01805nas a2200181   4500008004100000022001400041245012600055210006900181260000800250300001200258490000700270520113600277100002101413700002301434700001601457700002001473856013001493       2015                        eng d  a0175-759800aPotential applications of glucosyltransferases in terpene glucoside production: impacts on the use of aroma and fragrance0 aPotential applications of glucosyltransferases in terpene glucos  cJAN  a165-1740 v993 a<p>The detection of glucoconjugated forms of monoterpene alcohols in rose petals in the late 1960s opened the new field of nonvolatile aroma precursors in flavor research. It is now well established that odorless glycosides represent a significant pool of aroma precursors in plants where they act as preformed but inactivated defense or attractive chemicals. Technical improvements in the separation and identification of plant secondary metabolites have provided a multitude of chemical structures, but functional characterization of glycosyltransferases that catalyze their formation lags behind. As technical efforts and costs for DNA sequencing dramatically dropped during the last decade, the number of plant genome sequences increased significantly, thus providing opportunities to functionally characterize the glycosyltransferase gene families in plants. These studies yielded the first glycosyltransferase genes that encode efficient biocatalysts for the production of monoterpene glucosides. They have applications in the food, feed, chemical, cosmetic, and pharmaceutical industries as slow release aroma chemicals.</p>1 aSchwab, Wilfried1 aFischer, Thilo, C.1 aGiri, Ashok1 aWuest, Matthias  uhttps://library.ncl.res.in/content/potential-applications-glucosyltransferases-terpene-glucoside-production-impacts-use-aroma02596nas a2200265   4500008004100000022001400041245010200055210006900157260000800226300000900234490000700243520175900250653001702009653001102026653001502037653001402052653001502066100001602081700002702097700001802124700002002142700001602162700002202178856013002200       2017                        eng d  a0194-911X00aPolymerization-incompetent uromodulin in the pregnant stroke-prone spontaneously hypertensive rat0 aPolymerizationincompetent uromodulin in the pregnant strokeprone  cMAY  a910+0 v693 a<p>The kidney is centrally involved in blood pressure regulation and undergoes extensive changes during pregnancy. Hypertension during pregnancy may result in an altered urinary peptidome that could be used to indicate new targets of therapeutic or diagnostic interest. The stroke-prone spontaneously hypertensive rat (SHRSP) is a model of maternal chronic hypertension. Capillary electrophoresis-mass spectrometry was conducted to interrogate the urinary peptidome in SHRSP and the control Wistar-Kyoto strain at three time points: prepregnancy and gestational days 12 and 18. The comparison within and between the Wistar-Kyoto and SHRSP peptidome at all time points detected 123 differentially expressed peptides (fold change &gt;1.5; P&lt;0.05). Sequencing of these peptides identified fragments of collagen a-chains, albumin, prothrombin, actin, serpin A3K, proepidermal growth factor, and uromodulin. Uromodulin peptides showed a pregnancy-specific alteration in SHRSP with a 7.8-fold (P&lt;0.01) and 8.8-fold (P&lt;0.05) increase at gestational days 12 and 18, respectively, relative to the Wistar-Kyoto. Further investigation revealed that these peptides belonged to the polymerization-inhibitory region of uromodulin. Two forms of uromodulin (polymerization competent and polymerization incompetent) were found in urine from both Wistar-Kyoto and SHRSP, where the polymerizationincompetent form was increased in a pregnancy-specific manner in SHRSP. Nifedipine-treated pregnant SHRSP showed only polymerization-competent uromodulin, indicating that calcium may be mechanistically involved in uromodulin polymerization. This study highlights, for the first time, a potential role of uromodulin and its polymerization in hypertensive pregnancy.