CN108103215B - DNA bar code primer, DNA bar code, kit, method and application for accurately identifying alternaria adeguata yeast strains - Google Patents
DNA bar code primer, DNA bar code, kit, method and application for accurately identifying alternaria adeguata yeast strains Download PDFInfo
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Abstract
The invention belongs to the field of species and strain identification, and particularly relates to a DNA barcode primer composition, a DNA barcode composition, a kit, a method and application for identifying a desmospora adephagi strain. The DNA barcode composition comprises a first DNA barcode shown as SEQ ID No.1, a second DNA barcode shown as SEQ ID No.2 and a third DNA barcode shown as SEQ ID No.3, wherein the first, second and third DNA barcodes are derived from the genome of the Arthrospora adenine-feeding strain TMCC 70007. The DNA bar code can accurately identify the Pu' er tea fermentation strain, namely, the adenine arthrobotrys yeast TMCC70007, and can quickly and accurately identify the strain from confusable strains or other strains in the same species.
Description
Technical Field
The invention belongs to the field of species and strain identification, and particularly relates to a DNA barcode primer composition, a DNA barcode composition, a kit, a method and application for identifying a desmospora adephagi strain.
Background
Pu' er tea is post-fermented tea with geographical identification of Yunnan, which is prepared by a series of processes by adopting big-leaf sun-dried raw tea as a raw material. Pu' er tea is also concerned by people because of having health care effects of losing weight, reducing blood sugar and blood fat, preventing and improving cardiovascular diseases, resisting aging, resisting cancer, diminishing inflammation, aiding digestion, nourishing stomach and the like. In recent years, Pu 'er tea is more and more popular, and the development of the Pu' er tea industry is pulled by the increasing market demand, so that the economic growth of Yunnan areas is promoted.
Pu ' er tea is fermented tea of Yunnan large-leaf species, and the fermentation production of the Pu ' er tea needs the action of various microorganisms including a Pu ' er tea fermentation production strain, namely, adenine-node yeast (Blastobotrys adeninivorans) TMCC70007 (hereinafter also referred to as TMCC 70007), wherein the TMCC70007 is a key bacterium in the fermentation process. At present, Pu' er tea fermentation is still an empirical fermentation of semi-natural artificial pile fermentation, and although communities mainly comprising few dominant microorganisms are relatively stable in the pile fermentation process, the stability of the product still has a larger space for improvement. Certain potential safety hazards inevitably exist in the production process, and in order to further obtain the favor of consumers and the acceptance of the market, break through the foreign trade barrier and improve the market competitiveness of Pu 'er tea enterprises, the manual control, cleaning and high efficiency of the Pu' er tea production process must be realized, new products are not developed, and the industrial chain is extended. In order to achieve the purpose, technology must be innovated, a series of safe, clean, efficient, artificial, controllable and automatic Pu 'er tea new processes are invented, the healthy development of the Pu' er tea industry can be ensured, and long-term benefits are brought to the nation and people.
With the further development of Pu ' er tea scientific research, more and more people begin to explore the artificial inoculation and fermentation of Pu ' er tea, and at present, a plurality of bacterial strains are applied to the artificial controllable fermentation of Pu ' er tea. In recent years, due to the increase of market demands, a plurality of small-scale manufacturers lack systematic and deep research on Pu 'er tea, and greatly abuse a plurality of other people's patents to profit, for example, according to a plurality of patent methods for inoculating and fermenting Pu 'er tea, a plurality of strains are adopted to ferment Pu' er tea, and a series of methods such as Pu 'er tea processing and production are carried out, so that the economic benefits of Pu' er tea production enterprises with related patents are greatly damaged.
In order to ensure that the germplasm resources of Pu ' er tea fermentation microorganisms are effectively protected, prevent the infringement behavior of abusing the Pu ' er tea fermentation microorganisms and solve the difficult problem of difficult demonstration in the process of artificially controllable fermentation of Pu ' er tea during the infringement of strains, the development of a method for quickly and accurately identifying the Pu ' er tea fermentation strains is imperative, a molecular identification method of the Pu ' er tea fermentation strains needs to be urgently established, a method for accurately identifying and distinguishing the similar strains by a DNA bar code technology is developed, so that the problems of identification and identification of industrial production strains are solved by a method combining morphological characteristics and molecular data analysis, a theoretical basis is provided for the development of the controlled industrial fermentation process of Pu ' er tea and resource protection, and the healthy and prosperous development of the Pu ' er tea industry is.
