基因组预测使用澳大利亚Angus牛的输入全基因组序列数据
Nantapong Kamprasert1, Hassan Aliloo1, Julius H J van der Werf1
1School of Environmental and Rural Science, University of New England, Armidale, New South Wales, Australia.
概括
全基因组序列 (WGS) 数据与50K或高密度 (HD) 标志物相比,对澳大利亚安格斯牛的生长和尸体特征的基因组预测准确性没有显著改善. 标记物密度对不同相关性群体的预测准确度的影响最小.
科学领域:
- 动物遗传学动物遗传学
- 量化遗传学 量化遗传学
- 基因组预测 基因组预测
背景情况:
- 基因组育种值对于选择优质牲畜至关重要.
- 估计基因组繁殖值需要准确和密集的遗传标记数据.
- 全基因组序列 (WGS) 数据与较低密度标记器对预测准确性的实用性是一个正在进行的研究问题.
研究的目的:
- 为了比较澳大利亚Angus牛的生长和尸体特征的基因组预测的准确性和偏差,使用三个标记密度:50K,高密度 (HD) 和WGS.
- 为了评估标记物密度对基因组预测准确性的影响,在参考动物和验证动物之间不同程度的相关性.
主要方法:
- 整个基因组序列 (WGS) 数据被用于估计基因组繁殖值.
- 用基因组最佳线性无偏预测 (GBLUP) 来进行预测.
- 交叉验证用于评估预测准确性和偏差.
- 动物根据与参考群体的相关性被分为子组.
主要成果:
- 在50K,HD和WGS标记密度中,预测准确度相似.
- 准确度为0.61至0.68的体重特征和0.40至0.52的尸体特征.
- 随着标记密度的增加,观察到精度的边际下降,与WGS没有实质性的改善.
结论:
- 整个基因组序列数据并没有为该澳大利亚安格斯种群中研究的特征的基因组预测准确度提供实质性的改善.
- 人口结构可能影响了跨标记密度的预测准确度缺乏显著差异.
- 在这种情况下,低密度标记面板可能足以进行基因组预测.
相关概念视频
Genomics
36.0K
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...
36.0K
Evolutionary Relationships through Genome Comparisons
5.7K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
5.7K
Genome Annotation and Assembly
18.8K
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.
18.8K
Genome-wide Association Studies-GWAS
12.5K
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...
12.5K
Incomplete Dominance
21.6K
Gregor Mendel's work (1822 - 1884) was primarily focused on pea plants. Through his initial experiments, he determined that every gene in a diploid cell has two variants called alleles inherited from each parent. He suggested that amongst these two alleles, one allele is dominant in character and the other recessive. The combination of alleles determines the phenotype of a gene in an organism.
21.6K
Multi-species Conserved Sequences
3.9K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
3.9K