</p>10aHypertension10aKidney10aNifedipine10apregnancy10auromodulin1 aMary, Sheon1 aSmall, Heather, Yvonne1 aSiwy, Justyna1 aMullen, William1 aGiri, Ashok1 aDelles, Christian  uhttps://library.ncl.res.in/content/polymerization-incompetent-uromodulin-pregnant-stroke-prone-spontaneously-hypertensive-rat02339nas a2200217   4500008004100000022001100041245014200052210006900194260000900263300001500272490000700287520156300294100002101857700001601878700002301894700001801917700001801935700002101953700002101974856012601995       2018                        eng d  a32078100aStructural and functional analysis of UGT92G6 suggests an evolutionary link between mono- and disaccharide glycoside-forming transferases0 aStructural and functional analysis of UGT92G6 suggests an evolut  cAPR   a 862–8750 v593 a<p>Glycosylation mediated by UDP-dependent glycosyltransferase (UGT) is one of the most common reactions for the biosynthesis of small molecule glycosides. As glycosides have various biological roles, we characterized UGT genes from grapevine (Vitis vinifera). In silico analysis of VvUGT genes that were highly expressed in leaves identified UGT92G6 which showed sequence similarity to both monosaccharide and disaccharide glucoside-forming transferases. The recombinant UGT92G6 glucosylated phenolics, among them caffeic acid, carvacrol, eugenol and raspberry ketone, and also accepted geranyl glucoside and citronellyl glucoside. Thus, UGT92G6 formed mono- and diglucosides in vitro from distinct compounds. The enzyme specificity constant Vmax/Km ratios indicated that UGT92G6 exhibited the highest specificity towards caffeic acid, producing almost equal amounts of the 3- and 4-O-glucoside. Transient overexpression of UGT92G6 in Nicotiana benthamiana leaves confirmed the production of caffeoyl glucoside; however, the level of geranyl diglucoside was not elevated upon overexpression of UGT92G6, even after co-expression of genes encoding geraniol synthase and geraniol UGT to provide sufficient precursor. Comparative sequence and 3-D structure analysis identified a sequence motif characteristic for monoglucoside-forming UGTs in UGT92G6, suggesting an evolutionary link between mono- and disaccharide glycoside UGTs. Thus, UGT92G6 functions as a mono- and diglucosyltransferase in vitro, but acts as a caffeoyl glucoside UGT in N. benthamiana.</p>1 aHuang, Fong-Chin1 aGiri, Ashok1 aDaniilidis, Melina1 aSun, Guangxin1 aHärtl, Katja1 aHoffmann, Thomas1 aSchwab, Wilfried  uhttps://library.ncl.res.in/content/structural-and-functional-analysis-ugt92g6-suggests-evolutionary-link-between-mono-and02370nas a2200265   4500008004100000022001400041245011700055210006900172260000800241300001400249490000800263520148700271653002501758653002401783653002401807653001401831653002101845100001701866700002001883700001601903700001601919700002401935700001801959856012701977       2019                        eng d  a1742-464X00aMechanistic insights into enzymatic catalysis by trehalase from the insect gut endosymbiont Enterobacter cloacae0 aMechanistic insights into enzymatic catalysis by trehalase from   cMAY  a1700-17160 v2863 a<p>Energy metabolism in the diamondback moth Plutella xylostella is facilitated by trehalase, an enzyme which assists in trehalose hydrolysis, from the predominant gut bacterium Enterobacter cloacae. We report the biochemical and structural characterization of recombinant trehalase from E. cloacae (Px_EclTre). Px_EclTre showed K-M of 1.47 (+/- 0.05) mm, k(cat) of 6254.72 min(-1) and V-max 0.2 (+/- 0.002) mm center dot min(-1) at 55 degrees C and acidic pH. Crystal structures of Px_EclTre were determined in the ligand-free form and bound to the inhibitor Validoxylamine A. The crystal structure of the ligand-free form, unavailable until now for any other bacterial trehalases, enabled us to delineate the conformational changes accompanying ligand binding in trehalases. Multiple salt bridges were identified that potentially facilitated closure of a hood over the substrate-binding site. A cluster of five tryptophans lined the -1 substrate-binding subsite, interacted with crucial active site residues and contributed to both trehalase activity and stability. The importance of these residues in enzyme activity was further validated by mutagenesis studies. Many of these identified residues form part of signature motifs and other conserved sequences in trehalases. The structure analysis thus led to the assignment of the functional role to these conserved residues. This information can be further explored for the design of effective inhibitors against trehalases.</p>
