Diversity of thermophiles in a Malaysian hot spring determined using 16S rRNA and shotgun metagenome sequencing

Frontiers in Microbiology
Chia Sing ChanKian Mau Goh

Abstract

The Sungai Klah (SK) hot spring is the second hottest geothermal spring in Malaysia. This hot spring is a shallow, 150-m-long, fast-flowing stream, with temperatures varying from 50 to 110°C and a pH range of 7.0-9.0. Hidden within a wooded area, the SK hot spring is continually fed by plant litter, resulting in a relatively high degree of total organic content (TOC). In this study, a sample taken from the middle of the stream was analyzed at the 16S rRNA V3-V4 region by amplicon metagenome sequencing. Over 35 phyla were detected by analyzing the 16S rRNA data. Firmicutes and Proteobacteria represented approximately 57% of the microbiome. Approximately 70% of the detected thermophiles were strict anaerobes; however, Hydrogenobacter spp., obligate chemolithotrophic thermophiles, represented one of the major taxa. Several thermophilic photosynthetic microorganisms and acidothermophiles were also detected. Most of the phyla identified by 16S rRNA were also found using the shotgun metagenome approaches. The carbon, sulfur, and nitrogen metabolism within the SK hot spring community were evaluated by shotgun metagenome sequencing, and the data revealed diversity in terms of metabolic activity and dynamics. This hot spring has a rich ...Continue Reading

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Apr 12, 2016·Frontiers in Microbiology·Chayan RoyWriddhiman Ghosh
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Datasets Mentioned

BETA
PRJEB7059
PRJEB4990

Methods Mentioned

BETA
electrophoresis
PCR
Assay
amplicon sequencing

Software Mentioned

FASTQ
FASTX
- Toolkit
Prodigal gene prediction
UD assembler
dbCAN CAZy
Trimmomatic
BLAST
MEGAN
RAPSEARCH2

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