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利用高通量扩增子测序技术对死海高盐度水的微生物群落进行分析。

Microbial community analysis of the hypersaline water of the Dead Sea using high-throughput amplicon sequencing.

机构信息

Department of Biological Sciences, Al al-Bayt University, Al-Mafraq, Jordan.

Department of Biological Sciences, Yarmouk University, Irbid, Jordan.

出版信息

Microbiologyopen. 2017 Oct;6(5). doi: 10.1002/mbo3.500. Epub 2017 Jul 5.

Abstract

Amplicon sequencing using next-generation technology (bTEFAP ) has been utilized in describing the diversity of Dead Sea microbiota. The investigated area is a well-known salt lake in the western part of Jordan found in the lowest geographical location in the world (more than 420 m below sea level) and characterized by extreme salinity (approximately, 34%) in addition to other extreme conditions (low pH, unique ionic composition different from sea water). DNA was extracted from Dead Sea water. A total of 314,310 small subunit RNA (SSU rRNA) sequences were parsed, and 288,452 sequences were then clustered. For alpha diversity analysis, sample was rarefied to 3,000 sequences. The Shannon-Wiener index curve plot reached a plateau at approximately 3,000 sequences indicating that sequencing depth was sufficient to capture the full scope of microbial diversity. Archaea was found to be dominating the sequences (52%), whereas Bacteria constitute 45% of the sequences. Altogether, prokaryotic sequences (which constitute 97% of all sequences) were found to predominate. The findings expand on previous studies by using high-throughput amplicon sequencing to describe the microbial community in an environment which in recent years has been shown to hide some interesting diversity.

摘要

使用下一代技术(bTEFAP)进行扩增子测序已被用于描述死海微生物群的多样性。该研究区域是位于约旦西部的一个著名盐湖,位于世界上最低的地理位置(低于海平面 420 米以上),以极高的盐度(约 34%)为特征,此外还有其他极端条件(低 pH 值、与海水不同的独特离子组成)。从死海水中提取 DNA。共解析了 314310 个小亚基 RNA(SSU rRNA)序列,然后将 288452 个序列聚类。对于 alpha 多样性分析,将样本稀化为 3000 个序列。香农-威纳指数曲线图在大约 3000 个序列处达到平台,表明测序深度足以捕获微生物多样性的全貌。结果表明古菌占主导地位(52%),而细菌构成序列的 45%。总的来说,原核序列(占所有序列的 97%)占主导地位。这些发现扩展了以前的研究,使用高通量扩增子测序来描述近年来已显示出隐藏一些有趣多样性的环境中的微生物群落。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/5bcf/5635157/1c7e9048cb8a/MBO3-6-na-g001.jpg

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