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Related Experiment Video

Updated: Jun 27, 2025

Novel Sequence Discovery by Subtractive Genomics

Novel Sequence Discovery by Subtractive Genomics

Published on: January 25, 2019

Comprehensive Genomics Investigation of Neboviruses Reveals Distinct Codon Usage Patterns and Host Specificity.

Rahul Kaushik¹, Naveen Kumar², Pragya Yadav³

¹Biotechnology Research Center, Technology Innovation Institute, Masdar City, Abu Dhabi P.O. Box 9639, United Arab Emirates.

|April 27, 2024

Summary

Neboviruses (NeVs) exhibit limited codon usage bias, primarily driven by host nucleotide composition. Natural selection significantly influences NeV gene evolution, with yak NeVs showing distinct patterns suggesting host-specific adaptation.

Keywords:

Neboviruses codon usage patterns emerging viruses genomic characterization host specificity

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Reverse Genetics Mediated Recovery of Infectious Murine Norovirus

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Published on: June 24, 2012

Area of Science:

Virology
Molecular Evolution
Genomics

Background:

Neboviruses (NeVs), belonging to the Caliciviridae family, are associated with bovine enteric diseases globally.
Viral replication depends on host cellular machinery, making codon usage a key factor in host adaptation.

Purpose of the Study:

To systematically analyze codon usage bias in Neboviruses.
To explore the genetic and evolutionary patterns influencing NeV adaptation to host species.

Main Methods:

Relative Synonymous Codon Usage (RSCU) analysis.
Effective Number of Codons (ENC) analysis.
Neutrality plot, Codon Adaptation Index (CAI), and Relative Codon Deoptimization Index (RCDI) analyses.

Main Results:

NeVs display a marginally lower codon usage bias, influenced by nucleotide composition.
Natural selection is the primary driver of codon usage bias in VP1 and VP2 genes.
NeVs share similar codon usage patterns with bovines, but yak NeVs exhibit distinct constraints, indicating host-driven divergence.

Conclusions:

Codon usage bias in NeVs is shaped by nucleotide composition and natural selection.
Host-specific factors significantly influence NeV genetic divergence and adaptability.
Understanding these mechanisms is crucial for NeV evolution and host fitness studies.