CN110438241A - A kind of opsariichthys bidens DNA bar code sequence and its application - Google Patents

A kind of opsariichthys bidens DNA bar code sequence and its application Download PDF

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Publication number
CN110438241A
CN110438241A CN201910647588.2A CN201910647588A CN110438241A CN 110438241 A CN110438241 A CN 110438241A CN 201910647588 A CN201910647588 A CN 201910647588A CN 110438241 A CN110438241 A CN 110438241A
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Prior art keywords
opsariichthys bidens
bar code
dna
opsariichthys
dna bar
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熊飞
曹梦西
王莹
刘红艳
文涵宇
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Jianghan University
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Jianghan University
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    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
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    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00Oligonucleotides characterized by their use
    • C12Q2600/166Oligonucleotides used as internal standards, controls or normalisation probes

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Abstract

The invention discloses a kind of opsariichthys bidens DNA bar code sequence and its applications, belong to species identification technical field.The opsariichthys bidens DNA bar code is opsariichthys bidens COI gene, which can be used as the standard detection sequence of opsariichthys bidens DNA, effectively identify opsariichthys bidens endemic species.

Description

A kind of opsariichthys bidens DNA bar code sequence and its application
Technical field
The invention belongs to species identification technical fields, and in particular to a kind of opsariichthys bidens DNA bar code sequence and its application.
Background technique
Species identification is always the vital basic steps of research on taxology or even almost all creatures field.Cause This, accurately just seems to species identification and classification and is even more important.Currently, various countries researcher has carried out from lake to ocean The fish DNA bar code project of different geographic regions efficiently may be used research shows that DNA bar code has in terms of species identification Row.A large amount of result of study, which is shown, accurately can carry out species to all kinds of animals with the DNA bar code that COI gene is label Identification, can select COI gene as the standard bar code in various animal bar code datas library.
DNA bar code refer to can be represented in organism the species, it is having enough variations, standard, easily amplification and Relatively short DNA fragmentation.DNA bar code technology is just as the commodity bar code used in retail business, by species One or more genes be scanned, it is established that mutual corresponding relationship between DNA sequence dna and biological species, so as to fast Speed accurately carries out species identification.The COI gene of mitochondrial DNA have moderate length, evolutionary rate it is moderate and rich in system into The features such as row development information.Under study for action, can the COI genetic fragment preferably to species effectively expanded.Therefore, dynamic In object species taxonomy and identification, COI gene has very big potentiality as bar code applications.
There is certain limitation using traditional form identification method, for example will receive species gender, stage of development, phenotype The influence of the factors such as plasticity and cause it is incorrect identification etc..In actual operation, it can also encounter that specimen amount is less and sample The problems such as this preservation is imperfect leads to incorrect identification.Traditional taxology method is combined using DNA bar code, to species The identification and classification of efficiently and accurately play an important role.
Opsariichthys bidens (Opsariichthys bidens), are subordinate to Cypriniformes (Cypriniformes), Cyprinidae (Cyprinidae), subfamily (Danioninae), Opsariichthy (Opsariichthys).Opsariichthys bidens move in streams and water more In the limpid water body such as library, the cluster life in the more anxious shoal of water flow, the brook and rivers tributary that substrate is sandstone is especially liked, with Small fish, shrimp, aquatic insect etc. are food, and opsariichthys bidens meat and taste are all good, popular among consumers.In recent years, opsariichthys bidens from Right resource fails because of the reasons such as excessive use and habitat water environment pollution, therefore the protection of germ plasm resource causes attention, It is necessary to accurately and effectively be identified its germplasm.
In existing technology, without opsariichthys bidens DNA bar code standard detection sequence and opsariichthys bidens COI gene conduct The record of opsariichthys bidens DNA bar code standard detection sequence and report.
Summary of the invention
It is an object of the present invention to provide a kind of standard detection sequences that can be used as opsariichthys bidens DNA, can be effectively to Ma Kou Fish endemic species are identified.
The technical scheme adopted by the invention is that:
A kind of opsariichthys bidens DNA bar code sequence, sequence are SEQ ID NO.1, particular sequence are as follows:
Preferably, the opsariichthys bidens DNA bar code be opsariichthys bidens COI (cytochrome c oxidase subunit I, Cytochrome c oxidase subunit I) gene.
The DNA bar code sequence can be used as the standard detection sequence of opsariichthys bidens DNA, effectively to opsariichthys bidens endemic species and Its sample is identified.
The invention has the following advantages that
