Method for filtering modern DNA pollution from ancient DNA data and application thereof

Abstract

The invention discloses a method for filtering modern DNA pollution from ancient DNA data and an application thereof. The method comprises a step: carrying out paleo-DNA feature filtering on Illuminanext-generation sequencing original data of paleo-DNA, and specifically comprises the following steps: performing modern DNA pollution filtration on Illumina next-generation sequencing original data according to paleo-DNA deamination characteristics, namely reserving at least N C->T mutations at the 5' end and / or at least M C->T mutations at the 3' end caused by paleo-DNA deamination after filtration. According to the method provided by the invention, the Illumina platform data which is widely used at present can be processed; the method employs a comparison algorithm and parameters most suitable for ancient DNA, can enable the pollution rate after filtering to reach 0 under the suitable N and M values, is one of methods with the maximum filtering intensity at present, and lays a foundation for subsequent deep research of the ancient DNA.

Description

technical field [0001] This application relates to the field of ancient DNA detection and analysis, in particular to a method for filtering modern DNA contamination from ancient DNA data and its application. Background technique [0002] Ancient DNA refers to the DNA information of ancient organisms obtained from archaeological materials, paleontological fossils, biological remains, remains, or sediments. It mainly comes from museum specimens, paleontological tissues preserved under special conditions such as amber or permafrost, and forensic samples. Modern DNA is the DNA information of modern biological materials relative to ancient DNA. [0003] With the emergence and development of PCR technology and sequencing technology, ancient DNA research has developed rapidly in the past 30 years. In 1984, Higuchi et al. successfully extracted and amplified 228bp DNA from the ancient muscle tissue of the extinct quagga, marking the first time that humans successfully extracted an...

AI Technical Summary

Problems solved by technology

However, in many cases, the pollution cannot be evaluated by the later bioinformatics analysis method, or the evaluation result is greater than 1%. In these cases, some methods must be used to remove the pollution to ensure the reliability of the subsequent analysis

At present, no method can filter foreign DNA contamination well, especially modern DNA contamination of closely related species

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