Development of a 16S rRNA gene-based microarray for the detection of marine bacterioplankton community

ZHAO Wei; WANG Jingjing; LIANG Yajie; HUANG Zhiyong

doi:10.1007/s13131-017-1055-6

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Article Navigation > Acta Oceanologica Sinica > 2017 > 36(10): 106-114

ZHAO Wei, WANG Jingjing, LIANG Yajie, HUANG Zhiyong. Development of a 16S rRNA gene-based microarray for the detection of marine bacterioplankton community[J]. Acta Oceanologica Sinica, 2017, 36(10): 106-114. doi: 10.1007/s13131-017-1055-6

Citation:

ZHAO Wei, WANG Jingjing, LIANG Yajie, HUANG Zhiyong. Development of a 16S rRNA gene-based microarray for the detection of marine bacterioplankton community[J]. Acta Oceanologica Sinica, 2017, 36(10): 106-114. doi: 10.1007/s13131-017-1055-6

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Development of a 16S rRNA gene-based microarray for the detection of marine bacterioplankton community

doi: 10.1007/s13131-017-1055-6

Tianjin Key Laboratory of Industrial Biological Systems and Process Engineering, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China

Received Date: 2016-04-26

Abstract

Abstract

A better understanding of bacterioplankton community shifts following change in marine environments is critical to predict the marine ecosystem function. In order to get a snapshot of the microbial taxonomy profiling of a wide range marine area, a quick, convenient and low cost method would be favorable. In this study, we developed a 16S rRNA gene-based microarray using ARB software, which contained 447 probes targeting 160 families of marine bacteria. The specificity, sensitivity and quantitative capability of this microarray were assessed by single cloned 16S rRNA genes. The reliability of this microarray was tested by eight environmental samples. The results showed that the microarray was specific, only 1.16% false results were detected in five single-clone hybridization tests. The microarray could detect DNA samples as few as 1 ng/μL and the signal intensity could reflect the relative abundance of the bacteria in the range of 1 ng/μL to 100 ng/μL of DNA concentration. Hybridization with environmental samples showed that it can discriminate bacterioplankton communities by sites and time. High throughput sequencing results from the eight samples confirmed the hybridization results. It indicated that this developed microarray could be used as a convenient tool to monitor the bacterioplankton community in marine environment.
- microarray,
- bacterioplankton community,
- 16S rRNA gene,
- marine environment

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