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Related Concept Videos

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

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...
Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
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Although all next-generation methods use different technologies, they all share a set of standard features.
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

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.
Microbial Phylogeny01:28

Microbial Phylogeny

Understanding the evolutionary relationships among microorganisms is fundamental to microbial ecology and taxonomy. Phylogenetic trees are essential tools for inferring these relationships, relying primarily on comparative analyses of molecular sequences such as DNA, RNA, or proteins. In microbial studies, these trees typically depict the evolutionary paths of diverse bacterial and archaeal species by mapping genetic differences accumulated over time.Phylogenetic trees are composed of tips,...
Phylogenetic Trees03:21

Phylogenetic Trees

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.
Phylogenetic Trees03:21

Phylogenetic Trees

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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Updated: May 8, 2026

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

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Published on: August 14, 2018

Next-Generation Anchor Based Phylogeny (NexABP): constructing phylogeny from next-generation sequencing data.

Tanmoy Roychowdhury1, Anchal Vishnoi, Alok Bhattacharya

  • 1School of Computational and Integrative Sciences, Jawaharlal Nehru University, New Delhi.

Scientific Reports
|September 12, 2013
PubMed
Summary

NexABP enables phylogenetic analysis using short Next Generation Sequencing (NGS) data for closely related strains. This anchor-based approach aids in pathogen classification and evolutionary relationship studies without a full reference genome.

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Last Updated: May 8, 2026

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Area of Science:

  • Genomics
  • Bioinformatics
  • Evolutionary Biology

Background:

  • Whole genome sequences are crucial for understanding evolutionary relationships.
  • Phylogenetic analysis using short read Next Generation Sequencing (NGS) data is highly desirable.
  • Existing methods may require fully assembled reference genomes.

Purpose of the Study:

  • To introduce NexABP, an anchor-based approach for phylogenetic construction using NGS data.
  • To enable phylogenetic analysis of closely related strains/isolates from short read NGS data.
  • To develop a method that reduces dataset complexity without compromising phylogenetic results.

Main Methods:

  • NexABP utilizes an anchor-based strategy to process NGS data.
  • The approach reduces computational complexity for phylogenetic analysis.
  • It can be applied even without a complete reference genome.

Main Results:

  • NexABP successfully constructed phylogenies for strains of *Mycobacterium tuberculosis*, *Vibrio cholera*, and *Escherichia coli*.
  • The method achieved classification into distinct lineages.
  • NexABP resolved inner branches and supported statistical testing via bootstrap analysis.

Conclusions:

  • NexABP offers an effective method for phylogenetic analysis of closely related strains using NGS data.
  • The approach provides advantages over existing phylogenetic methods, particularly when reference genomes are incomplete.
  • NexABP facilitates robust evolutionary relationship studies for pathogens.