Culturomics-Based Taxonomic Diversity of Bacterial Communities in the Hot Springs of Saudi Arabia

Yasir, Muhammad; Qureshi, Arooj K; Khan, Imran; Bibi, Fehmida; Rehan, Mohd; Khan, Sher Bahadar; Azhar, Esam I.

doi:10.1089/omi.2018.0176

Cited by 14 publications

(14 citation statements)

References 41 publications

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“…Culture-dependent analysis of sediment from Tatta Pani hot spring resulted in isolation and identification of species belonging mostly to Proteobacteria, followed by Firmicutes, Bacteroidetes, and Actinobacteria. In consistent with previous studies (Yasir et al, 2019), we also found that species from the Bacillus genus were common. Bacterial taxa retrieved in the culture-dependent method were not completely identified in 16S amplicon sequencing data.…”

Section: Discussionsupporting

confidence: 93%

“…The decrease of thermophilic bacteria in the ETP samples is probably because of lacking in the laboratory condition of the geothermal habitat interactive environment of specific sediment nutrient composition and environmental factors other than temperature that might require for the growth of those particular thermophilic bacteria. Even though we used the low nutrient media considering the hot springs' general oligotrophic nature following methodology previously reported to maximize the culture and uncultured bacteria from environmental samples (Vartoukian, Palmer & Wade, 2010;Yasir et al, 2019). The media was supplemented with 50% of the sterilized hot spring water to support the inhabitant microbiota's specific growth requirement.…”

Section: Discussionmentioning

confidence: 99%

“…The hot spring source sample from 64 C (TP64) was processed for culture-dependent screening using a previously described, modified approach to increase recovery of slow-growing bacteria (Yasir et al, 2019). Briefly, 10 g of sediment sample was dispersed in 90 mL of normal saline and shaken for 45 min at 200 rpm.…”

Section: Culture-dependent Screeningmentioning

confidence: 99%

See 2 more Smart Citations

16S amplicon sequencing of microbial communities in enriched and non-enriched sediments of non-volcanic hot spring with temperature gradients

Yasir

Qureshi

Azhar

2021

PeerJ

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Microorganisms in geothermal springs can offer insights into the fundamental and applied study of extremophiles. However, low microbial abundance and culturing requirements limit the ability to analyze microbial diversity in these ecosystems. In this study, culture-dependent and culture-independent techniques were used to analyze sediment samples from the non-volcanic Tatta Pani hot springs in district Poonch of Azad Kashmir. Microbial composition, temperature gradient, and enrichment effects on rare taxa were evaluated. In total, 31 distinct bacterial phyla and 725 genera were identified from the non-enriched Tatta Pani hot spring sediment samples, and 33 distinct bacterial phyla and 890 genera from the enriched sediment samples. Unique phyla specimens from the enriched samples included Candidatus Cloacimonetes, Caldiserica, and Korarchaeota archaea. The enriched samples yielded specific microbiota including 805 bacteria and 42 archaea operational taxonomic units with 97% similarity, though decreased thermophilic microbiota were observed in the enriched samples. Microbial diversity increased as temperature decreased. Candidate novel species were isolated from the culture-dependent screening, along with several genera that were not found in the 16S amplicon sequencing data. Overall, the enriched sediments showed high microbial diversity but with adverse changes in the composition of relatively dominant bacteria. Metagenomic analyses are needed to study the diversity, phylogeny, and functional investigation of hot spring microbiota.

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Section: Discussionsupporting

confidence: 93%

Section: Discussionmentioning

confidence: 99%

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16S amplicon sequencing of microbial communities in enriched and non-enriched sediments of non-volcanic hot spring with temperature gradients

Yasir

Qureshi

Azhar

2021

PeerJ

Self Cite

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“…Here, the isolates obtained on solid media were characterized by a tandem approach consisting of Whole Cell Matrix-Assisted Laser Desorption Ionization -Time Of Flight mass spectrometry (WC MALDI-TOF MS) and 16S rRNA gene sequencing of cluster representatives. This approach had been successfully used to identify thousands of strains isolated from solar salterns [61] and hot springs [67]. In this study, we obtained on a purely statistical basis more than 5,000 heterotrophic strains by a weekly sampling along the 2016 Helgoland spring phytoplankton bloom.…”

Section: Introductionmentioning

confidence: 99%

High-throughput cultivation of heterotrophic bacteria during a spring phytoplankton bloom in the North Sea

Alejandre-Colomo

Harder

Fuchs

et al. 2020

Systematic and Applied Microbiology

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“…However, these two studies did not use the metagenomic approach. Yasir et al studied the bacterial diversity in sediment samples from six hot springs of Saudi Arabia and reported that the most abundant species were Bacillus and Brevibacillus [ 96 ]. The same research group analyzed microbial communities in mat samples from two hot springs from Al Aridhah and found that the Chloroflexus was the most dominant taxa among the diverse group of bacteria identified [ 97 ] ( Table 2 ).…”

Section: Saudi Arabian Microbiome Studies On the Environmentmentioning

confidence: 99%

Microbiome Studies from Saudi Arabia over the Last 10 Years: Achievements, Gaps, and Future Directions

Alzahrani

2021

Microorganisms

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In the past ten years, microbiome studies have shown tremendous potentiality for implementation of understanding microbiome structures and functions of various biomes and application of this knowledge for human betterment. Saudi Arabia is full of geographical, ecological, ethnical, and industrial diversities and scientific capacities. Therefore, there is a great potential in Saudi Arabia to conduct and implement microbiome-based research and applications. However, there is no review available on where Saudi Arabia stands with respect to global microbiome research trends. This review highlights the metagenome-assisted microbiome research from Saudi Arabia compared to the global focuses on microbiome research. Further, it also highlights the gaps and areas that should be focused on by Saudi microbiome researchers and the possible initiatives to be taken by Saudi government and universities. This literature review shows that the global trends of microbiome research cover a broad spectrum of human and animal health conditions and diseases, environmental and antimicrobial resistance surveillance, surveillance of food and food processing, production of novel industrial enzymes and bioactive pharmaceutical products, and space applications. However, Saudi microbiome studies are mostly confined to very few aspects of health (human and animal) and environment/ecology in last ten years, without much application. Therefore, Saudi Arabia should focus more on applied microbiome research through government, academic, and industry initiatives and global cooperation to match the global trends.

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Culturomics-Based Taxonomic Diversity of Bacterial Communities in the Hot Springs of Saudi Arabia

Cited by 14 publications

References 41 publications

16S amplicon sequencing of microbial communities in enriched and non-enriched sediments of non-volcanic hot spring with temperature gradients

16S amplicon sequencing of microbial communities in enriched and non-enriched sediments of non-volcanic hot spring with temperature gradients

High-throughput cultivation of heterotrophic bacteria during a spring phytoplankton bloom in the North Sea

Microbiome Studies from Saudi Arabia over the Last 10 Years: Achievements, Gaps, and Future Directions

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