Next generation sequencing and microbiome's taxonomical characterization of frozen soil of north western Himalayas of Jammu and Kashmir, India

Gupta, Verruchi; Singh, Inderpal; Rasool, Shafaq; Verma, Vivek

doi:10.1016/j.ejbt.2020.03.003

Cited by 6 publications

(3 citation statements)

References 57 publications

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“…Similarly, they were also reported on the Muztag Ata Glacier chronosequence (Khan et al, 2020) and the frontier of Baishui Glacier No.1 (Sajjad et al, 2021). In this research, the Proteobacteria average relative abundance was 21.95% in total and comparable to the data from Gupta's report (Gupta et al, 2020). The reason may be the effect of elevation, as in this research the glacier termini were at the elevation of 5,000-5,100 m; the height of the glacier is 4,700 m a.s.l.…”

Section: A Special Prokaryote Community Structure Has Been Found In the High-elevation Glacier Chronosequencessupporting

confidence: 88%

“…The relative abundance of seven phyla was above 5%; in a total of 11 phyla the relative abundance was above 1% (Figure 2A). The number of phyla was higher than that found in the frozen soil [five most abundant phyla (>2%)] from the glacier of the northwestern Himalayas of Jammu and Kashmir, India (Gupta et al, 2020); the two studies both were conducted in Himalayas. Furthermore, the three top abundant phyla detected in this research were also found in other glacier forelands of the Tibetan Plateau but with different order and abundance.…”

Section: A Special Prokaryote Community Structure Has Been Found In the High-elevation Glacier Chronosequencesmentioning

confidence: 63%

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Prokaryotic Community Succession in Bulk and Rhizosphere Soils Along a High-Elevation Glacier Retreat Chronosequence on the Tibetan Plateau

et al. 2021

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Early colonization and succession of soil microbial communities are essential for soil development and nutrient accumulation. Herein we focused on the changes in pioneer prokaryotic communities in rhizosphere and bulk soils along the high-elevation glacier retreat chronosequence, the northern Himalayas, Tibetan Plateau. Rhizosphere soils showed substantially higher levels of total organic carbon, total nitrogen, ammonium, and nitrate than bulk soils. The dominant prokaryotes were Proteobacteria, Actinobacteria, Acidobacteria, Chloroflexi, Crenarchaeota, Bacteroidetes, and Planctomycetes, which totally accounted for more than 75% in relative abundance. The dominant genus Candidatus Nitrososphaera occurred at each stage of the microbial succession. The richness and evenness of soil prokaryotes displayed mild succession along chronosequene. Linear discriminant analysis effect size (LEfSe) analysis demonstrated that Proteobacteria (especially Alphaproteobacteria) and Actinobacteria were significantly enriched in rhizosphere soils compared with bulk soils. Actinobacteria, SHA_109, and Thermoleophilia; Betaproteobacteria and OP1.MSBL6; and Planctomycetia and Verrucomicrobia were separately enriched at each of the three sample sites. The compositions of prokaryotic communities were substantially changed with bulk and rhizosphere soils and sampling sites, indicating that the communities were dominantly driven by plants and habitat-specific effects in the deglaciated soils. Additionally, the distance to the glacier terminus also played a significant role in driving the change of prokaryotic communities in both bulk and rhizosphere soils. Soil C/N ratio exhibited a greater effect on prokaryotic communities in bulk soils than rhizosphere soils. These results indicate that plants, habitat, and glacier retreat chronosequence collectively control prokaryotic community composition and succession.

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Section: A Special Prokaryote Community Structure Has Been Found In the High-elevation Glacier Chronosequencessupporting

confidence: 88%

Section: A Special Prokaryote Community Structure Has Been Found In the High-elevation Glacier Chronosequencesmentioning

confidence: 63%

Prokaryotic Community Succession in Bulk and Rhizosphere Soils Along a High-Elevation Glacier Retreat Chronosequence on the Tibetan Plateau

et al. 2021

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“…Likewise, this region may also hold a great promise of untapped potential for microbial diversity. Recent metagenomics research on Manikaran Hot Springs [ 24 ], frozen soil of the northwestern Himalayas of Jammu and Kashmir [ 25 ], and high-elevation Himalayan glacial lakes (Parvati kund) imply that these Himalayan regions are undergoing exploration [ 26 ]. Further, the Eastern Himalayas provide a plethora of high-altitude lakes [ 27 ] and such regions could harbor numerous psychrophilic and psychrotolerant microorganisms [ 28 ] that could be the source of numerous cold-adapted enzymes [ 29 ].…”

Section: Introductionmentioning

confidence: 99%

A shotgun approach to explore the bacterial diversity and a brief insight into the glycoside hydrolases of Samiti lake located in the Eastern Himalayas

Rai

Saha

Manvar

et al. 2022

Journal of Genetic Engineering and Biotechnology

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Background The Himalayas have always been an enigma and, being biodiversity hotspots, are considered extremely important from an ecological point of view. Recent advances in studies regarding high-altitude lakes have garnered relevant importance as these habitats could harbor potential psychrophilic and psychrotrophic microbes with bio-prospective applications. Contemplating the above scenario, the present study has been undertaken to understand the diversity and the functional capacities of the microbes thriving in this lake. Results In our present study on Samiti Lake, the abundance of Proteobacteria as the major phylum was seen in both the soil and water samples. Incase of the ABSLW (water) and ABS1 (soil) sample, 148,066 and 239,754 predicted genes, were taken for functional analysis. The KEGG analysis showed that ABSLW and ABS1 had 122,911 and 160,268, genes assigned to KO terms respectively. Whereas in case of COG functional analysis, 104,334 and 130,191 genes were assigned to different COG classes for ABSLW and ABS1 respectively. Further, on studying the glycoside hydrolases, an abundance of GH13, GH2, GH3, GH43, and GH23 in both the soil and water samples were seen. Conclusion Our study has provided a comprehensive report about the bacterial diversity and functional capacities of microbes thriving in Samiti Lake. It has also thrown some light on the occurrence of glycoside hydrolases in this region, as they have numerous biotechnological applications in different sectors.

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Soil Microbes and Biofertilizers

Sharma

Datta²,

Sharma³

2022

Soils in the Hindu Kush Himalayas

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Next generation sequencing and microbiome's taxonomical characterization of frozen soil of north western Himalayas of Jammu and Kashmir, India

Cited by 6 publications

References 57 publications

Prokaryotic Community Succession in Bulk and Rhizosphere Soils Along a High-Elevation Glacier Retreat Chronosequence on the Tibetan Plateau

Prokaryotic Community Succession in Bulk and Rhizosphere Soils Along a High-Elevation Glacier Retreat Chronosequence on the Tibetan Plateau

A shotgun approach to explore the bacterial diversity and a brief insight into the glycoside hydrolases of Samiti lake located in the Eastern Himalayas

Soil Microbes and Biofertilizers

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