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

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 i...

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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
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Feng, Jia
Lv, Junping
Liu, Qi
Xie, Shulian
description 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.
doi_str_mv 10.1371/journal.pone.0197729
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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. 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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.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>29813098</pmid><doi>10.1371/journal.pone.0197729</doi><tpages>e0197729</tpages><orcidid>https://orcid.org/0000-0003-2349-2071</orcidid><oa>free_for_read</oa></addata></record>
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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
title Transcriptome analysis of the typical freshwater rhodophytes Sheathia arcuata grown under different light intensities
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