IOCAS-IR  > 海洋生物分类与系统演化实验室
Complementary DNA sequencing (cDNA): an effective approach for assessing the diversity and distribution of marine benthic ciliates along hydrographic gradients
Huang Pingping1,3; Zhao Feng1,2,4; Xu Kuidong1,2,3,4
2020-03-25
Source PublicationJOURNAL OF OCEANOLOGY AND LIMNOLOGY
ISSN2096-5508
Pages15
Corresponding AuthorXu Kuidong(kxu@qdio.ac.cn)
AbstractThe Yellow Sea Cold Water Mass (YSCWM) is a distinct hydrographic phenomenon of the Yellow Sea, and the distribution pattern of meio- and macrobenthos differs inside and outside of the YSCWM. However, such a pattern has never been observed in the microbenthic ciliate communities. Therefore, we hypothesized that benthic ciliates followed a similar distribution pattern as meio- and macrobenthos, but this pattern has not been uncovered by morphological methods. We evaluated the diversity and distribution of benthic ciliates at five stations along hydrographic gradients across the YSCWM and adjacent shallow water by using morphology and DNA and complementary DNA (cDNA) high-throughput sequencing of the V4 region of 18S rRNA gene. Results showed that the diversity of benthic ciliates detected by DNA (303 OTUs), and the cDNA (611 OTUs) sequencing was much higher than that detected by the morphological method (79 species). Morphological method detected roughly different ciliate communities inside and outside of the YSCWM, but without statistical significance. No clear pattern was obtained by DNA sequencing. In contrast, cDNA sequencing revealed a distinct distribution pattern of benthic ciliate communities like meio-and macrobenthos, which coincided well with the results of the environmental parameter analysis. More than half of the total sequences detected by DNA sequencing belonged to planktonic ciliates, most (if not all) of which were recovered from historic DNA originating through the sedimentation of pelagic forms because none of them were observed morphologically. The irrelevant historic DNA greatly influenced the recovery of rare species and thus limited the understanding of the benthic ciliate diversity and distribution. Our research indicates that the methods used have significant effects on the investigation of benthic ciliate communities and highlights that cDNA sequencing has great advantages in estimating the diversity and distribution of benthic ciliates, as well as the potential for benthic environmental assessments.
Keywordbenthic ciliates cDNA high-throughput sequencing c ommunity comparison DNA high-throughput sequencing morphology
DOI10.1007/s00343-020-9234-2
Indexed BySCI
Language英语
Funding ProjectNational Natural Science Foundation of China[41876171] ; National Natural Science Foundation of China[41506167] ; National Natural Science Foundation of China[41476144]
WOS Research AreaMarine & Freshwater Biology ; Oceanography
WOS SubjectLimnology ; Oceanography
WOS IDWOS:000521782200004
PublisherSCIENCE PRESS
Citation statistics
Cited Times:1[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.qdio.ac.cn/handle/337002/167021
Collection海洋生物分类与系统演化实验室
Corresponding AuthorXu Kuidong
Affiliation1.Chinese Acad Sci, Inst Oceanol, Lab Marine Organism Taxon & Phylogeny, Qingdao 266071, Peoples R China
2.Pilot Natl Lab Marine Sci & Technol Qingdao, Lab Marine Biol & Biotechnol, Qingdao 266237, Peoples R China
3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
4.Chinese Acad Sci, Ctr Ocean Megasci, Qingdao 266071, Peoples R China
First Author AffilicationInstitute of Oceanology, Chinese Academy of Sciences
Corresponding Author AffilicationInstitute of Oceanology, Chinese Academy of Sciences;  Center for Ocean Mega-Science, Chinese Academy of Sciences
Recommended Citation
GB/T 7714
Huang Pingping,Zhao Feng,Xu Kuidong. Complementary DNA sequencing (cDNA): an effective approach for assessing the diversity and distribution of marine benthic ciliates along hydrographic gradients[J]. JOURNAL OF OCEANOLOGY AND LIMNOLOGY,2020:15.
APA Huang Pingping,Zhao Feng,&Xu Kuidong.(2020).Complementary DNA sequencing (cDNA): an effective approach for assessing the diversity and distribution of marine benthic ciliates along hydrographic gradients.JOURNAL OF OCEANOLOGY AND LIMNOLOGY,15.
MLA Huang Pingping,et al."Complementary DNA sequencing (cDNA): an effective approach for assessing the diversity and distribution of marine benthic ciliates along hydrographic gradients".JOURNAL OF OCEANOLOGY AND LIMNOLOGY (2020):15.
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