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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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Genomic DNA in Prokaryotes00:46

Genomic DNA in Prokaryotes

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The genome of most prokaryotic organisms consists of double-stranded DNA organized into one circular chromosome in a region of cytoplasm called the nucleoid. The chromosome is tightly wound, or supercoiled, for efficient storage. Prokaryotes also contain other circular pieces of DNA called plasmids. These plasmids are smaller than the chromosome and often carry genes that confer adaptive functions, such as antibiotic resistance.
Genomic Diversity in Bacteria
Although bacterial genomes are much...
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Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes02:16

Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes

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The present-day mitochondrial and chloroplast genomes have retained some of the characteristics of their ancestral prokaryotes and also have acquired new attributes during their evolution within eukaryotic cells. Like prokaryotic genomes, mitochondrial and chloroplast genomes neither bind with histone-like proteins nor show complex packaging into chromosome-like structures, as observed in eukaryotes. Unlike mitotic cell divisions observed in eukaryotic cells, mitochondria and chloroplasts...
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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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Antibiotic Selection00:57

Antibiotic Selection

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Overview
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Genomics02:02

Genomics

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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...
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相关实验视频

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Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays
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zDB:细菌比较基因组学变得容易

Bastian Marquis1, Trestan Pillonel1, Alessia Carrara1

  • 1Lausanne University Hospital and University of Lausanne, Institute of Microbiology, Lausanne, Switzerland.

mSystems
|June 28, 2024
PubMed
概括

zDB是一个新的应用程序,集成了基因组分析和可视化工具,为研究人员简化了比较基因组学. 它自动化复杂的任务,并为探索基因组数据和进化关系提供了一个直观的平台.

科学领域:

  • 基因组学就是基因组学.
  • 生物信息学是一种生物信息学.
  • 计算生物学 计算生物学

背景情况:

  • 基因组分析和比较需要多样化,专门的工具.
  • 整合来自多种工具的结果是研究人员面临的重大挑战.
  • 需要一个统一的基因组分析和可视化平台.

研究的目的:

  • 开发zDB,一个用于比较基因组学的综合应用程序.
  • 为了简化基因组分析,正统学预测和遗传学推断.
  • 为探索基因组数据提供一个直观的可视化平台.

主要方法:

  • 开发了使用Nextflow分析管道和Python/Django可视化平台的zDB.
  • 自动基因注释,正统学预测和家族遗传树的构建.
  • 整合了Pfam,COG,KEGG和Swissprot注释以进行丰富的分析.

主要成果:

  • zDB识别了ortologs,推断了基因和物种类型.
  • 该平台允许搜索基因,运行BLAST,并比较基因组区域/基因组.
  • 用户可以使用各种格式 (维恩图,热图) 可视化代谢能力和基因保存.
关键词:
进行比较的基因组学.基因组可视化的可视化微生物基因组学 微生物基因组学

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结论:

  • zDB简化了复杂的比较基因组分析.
  • 该工具支持生物信息学家和实验室研究人员.
  • zDB促进跨多种基因组数据集的数据共享和探索性分析.