Cloning and application of the complete nuclear ribosomal DNA (nrDNA) cistron sequence of Pyropia haitanensis (Bangiales, Rhodophyta)

Yuan He; Songdong Shen; Zonggen Shen

doi:10.1515/bot-2016-0079

Article

Cloning and application of the complete nuclear ribosomal DNA (nrDNA) cistron sequence of Pyropia haitanensis (Bangiales, Rhodophyta)

Yuan He
Yuan He received a Master of Science degree from SuZhou University of Science and Technology, Jiangsu China in 2013. Since 2013, he has been working in the lab of Professor Songdong Shen. He is mainly engaged in the study of molecular biology and taxonomy algae.
, Songdong Shen
Songdong Shen is a phycology researcher mainly focusing on cell and molecular biology of Pyropia and of Ulva prolifera, which caused the largest green tides recently in China. He has studied reproductive diversity, growth factors, species identification and phylogeny in order to find the source and the cause.
and Zonggen Shen
Zonggen Shen received a PhD in 2001 from the Institute of Botany in Northwest University in Xi’an, China, where he studied plant physiology. Since 2003, he has been a Research Botanist with Changshu Institute of Technology in China. His team is mainly engaged in the study of plant cytology and structural botany.

Published/Copyright: May 17, 2017

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From the journal Botanica Marina Volume 60 Issue 3

Abstract

Pyropia haitanensis (Bangiales, Rhodophyta)((T.J. Chang et B.F. Zheng) N. Kikuchi et M. Miyata) is a unique cultivar in China and the main problem with its cultivation lies in a lack of effective technology to distinguish intraspecific strains. In this study, we firstly obtained the complete sequence of rDNA of Pyropia haitanensis in China, which can help identify intraspecific variation within this species. The whole unit is composed of a small-subunit (SSU) rRNA gene with a full length of 2953 base pairs (bp) with two classes of introns and an exon sequence of 1837 bp; moreover, the complete sequence of the large-subunit (LSU) rRNA gene (length 4444 bp) also contains two introns; the length of the 5.8S rRNA gene is 158 bp; the length of internal transcribed spacers 1 (ITS1) is 334 bp and that of ITS2 is 678 bp; and the complete sequence of intergenic spacer (IGS) is 6969 bp. Some portions of the IGS sequences were used to analyze the similarities among five strains of Pyropia haitanensis; the sequence ranged from 4264 bp to 4273 bp and the G+C content was 53%. We also found 118 variable sites in the IGS which account for approximately 2.8% of the whole length. In conclusion, the nuclear ribosomal DNA sequence turned out to be an effective molecular marker for the taxonomic identification of Pyropia haitanensis.

Keywords: cistron; molecular marker; Pyropia haitanensis; rDNA; sequence analysis

About the authors

Yuan He

Yuan He received a Master of Science degree from SuZhou University of Science and Technology, Jiangsu China in 2013. Since 2013, he has been working in the lab of Professor Songdong Shen. He is mainly engaged in the study of molecular biology and taxonomy algae.

Songdong Shen

Songdong Shen is a phycology researcher mainly focusing on cell and molecular biology of Pyropia and of Ulva prolifera, which caused the largest green tides recently in China. He has studied reproductive diversity, growth factors, species identification and phylogeny in order to find the source and the cause.

Zonggen Shen

Zonggen Shen received a PhD in 2001 from the Institute of Botany in Northwest University in Xi’an, China, where he studied plant physiology. Since 2003, he has been a Research Botanist with Changshu Institute of Technology in China. His team is mainly engaged in the study of plant cytology and structural botany.

Acknowledgments

This work was supported by National Natural Science Foundation of China (project nos. 41276134, 31270256, 31272664) and National “863” Project (project no. 2012 AA10A 406-6).

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Received: 2016-7-24

Accepted: 2017-3-28

Published Online: 2017-5-17

Published in Print: 2017-5-24

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https://doi.org/10.1515/bot-2016-0079

Keywords for this article

cistron; molecular marker; Pyropia haitanensis; rDNA; sequence analysis