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- Title
A guide to phylotranscriptomic analysis for phycologists.
- Authors
Seongmin Cheon; Sung-Gwon Lee; Hyun-Hee Hong; Hyun-Gwan Lee; Kwang Young Kim; Chungoo Park
- Abstract
Phylotranscriptomics is the study of phylogenetic relationships among taxa based on their DNA sequences derived from transcriptomes. Because of the rel atively low cost of transcriptome sequencing compared with genome sequencing and the fact that phylotranscriptomics is almost as reliable as phylogenomics, the phylotranscriptomic analysis has recently emerged as the preferred method for studying evolutionary biology. However, it is challenging to perform transcriptomic and phylogenetic analyses together without programming expertise. This study presents a protocol for phylotranscriptomic analysis to aid marine biologists unfamiliar with UNIX command-line interface and bioinformatics tools. Here, we used transcriptomes to reconstruct a molecular phylogeny of dinoflagellate protists, a diverse and globally abundant group of marine plankton organisms whose large and complex genomic sequences have impeded conventional phylogenic analysis based on genomic data. We hope that our proposed protocol may serve as practical and helpful information for the training and education of novice phycologists.
- Subjects
NUCLEOTIDE sequencing; MOLECULAR phylogeny; MARINE biologists; DNA sequencing; MARINE plankton; DINOFLAGELLATES
- Publication
Algae, 2021, Vol 36, Issue 4, p333
- ISSN
1226-2617
- Publication type
Article
- DOI
10.4490/algae.2021.36.12.7