期刊
PLOS ONE
卷 17, 期 7, 页码 -出版社
PUBLIC LIBRARY SCIENCE
DOI: 10.1371/journal.pone.0266892
关键词
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资金
- Australian Research Council [DP150101875, DP190102474]
- Natural Sciences and Engineering Research Council (NSERC) [RGPIN 356403-09, 2014-06288, 2019-06240]
- Hakai Institute
- UBC Summer Undergraduate Research award
- NSERC Graduate Student fellowship
- Patrick David Campbell Graduate Student fellowship
- Tula Foundation
In this study, we identified key gene candidates in the lignin biosynthesis pathway of the red alga Calliarthron tuberculosum using transcriptome and genomic data. We found evidence of independent evolution of these gene candidates from their land plant counterparts. Additionally, tools for extracting metabolic pathways and genes were provided using the transcriptomic and genomic datasets.
The discovery of lignins in the coralline red alga Calliarthron tuberculosum raised new questions about the deep evolution of lignin biosynthesis. Here we present the transcriptome of C. tuberculosum supported with newly generated genomic data to identify gene candidates from the monolignol biosynthetic pathway using a combination of sequence similarity-based methods. We identified candidates in the monolignol biosynthesis pathway for the genes 4CL, CCR, CAD, CCoAOMT, and CSE but did not identify candidates for PAL, CYP450 (F5H, C3H, C4H), HCT, and COMT. In gene tree analysis, we present evidence that these gene candidates evolved independently from their land plant counterparts, suggesting convergent evolution of a complex multistep lignin biosynthetic pathway in this red algal lineage. Additionally, we provide tools to extract metabolic pathways and genes from the newly generated transcriptomic and genomic datasets. Using these methods, we extracted genes related to sucrose metabolism and calcification. Ultimately, this transcriptome will provide a foundation for further genetic and experimental studies of calcifying red algae.
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