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相关概念视频

Trihybrid Crosses02:27

Trihybrid Crosses

23.2K
Trihybrid Crosses
Some of Mendel’s crosses examined three pairs of contrasting characteristics. Such a cross is called a trihybrid cross. A trihybrid cross is a combination of three individual monohybrid crosses. For example, plant height (tall vs. short), seed shape (round vs. wrinkled), and seed color (yellow vs. green).
The F1 generation plants of a trihybrid cross are heterozygous for all three traits and produce eight gametes. Upon self-fertilization, these gametes have an equal...
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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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Comparing Copy Number Variations and SNPs02:26

Comparing Copy Number Variations and SNPs

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Sequencing of the human genome has opened up several best-kept secrets of the genome. Scientists have identified thousands of genome variations that exist within a population. These variations can be a single nucleotide or a larger chromosomal variation.
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
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相关实验视频

Updated: Jun 12, 2025

Microsatellite DNA Genotyping and Flow Cytometry Ploidy Analyses of Formalin-fixed Paraffin-embedded Hydatidiform Molar Tissues
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基因特立普洛:一种SNP基因型调用方法,用于三体动物.

Julien Roche1,2, Mathieu Besson2, François Allal3

  • 1Université Paris-Saclay, INRAE, AgroParisTech, GABI, Jouy-en-Josas, France.

PLoS computational biology
|September 24, 2024
PubMed
概括

一个新的R包,GenoTriplo,提供了一种高效的方法,使用SNP数组对三种动物进行基因型鉴定. 这种强大的工具提高了准确性,减少了错误,有助于在水产养殖和植物中进行遗传研究和繁殖.

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科学领域:

  • 遗传学和基因组学 在
  • 水产养殖和植物育种.
  • 生物信息学和计算生物学

背景情况:

  • 三倍体在水产养殖和栽培植物中是有价值的,用于增强生长,提高产品质量,并防止野生种群的污染.
  • 来自三体动物的精确遗传信息对于学术研究和育种计划至关重要.
  • 现有的三重性SNP基因定型方法有限,需要更强大,更有效的解决方案.

研究的目的:

  • 开发一种高效,稳固的基因型调用方法,从SNP数组中专门用于三倍体生物的基因型调用.
  • 将这种方法实施到一个名为GenoTriplo.的可访问的R包中.
  • 评估GenoTriplo的性能与现有的三重型SNP基因定型方法相比.

主要方法:

  • 为SNP数组开发了一种新的基因型调用方法,不需要先前的集群位置信息,并且对发光信号转移具有弹性.
  • 在R包GenoTriplo中实施了该方法,利用基因型组的初步高估,然后进行合并.
  • 通过使用1232只三体彩虹鱼和38033只SNP的数据集,与fitPoly比较了GenoTriplo的性能,评估了基因型一致性和错误率.

主要成果:

  • 与fitPoly相比,GenoTriplo表现出高强度和较少的基因型错误.
  • 这些方法显示了89%的基因型一致性,但GenoTriplo在26%的SNP中发现了基因型数量的差异,其表现更好.
  • 当fitPoly准确时,GenoTriplo与fitPoly达到了>95%的一致性,但当GenoTriplo表现优于fitPoly时,fitPoly显示<50%的一致性,这表明GenoTriplo的精度优越.
  • GenoTriplo有效地识别了低频率的基因型,并对亲属关系分配结果表现出高度信心.

结论:

  • 比现有的方法,GenoTriplo提供了一个更准确和更强大的解决方案,用于三重SNP基因型定型.
  • 该R套件是多功能性的,可以通过调整参数来适应二倍体和高倍体个体的基因定型.
  • 基因特里普洛促进了可靠的遗传分析,支持了三倍种繁殖和研究的进步.