Applications of three DNA barcodes in assorting intertidal red macroalgal flora in Qingdao, China

doi:10.1007/s11802-013-2052-9

IOCAS-IR > 实验海洋生物学重点实验室

	Applications of three DNA barcodes in assorting intertidal red macroalgal flora in Qingdao, China
	Zhao Xiaobo 1,2; Pang Shaojun 1; Shan Tifeng 1; Liu Feng 1; Pang, SJ
	2013-03-01
发表期刊	JOURNAL OF OCEAN UNIVERSITY OF CHINA
ISSN	1672-5182
卷号	12 期号:1 页码:139-145
文章类型	Article
摘要	This study is part of the endeavor to construct a comprehensive DNA barcoding database for common seaweeds in China. Identifications of red seaweeds, which have simple morphology and anatomy, are sometimes difficult solely depending on morphological characteristics. In recent years, DNA barcode technique has become a more and more effective tool to help solve some of the taxonomic difficulties. Some DNA markers such as COI (cytochrome oxidase subunit I) are proposed as standardized DNA barcodes for all seaweed species. In this study, COI, UPA (universal plastid amplicon, domain V of 23S rRNA), and ITS (nuclear internal transcribed spacer) were employed to analyze common species of intertidal red seaweeds in Qingdao (119.3A degrees-121A degrees E, 35.35A degrees-37.09A degrees N). The applicability of using one or a few combined barcodes to identify red seaweed species was tested. The results indicated that COI is a sensitive marker at species level. However, not all the tested species gave PCR amplification products due to lack of the universal primers. The second barcode UPA had effective universal primers but needed to be tested for the effectiveness of resolving closely related species. More than one ITS sequence types were found in some species in this investigation, which might lead to confusion in further analysis. Therefore ITS sequence is not recommended as a universal barcode for seaweeds identification.; This study is part of the endeavor to construct a comprehensive DNA barcoding database for common seaweeds in China. Identifications of red seaweeds, which have simple morphology and anatomy, are sometimes difficult solely depending on morphological characteristics. In recent years, DNA barcode technique has become a more and more effective tool to help solve some of the taxonomic difficulties. Some DNA markers such as COI (cytochrome oxidase subunit I) are proposed as standardized DNA barcodes for all seaweed species. In this study, COI, UPA (universal plastid amplicon, domain V of 23S rRNA), and ITS (nuclear internal transcribed spacer) were employed to analyze common species of intertidal red seaweeds in Qingdao (119.3A degrees-121A degrees E, 35.35A degrees-37.09A degrees N). The applicability of using one or a few combined barcodes to identify red seaweed species was tested. The results indicated that COI is a sensitive marker at species level. However, not all the tested species gave PCR amplification products due to lack of the universal primers. The second barcode UPA had effective universal primers but needed to be tested for the effectiveness of resolving closely related species. More than one ITS sequence types were found in some species in this investigation, which might lead to confusion in further analysis. Therefore ITS sequence is not recommended as a universal barcode for seaweeds identification.
关键词	Red Seaweeds Dna Barcoding Coi Its Upa
学科领域	Oceanography
DOI	10.1007/s11802-013-2052-9
URL	查看原文
收录类别	SCI
语种	英语
WOS研究方向	Oceanography
WOS类目	Oceanography
WOS记录号	WOS:000313973800019
WOS关键词	RHODOPHYTA ; NUCLEAR ; PHAEOPHYCEAE ; DIVERSITY ; SEQUENCES ; FLORIDEOPHYCEAE ; AMPLIFICATION ; GIGARTINALES ; PHYLOGENY ; TAXONOMY
WOS标题词	Science & Technology ; Physical Sciences
引用统计	被引频次：14[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/16529
专题	实验海洋生物学重点实验室
通讯作者	Pang, SJ
作者单位	1.Chinese Acad Sci, Key Lab Expt Marine Biol, Marine Biol Culture Collect Ctr, Inst Oceanol, Qingdao 266071, Peoples R China 2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
第一作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Zhao Xiaobo,Pang Shaojun,Shan Tifeng,et al. Applications of three DNA barcodes in assorting intertidal red macroalgal flora in Qingdao, China[J]. JOURNAL OF OCEAN UNIVERSITY OF CHINA,2013,12(1):139-145.
APA	Zhao Xiaobo,Pang Shaojun,Shan Tifeng,Liu Feng,&Pang, SJ.(2013).Applications of three DNA barcodes in assorting intertidal red macroalgal flora in Qingdao, China.JOURNAL OF OCEAN UNIVERSITY OF CHINA,12(1),139-145.
MLA	Zhao Xiaobo,et al."Applications of three DNA barcodes in assorting intertidal red macroalgal flora in Qingdao, China".JOURNAL OF OCEAN UNIVERSITY OF CHINA 12.1(2013):139-145.

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