(1) the obtained opsariichthys bidens DNA bar code sequence of the present invention can be used as the standard detection sequence of opsariichthys bidens DNA, Opsariichthys bidens sample is carried out to the progress and classification of opsariichthys bidens endemic species efficiently and accurately, while using the DNA bar code sequence Identification, step is few, method is simple.
(2) in actual operation, which facilitates comparison convenient for saving.
(3) opsariichthys bidens meat and taste are all good, popular among consumers, but because natural resources is because of excessive use and habitat The decline of the reasons opsariichthys bidens species such as water environment pollution, technical solution of the present invention can be effectively protected opsariichthys bidens species.
Specific embodiment
Embodiment 1
5 opsariichthys bidens samples of Jinsha jiang River downstream Burner zone reservoir area Suijiang river section are taken to be verified.
The extraction of 1.DNA
The fish musculature of clip 5mg or so, shreds as far as possible, is placed in the centrifuge tube of 1.5ml, places at room temperature, The pumping of genomic DNA is carried out using the cell/tissue genomic kit of GENEray company after ethyl alcohol volatilizees completely completely It mentions.
2.PCR amplification
PCR primer uses COI gene in the universal primer of Cypriniformes fish, and upstream and downstream primer sequence is respectively as follows: CypFCOI:tctcaaccaaccacaaagacattgg, CypRCOI:gacttctgggtggccaaagaatca.PCR reactant Be total volume it is 50 μ l, PCR amplification is carried out using PCR kit, specific ingredient is shown in Table 1, PCR response procedures and is shown in Table 2.
1 PCR reaction system of table
Reacted constituent Volume (μ l)
Sterilize distilled water 22
CypFCOI 1(10Μm/μl)
CypRCOI 1(10Μm/μl)
Genomic DNA template 1(20ng/μl)
2ⅹPCR mix 25
2 PCR response procedures of table
Step Temperature Time
1. initial denaturation 94℃ 5min
2. denaturation 94℃ 30s
3. annealing 52℃ 30s
4. extending 72℃ 1min
5. 4to2 Circulation 30 times
6. extending eventually 72℃ 10min
3. agarose gel electrophoresis detects
It carries out carrying out electrophoresis to PCR product with the standard of constant pressure 5V/cm, when bromophenol blue is moved on to away from Ago-Gel forward position about When 5cm, stop electrophoresis.Gel is taken out, is placed in EB dyeing liquor and impregnates 15min, then observed with ultraviolet transilluminator.
4. sequencing
Through agarose electrophoresis testing goal band clearly PCR product, carried out with centrifugation pillar PCR product purification kit After the recovery purifying of target fragment, send to one Hui Yuan Biotechnology Co., Ltd of Wuhan Tian and carry out bidirectional sequencing.
The COI genetic fragment of 1 opsariichthys bidens in embodiment 1 are as follows:
It is 99.9% with opsariichthys bidens DNA bar code sequence similarity degree, it can judge the species for Ma Kou by comparison Fish.
It measures in 5 templates simultaneously, in addition the COI genetic fragment of 4 opsariichthys bidens samples and opsariichthys bidens DNA bar code standard Detection sequence similitude is 100%, it can judges the species for opsariichthys bidens.
According to sequencing result, above 5 samples are same with the nucleotide sequence of opsariichthys bidens DNA bar code standard detection sequence Source property can determine whether that these species are opsariichthys bidens 98% or more.
The above PCR reaction system and PCR response procedures are all the same, can more objectively confirm what the present invention obtained in this way The accuracy of opsariichthys bidens DNA bar code sequence.
The obtained opsariichthys bidens DNA bar code sequence of the present invention can be used as the standard detection sequence of opsariichthys bidens DNA, to horse The progress and classification of mouth fish endemic species efficiently and accurately, while opsariichthys bidens sample is identified using the DNA bar code sequence, Step is few, method is simple.In actual operation, which facilitates comparison convenient for saving.Opsariichthys bidens meat with Sample it is all good, it is popular among consumers, but because natural resources is because of the reasons opsariichthys bidens such as excessive use and habitat water environment pollution Species decline, technical solution of the present invention can be effectively protected opsariichthys bidens species.
It should be noted last that the above examples are only used to illustrate the technical scheme of the present invention and are not limiting, although ginseng It is described the invention in detail according to preferred embodiment, those skilled in the art should understand that, it can be to the present invention Technical solution be modified or replaced equivalently, without departing from the spirit and scope of the technical solution of the present invention, should all cover In the scope of the claims of the present invention.
Sequence table
<110>Jianghan University
<120>a kind of opsariichthys bidens DNA bar code sequence and its application
<160> 1
<170> SIPOSequenceListing 1.0
<210> 1
<211> 672
<212> DNA
<213>opsariichthys bidens (Opsariichthys bidensDNA bar code sequence)
<400> 1
gacattggca ccctttatct tgtattcggt gcctgagctg gaatagtagg aaccgcacta 60
agcctcctta ttcgagccga actgagccaa cccggatcac ttctaggcga cgatcaaatt 120
tataatgtta ttgttactgc ccatgccttt gttataattt tctttatagt aataccaatt 180
cttattggag ggtttggaaa ctgacttgtg ccgctaatga ttggggcacc tgacatggca 240
tttcctcgaa taaataacat aagcttttga cttctccctc cctctttcct cctgttatta 300
gcctcttctg gtgttgaggc cggggctggg acagggtgaa cagtctaccc gccacttgca 360
ggcaatctcg ctcacgcagg cgcatctgta gacctaacaa ttttctcact ccacctagca 420
ggtgtttcat caattttagg agcaattaat tttattacta caactattaa tatgaaaccc 480
ccagccatct ctcagtatca gacacccctg tttgtttgag ccgtacttgt gacagctgtg 540
cttcttcttc tatccctgcc cgtattggcc gccgggatta caatgctcct tacggatcga 600
aatcttaaca ccacattctt cgaccctgcg ggaggaggag acccaattct atatcaacac 660
ctattctgat tc 672

