Looking for breakthrough ideas for innovation challenges? Try Patsnap Eureka!

Methods for determining probe sets, kits and uses thereof

A probe set and kit technology, applied in the field of species abundance determination, can solve the problems of low probe efficiency, lack of exploration of heterologous sequence capture conditions, etc.

Active Publication Date: 2018-09-14
SHENZHEN HUADA GENE INST
View PDF4 Cites 0 Cited by
  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

The application of hybrid capture in biodiversity research is limited mainly due to low probe efficiency and lack of exploration of heterologous sequence capture conditions

Method used

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
View more

Image

Smart Image Click on the blue labels to locate them in the text.
Viewing Examples
Smart Image
  • Methods for determining probe sets, kits and uses thereof
  • Methods for determining probe sets, kits and uses thereof
  • Methods for determining probe sets, kits and uses thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment

[0039] In order to ensure the coverage of the probes, the mitochondrial data from the 1KITE project were selected. The mitochondrial genome was obtained using the first 1KITE data of 379 species, and then the protein-coding genes on the mitochondria were obtained through gene annotation. Finally, 2,553 assembled sequences with an average length of 1,902bp were obtained for subsequent probe design. In the process of probe design, the mitochondrial assembly sequence was first divided into sequence sets with lengths of 64, 73 and 93, and the sequence set with a length of 73 bp was finally selected after comprehensive consideration of the theoretical melting temperature and relatively good mutation resistance, that is, the 1KITE The 2553 assembled sequences were segmented into 73bp long probes. All probes were then comprehensively ranked according to their specific region, theoretical melting temperature, and GC content. Divide all mitochondrial assembly sequences into 45bp wind...

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to View More

PUM

No PUM Login to View More

Abstract

The present invention discloses a method for determining a probe set. The probe set contains a plurality of probes. The method comprises: acquiring a DNA sequence set and screening the DNA sequence set, wherein, the DNA sequence set contains a plurality of DNA sequences whose length is K0, and the step of acquiring the DNA sequence set comprises: from an i-th nucleotide at one end of a reference sequence whose length is L, copying K0 consecutive nucleotides of the reference sequence into a DNA sequence in the direction of the other end, wherein i takes a numerical value in {1, 2, ..., (L-K0), (L-K0+1)} sequentially; screening the DNA sequence set, so as to obtain a probe, the screening step comprises filtering out a DNA sequence whose matching position number with the reference sequence is greater than 2, and 200nt>=K0>=50nt. The present invention further discloses a kit, a use of the kit and a method for determining the abundance of species.

Description

technical field [0001] The present invention relates to the field of biotechnology, specifically, the present invention relates to a method for determining a probe set, a kit, the use of the kit and a method for determining species abundance. Background technique [0002] The status of biodiversity in a specific environment is an important reference for understanding the health of the ecological environment and sustainable development capabilities, and is also an important basis for solving problems in the management process [1-3]. Today, the rapidly developed second-generation sequencing platform is more and more applied to various groups including arthropods and nematodes[4-9] and the biodiversity research of plants, fungi and earthworms in environmental DNA[ 10-12]. Such studies mostly use the technology based on PCR product sequencing, which has an insurmountable shortcoming, that is, species bias [7, 13]. [0003] Mitochondria are often used as important molecular mar...

Claims

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to View More

Application Information

Patent Timeline
no application Login to View More
Patent Type & Authority Patents(China)
IPC IPC(8): G06F19/20C12Q1/68
Inventor 周欣刘山林王欣张浩李振宇
Owner SHENZHEN HUADA GENE INST
Who we serve
  • R&D Engineer
  • R&D Manager
  • IP Professional
Why Patsnap Eureka
  • Industry Leading Data Capabilities
  • Powerful AI technology
  • Patent DNA Extraction
Social media
Patsnap Eureka Blog
Learn More
PatSnap group products

Browse by: Latest US Patents, China's latest patents, Technical Efficacy Thesaurus, Application Domain, Technology Topic, Popular Technical Reports.

© 2024 PatSnap. All rights reserved.Legal|Privacy policy|Modern Slavery Act Transparency Statement|Sitemap|About US| Contact US: help@patsnap.com