02375nas a2200277   4500008004100000022001400041245012200055210006900177260000800246300001100254490000800265520149800273653000901771653001401780653001501794653000901809653000901818653002401827100002201851700002301873700001801896700001601914700001901930700001901949856012901968       2020                        eng d  a0147-651300aShotgun metagenome guided exploration of anthropogenically driven resistomic hotspots within Lonar soda lake of India0 aShotgun metagenome guided exploration of anthropogenically drive  cMAY  a1104430 v1943 a<p>Anthropogenic activities mediated antibiotic resistance genes (ARGs) in the pristine aquatic bodies (lakes) is raising concern worldwide. Long read shotgun sequencing was used to assess taxonomic diversity, distribution of ARGs and metal resistance genes (MRGs) and mobile genetic elements (MGEs) in six sites within hypersaline Lonar soda lake (India) prone to various anthropogenic activities. Proteobacteria and Euryarchaeota were dominant phyla under domain Bacteria and Archaea respectively. Higher abundance of Bacteroidetes was pragmatic at sites 18LN5 and 18LN6. Functional analysis indicated 26 broad-spectrum ARGs types, not reported earlier in this ecosystem. Abundant ARG types identified were multidrug efflux, glycopepetide, bacitracin, tetracycline and aminogylcoside resistance. Sites 18LN1 and 18LN5 depicted 167 and 160 different ARGs subtypes respectively and rpoB2, bcrA, tetA(48), mupA, ompR, patA, vanR and multidrug ABC transporter genes were present in all samples. The rpoB2 gene was dominant in 18LN1, whereas bcrA gene in 18LN2-18LN6 sites. Around 24 MRGs types were detected with higher abundance of arsenic in 18LN1 and copper in 18LN2-18LN6, signifying metal contamination linked to MRGs. The bacterial taxa Pseudomonas, Thioalkalivibrio, Burkholderia, Clostridium, Paenibacillus, Bacillus and Streptomyces were significantly associated with ARGs. This study highlights the resistomic hotspots in the lake for deploying policies for conservation efforts.</p>
10aARGs10adiversity10aLonar lake10aMGEs10aMRGs10aNanopore sequencing1 aChakraborty, Jaya1 aSapkale, Vibhavari1 aRajput, Vinay1 aShah, Manan1 aKamble, Sanjay1 aDharne, Mahesh  uhttps://library.ncl.res.in/content/shotgun-metagenome-guided-exploration-anthropogenically-driven-resistomic-hotspots-within02709nas a2200313   4500008004100000022001400041245011200055210006900167260000900236300001100245490000800256520169600264653001901960653001701979653001701996653002402013653001502037653001502052100002602067700001802093700002302111700002502134700001802159700001802177700002302195700002302218700002302241856013102264       2022                        eng d  a0048-969700aHigh throughput sequencing based direct detection of SARS-CoV-2 fragments in wastewater of Pune, West India0 aHigh throughput sequencing based direct detection of SARSCoV2 fr  cFEB   a1510380 v8073 aGiven a large number of SARS-CoV-2 infected individuals, clinical detection has proved challenging. The wastewater-based epidemiological paradigm would cover the clinically escaped asymptomatic individuals owing to the faecal shedding of the virus. We hypothesised using wastewater as a valuable resource for analysing SARS-CoV-2 mutations circulating in the wastewater of Pune region (Maharashtra; India), one of the most affected during the covid-19 pandemic. We conducted study in open wastewater drains from December 2020- March 2021 to assess the presence of SARS-CoV-2 nucleic acid and further detect mutations using ARTIC protocol of MinION sequencing. The analysis revealed 108 mutations across six samples categorised into 39 types of mutations. We report the occurrence of mutations associated with Delta variant lineage in March-2021 samples, simultaneously also reported as a Variant of Concern (VoC) responsible for the rapid increase in infections. The study also revealed four mutations; S:N801, S:C480R, NSP14:C279F and NSP3:L550del not currently reported from wastewater or clinical data in India but reported worldwide. Further, a novel mutation NSP13:G206F mapping to NSP13 region was observed from wastewater. Notably, S:P1140del mutation was detected in December 2020 samples while it was reported in February 2021 from clinical data, indicating the instrumentality of wastewater data in early detection. This is the first study in India to demonstrate utility of sequencing in wastewater based epidemiology to identify mutations associated with SARS-CoV-2 virus fragments from wastewater as an early warning indicator system. (c) 2021 Elsevier B.V. All rights reserved.10aARTIC protocol10aEpidemiology10aMetagenomics10aNanopore sequencing10aSARS-CoV-210awastewater1 aDharmadhikari, Tanmay1 aRajput, Vinay1 aYadav, Rakeshkumar1 aBoargaonkar, Radhika1 aPatil, Dhawal1 aKale, Saurabh1 aKamble, Sanjay, P.1 aDastager, Syed, G.1 aDharne, Mahesh, S.  uhttps://library.ncl.res.in/content/high-throughput-sequencing-based-direct-detection-sars-cov-2-fragments-wastewater-pune-west