Claims (3)

1. a kind of opsariichthys bidens DNA bar code sequence, which is characterized in that sequence is SEQ ID NO.1.
2. opsariichthys bidens DNA bar code sequence according to claim 1, which is characterized in that the opsariichthys bidens DNA bar code is Opsariichthys bidens COI (cytochrome c oxidase subunit I, cytochrome c oxidase subunit I) gene.
3. a kind of application of opsariichthys bidens DNA bar code sequence, which is characterized in that the DNA bar code sequence can be used as opsariichthys bidens The standard detection sequence of DNA, effectively identifies opsariichthys bidens endemic species and its sample.
CN201910647588.2A 2019-07-17 2019-07-17 A kind of opsariichthys bidens DNA bar code sequence and its application Pending CN110438241A (en)

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Cited By (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113699256A (en) * 2021-09-26 2021-11-26 浙江省农业科学院 Functional marker for rapidly identifying gynogenesis progeny of opsariichthys bidens and fancy carps and application of functional marker

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CN107988382A (en) * 2017-11-28 2018-05-04 江汉大学 The long thin loach DNA bar code sequence of one kind and its application
CN108441564A (en) * 2017-11-28 2018-08-24 江汉大学 A kind of middle Warsaw loach DNA bar code sequence and its application
CN108611424A (en) * 2018-01-04 2018-10-02 中国水产科学研究院南海水产研究所 Cyprinid fish mitochondrial genome complete sequence amplimer and amplification method
CN109022457A (en) * 2018-07-25 2018-12-18 江汉大学 A kind of * DNA bar code sequence and its application

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN107988382A (en) * 2017-11-28 2018-05-04 江汉大学 The long thin loach DNA bar code sequence of one kind and its application
CN108441564A (en) * 2017-11-28 2018-08-24 江汉大学 A kind of middle Warsaw loach DNA bar code sequence and its application
CN108611424A (en) * 2018-01-04 2018-10-02 中国水产科学研究院南海水产研究所 Cyprinid fish mitochondrial genome complete sequence amplimer and amplification method
CN109022457A (en) * 2018-07-25 2018-12-18 江汉大学 A kind of * DNA bar code sequence and its application

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
SHEN,Y.等: "Opsariichthys bidens isolate 003 from China cytochrome oxidase subunit 1 (COI) gene, partial cds; mitochondrial,GenBank: MF122593.1" *
SHEN,Y.等: "Opsariichthys bidens isolate 003 from China cytochrome oxidase subunit 1 (COI) gene, partial cds; mitochondrial,GenBank: MF122593.1", 《GENBANK》 *
Y SHEN等: "DNA barcoding and evaluation of genetic diversity in Cyprinidae fish in the midstream of the Yangtze River" *
Y SHEN等: "DNA barcoding and evaluation of genetic diversity in Cyprinidae fish in the midstream of the Yangtze River", 《ECOLOGY AND EVOLUTION》 *

Cited By (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113699256A (en) * 2021-09-26 2021-11-26 浙江省农业科学院 Functional marker for rapidly identifying gynogenesis progeny of opsariichthys bidens and fancy carps and application of functional marker

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Application publication date: 20191112