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Evaluation of nuclear ribosomal RNA and chloroplast gene markers for the DNA taxonomy of centric diatoms

Title
Evaluation of nuclear ribosomal RNA and chloroplast gene markers for the DNA taxonomy of centric diatoms
Author
한명수
Keywords
Diatom; Divergence; Molecular taxonomy; rRNA; Chloroplast gene; ORDER THALASSIOSIRALES BACILLARIOPHYTA; SP-NOV; PHYLOGENETIC INFERENCE; MOLECULAR PHYLOGENY; MULTIGENE PHYLOGENY; CODING REGIONS; EVOLUTION; ORIGIN; SEQUENCE; DINOFLAGELLATE
Issue Date
2013-10
Publisher
Elsevier Science B.V., Amsterdam.
Citation
Biochemical Systematics and Ecology, 2013, 50, P.163-174
Abstract
Diatoms are highly diversified microeukaryotes with a taxonomy that has been under perpetual revision, particularly by means of molecular analyses. In this study, we evaluated typical genes to find the best molecular marker for the DNA taxonomy of centric diatoms, including Chaetoceros Ehrenberg, Cyclotella Kutzing ex de Brebisson, Discostella Houk 8.2 Klee, Stephanodiscus Ehrenberg, and Thalassiosira Cleve. Our test genes included nuclear ribosomal RNA (e.g. small subunit, 5.8S, and large subunit [LSU]), and chloroplast genes (e.g. ribulose-1, 5-biphoshate carboxylase oxygenase and D1 protein of the photosystem II reaction centre core complex [psbA]). Calculated genetic divergence was highest for LSU ribosomal RNA D1-D5 (p-distance of 12.3), followed by 5.8S (7.7), ribulose-1, 5-biphoshate carboxylase oxygenase (7.4), small subunit (6.6), and psbA (3.7). The phylogenetic trees for individual genes effectively separated taxonomically tested centric diatoms with different phylogenetic resolutions; however, psbA was incongruent with others. These taxonomic resolving powers were in agreement with genetic divergences. Parsimony analysis showed that LSU evolved 1.97 times more rapidly than psbA and 1.07 times more rapidly than 5.8S. These results suggest that all of the tested genes except psbA can be used as taxonomic markers for centric diatoms and that LSU is the best molecular marker. Crown Copyright (C) 2013 Published by Elsevier Ltd. All rights reserved.
URI
https://ac.els-cdn.com/S0305197813000707/1-s2.0-S0305197813000707-main.pdf?_tid=04d6162e-3906-4081-9274-80f3171e0f88&acdnat=1520506882_a5de43c8a4d028551b3b307d9b207aebhttp://hdl.handle.net/20.500.11754/44889
ISSN
0305-1978
DOI
10.1016/j.bse.2013.03.025
Appears in Collections:
COLLEGE OF NATURAL SCIENCES[S](자연과학대학) > LIFE SCIENCE(생명과학과) > Articles
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