Recently, the Beijing Wheat Seed Testing Center of the Hybrid Wheat Research Institute of the Beijing Academy of Agriculture and Forestry Sciences, Suzhou Lasso Biochip Technology Co., Ltd., China Agricultural University, Northwest A&F University and other units have successfully developed the first high-density solid-phase wheat breeding chip with completely independent intellectual property rights (covering SNP markers, chips, reagents and scanners) in China - "Huamaixin" common wheat genotyping 65K chip (referred to as "Huamaixin 65K"). This breakthrough achievement is of great significance for improving wheat variety innovation, intellectual property protection and seed quality control in mainland China.
Huamai core 65K real shot
Wheat (Triticum aestivum L.) is an important food crop in the world. The mainland is the world's largest producer and consumer of wheat, and increasing wheat yield is the fundamental way to ensure national food security under the actual national conditions such as growing population, shortage of available agricultural resources, and increasing grain production costs year by year.
Conventional breeding, represented by hybrid breeding, has played an important role in the genetic improvement of grain crops in mainland China, but at present, the advantages of molecular breeding technology represented by marker-assisted selection and genome-wide background selection have not been fully utilized. Among them, the lack of simple, high-throughput, and low-cost labeling detection technologies and products is one of the important factors limiting the development of molecular breeding. In the past two decades, high-density solid-phase microarray technology has been monopolized by foreign companies such as Illumina and Affymetrix, and its high development and detection costs have limited the large-scale application of this technology in mainland China. Therefore, it is very important to break through the "bottleneck" of foreign technology and develop high-density, high-throughput, low-cost, and customizable solid-phase gene chips with independent intellectual property rights to promote the rapid development of molecular breeding. At the same time, it is of great significance for the implementation of the substantially derived variety system in mainland China and to improve the level of wheat variety innovation, intellectual property protection and seed quality monitoring in mainland China.
The successful research and development of Huamai Xin 65K, a domestic solid-phase gene chip, has achieved a breakthrough from 0 to 1 in mainland China's high-density solid-phase breeding chip, which will provide important support for the innovation and development of wheat breeding in mainland China.
Origin of SNP loci and chromosomal distribution
Huamaixin 65K strictly follows the SNP Marking Method for Authenticity Identification of Wheat Varieties (NY/T 4021-2021), including all loci for authenticity identification and the construction of high-density fingerprint database of known varieties, and integrates specific markers necessary for transgenic detection, as well as some SNP markers closely linked to functional genes such as wheat yield, quality, and disease resistance.
Based on Chinese spring version 2.1, it currently contains 54,993 selected SNP markers (which can be expanded to 65K based on important results in future studies), covering 196 trait-related markers. SNP loci were evenly distributed on chromosomes A, B and D, and polymorphic loci accounted for 99.1%, which had good discrimination ability and stability. A single SNP locus was detected in duplicate with 15-30 beads, with an average detection rate of 99.0% and a reproducibility of 99.5%.
Highlight the benefits
01
Fully autonomous
From chip preparation to scanners, reagents, supporting software and algorithms, all-in-one solutions can be implemented in-house. Up to now, Suzhou Lasso Biochip Technology Co., Ltd. has obtained 13 invention patent authorizations, 2 utility model patent authorizations, and 1 medical device registration certificate, and is the company with the most complete intellectual property layout in the field of high-density solid-phase gene chip R&D and production under the mainland legal system.
The main suppliers are based on the local area and are not affected by the fluctuations of the international environment to ensure the stable supply of products.
The professional local technical support team provides efficient services throughout the process to ensure that users have no worries about use.
02
Extensible
New detection sites can be added at any time on the basis of the original chip as needed, without the need to re-customize the new chip, with high flexibility and strong plasticity.
03
Multi-utility
The chip integrates background screening, variety identification, genetically modified testing and other multi-purpose, which can achieve one-stop comprehensive screening, greatly improve detection efficiency, and save costs.
04
Low cost
Solid-phase microarrays have shown significant cost-effectiveness in large-scale testing. With the increase in the number of samples, the cost of testing a single sample is decreasing, and the economic benefits are obvious.
05
High efficiency
Based on oligonucleotide probes on solid-state substrates, solid-phase microarrays can detect hundreds of thousands to millions of SNPs in parallel at a time without relying on sequencing or other genotyping techniques, and the entire process from detection to data analysis takes only 72 hours and maintains an accuracy rate of more than 99%.