Disclosure of Invention
In order to overcome the defects of morphological identification of the adenine nodularia cerealis strain for fermentation production of Pu 'er tea and the defect that different strains in the strain are difficult to distinguish based on an ITS sequence and an 18S rRNA sequence, the invention provides a group of DNA bar codes of the adenine nodularia cerealis, wherein the DNA bar codes can accurately identify the Pu' er tea fermentation strain adenine nodularia cerealis TMCC70007, and can quickly and accurately identify the strain from confusable strains or other strains in the same species.
In order to achieve the purpose, the invention adopts the following technical scheme:
according to a first aspect of the present invention, there is provided a DNA barcode composition for identifying a strain of arthrospora adenine dinucleotide, comprising a first DNA barcode as set forth in SEQ ID No.1, a second DNA barcode as set forth in SEQ ID No.2, and a third DNA barcode as set forth in SEQ ID No.3, wherein the first, second and third DNA barcodes are derived from the genome of the strain of arthrospora adenine dinucleotide, TMCC 70007.
According to a second aspect of the present invention, there is provided a DNA barcode primer composition for identifying a strain of arthrospora adenine dinucleotide, comprising the following three primer pairs:
a first primer pair:
forward primer Ssu 72-F: 5'-CGGGCAATGGACTGTATGGT-3' the flow of the air in the air conditioner,
reverse primer Ssu 72-R: 5'-TGTCGTTGTAAGGGGTTCCG-3', respectively;
a second primer pair:
forward primer COX i-F: 5'-TTGCAGGTTTAATAGGTACAGGT-3' the flow of the air in the air conditioner,
reverse primer COX I-R: 5'-GATACCCCTGATACGTGTAATGC-3', respectively; and
a third primer pair:
forward primer Cox1 p-F: 5'-TGCAGTATTCTCATTATTTGCAGGA-3' the flow of the air in the air conditioner,
reverse primer Cox1 p-R: 5'-AGCTGGAGAATCAGTAGCTCA-3', respectively;
wherein the first primer pair is a primer of a first DNA bar code shown as SEQ ID No. 1; the second primer pair is a primer of a second DNA bar code shown as SEQ ID No. 2; the third primer pair is a primer of a third DNA bar code shown as SEQ ID No. 3.
According to a third aspect of the invention, there is provided a kit for identifying a strain of nodospora adevorans comprising a DNA barcode primer composition according to the invention. In a preferred embodiment, the kit further comprises a DNA barcode composition according to the invention.
According to a fourth aspect of the present invention, there is provided a method for identifying a strain of nodospora adenine dinucleotide, comprising the steps of:
a) providing the genome DNA of a strain to be tested;
b) taking the genomic DNA in the step a) as a template, performing PCR amplification by using the first primer pair, the second primer pair and the third primer pair, and determining that the strain to be detected is not the node adenine arthrospora cerealis strain TMCC70007 if PCR products obtained by respectively amplifying the three primer pairs are not obtained; if a first, a second and a third PCR product respectively amplified by the first, the second and the third primer pairs are obtained, the following steps are carried out;
c) sequencing the obtained PCR products to obtain respective DNA sequences of the PCR products, wherein the DNA sequence of the first PCR product is a first DNA sequence, the DNA sequence of the second PCR product is a second DNA sequence, and the DNA sequence of the third PCR product is a third DNA sequence;
d) sequentially splicing the first, second and third DNA sequences obtained in the step c) to obtain a sequence to be detected; sequentially splicing the first DNA bar code, the second DNA bar code and the third DNA bar code to obtain a standard sequence; comparing the sequence to be detected with the standard sequence for sequence homology, and if the sequence homology is less than 99%, determining that the strain to be detected is not the adenine node B spore-eating yeast strain TMCC 70007; step e) is performed if the sequence homology is greater than or equal to 99%;
e) and performing cluster analysis on the sequence to be detected and the standard sequence, and determining that the strain to be detected is the node adenine dinucleotide strain TMCC70007 if the sequence to be detected and the standard sequence are clustered together.
