@article {48227,
	title = {Gut microbiota dysbiosis in patients with intracranial sino-venous thrombosis and acute ischemic stroke in the young},
	journal = {Annals of Indian Academy of Neurology},
	volume = {25},
	year = {2022},
	month = {SEP-OCT},
	pages = {980+},
	type = {Letter},
	issn = {0972-2327},
	doi = {10.4103/aian.aian_393_22},
	author = {Prabhu, Varsha A. and Rajput, Vinay and Yadav, Rakeshkumar and Gohil, Kushal and Dharne, Mahesh S. and Unnikrishnan, Mazhuvancherry Kesavan and Gorthi, Sankar Prasad}
}
@article {48995,
	title = {Genomic surveillance reveals early detection and transition of delta to omicron lineages of SARS-CoV-2 variants in wastewater treatment plants of Pune, India},
	journal = {Environmental Science and Pollution Research },
	volume = {30},
	year = {2023},
	month = {DEC},
	pages = {118976-118988},
	type = {Article},
	abstract = {<p>
	The COVID-19 pandemic has emphasized the urgency for rapid public health surveillance methods to detect and monitor the transmission of infectious diseases. The wastewater-based epidemiology (WBE) has emerged as a promising tool for proactive analysis and quantification of infectious pathogens within a population before clinical cases emerge. In the present study, we aimed to assess the trend and dynamics of SARS-CoV-2 variants using a longitudinal approach. Our objective included early detection and monitoring of these variants to enhance our understanding of their prevalence and potential impact. To achieve our goals, we conducted real-time quantitative polymerase chain reaction (RT-qPCR) and Illumina sequencing on 442 wastewater (WW) samples collected from 10 sewage treatment plants (STPs) in Pune city, India, spanning from November 2021 to April 2022. Our comprehensive analysis identified 426 distinct lineages representing 17 highly transmissible variants of SARS-CoV-2. Notably, fragments of Omicron variant were detected in WW samples prior to its first clinical detection in Botswana. Furthermore, we observed highly contagious sub-lineages of the Omicron variant, including BA.1 (similar to 28\%), BA.1.X (1.0-72\%), BA.2 (1.0-18\%), BA.2.X (1.0-97.4\%) BA.2.12 (0.8-0.25\%), BA.2.38 (0.8-1.0\%), BA.2.75 (0.01-0.02\%), BA.3 (0.09-6.3\%), BA.4 (0.24-0.29\%), and XBB (0.01-21.83\%), with varying prevalence rates. Overall, the present study demonstrated the practicality of WBE in the early detection of SARS-CoV-2 variants, which could help track future outbreaks of SARS-CoV-2. Such approaches could be implicated in monitoring infectious agents before they appear in clinical cases.</p>
},
	keywords = {Bioinformatics pipeline, COVID-19, Early warning, India, Next-generation sequencing, Omicron, Public health, SARS-CoV-2, wastewater, Wastewater-based epidemiology},
	issn = {0944-1344},
	doi = {10.1007/s11356-023-30709-z},
	author = {Rajput, Vinay and Pramanik, Rinka and Malik, Vinita and Yadav, Rakeshkumar and Samson, Rachel and Kadam, Pradnya and Bhalerao, Unnati and Tupekar, Manisha and Deshpande, Dipti and Shah, Priyanki and Shashidhara, L. S. and Boargaonkar, Radhika and Patil, Dhawal and Kale, Saurabh and Bhalerao, Asim and Jain, Nidhi and Kamble, Sanjay and Dastager, Syed and Karmodiya, Krishanpal and Dharne, Mahesh}
}
@article {49102,
	title = {Genome sequencing and protein modeling unraveled the 2AP biosynthesis in Bacillus cereus DB25},
	journal = {International Journal of Food Microbiology},
	volume = {413},
	year = {2024},
	month = {MAR },
	pages = {110600},
	type = {Article},
	abstract = {<p>
	2-Acetyl-1-pyrroline (2AP) is an important and major flavor aroma compound responsible for the fragrance of basmati rice, cheese, wine, and several other food products. Biosynthesis of 2AP in aromatic rice and a few other plant species is associated with a recessive Betaine aldehyde dehydrogenase 2 (BADH2) gene. However, the literature is scant on the relationship between the functional BADH2 gene and 2AP biosynthesis in prokaryotic systems. Therefore, in the present study, we aimed to explore the functionality of the BADH2 gene for 2AP biosynthesis in 2AP synthesizing rice rhizobacterial isolate Bacillus cereus DB25 isolated from the rhizosphere of basmati rice (Oryza sativa L.). Full-length BcBADH2 sequence was obtained through whole genome sequencing (WGS) and further confirmed through traditional PCR and Sanger sequencing. Then the functionality of the BcBADH2 gene was evaluated in-silico through bioinformatics analysis and protein docking studies and further experimentally validated through enzyme assay. The sequencing and bioinformatics analysis results revealed a full-length 1485 bp BcBADH2 coding sequence without any deletion or premature stop codons. Full-length BcBADH2 was found to encode a fully functional protein of 54.08 kDa with pI of 5.22 and showed the presence of the conserved amino acids responsible for enzyme activity. The docking studies confirmed a good affinity between the protein and its substrate whereas the presence of BcBADH2 enzyme activity confirmed the functionality of BADH2 enzyme in B. cereus DB25. In conclusion, the findings of the present study suggest that B. cereus DB25 is able to synthesize 2AP despite a functional BADH2 gene and there may be a different molecular mechanism responsible for 2AP biosynthesis in bacterial systems, unlike that found in aromatic rice and other eukaryotic plant species.</p>
},
	keywords = {2-Acetyl-1-pyrroline, Basmati rice flavor, Betaine aldehyde dehydrogenase 2, Protein-ligand docking, Rhizobacteria, Whole-genome sequence},
	issn = {0168-1605},
	doi = {10.1016/j.ijfoodmicro.2024.110600},
	author = {Dhondge, Harshal V. and Barvkar, Vitthal T. and Dastager, Syed G. and Dharne, Mahesh S. and Rajput, Vinay and Pable, Anupama A. and Henry, Robert J. and Nadaf, Altafhusain B.}
}
