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Multi-amplification database building method for trace DNA and special kit

A technology of multiple amplification and kits, applied in the biological field, can solve the problems of high cost, high error rate of indel detection, cumbersome steps, etc.

Active Publication Date: 2018-12-04
CAPITALBIO CORP
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

Life's related kits are relatively economical in single-round operation costs, but are not suitable for polyN type mutation detection due to technical limitations, and the indel detection error rate is relatively high
Although the Illumina platform has a relatively low sequencing error rate, its library construction first requires a series of reactions such as end repair, phosphorylation, and A addition of nucleic acids, and then uses Y-shaped sticky-end adapters for ligation. After the ligation is completed, the library is amplified. Sequencing can only be carried out, which is costly and cumbersome
Due to the different adapters used by the two platforms, the library construction products cannot be used universally on the two platforms

Method used

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  • Multi-amplification database building method for trace DNA and special kit
  • Multi-amplification database building method for trace DNA and special kit
  • Multi-amplification database building method for trace DNA and special kit

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0064] Example 1. The sequencing linker of the present invention and its application in building a trace DNA library.

[0065] 1. The sequencing adapter of the present invention

[0066] 1. Preparation of linker sequences

[0067] Prepare the linker sequence as follows:

[0068]adoligo1: T*A*A*TA*CACTCTTTCCCTACACGACGCTCTTCCG*A*T*C*T(sequence 1);

[0069] adoligo2: G*C*C*T*GTGACTGGAGTTCAGACGTGTGCTCTTCCG*A*T*C*T (sequence 2);

[0070] adlogo3: A*G*A*T*CGGAA*G*A*G*C (sequence 3);

[0071] Among them, * indicates thio modification.

[0072] 2. Preparation of Adaptor1 and Adaptor2 linkers

[0073] (1) Prepare adoligo1, adoligo2, and adoligo3 respectively into storage solutions with a final concentration of 500 μM.

[0074] (2) Mix adoligo1 and adoligo3 in equal molar numbers, configure the reaction system shown in Table 1, and react according to the procedure shown in Table 3 to form Adaptor1.

[0075] Mix adoligo2 and adoligo3 in equimolar amounts, configure the reaction sy...

Embodiment 2

[0155] Embodiment 2, the fidelity comparison between the amplification library construction system of the present invention and the Ampliseq kit

[0156] The cfDNA quality control products with a mutation frequency of 5%, 1% and 0.5% (the cfDNA quality control products with a mutation frequency of 5% and 1% were purchased from Horizon Discovery Company in the United States, and the cfDNA quality control products with a mutation frequency of 0.5% The cfDNA quality control products with a mutation frequency of 0% and 1% purchased from Horizon Discovery in the United States were mixed and prepared according to the mass ratio of 1:1) as the samples to be tested, and the amplification library construction system of the present invention and Ampliseq were used respectively. The kit was used for amplification and library construction, and the fidelity of the two methods was compared. Specific steps are as follows:

[0157] 1. Construction of library

[0158] (1) Amplification libra...

Embodiment 3

[0177] Example 3, Multiple amplification at the single cell level and method for building a library

[0178] In this embodiment, 12 pg of gDNA at the single-cell level is used as a starting template to amplify and build a library (the preparation method of gDNA at the single-cell level is as follows: the fragmented human genome gDNA is fragmented with an ultrasonic breaker to obtain an average of 200 bp left and right fragmented human genome gDNA, which is then serially diluted to obtain gDNA at the single-cell level), and the amplification performance of the amplification library construction system of the present invention on picogram-level samples is tested. Specific steps are as follows:

[0179] 1. Multiple amplification of DNA at the single cell level

[0180] (1) Configure the amplification reaction system according to Table 4, blow and mix evenly, and centrifuge briefly to collect the liquid.

[0181] (2) Place it on the PCR instrument and run the program in Table 5....

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Abstract

The invention discloses a multi-amplification database building method for trace DNA and a special kit. The multi-amplification database building method can realize multiple amplification sequencing with trace DNA or even single-cell-level DNA as a template, and the whole reaction process can be realized in a single tube. Experiments prove that the database building method achieves 207-fold one-tube amplifier amplification at the single cell level, has the fidelity higher than that of conventional commercial kits, not only has the advantages of convenient operation, low cost, high sequencing quality and high sensitivity, but also can meet the sequencing requirements of two sequencing platforms, and is suitable for high-throughput and low-frequency mutation detection fields such as the ctDNA mutation detection field and the low-initial-quantity DNA embryonic mutation detection field such as single cell mutation detection and screening.

Description

technical field [0001] The invention belongs to the field of biotechnology, and in particular relates to a method for building a library with multiple amplification of trace DNA and a special kit thereof. Background technique [0002] Amplicon sequencing is the sequencing of PCR products or captured fragments of a specific length to analyze the variation in the sequence. Amplicon sequencing can perform high-coverage sequencing of the target region, which is convenient for low-frequency mutation detection, and is of great value in exploring genetic variations in complex samples (such as heterogeneous somatic mutations, etc.) for sequencing. In practical applications, the difficulty is how to prepare high-fidelity amplicon sequencing libraries for low DNA input samples (including low input samples with DNA degradation). [0003] The existing technical solutions for low initial quantities are mainly the multiple amplification technology of Life’s Ampliseq product, which has th...

Claims

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Application Information

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IPC IPC(8): C12Q1/6869C12Q1/6844C12N15/11
CPCC12Q1/6844C12Q1/6869C12Q2525/191C12Q2537/143
Inventor 王辉黎一江郭弘妍邢婉丽程京
Owner CAPITALBIO CORP
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