In the method of the present invention, preferably, the length of the first PCR product amplified by the first primer pair is 583 bp; the length of a second PCR product obtained by amplification of the second primer pair is 379 bp; the length of a third PCR product obtained by amplification of the third primer pair is 395 bp.
In the method of the present invention, preferably, the procedure of PCR amplification is: 1) pre-denaturation at 94-96 deg.C for 8 min; 2) denaturation at 94-96 ℃ for 45 seconds, annealing at 55-57 ℃ for 45 seconds, and extension at 72 ℃ for 1min 15 seconds, wherein the procedure 2) is performed for 30-35 cycles; 3) extension at 72 ℃ for 10 min. In a further preferred embodiment the procedure for PCR amplification is: 1) pre-denaturation at 94 ℃ for 8 min; 2) denaturation at 95 ℃ for 45 seconds, annealing at 56 ℃ for 45 seconds, and extension at 72 ℃ for 1min 15 seconds, wherein the procedure 2) is performed for 32-35 cycles; 3) extension at 72 ℃ for 10 min.
In the method of the present invention, preferably, the clustering analysis is construction of a phylogenetic tree.
A fifth aspect according to the present invention relates to the use of a DNA barcode composition according to the present invention for identifying strains of Arthrospora adefovea.
According to a sixth aspect the invention relates to the use of a DNA barcode primer composition according to the invention for identifying strains of Arthrospora adenantha.
Compared with the prior art, the invention has the following advantages and positive effects:
1. 3 DNA barcode fragments most suitable for identifying the industrial fermentation production strain of the puer tea, namely, the adenine arthrospora cerealis TMCC70007 are found and selected as DNA barcode combinations, and compared with other DNA sequences, the 3 DNA sequences have the characteristics of universality, easiness in amplification and easiness in comparison.
2. Based on the findings, the sample identification method of the Puer tea industrial fermentation production strain Arthrosporium adenini TMCC70007 is established, compared with the traditional morphological identification method and ITS and 18S rRNA and other sequence identification methods, the identification accuracy is greatly improved, and the defect that different strains in the strain are difficult to distinguish is overcome. The method has low requirements on the strain, can quantify the identification indexes, provides an accurate and effective method for judging the adenine-saving spore yeast TMCC70007 in time, increases the specificity and accuracy of identification, provides an accurate identification method for the Pu 'er tea fermentation strain, namely the adenine-saving spore yeast TMCC70007, solves the problems of difficult demonstration in strains and process patent infringement cases in the manual controllable fermentation process of the Pu' er tea, ensures the benefits of the special rights of the Pu 'er tea fermentation process, and ensures the healthy and prosperous development of the Pu' er tea industry.
Drawings
FIG. 1 shows TMCC70007, CBS 8244 of the species Alternaria adephagaT、CBS 8335. CBS 7350, CBS 7370 and CBS 6800 of the Blastotrys raffinositifera speciesTThe combined sequences of (a) were based on the genetic distance of the Kimura-2-parameter model to construct an NJ tree.
Detailed Description
The present invention is further described in the following description of the embodiments with reference to the drawings, which are not intended to limit the invention, and those skilled in the art may make various modifications or improvements based on the basic idea of the invention, but within the scope of the invention, unless departing from the basic idea of the invention.
One embodiment of the invention relates to a DNA barcode composition for identifying a strain of Arthrospora adenantha, comprising a first DNA barcode shown in SEQ ID No.1, a second DNA barcode shown in SEQ ID No.2, and a third DNA barcode shown in SEQ ID No.3, wherein the first, second and third DNA barcodes are derived from the genome of the strain of Arthrospora adenantha TMCC 70007.
The DNA barcode technology (DNA barcoding) is a new molecular identification technology for identifying species by using a standard and short DNA fragment in a genome, and can quickly and accurately identify the species.
