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Comparative Chloroplast Genomics and Codon Usage Bias Analysis in Hevea Genus
Yang Yang1,2, Xueyang Liu3, Lixia He1,4
1Plant Stress Resistance Integrated Biology Laboratory, College of Life Sciences, Hainan Normal University, Haikou 571158, China.
Genes
|February 26, 2025
Summary
This study analyzed chloroplast DNA (cpDNA) from six Hevea species, revealing stable genome structures and conserved genes. Findings support conservation and genetic improvement strategies for rubber trees.
Area of Science:
- Plant genomics
- Molecular evolution
- Biotechnology
Background:
- The Hevea genus, crucial for natural rubber production, requires detailed genomic understanding for effective management.
- Chloroplast DNA (cpDNA) offers insights into plant evolution, gene content, and genetic diversity.
Purpose of the Study:
- To characterize the cpDNA sequences of six Hevea species.
- To analyze genomic features, gene content, and genetic relationships within the genus.
- To inform conservation and genetic improvement strategies for Hevea.
Main Methods:
- Sequencing and comparative analysis of cpDNA from six Hevea species.
- Assessment of genome size, GC content, gene composition, and structural integrity.
- Analysis of simple sequence repeats (SSRs), codon usage, and phylogenetic relationships.
Main Results:
- cpDNAs ranged from 161,093 to 161,254 bp with GC content of 35.72–35.75%.
- Genomes contained 91–92 protein-coding genes, with a conserved infA gene and no major rearrangements.
- SSR analysis identified A/T-rich mono-repeats; codon usage favored leucine via UUA, with 31 optimal codons (mostly A/U-ending).
Conclusions:
- Hevea cpDNAs exhibit stable structures and conserved gene content.
- Specific codon usage patterns were identified, offering insights into translational efficiency.
- Results provide a foundation for Hevea germplasm conservation and breeding programs.
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