ArticleBMC genomics2025
Comparative genomic insights into ecological adaptations and evolutionary dynamics of Trebouxiophyceae algae.
Article in BMC genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
1 citing paper in PubMed.
- Integrative chloroplast genomics of Polygonaceae: evolutionary dynamics, codon optimization, and phylogenetic resolution.BMC plant biology · 2026Article
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6 authors.
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Abstract
backgroundThe Trebouxiophyceae is a diverse and species-rich class within the Chlorophyta, exhibiting a wide array of lineages and remarkable variations in morphology and ecology. This group encompasses various lifestyles, including photobionts in symbiotic relationships, free-living forms, and parasitic heterotrophs lacking photosynthetic capacity. Trebouxiophycean algae have attracted considerable scientific interest due to their fundamental biological significance and their promising applications in biotechnology. This study presents a comprehensive genomic analysis of six newly sequenced strains of Trebouxiophyceae, expanding upon a foundation of 25 previously reported high-quality genomes to conduct comparative genomics and evolutionary assessments.
resultsMolecular phylogenetic analyses based on 18 S rDNA and single-copy orthologues confirmed the accurate identification of species. The analyzed strains exhibited variable genome sizes ranging from 2.37 Mb to 106.45 Mb, with GC content varying between 46.19% and 67.20%, and repeat content ranging from 1.67 to 19.73%. Gene family expansion and contraction analyses revealed that the subaerial species Apatococcus exhibited the most extensive expansions, while Picochlorum, along with the ancestors of the parasitic genera (Auxenochlorella, Helicosporidium, and Prototheca) experienced pronounced contractions. Evolutionary analyses using the branch model and branch-site model in PAML indicated that genera with the most marked gene family expansion and contraction also contained orthogroups undergoing positive selection and rapid evolution. Comparative assessments of biosynthetic gene clusters (BGCs), nitrogen transport and assimilation proteins, hexose-proton symporter-like genes (HUP1, HUP2, and HUP3), and C
conclusionsExpanded gene families, along with the rapid evolution and positive selection genes, likely played important roles in environmental adaption across terrestrial and marine habitat. Conversely, genome streamlining due to widespread gene families likely contributed to the parasitic heterotrophic lifestyles. Additionally, the distribution of BGCs, nitrogen transport proteins and HUP-like genes, and the types of C
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