Another embodiment of the invention relates to a DNA barcode primer composition for identifying a strain of arthrospora adephaga, comprising the following three primer pairs:
a first primer pair:
forward primer Ssu 72-F: 5'-CGGGCAATGGACTGTATGGT-3' (SEQ ID No.4),
reverse primer Ssu 72-R: 5'-TGTCGTTGTAAGGGGTTCCG-3' (SEQ ID No. 5);
a second primer pair:
forward primer COX i-F: 5'-TTGCAGGTTTAATAGGTACAGGT-3' (SEQ ID No.6),
reverse primer COX I-R: 5'-GATACCCCTGATACGTGTAATGC-3' (SEQ ID No. 7); and
a third primer pair:
forward primer Cox1 p-F: 5'-TGCAGTATTCTCATTATTTGCAGGA-3' (SEQ ID No.8),
reverse primer Cox1 p-R: 5'-AGCTGGAGAATCAGTAGCTCA-3' (SEQ ID No. 9);
wherein the first primer pair is a primer of a first DNA bar code shown as SEQ ID No. 1; the second primer pair is a primer of a second DNA bar code shown as SEQ ID No. 2; the third primer pair is a primer of a third DNA bar code shown as SEQ ID No. 3.
The primer of the invention can realize the specific amplification of the DNA bar code.
Yet another embodiment of the invention relates to a kit for identifying a strain of arthrospora adephaga comprising a DNA barcode primer composition according to the invention.
In the kit according to the present invention, the three pairs of DNA barcode primers are preferably placed in three separate packages.
In a further preferred embodiment, the kit further comprises a DNA barcode composition according to the invention. The DNA barcode composition is preferably present on a recording medium. The recording medium is, for example, an optical disc.
Yet another embodiment of the present invention relates to a method for identifying a strain of nodospora adephagi comprising the steps of:
a) providing the genome DNA of a strain to be tested;
b) taking the genomic DNA in the step a) as a template, performing PCR amplification by using the first primer pair, the second primer pair and the third primer pair, and determining that the strain to be detected is not the node adenine arthrospora cerealis strain TMCC70007 if PCR products obtained by respectively amplifying the three primer pairs are not obtained; if a first, a second and a third PCR product respectively amplified by the first, the second and the third primer pairs are obtained, the following steps are carried out;
c) sequencing the obtained PCR products to obtain respective DNA sequences of the PCR products, wherein the DNA sequence of the first PCR product is a first DNA sequence, the DNA sequence of the second PCR product is a second DNA sequence, and the DNA sequence of the third PCR product is a third DNA sequence;
d) sequentially splicing the first, second and third DNA sequences obtained in the step c) to obtain a sequence to be detected; sequentially splicing the first DNA bar code, the second DNA bar code and the third DNA bar code to obtain a standard sequence; comparing the sequence to be detected with the standard sequence for sequence homology, and if the sequence homology is less than 99%, determining that the strain to be detected is not the adenine node B spore-eating yeast strain TMCC 70007; step e) is performed if the sequence homology is greater than or equal to 99%;
e) and performing cluster analysis on the sequence to be detected and the standard sequence, and determining that the strain to be detected is the node adenine dinucleotide strain TMCC70007 if the sequence to be detected and the standard sequence are clustered together.
According to an embodiment of the present invention, in the polymerase chain reaction, the amplification conditions are preferably pre-denaturation at 94 ℃ for 8min, followed by denaturation at 94 ℃ for 45 sec, annealing at 56 ℃ for 45 sec, extension at 72 ℃ for 1min 15 sec for a total of 32-35 cycles, and final extension at 72 ℃ for 10 min.
In a specific embodiment of the invention, the three primer pairs of the invention are used to perform PCR amplification on genomic DNA extracted from the strain to be identified, followed by agarose gel electrophoresis detection. Identifying the strains based on detecting the presence or absence of PCR products: if the strain to be identified does not amplify a corresponding target band, the strain is not TMCC 70007; if the corresponding target band is amplified, the strain is proved to be possible TMCC 70007. Then, for further identification, sequencing the PCR product, performing series combination of 3 DNA sequences obtained by sequencing, and performing homologous comparison with a combined sequence (standard sequence) of 3 DNA barcode sequences of the TMCC70007 strain to obtain the similarity (namely homology) between the sequences, and if the sequence homology is less than 99%, determining that the strain to be detected is not the adenine-feeding arthrospora yeast strain TMCC 70007.
