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相关概念视频

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

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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...
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Single Nucleotide Polymorphisms-SNPs01:05

Single Nucleotide Polymorphisms-SNPs

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A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
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Viral Mutations00:36

Viral Mutations

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A mutation is a change in the sequence of bases of DNA or RNA in a genome. Some mutations occur during replication of the genome due to errors made by the polymerase enzymes that replicate DNA or RNA. Unlike DNA polymerase, RNA polymerase is prone to errors because it is not capable of “proofreading” its work. Viruses with RNA-based genomes, like HIV, therefore accrue mutations faster than viruses with DNA-based genomes. Because mutation and recombination provide the raw material...
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Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

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The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
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The Tree of Life - Bacteria, Archaea, Eukaryotes02:40

The Tree of Life - Bacteria, Archaea, Eukaryotes

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The “tree of life” describes the evolution of life and the evolutionary relationships between organisms. The root of the tree is the common ancestor to all life on Earth. All other species radiate from this point, much like the branches of a tree. The numerous tips of these branches on the tree of life represent every living, or extant, species. Extinct species, which are species that no longer exist, can be found towards the center of the tree. Currently, these organisms, both...
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Phylogenetic Trees03:21

Phylogenetic Trees

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Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.
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相关实验视频

Updated: Jun 26, 2025

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
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Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

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解决SARS-CoV-2原型的流行病范围内的系统错误.

Martin Hunt1,2,3,4, Angie S Hinrichs5, Daniel Anderson1

  • 1European Molecular Biology Laboratory - European Bioinformatics Institute, Hinxton, UK.

bioRxiv : the preprint server for biology
|May 15, 2024
PubMed
概括

研究人员使用新的amplicon-aware工具Viridian重新处理了SARS-CoV-2测序数据,以创建一个更清洁的全球基因组. 这项新资源改进了SARS-CoV-2 (严重急性呼吸系统综合征冠状病毒2) 基因组分析,用于科学和公共卫生.

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Amplification of Near Full-length HIV-1 Proviruses for Next-Generation Sequencing
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Amplification of Near Full-length HIV-1 Proviruses for Next-Generation Sequencing

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Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
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Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations

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相关实验视频

Last Updated: Jun 26, 2025

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

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Amplification of Near Full-length HIV-1 Proviruses for Next-Generation Sequencing
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Amplification of Near Full-length HIV-1 Proviruses for Next-Generation Sequencing

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Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
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科学领域:

  • 基因组学和生物信息学
  • 病毒学和传染病学.
  • 计算生物学 计算生物学

背景情况:

  • 在全球范围内,SARS-CoV-2基因组是最高度测序的,为公共卫生提供了丰富的遗传学数据.
  • 现有的SARS-CoV-2基因组组包含系统错误,原因是可变的安普利康方案和不一致的质量控制.
  • 这些错误显著影响了遗传学准确性,需要对病毒树进行广泛的手工修复.

研究的目的:

  • 重新处理所有可用的公共SARS-CoV-2原始序列数据,使用严格的,AMPLICON意识的方法.
  • 为了构建一个更清洁,更准确的SARS-CoV-2的全球基因组.
  • 为研究病毒进化和流行病学的研究人员提供一个有价值的,高质量的资源.

主要方法:

  • 开发并使用了一种新的组装工具,Viridian,专门用于安普利康序列数据.
  • 处理了公共SARS-CoV-2原始序列数据的完整集合,组装了高质量的共识序列.
  • 实施严格的质量控制和安普利康意识的处理,以消除人工错误和掩盖低质量的位置.

主要成果:

  • 创建了一个包含4,471,579个SARS-CoV-2样本的全球遗传学树,代表了截至2024年6月的所有可用公共数据.
  • 维里迪安工具成功地消除了以前的SARS-CoV-2基因组组合中常见的文物错误.
  • 通过模拟和经验数据验证了方法,量化了植物遗传学准确性的显著改进.

结论:

  • 与Viridian一起重新处理SARS-CoV-2数据提供了大幅度改进和可靠的全球基因组.
  • 维里迪安工具和由此产生的高质量的共识序列为科学界提供了宝贵的资源.
  • 这种更清洁的基因资源将增强SARS-CoV-2进化,传播动态和公共卫生干预措施的研究.