Transcriptome analysis of the typical freshwater rhodophytes Sheathia arcuata grown under different light intensities

• Published in: PloS one 2018-05, Vol.13 (5), p.e0197729-e0197729
• Main Authors: Nan, Fangru, Feng, Jia, Lv, Junping, Liu, Qi, Xie, Shulian
• Format: Article
• Language: English
• Subjects: Adenosine triphosphatase; Algae; Algal Proteins - genetics; Analysis; Biology and Life Sciences; Carbon fixation; Earth Sciences; Ecology and Environmental Sciences; Flora; Fresh water; Gene expression; Gene Expression Profiling - methods; Gene Expression Regulation, Developmental; Gene Expression Regulation, Plant; Irradiance; Library collections; Life sciences; Light; Light effects; Luminous intensity; Molecular chains; Molecular Sequence Annotation; Photosynthesis; Photosynthetic apparatus; Proteins; Red algae; Rhodophyta; Rhodophyta - genetics; Rhodophyta - growth & development; Ribosomal proteins; Sequence Analysis, RNA - methods; Sheathia arcuata; Transcription factors
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0197729

The Rhodophyta Sheathia arcuata is exclusively distributed in freshwater, constituting an important component in freshwater flora. This study presents the first transcriptome profiling of freshwater Rhodophyta taxa. A total of 161,483 assembled transcripts were identified, annotated and classified into different biological categories and pathways based on BLAST against diverse databases. Different gene expression patterns were caused principally by different irradiances considering the similar water conditions of the sampling site when the specimens were collected. Comparison results of gene expression levels under different irradiances revealed that photosynthesis-related pathways significantly up-regulated under the weak light. Molecular responses for improved photosynthetic activity include the transcripts corresponding to antenna proteins (LHCA1 and LHCA4), photosynthetic apparatus proteins (PSBU, PETB, PETC, PETH and beta and gamma subunits of ATPase) and metabolic enzymes in the carbon fixation. Along with photosynthesis, other metabolic activities were also regulated to optimize the growing and development of S. arcuata under appropriate sunlight. Protein-protein interactive networks revealed the most responsive up-expressed transcripts were ribosomal proteins. The de-novo transcriptome assembly of S. arcuata provides a foundation for further investigation on the molecular mechanism of photosynthesis and environmental adaption for freshwater Rhodophyta.