If the sequence homology is greater than or equal to 99%, the sequence to be tested can be subjected to clustering analysis with a standard sequence, such as a phylogenetic tree, and identification rules can be established based on the phylogenetic tree method of clustering analysis to identify species.
Specifically, an N J phylogenetic tree is constructed by applying MEGA 5.1 or PAUP software to the standard sequence of the Arthrospora adenine-eating yeast TMCC70007 and the sequence to be detected of each strain to be identified, if the sequence to be detected of the strain to be identified is clustered with the standard sequence of the Arthrospora adenine-eating yeast TMCC70007, the strain is identified as the Arthrospora adenine-eating yeast TMCC70007, and the term "clustering" used herein means that the strains are in the same branch and have the same evolutionary distance after being analyzed by the phylogenetic tree.
In the above scheme, in step b), the length of the first PCR product amplified by the first primer pair is 583 bp; the length of a second PCR product obtained by amplification of the second primer pair is 379 bp; the length of a third PCR product obtained by amplification of the third primer pair is 395 bp.
Other embodiments of the invention relate to the use of the DNA barcode primer composition according to the invention for identifying a strain of arthrospora adensis, and the use of the DNA barcode composition according to the invention for identifying a strain of arthrospora adensis.
Examples
The present invention is further illustrated by the following specific examples. The methods used in the examples are conventional, unless otherwise specified.
Example 1: based on the homology comparison of the sequences obtained by amplifying the first primer pair, the second primer pair and the third primer pair, whether the strain to be detected is the adenine-node B yeast TMCC70007 or not is judged
1. The strain source is as follows: the information of the selected related strains is shown in table 1 below:
TABLE 1
In the above table 1, the strain TMCC70007 is deposited at China General Microbiological Culture Collection Center (CGMCC) with the Collection number of CGMCC No. 8683; the CBS strains were purchased from the CBS-KNAW fungal biodiversity center, the Netherlands.
2. Respectively extracting strain DNA:OMEGA e.z.n.a was used.TMYeast DNA Kit D3370-01 Kit (manufactured by OMEGA) extracts Yeast genomic DNA and dilutes the DNA concentration of the sample to 0.5. mu.g/. mu.L with sterilized deionized water.
3. Amplifying DNA fragments, and respectively carrying out Polymerase Chain Reaction (PCR) on the extracted DNA of each strain by adopting the following 3 pairs of primer pairs:
a first pair of primers, wherein the first pair of primers is a primer pair,
forward primer, Ssu 72-F: 5'-CGGGCAATGGACTGTATGGT-3' (SEQ ID No.4),
reverse primer, Ssu 72-R: 5'-TGTCGTTGTAAGGGGTTCCG-3' (SEQ ID No. 5);
a second primer pair,
forward primer, COX i-F: 5'-TTGCAGGTTTAATAGGTACAGGT-3' (SEQ ID No.6),
reverse primer, COX i-R: 5'-GATACCCCTGATACGTGTAATGC-3' (SEQ ID No. 7);
a third primer pair is used for carrying out the primer pair,
forward primer, Cox1 p-F: 5'-TGCAGTATTCTCATTATTTGCAGGA-3' (SEQ ID No.8),
reverse primer, Cox1 p-R: 5'-AGCTGGAGAATCAGTAGCTCA-3' (SEQ ID No.9),
three primer pairs are used for carrying out PCR respectively, and the PCR reaction system is 50 mu L: ddH2O 37.7μL、MgCl25 μ L, 4 μ L dNTPs, 1 μ L forward primer, 1 μ L reverse primer, 0.3 μ L Taq DNA polymerase, 1 μ L DNA template, and no dye. And (3) amplification procedure: pre-denaturation at 94 deg.C for 8min, subsequent denaturation at 94 deg.C for 45s, annealing at 56 deg.C for 45s, and extension at 72 deg.C for 1min and 15s, for 32-35 cycles in total, and final extension for 10 min.
