Whole transcriptome analysis of the monogonont rotifer Brachionus koreanus provides molecular resources for developing biomarkers of carbohydrate metabolism.
Rotifers (phylum Rotifera) are the most common non-arthropod animal. Species in the monogonont rotifer Brachionus are widely distributed in coastal areas and play an important role in aquatic food webs as secondary producers. Brachionus koreanus is currently being developed as a model system for ecotoxicological research. We sequenced the whole transcriptome of B. koreanus using RNA-seq technology. De novo sequence assembly by Trinity integrated with TransDecoder produced 36,918 contigs, including putative alternatively spliced variants. A total of 13,784 genes were identified based on Blast analysis. KEGG pathway analysis detected transcripts annotated as coding for enzymes involved in metabolic pathways, the immune system, translation, and signal transduction. Most identified enzymes and pathways were involved in carbohydrate metabolism, such as the tricarboxylic acid (TCA) cycle and glycolysis. We anticipate that the availability of whole transcriptome data for B. koreanus will provide insights into rotifer biology and physiology and facilitate the development of biomarkers for ecotoxicology studies.
Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
Bo-Young
BY
Lee
Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
Hui-Su
HS
Kim
Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
Dae-Sik
DS
Hwang
Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
Eun-Ji
EJ
Won
National Instrumentation Center for Environmental Management, College of Agriculture and Life Sciences, Seoul National University, Seoul 151-921, South Korea.
Beom-Soon
BS
Choi
National Instrumentation Center for Environmental Management, College of Agriculture and Life Sciences, Seoul National University, Seoul 151-921, South Korea.
Ik-Young
IY
Choi
Department of Marine Resource Development, College of Life Sciences, Gangneung-Wonju National University, Gangneung 210-702, South Korea.
Heum Gi
HG
Park
Department of Marine Science, College of Natural Sciences, Incheon National University, Incheon 406-772, South Korea. Electronic address: jsrhee@incheon.ac.kr.
Jae-Sung
JS
Rhee
Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea. Electronic address: jslee2@skku.edu.
Jae-Seong
JS
Lee
D000818:Animals; D015415:Biomarkers / Q000378:metabolism*; D050260:Carbohydrate Metabolism / Q000235:genetics*; D012403:Rotifera / Q000235:genetics*; D059467:Transcriptome
D015415:Biomarkers
Brachionus koreanus; Carbohydrate metabolism; Monogonont rotifer; RNA-seq; Transcriptome