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

Chan, Chia Sing; Chan, Kok Gan; Tay, Yea Ling; Chua, Yi Heng; Goh, Kian Mau

doi:10.3389/fmicb.2015.00177

Cited by 154 publications

(138 citation statements)

References 70 publications

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“…In general, SK is a shallow and fast-flowing stream with temperatures of 75-85°C and pH 8.0. Samples retrieved from this area were studied through 16S rRNA gene profiling (Chan et al 2015). This approach led to the identification of 83 phyla among which the predominant were Firmicutes, Proteobacteria, Chloroflexi, Bacteroidetes, Euryarchaeota and Crenarchaeota.…”

Section: Sungai Klah Malaysiamentioning

confidence: 99%

“…Interestingly, by studying sequence affiliations the authors could highlight a relationship between the population diversity and the geochemical parameters within the hot spring. Moreover, it was shown that microbial communities were able to survive by exploiting different symbiotic strategies to prosper under multiple environmental stresses (Chan et al 2015). …”

Section: Sungai Klah Malaysiamentioning

confidence: 99%

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Metagenomics of microbial and viral life in terrestrial geothermal environments

Strazzulli

Fusco

Cobucci‐Ponzano

et al. 2017

Rev Environ Sci Biotechnol

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Geothermally heated regions of Earth, such as terrestrial volcanic areas (fumaroles, hot springs, and geysers) and deep-sea hydrothermal vents, represent a variety of different environments populated by extremophilic archaeal and bacterial microorganisms. Since most of these microbes thriving in such harsh biotopes, they are often recalcitrant to cultivation; therefore, ecological, physiological and phylogenetic studies of these microbial populations have been hampered for a long time. More recently, culture-independent methodologies coupled with the fast development of next generation sequencing technologies as well as with the continuous advances in computational biology, have allowed the production of large amounts of metagenomic data. Specifically, these approaches have assessed the phylogenetic composition and functional potential of microbial consortia thriving within these habitats, shedding light on how extreme physico-chemical conditions and biological interactions have shaped such microbial communities. Metagenomics allowed to better understand that the exposure to an extreme range of selective pressures in such severe environments, accounts for genomic flexibility and metabolic versatility of microbial and viral communities, and makes extreme-and hyper-thermophiles suitable for bioprospecting purposes, representing an interesting source for novel thermostable proteins that can be potentially used in several industrial processes.Keywords Hyperthermophiles Á Geothermal environments Á Microbial and viral metagenomics Á CRISPR Á Enzyme discovery BackgroundHot springs populated by extreme thermophiles (T opt : 65-79°C) and hyperthermophiles (T opt [ 80°C) (DeCastro et al. 2016) are very diverse and some of them show combinations of extreme chemo-physical conditions, such as temperature, acidic or alkaline pHs, high pressure, and high concentrations of salts and heavy metals (López-López et al. 2013). As with all studies of environmental microbiology, our understanding of the composition, functional and physiological dynamics, and evolution of extreme-and hyper-thermophilic microbial consortia has lagged A. Strazzulli Á M. Moracci Á P. Contursi

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Section: Sungai Klah Malaysiamentioning

confidence: 99%

Section: Sungai Klah Malaysiamentioning

confidence: 99%

Metagenomics of microbial and viral life in terrestrial geothermal environments

Strazzulli

Fusco

Cobucci‐Ponzano

et al. 2017

Rev Environ Sci Biotechnol

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“…Similar observations have been made by [13,14] that geographic locations play a significant role in bacterial community structure. Proteobacteria has also been reported from many studies based on the 16SrRNA analysis of hot springs with moderately high and very high temperatures (44-110°C) at various geographical locations, including India [15][16][17]. Since, Proteobacteria have been found in other hot spring studies including Indian hot springs, and was also one of the abundant taxa in this study, it appears to be indigenous to this region.…”

Section: Resultsmentioning

confidence: 78%

Bacterial diversity analysis of Yumthang hot spring, North Sikkim, India by Illumina sequencing

et al. 2017

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Background: Hot springs harbor rich bacterial diversity that could be the source of commercially important enzymes, antibiotics and many more products. Most of the hot springs present in Northeast of India are unexplored and their microbial diversity analysis could be of great interest to facilitate various industrial, agricultural and medicinal applications. The present study is an attempt to analyze the comprehensive bacterial diversity of Yumthang hot spring, Sikkim located at an altitude of 11, 800 ft. with a close proximity of Tibet 27°47′ 30″ N 88°42′ E using culture independent approach i.e. 16S rRNA gene amplicon metagenomic sequencing. Results: The temperature and pH of the hot spring was recorded as 39

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“…Temperature is the main factor that shapes microbial communities in the hot springs with different locations (Miller et al 2009). Notable similarity was observed in the involvement of different community members in methane metabolism in Attri as well as in Malaysian hot springs (Chan et al 2015).…”

Section: Discussionmentioning

confidence: 96%

Analysis of the metatranscriptome of microbial communities of an alkaline hot sulfur spring revealed different gene encoding pathway enzymes associated with energy metabolism

et al. 2016

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Alkaline sulfur hot springs notable for their specialized and complex ecosystem powered by geothermal energy are abundantly rich in different chemotrophic and phototrophic thermophilic microorganisms. Survival and adaptation of these organisms in the extreme environment is specifically related to energy metabolism. To gain a better understanding of survival mechanism of the organisms in these ecosystems, we determined the different gene encoding enzymes associated with anaerobic pathways of energy metabolism by applying the metatranscriptomics approach. The analysis of the microbial population of hot sulfur spring revealed the presence of both aerobic and anaerobic organisms indicating dual mode of lifestyle of the community members. Proteobacteria (28.1 %) was the most dominant community. A total of 988 reads were associated with energy metabolism, out of which 33.7 % of the reads were assigned to nitrogen, sulfur, and methane metabolism based on KEGG classification. The major lineages of hot spring communities were linked with the anaerobic pathways. Different gene encoding enzymes (hao, nir, nar, cysH, cysI, acs) showed the involvement of microbial members in nitrification, denitrification, dissimilatory sulfate reduction, and methane generation. This study enhances our understanding of important gene encoding enzymes involved in energy metabolism, required for the survival and adaptation of microbial communities in the hot spring.

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

Cited by 154 publications

References 70 publications

Metagenomics of microbial and viral life in terrestrial geothermal environments

Metagenomics of microbial and viral life in terrestrial geothermal environments

Bacterial diversity analysis of Yumthang hot spring, North Sikkim, India by Illumina sequencing

Analysis of the metatranscriptome of microbial communities of an alkaline hot sulfur spring revealed different gene encoding pathway enzymes associated with energy metabolism

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