4. And detecting an amplification product, performing electrophoresis detection by using 1.0% agarose gel and 1 × TBE electrophoresis solution, and detecting the size of a PCR fragment by using DNASMarker. If the strain to be detected does not amplify a corresponding target band, the strain is not TMCC 70007; if obvious clear bands appear and no miscellaneous bands exist, the DNA fragments are sequenced, sequencing selection adopts sequencing, splicing results are provided by sequencing company (Huada gene), and the DNA fragments can be spliced by self.
5. Firstly, checking the quality of a sequence peak image obtained after sequencing in software Chromas, and splicing forward and reverse sequences by using SeqMan in a DNASTAR software package after determining that the quality of the peak image meets the requirement of data analysis. Sequencing finds that the length of a first PCR product obtained by amplification of the first primer pair is 583 bp; the length of a second PCR product obtained by amplification of the second primer pair is 379 bp; the length of a third PCR product obtained by amplifying the third primer pair is 395bp, and the first, second and third DNA sequences of the first, second and third PRC products are manually proofread and spliced in sequence to obtain a sequence to be detected; the first, second and third DNA barcodes of TMCC70007 are spliced in this order. Specifically, SeqMan in DNAStar software was used, see software description for splicing, to obtain a standard sequence. Comparing the sequence to be tested with the standard sequence, and if the homology of the sequence to be tested and the standard sequence of TMCC70007 is lower than 99 percent, judging that the strain to be tested is not the TMCC70007 strain; if the homology is more than 99%, further verification is required, for example, as can be seen from Table 2, the spliced sequence from the test A.adenosylyticus CBS 7350 has up to 99% of the identity with the TMCC70007 combination standard sequence, and therefore further identification of them using the phylogenetic tree method is required.
Table 2 comparison of the similarity of the sample combination sequences after Blastn with the standard combination sequence is shown in the table below.
6. Adopting the sequence to be tested of the strain to be tested obtained in the step 5, and carrying out TMCC70007 and CBS 8244 treatment on the adenine node B gourmet yeast strainTCBS 8335, CBS 7350 Strain and CBS 7370 and CBS 6800 of the Blutobotrys raffinoses speciesTMeGA 5.10 is used for combining sequences to be detected of the strains and constructing a Neighbor-join phylogenetic tree based on a Kimura-2-parameter model, the method is a Bootstrap method, and the Bootstrap repeated No. is 1000. If the sequence to be tested of the strain to be tested and the standard sequence of TMCC70007 are clustered together (namely the same branch is obtained, and the evolutionary distances are the same), the strain to be tested is shown as the strain to be testedPu' er tea fermentation strain TMCC 70007.
As shown in FIG. 1, TMCC70007, CBS 8244 of Alternaria adephaga strainTCBS 8335, CBS 7350 Strain and CBS 7370 and CBS 6800 of the Blutobotrys raffinoses speciesTThe strain presents different branches, so that whether the strain to be detected is the Pu' er tea fermentation strain TMCC70007 or not can be further verified. Specifically, although the identity of the splicing sequence of the Arthrospora adenine-feeding yeast CBS 7350 and the standard sequence is up to 99%, the two sequences are obviously shown to be obviously branched in a phylogenetic tree by a method for constructing the phylogenetic tree, so that the Arthrospora adenine-feeding yeast CBS 7350 and the Arthrospora adenine-feeding yeast TMCC70007 are not the same strain.
Industrial applicability
Compared with the traditional morphological identification method and the sequence identification based on ITS, 18S rRNA and the like, the method can distinguish and identify whether the strain to be detected is the Arthrospora adenine-eating yeast TMCC70007 strain in the species.
