Analysis of Expressed Sequence Tags from the Red Alga Griffithsia okiensis.

Analysis of Expressed Sequence Tags from the Red Alga Griffithsia okiensis. Research Abstract Details 

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Analysis of Expressed Sequence Tags from the Red Alga Griffithsia okiensis. Abstract Text:

Hyoungseok Lee,Hong Kum Lee,Gynheung An,Yoo Kyung Lee,Hyoungseok Lee,Hong Kum Lee,Gynheung An,Yoo Kyung Lee,

Red algae are distributed globally, and the group contains several commercially important species. Griffithsia okiensis is one of the most extensively studied red algal species. In this study, we conducted expressed sequence tag (ESTs) analysis and synonymous codon usage analysis using cultured G. okiensis samples. A total of 1,104 cDNA clones were sequenced using a cDNA library made from samples collected from Dolsan Island, on the southern coast of Korea. The clustering analysis of these sequences allowed for the identification of 1,048 unigene clusters consisting of 36 consensus and 1,012 singleton sequences. BLASTX searches generated 532 significant hits (E-value <10-4) and via further Gene Ontology analysis, we constructed a functional classification of 434 unigenes. Our codon usage analysis showed that unigene clusters with more than three ESTs had higher GC contents (76.5%) at the third position of the codons than the singletons. Also, the majority of the optimal codons of G. okiensis and Chondrus crispus belonging to Bangiophycidae were C-ending, whereas those of Porphyra yezoensis belonging to Florideophycidae were G-ending. An orthologous gene search for the P. yezoensis EST database resulted in the identification of 39 unigenes commonly expressed in two rhodophytes, which have putative functions for structural proteins, protein degradation, signal transduction, stress response, and physiological processes. Although experiments have been conducted on a limited scale, this study provides a material basis for the development of microarrays useful for gene expression studies, as well as useful information for the comparative genomic analysis of red algae.

Analysis of Expressed Sequence Tags from the Red Alga Griffithsia okiensis. Publishing Authors By Initials

H Lee,HK Lee,G An,YK Lee,H Lee,HK Lee,G An,YK Lee,

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Analysis of Expressed Sequence Tags from the Red Alga Griffithsia okiensis. Journal Published:

PUBLICATION TYPE: Journal Article

Journal: Journal of microbiology (Seoul, Korea)

VOLUME: 45

Page Numbers: 541-6

Journal Abbreviation: J. Microbiol.

ISSN: 1225-8873

DAY: 7

MONTH: Dec

YEAR: 2007

Analysis of Expressed Sequence Tags from the Red Alga Griffithsia okiensis. Information

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LANGUAGE: eng

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Grant and Affiliation Information for Analysis of Expressed Sequence Tags from the Red Alga Griffithsia okiensis.

AFFILIATION: Polar BioCenter, Korea Polar Research Institute (KOPRI), KORDI, Incheon 406-840, Republic of Korea.

Country: Korea (South)

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MEDLINETA: J Microbiol

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