10aEnterobacter cloacae10aPlutella xylostella10astructural analysis10atrehalase10avalidoxylamine A1 aAdhav, Anmol1 aHarne, Shrikant1 aBhide, Amey1 aGiri, Ashok1 aGayathri, Pananghat1 aJoshi, Rakesh  uhttps://library.ncl.res.in/content/mechanistic-insights-enzymatic-catalysis-trehalase-insect-gut-endosymbiont-enterobacter01978nas a2200229   4500008004100000245012100041210006900162260000800231300000800239490000600247520116300253653003501416653002301451653002101474653002701495653002901522100001801551700002201569700001601591700001701607856012401624       2019                        eng d00aMetabolomic dynamics reveals oxidative stress in spongy tissue disorder during ripening of mangifera indica l. fruit0 aMetabolomic dynamics reveals oxidative stress in spongy tissue d  cNOV  a2550 v93 a<p>Spongy tissue disorder, a mesocarp specific malady, severely affects the flavor and pulp characters of Alphonso mango fruit reducing its consumer acceptability. Here, we investigated comparative metabolomic changes that occur during ripening in healthy and spongy tissue-affected fruits using high resolution mass spectrometric analysis. During the spongy tissue formation, 46 metabolites were identified to be differentially accumulated. These putative metabolites belong to various primary and secondary metabolic pathways potentially involved in maintaining the quality of the fruit. Analysis revealed metabolic variations in tricarboxylic acid cycle and gamma amino butyric acid shunt generating reactive oxygen species, which causes stressed conditions inside the mesocarp. Further, reduced levels of antioxidants and enzymes dissipating reactive oxygen species in mesocarp deteriorate the fruit physiology. This oxidative stress all along affects the level of amino acids, sugars and enzymes responsible for flavor generation in the fruit. Our results provide metabolic insights into spongy tissue development in ripening Alphonso mango fruit.</p>
10agamma amino butyric acid shunt10amango metabolomics10aOxidative stress10aspongy tissue disorder10atricarboxylic acid cycle1 aOak, Pranjali1 aDeshpande, Ashish1 aGiri, Ashok1 aGupta, Vidya  uhttps://library.ncl.res.in/content/metabolomic-dynamics-reveals-oxidative-stress-spongy-tissue-disorder-during-ripening02366nas a2200397   4500008004100000022001400041245013600055210006900191260000800260300000900268490000700277520113700284100002401421700002701445700001601472700001801488700002001506700001901526700002101545700002201566700001701588700001601605700001601621700002201637700001601659700001801675700001701693700001801710700001601728700001601744700001701760700002301777700002001800700001901820856012901839       2019                        eng d  a2041-172300aPathways to defense metabolites and evading fruit bitterness in genus Solanum evolved through 2-oxoglutarate-dependent dioxygenases0 aPathways to defense metabolites and evading fruit bitterness in   cNOV  a51690 v103 a<p>The genus Solanum comprises three food crops (potato, tomato, and eggplant), which are consumed on daily basis worldwide and also producers of notorious anti-nutritional steroidal glycoalkaloids (SGAs). Hydroxylated SGAs (i.e. leptinines) serve as precursors for leptines that act as defenses against Colorado Potato Beetle (Leptinotarsa decemlineata Say), an important pest of potato worldwide. However, SGA hydroxylating enzymes remain unknown. Here, we discover that 2-OXOGLUTARATE-DEPENDENT-DIOXYGENASE (2-ODD) enzymes catalyze SGA-hydroxylation across various Solanum species. In contrast to cultivated potato, Solanum chacoense, a widespread wild potato species, has evolved a 2-ODD enzyme leading to the formation of leptinines. Furthermore, we find a related 2-ODD in tomato that catalyzes the hydroxylation of the bitter a-tomatine to hydroxytomatine, the first committed step in the chemical shift towards downstream ripening-associated non-bitter SGAs (e.g. esculeoside A). This 2-ODD enzyme prevents bitterness in ripe tomato fruit consumed today which otherwise would remain unpleasant in taste and more toxic.</p>