SEQUENCE LISTING
<110> Menghai tea industry, Limited liability company
<120> DNA barcode primer, DNA barcode, kit, method and application for accurately identifying alternaria adenantha strain
<130> FI-163423-59:52/C
<160> 9
<170> PatentIn version 3.5
<210> 1
<211> 583
<212> DNA
<213> Arthrospora adenantha (Blastobotrys adeninivorans)
<400> 1
cgggcaatgg actgtatggt gcctaattat acttttaaga ttccatcgtc gcggagcgac 60
cagattcgcg atcgccaggc aatttatgac gagattagtg ctctcatggg cctcaacaag 120
tacgtaggct tccccgctgc tccagagatg cgtcctctga acgaagagga cattgaagac 180
gatctggaag ctctcggtct gcgccactaa tttattccca tagcatgtac ctaactcaca 240
aacttgattt taataatctt catctcagtc ttaattttca cgtccactta gccatcatat 300
tatttgtcgc ctcacgtcgc atcaccactt cccactactt ttgcatcacc acaaacctaa 360
catgggccag gacattacat tttgcactgt atgtgcatca aataataatc ggtaggtaat 420
actggacaga ttccccttgc tttgaagata ctaactagtt cgatggtggc tcatttgact 480
ctaaagaatg ccggattcaa cgtttcttcg tacggaactg gatcggcagt cagaatgcca 540
ggccccagcg caaacaagcc tgtagtatac ccattcggaa ccc 583
<210> 2
<211> 379
<212> DNA
<213> Arthrospora adenantha (Blastobotrys adeninivorans)
<400> 2
tataggtaca ggtttaagta ttataataag acttgaatta gcaggtccaa atcctcaaat 60
attacataat aatgggcaat tatttaattc tatagtatca ttacatgcgg ttgcgatggt 120
attcttttta gtaatgccta tgacagtagg ttttttcggg aactaccttg taccacaaat 180
gataggtgca gtagatatgt cattatctag attaaataat atatcattct gattattagt 240
tccttcatta ttattaggag tatcatcagc tttaattgaa agtggtccag gtactggatg 300
aacagtttat ccaccattat caagtataca agctcatagt ggacctagtg ttgatttagt 360
tatatttgca ttacacgta 379
<210> 3
<211> 395
<212> DNA
<213> Arthrospora adenantha (Blastobotrys adeninivorans)
<400> 3
attatttgca ggatactact tctgatctcc taaaatctta ggattatatt ataatgaatt 60
attaggacaa atacaattct gaacattatt tataggtgct aacgtaacat tcttacctca 120
acatttctta ggtttacaat caatgccacg tagaatacct aattatcctg atgcatttac 180
tggttgaaat atggtaagta gttttggatc attaatatca tttgtatcat taatattatt 240
ctttgttgtt atatatgatc aattatgtaa tggattatat aataaacata ctgtatctgt 300
agctaatata tatgctccag atttcacagt taataatata ttatttgata tgtttgataa 360
agctccttca ttagaatgag ctactgattc tccag 395
<210> 4
<211> 20
<212> DNA
<213> Artificial sequence
<400> 4
cgggcaatgg actgtatggt 20
<210> 5
<211> 20
<212> DNA
<213> Artificial sequence
<400> 5
tgtcgttgta aggggttccg 20
<210> 6
<211> 23
<212> DNA
<213> Artificial sequence
<400> 6
ttgcaggttt aataggtaca ggt 23
<210> 7
<211> 23
<212> DNA
<213> Artificial sequence
<400> 7
gatacccctg atacgtgtaa tgc 23
<210> 8
<211> 25
<212> DNA
<213> Artificial sequence
<400> 8
tgcagtattc tcattatttg cagga 25
<210> 9
<211> 21
<212> DNA
<213> Artificial sequence
<400> 9
agctggagaa tcagtagctc a 21
Claims (10)
1. A DNA barcode composition for identifying a C.adefovir TMCC70007 strain, comprising a first DNA barcode shown as SEQ ID No.1, a second DNA barcode shown as SEQ ID No.2, and a third DNA barcode shown as SEQ ID No.3, wherein the first, second and third DNA barcodes are derived from the genome of the C.adefovir TMCC70007 strain.
