索亚MD:一个平台,结合多omics数据与各种工具,用于大豆研究和育种
Zhiquan Yang1, Chengfang Luo2,3, Xinxin Pei1
1Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou 510405, China.
Nucleic acids research
|October 9, 2023
概括
一个新的大豆多omics数据库,SoyMD,整合了各种各样的omics数据用于基因型到表型研究. 它提供了先进的工具来加速遗传繁殖和功能基因组学发现.
科学领域:
- 基因组学和生物信息学
- 植物科学 植物科学
- 分子生物学分子生物学
背景情况:
- 多种经济学技术对于理解基因型对表型监管机制至关重要.
- 现有的大豆多组数据库在数据类型,规模和分析方法方面存在局限性.
研究的目的:
- 为了解决当前大豆多种资源的局限性.
- 为大豆研究建立一个全面和用户友好的多学科数据库.
主要方法:
- 整合了各种各样的omics数据集:基因组,转录组,表型,表观组 (基因组修饰,转录因子结合,染色体可访问性/相互作用) 和遗传变异.
- 应用标准化分析管道和数据挖掘的统计方法.
- 开发了一个基于Web的平台 (SoyMD),具有高效的查询和分析工具.
主要成果:
- 成功建立了SoyMD,这是大豆的一个全面的多omics数据库.
- 索伊MD集成了38个基因组,435个转录组,125个表型来自6686个加入,表观基因组数据和24501个加入的遗传变异数据.
- 通过种子油含量基因分析的案例研究证明了SoyMD的实用性.
结论:
- 索亚MD提供了一个有效的平台,用于访问和分析大豆中的多omics数据.
- 该数据库显著提高了大豆遗传育种和功能基因组学研究的能力.
- 促进候选基因分析,加速发现控制重要特征的基因.
相关概念视频
Plant Breeding and Biotechnology
19.0K
Crop cultivation has a long history in human civilization, with records showing the cultivation of cereal plants beginning at around 8000 BC. This early plant breeding was developed primarily to provide a steady supply of food.
19.0K
Genomics
36.4K
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
36.4K
Synthetic Biology
4.8K
Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
Golden rice
Golden rice is a genetically modified...
4.8K
Transgenic Plants
7.3K
Recombinant DNA technology called transgenesis is often used to add a foreign gene or remove a detrimental gene from an organism. Such genetically modified organisms are called transgenic organisms.
The first-ever transgenic plant was a tobacco plant developed in 1983 that showed resistance against the tobacco mosaic virus. Since then, many transgenic plants have been developed and commercialized for improving the agricultural, ornamental, and horticultural value of a crop plant. Transgenic...
The first-ever transgenic plant was a tobacco plant developed in 1983 that showed resistance against the tobacco mosaic virus. Since then, many transgenic plants have been developed and commercialized for improving the agricultural, ornamental, and horticultural value of a crop plant. Transgenic...
7.3K
Genome-wide Association Studies-GWAS
13.5K
Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...
GWAS does not require the identification of the target gene involved in...
13.5K
Genome Annotation and Assembly
18.9K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
18.9K


