Metagenomic insights to understand transient influence of Yamuna River on taxonomic and functional aspects of bacterial and archaeal communities of River Ganges

Samson, R.A.; Shah, Manan; Yadav, Rakeshkumar; Sarode, Priyanka; Rajput, Vinay; Dastager, Syed G.; Dharne, Mahesh; Khairnar, Krishna

doi:10.1016/j.scitotenv.2019.04.166

Cited by 55 publications

(36 citation statements)

References 71 publications

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“…Recently a number of studies using metagenomic approaches have detected high levels of ARB, ARGs and antimicrobial residues in water and sediment samples collected from the Ganges River [104]. In addition, ARGs related to different classes of clinically relevant antimicrobial drugs, including ß-lactams, aminoglycosides, fluoroquinolones, macrolides-lincosamide-streptogramins (MLS), rifampicin and sulphonamides, have been identified in samples collected from the confluence of the river Ganges with Yamuna [105].…”

Section: Amr Dissemination In Wastewater Associated With Mass Gatherimentioning

confidence: 99%

The Contribution of Wastewater to the Transmission of Antimicrobial Resistance in the Environment: Implications of Mass Gathering Settings

et al. 2020

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Antimicrobial resistance (AMR) is the major issue posing a serious global health threat. Low- and middle-income countries are likely to be the most affected, both in terms of impact on public health and economic burden. Recent studies highlighted the role of resistance networks on the transmission of AMR organisms, with this network being driven by complex interactions between clinical (e.g., human health, animal husbandry and veterinary medicine) and other components, including environmental factors (e.g., persistence of AMR in wastewater). Many studies have highlighted the role of wastewater as a significant environmental reservoir of AMR as it represents an ideal environment for AMR bacteria (ARB) and antimicrobial resistant genes (ARGs) to persist. Although the treatment process can help in removing or reducing the ARB load, it has limited impact on ARGs. ARGs are not degradable; therefore, they can be spread among microbial communities in the environment through horizontal gene transfer, which is the main resistance mechanism in most Gram-negative bacteria. Here we analysed the recent literature to highlight the contribution of wastewater to the emergence, persistence and transmission of AMR under different settings, particularly those associated with mass gathering events (e.g., Hajj and Kumbh Mela).

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Section: Amr Dissemination In Wastewater Associated With Mass Gatherimentioning

confidence: 99%

The Contribution of Wastewater to the Transmission of Antimicrobial Resistance in the Environment: Implications of Mass Gathering Settings

et al. 2020

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“…MG-RAST analysis revealed 90-97% of the reads were assigned to the domain Bacteria, 1- 4% for Archaea and 2-3% for Eukarya. Bacterial and archeal reads were used in our previous study, to witness impact on the prokaryotic community in the wake of confluence with Yamuna River (Samson et al 2019). Taxonomic profiling was performed using NCBI taxonomy data sets for all the samples which revealed 17 classified Eukaryotic phyla in each sample.…”

Section: Resultsmentioning

confidence: 99%

“…Details of the sampling locations and grouping of the samples investigated in this study (Samson et al 2019). …”

Section: Methodsmentioning

confidence: 99%

“…The microbial (bacterial and archaeal) communities of Ganges with respect to human gut microbes and antibiotic resistance genes has been studied using Illumina sequencing technology (Zhang et al 2018). In our previous study, we have profiled bacterial and archaeal communities across the confluence of River Ganges and River Yamuna (Samson et al 2019). However, the fungal community structure and their functions across the confluence of River Ganges and River Yamuna remain unexplored.…”

Section: Introductionmentioning

confidence: 99%

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Fungal communities (Mycobiome) as potential ecological indicators within confluence stretch of Ganges and Yamuna Rivers, India

Samson

Rajput

Shah

et al. 2019

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38River confluences are a hub of biodiversity with limited information with respect to the structure and the 39 functions of the microbial communities. The 'River Ganges' is the national river of India, having manifold 40 significance such as social, mythological, historic, geographic and agro-economic. It forms a sacred confluence 41 (known as Triveni Sangam) with River Yamuna at Prayagraj, India. Recent reports indicated the presence of fecal 42 coliform bacteria, an indicator recognized for water contamination in Ganges River leading to pollution. However, 43Fungi are also gaining attention as potential biological indicators of the trophic status of some rivers globally, but 44 remain under-explored in terms of diversity, ecology and functional aspects. We performed whole long read, 45 metagenome sequencing (MinION) of the sediment samples collected in December 2017 from confluence zone of 46 Ganges and Yamuna Rivers spanning the pre-confluence, confluence and post-confluence zones. Mycobiome reads 47 revealed a plethora of fungal communities, extending from saprophytes, endoparasites and edible fungi, to human 48 pathogens, plant pathogens and toxin producers. The fungal genera recognized as bio-indicators of river pollution 49 (Aspergillus, Penicillium) and eutrophication (Kluveromyces, Lodderomyces, and Nakaseomyces), were present in 50 all samples. Functional gene analyses of myco-communities uncovered hits for neurodegenerative diseases and 51 xenobiotic degradation potential, supporting bio-indicators of pollution. This study forms a foundational basis for 52 understanding the impact of various anthropogenic activities on the mycobiome, as a bio-indicator of pollution 53 across the confluence of Ganges and Yamuna Rivers and post-confluence of River Ganges, and could be useful in 54 mitigating strategies for cleaning strategies of the Ganges River.55

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“…Beta-lactam, multidrug and aminoglycoside in sediment [88]. Lately, Samson et al described the influence of confluence of Yamuna River on bacterial taxonomy of the Ganges [89]. A study by Ahammad et al describes the identification of ARGs from the upper Ganges and the Yamuna River.…”

Section: Discussionmentioning

confidence: 99%

Abundance and diversity of phages, microbial taxa and antibiotic resistance genes in the sediments of the river Ganges through metagenomic approach

Kumar

Gupta

Sudan

et al. 2020

Preprint

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14In the present study, we have analyzed the metagenomic DNA from the pooled sediment 15 sample of the river Ganges to explore the abundance and diversity of phages, microbial 16 community and antibiotic resistance genes. Utilizing data from Illumina platform, 4174 17 (~0.0013%) reads were classified for the 285 different DNA viruses largely dominated by the 18 group of 260 distinctive phages (3602 reads, ~86.3%). Among all, Microcystis (782 hits), 19

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Metagenomic insights to understand transient influence of Yamuna River on taxonomic and functional aspects of bacterial and archaeal communities of River Ganges

Cited by 55 publications

References 71 publications

The Contribution of Wastewater to the Transmission of Antimicrobial Resistance in the Environment: Implications of Mass Gathering Settings

The Contribution of Wastewater to the Transmission of Antimicrobial Resistance in the Environment: Implications of Mass Gathering Settings

Fungal communities (Mycobiome) as potential ecological indicators within confluence stretch of Ganges and Yamuna Rivers, India

Abundance and diversity of phages, microbial taxa and antibiotic resistance genes in the sediments of the river Ganges through metagenomic approach

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