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Original scientific paper
https://doi.org/10.37427/botcro-2020-020

Comparative transcriptome analysis of high-growth and wild-type strains of Pyropia yezoensis

Kim Ngan Tran ; Chonnam National University, Department of Biotechnology and Bioengineering, Interdisciplinary Program for Bioenergy and Biomaterials, Gwangju 61186, South Korea
Jong-il Choi ; Chonnam National University, Department of Biotechnology and Bioengineering, Interdisciplinary Program for Bioenergy and Biomaterials, Gwangju 61186, South Korea

Fulltext: english, pdf (506 KB) pages 148-156 downloads: 286* cite
APA 6th Edition
Ngan Tran, K. & Choi, J. (2020). Comparative transcriptome analysis of high-growth and wild-type strains of Pyropia yezoensis. Acta Botanica Croatica, 79 (2), 148-156. https://doi.org/10.37427/botcro-2020-020
MLA 8th Edition
Ngan Tran, Kim and Jong-il Choi. "Comparative transcriptome analysis of high-growth and wild-type strains of Pyropia yezoensis." Acta Botanica Croatica, vol. 79, no. 2, 2020, pp. 148-156. https://doi.org/10.37427/botcro-2020-020. Accessed 1 Dec. 2021.
Chicago 17th Edition
Ngan Tran, Kim and Jong-il Choi. "Comparative transcriptome analysis of high-growth and wild-type strains of Pyropia yezoensis." Acta Botanica Croatica 79, no. 2 (2020): 148-156. https://doi.org/10.37427/botcro-2020-020
Harvard
Ngan Tran, K., and Choi, J. (2020). 'Comparative transcriptome analysis of high-growth and wild-type strains of Pyropia yezoensis', Acta Botanica Croatica, 79(2), pp. 148-156. https://doi.org/10.37427/botcro-2020-020
Vancouver
Ngan Tran K, Choi J. Comparative transcriptome analysis of high-growth and wild-type strains of Pyropia yezoensis. Acta Botanica Croatica [Internet]. 2020 [cited 2021 December 01];79(2):148-156. https://doi.org/10.37427/botcro-2020-020
IEEE
K. Ngan Tran and J. Choi, "Comparative transcriptome analysis of high-growth and wild-type strains of Pyropia yezoensis", Acta Botanica Croatica, vol.79, no. 2, pp. 148-156, 2020. [Online]. https://doi.org/10.37427/botcro-2020-020

Paper in XML format

Abstracts
Pyropia yezoensis (Ueda) M.S.Hwang et H.G.Choi is a popular edible macro-alga that is found mostly in intertidal zones. It is one of the most economically important seaweed species and has been cultivated extensively in the cold waters of East Asia. Various reports have been published on the isolation and characterization of improved strains of Pyropia. However, there are few studies focusing on the molecular basis underlying these mutant strains. In this study, we performed a comparative analysis of whole transcriptomes of wild-type (PyWT) and high-growth (Py500G) strains of P. yezoensis using next generation RNA sequencing (RNA-seq). After sequencing, a total of 167,110,896 paired-end reads with a length of 151 nucleotides, were obtained. De novo transcriptome assembly and redundancy removal generated 19,441 transcripts. The assembly was annotated in NCBI nr, Swiss-Prot, Pfam, KEGG, GO and KOG databases. To unravel the differences in Py500G and PyWT, we mapped Py500G and PyWT reads to the assembly and calculated the expression levels. In total, there were 454 transcripts that were differentially expressed. Among the differentially expressed transcripts, candidate genes were identified with well-known growth and development functions. This study not only identifies candidate genes responsible for the high-growth phenotype of Py500G, but it also provides more comprehensive genomic data for future research on P. yezoensis.

Keywords
de novo assembly; differential expression; Pyropia yezoensis; red algae; RNA-seq; transcriptome

Hrčak ID: 240919

URI
https://hrcak.srce.hr/240919

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