105603108A (en) * 2016-03-22 2016-05-25 重庆大学 Kit for dog feces pollution detection as well as preparation and application thereof
CN105648097A (en) * 2016-03-22 2016-06-08 重庆大学 Dog feces pollution detection kit and preparation and application thereof
CN105648097B (en) * 2016-03-22 2019-03-15 重庆大学 A kind of dog fecal pollution detection kit and its preparation and application
US11744725B2 (en) 2016-08-12 2023-09-05 Coloplast A/S Ostomy appliance
CN106434921A (en) * 2016-09-29 2017-02-22 中国科学院城市环境研究所 Microbial source tracking molecular marker and high-throughput detection method thereof for detecting multiple fecal pollution sources
CN110484637A (en) * 2019-09-19 2019-11-22 南京大学 Primer, kit and the high-throughput source tracing method of a kind of water body fecal pollution detection
WO2021051622A1 (en) * 2019-09-19 2021-03-25 南京大学 Primers, kit, and high-throughput traceability method for detecting fecal contamination in water bodies
CN111321236A (en) * 2020-03-23 2020-06-23 中国科学院大学 Microorganism tracing method for chicken manure pollution
CN111440883A (en) * 2020-04-07 2020-07-24 中国科学院大学 Pig manure polluted microorganism tracing method

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