2. A DNA barcode primer composition for identifying the adenine node B.cerevisiae TMCC70007 strain comprises the following three pairs of primer pairs:
a first primer pair:
forward primer Ssu 72-F: 5'-CGGGCAATGGACTGTATGGT-3' the flow of the air in the air conditioner,
reverse primer Ssu 72-R: 5'-TGTCGTTGTAAGGGGTTCCG-3', respectively;
a second primer pair:
forward primer COX i-F: 5'-TTGCAGGTTTAATAGGTACAGGT-3' the flow of the air in the air conditioner,
reverse primer COX I-R: 5'-GATACCCCTGATACGTGTAATGC-3', respectively; and
a third primer pair:
forward primer Cox1 p-F: 5'-TGCAGTATTCTCATTATTTGCAGGA-3' the flow of the air in the air conditioner,
reverse primer Cox1 p-R: 5'-AGCTGGAGAATCAGTAGCTCA-3', respectively;
wherein the first primer pair is a primer of a first DNA bar code shown as SEQ ID No. 1; the second primer pair is a primer of a second DNA bar code shown as SEQ ID No. 2; the third primer pair is a primer of a third DNA bar code shown as SEQ ID No. 3.
3. A kit for identifying a nodospora adevorans TMCC70007 strain comprising the DNA barcode primer composition of claim 2.
4. The kit of claim 3, further comprising the DNA barcode composition of claim 1.
5. A method for identifying a strain of the nodospora adephagi TMCC70007, comprising the steps of:
a) providing the genome DNA of a strain to be tested;
b) performing PCR amplification by using the genomic DNA in the step a) as a template and using the first primer pair, the second primer pair and the third primer pair according to claim 2, and determining that the strain to be detected is not the node adenine arthrobotus yeast strain TMCC70007 if PCR products obtained by respectively amplifying the three primer pairs are not obtained; if a first, a second and a third PCR product respectively amplified by the first, the second and the third primer pairs are obtained, the following steps are carried out;
c) sequencing the obtained PCR products to obtain respective DNA sequences of the PCR products, wherein the DNA sequence of the first PCR product is a first DNA sequence, the DNA sequence of the second PCR product is a second DNA sequence, and the DNA sequence of the third PCR product is a third DNA sequence;
d) sequentially splicing the first, second and third DNA sequences obtained in the step c) to obtain a sequence to be detected; sequentially splicing the first, second and third DNA barcodes according to claim 1 to obtain a standard sequence; comparing the sequence to be detected with the standard sequence for sequence homology, and if the sequence homology is less than 99%, determining that the strain to be detected is not the adenine node B spore-eating yeast strain TMCC 70007; step e) is performed if the sequence homology is greater than or equal to 99%;
e) and performing cluster analysis on the sequence to be detected and the standard sequence, and determining that the strain to be detected is the node adenine dinucleotide strain TMCC70007 if the sequence to be detected and the standard sequence are clustered together.
6. The method of claim 5, wherein the first PCR product amplified by the first primer pair is 583bp in length; the length of a second PCR product obtained by amplification of the second primer pair is 379 bp; the length of a third PCR product obtained by amplification of the third primer pair is 395 bp.
7. The method of claim 5, wherein the procedure for PCR amplification is: 1) pre-denaturation at 94-96 deg.C for 8 min; 2) denaturation at 94-96 ℃ for 45 seconds, annealing at 55-57 ℃ for 45 seconds, and extension at 72 ℃ for 1min 15 seconds, wherein the procedure 2) is performed for 30-35 cycles; 3) extension at 72 ℃ for 10 min.
8. The method of claim 5, wherein the clustering analysis is the construction of a phylogenetic tree.
9. The use of the DNA barcode composition of claim 1 for identifying a strain of the nodospora adenine-feeding strain TMCC 70007.
10. The use of the DNA barcode primer composition of claim 2 for identifying a strain of nodospora adefovea TMCC 70007.
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Non-Patent Citations (2)
| Title |
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| Characterization and expression analysis of a gene cluster for nitrate assimilation from the yeast Arxula adeninivorans;Erik B¨oer, et al.;《Yeast》;20090203;第26卷;第83-93页 * |
| The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest;Kunze et al.;《Biotechnology for Biofuels》;20140424;第7卷(第66期);第1-15页 * |
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