Only 24 samples are required to complete the test, so there is no need to mix samples.
Application scenarios
- Auxiliary detection of authenticity/specificity/consistency of wheat varieties
- Diagnosis of parenchymal derived varieties
- Genetically modified testing
- Genetic linkage map construction and QTL mapping
- Genome-wide selection breeding
- marker-aided selection breeding, etc
Data performance
Fig.1 Chromosome distribution of 65K SNP loci in Huamaixin
*This product is rich in SNP loci and completely covers 21 chromosomes of common wheat
Fig.2 Distribution of minimum allele frequency (MAF) at 65K SNP locus
Fig.3 SNP fingerprint clustering map constructed by detecting 187 wheat standard samples of approved varieties using Huamaixin 65K
Fig.4 The detection rate of Huamai Xin 65K test samples
*The average detection rate of the test samples was 99.13%.
Fig.5 Reproducibility of Huamaixin 65K test samples
*The average reproducibility of the test samples was 99.34%
Fig.6 Clustering and typing of a single SNP locus of Huamaixin 65K in variety identification applications
Major R&D
Meet the team
Institute of Hybrid Wheat, Beijing Academy of Agriculture and Forestry Sciences
Beijing Wheat Seed Testing Center
01
Beijing Wheat Seed Testing Center, Institute of Hybrid Wheat, Beijing Academy of Agriculture and Forestry Sciences, is a professional institution engaged in the research and development and application of DNA fingerprint detection technology for wheat and other crops. The center is the Key Laboratory of Crop DNA Fingerprint Innovation and Utilization of the Ministry of Agriculture and Rural Affairs (jointly established by the Ministry and the province), one of the first batch of national anti-counterfeiting and rights protection seed testing institutions, the leading institution for the quality supervision and random inspection of wheat and other crop seeds, the DNA fingerprint detection of wheat varieties in the national and provincial and municipal regions, and the construction unit of crop DNA fingerprint database.
The team has 11 key members, including 2 senior members, 1 deputy senior member, 5 intermediate and 1 junior member, 3 with doctoral degrees and 4 master's degrees. The team undertakes the construction of the national regional test standard sample bank and the Beijing wheat germplasm resource bank, and has more than 20,000 germplasm resources of various types; It took the lead in formulating 7 sets of molecular identification standards for wheat varieties, such as wheat authenticity and variety purity; It has built the largest SSR and SNP-DNA fingerprint database in mainland China, with a storage capacity of more than 13,000 copies, and built a large-scale SSR and SNP marker molecular identification platform for crops. Developed wheat 90K SNP solid phase, 5K targeted sequencing liquid phase SNP chip, 65K SNP solid phase chip (the first domestic SNP chip with complete intellectual property rights); A comprehensive database management system integrating crop entity database, phenotypic database and molecular fingerprint has been established. It has provided more than 30,000 technical services for variety management departments and public security and justice, and has provided important technical support for the evaluation of wheat germplasm resources, variety breeding, variety approval, new variety protection, market supervision and seed certification in mainland China.
Suzhou Lasso Biochip Technology Co., Ltd
02
Suzhou Lasso Biochip Technology Co., Ltd. is one of the earliest enterprises in China to realize the independent research and development, production and commercialization of high-density solid-phase gene chip technology. The company provides one-stop solid-phase gene chip solutions including chips, scanning equipment, reagents, professional algorithms and supporting software, and is committed to promoting the application and popularization of genetic testing technology in more scenarios through domestic independent research and development and continuous innovation.
The core members of the team graduated from Peking University, Tsinghua University, Columbia University, Shanghai Jiao Tong University and other well-known universities at home and abroad, and have conducted in-depth training in world-class laboratories or research centers. The professional backgrounds of the R&D team members cover multiple disciplines such as molecular biology, synthetic biology, organic chemistry, mechanical engineering, machine learning, and bioinformatics, forming a highly professional and interdisciplinary knowledge framework. They have rich R&D experience in molecular diagnostics, life sciences and other fields, and at the same time have solid project management capabilities and practical capabilities.
Contact
Tel: 181 5110 5055 (Manager Cheng)
Email:[email protected]
Website: https://lasobiotech.com/chip
Address: Unit 101, Building 32, Phase II, Biomedical Industrial Park, No. 218 Sangtian Street, Suzhou Industrial Park