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Polysome Profiling in Leishmania, Human Cells and Mouse Testis
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Data in support of large scale comparative codon usage analysis in Leishmania and Trypanosomatids
Abhishek Subramanian1, Ram Rup Sarkar1
1Chemical Engineering and Process Development, CSIR-National Chemical Laboratory, Pune, Maharashtra, India ; Academy of Scientific & Innovative Research (AcSIR), CSIR-NCL Campus, Pune, India.
Data in Brief
|July 29, 2015
Summary
This study quantifies codon usage bias in Trypanosomatids, revealing insights into mRNA structure and protein abundance. The data aids in understanding evolutionary forces shaping gene expression in these organisms.
Area of Science:
- Genomics
- Molecular Biology
- Bioinformatics
Background:
- Codon usage bias influences gene expression and protein production.
- Understanding this bias is crucial for studying parasitic organisms like Leishmania and Trypanosomatids.
Purpose of the Study:
- To provide sequence-based data quantifying codon usage bias across Trypanosomatid genomes.
- To compare codon adaptation index (CAI) values for genes involved in different functional pathways.
Main Methods:
- Calculation of codon usage indices: relative synonymous codon usage (RSCU), effective number of codons (ENC), and CAI.
- Analysis of a set of single-copy orthologous genes common to 13 Trypanosomatids.
Main Results:
- Generated computed values for key codon usage indices.
- Established a basis for comparing codon usage patterns across different Trypanosomatid species.
- Facilitated comparisons of CAI between genes of varying functions.
Conclusions:
- The generated data provides a foundation for inferring the causes and consequences of codon usage bias.
- This resource aids in understanding mRNA secondary structure, relative protein abundance, and pathway functions in Leishmania and other Trypanosomatids.
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