1 aCardenas, Pablo, D.1 aSonawane, Prashant, D.1 aHeinig, Uwe1 aJozwiak, Adam1 aPanda, Sayantan1 aAbebie, Bekele1 aKazachkova, Yana1 aPliner, Margarita1 aUnger, Tamar1 aWolf, Dalia1 aOfner, Itai1 aVilaprinyo, Ester1 aMeir, Sagit1 aDavydov, Olga1 aGal-On, Amit1 aBurdman, Saul1 aGiri, Ashok1 aZamir, Dani1 aScherf, Tali1 aSzymanski, Jedrzej1 aRogachev, Ilana1 aAharoni, Asaph  uhttps://library.ncl.res.in/content/pathways-defense-metabolites-and-evading-fruit-bitterness-genus-solanum-evolved-through-201283nas a2200217   4500008004100000022001400041245013200055210006900187260000900256300001400265490000700279520052100286100001800807700001800825700001900843700002000862700001900882700001600901700001700917856013100934       2019                        eng d  a1463-926200aRapid and efficient sequestration of arsenic from contaminated water using hypertolerant Bacillus L-148 sp.: a two-step process0 aRapid and efficient sequestration of arsenic from contaminated w  cMAY   a2245-22510 v213 a<p>A fast, robust and green bioreactor for arsenic sequestration from contaminated water was designed. In the two-tier bioreactor, bacterial arsenite detoxification (1 mM) was carried out followed by precipitation of arsenate in 5 min. The precipitate could be used for supercapacitor applications. This bioreactor yielded arsenic free water, therefore, this method can be adopted for scale-up. The combination of hypertolerant bacteria and fast precipitation indicates the robustness of this pilot bioreactor.</p>
1 aBagade, Aditi1 aNandre, Vinod1 aGhosh, Sayanti1 aBattu, Shateesh1 aHaram, Santosh1 aGiri, Ashok1 aKodam, Kisan  uhttps://library.ncl.res.in/content/rapid-and-efficient-sequestration-arsenic-contaminated-water-using-hypertolerant-bacillus-l02450nas a2200289   4500008004100000022001400041245012900055210006900184260000800253300001200261490000700273520149600280653001301776653002401789653002301813653001601836653001601852100001801868700002001886700002301906700001801929700002701947700001601974700002101990700002102011856012802032       2019                        eng d  a0959-665800aSemirational design and engineering of grapevine glucosyltransferases for enhanced activity and modified product selectivity0 aSemirational design and engineering of grapevine glucosyltransfe  cNOV  a765-7750 v293 a<p>Uridine diphosphate-dependent glycosyltransferases (UGTs) catalyze the transfer of a diversity of sugars to several acceptor molecules and often exhibit distinct substrate specificity. Modulation of glycosyltransferases for increased catalytic activity and altered substrate or product specificity are the key manipulations for the biotechnological use of glycosyltransferases in various biosynthetic processes. Here, we have engineered the binding pocket of three previously characterized Vitis vinifera glycosyltransferases, UGT88F12, UGT72B27 and UGT92G6, by structure-guided in silico mutagenesis to facilitate the interactions of active site residues with flavonol glucosides and thus modify substrate specificity and activity. Site-directed mutagenesis at selected sites, followed with liquid chromatography-mass spectrometry based activity assays, exhibited that mutant UGTs were altered in product selectivity and activity as compared to the wild-type enzymes. Mutant UGTs produced larger amounts of flavonol di-monosaccharide glucosides, which imply that the mutations led to structural changes that increased the volume of the binding pocket to accommodate a larger substrate and to release larger products at ease. Mutants showed increased activity and modified product specificity. Thus, structure-based systematic mutations of the amino acid residues in the binding pocket can be explored for the generation of engineered UGTs for diverse biotechnological applications.</p>
10aflavonol10aGlycosyltransferase10ain silico analysis10aMutagenesis10aselectivity1 aJoshi, Rakesh1 aTrinkl, Johanna1 aHaugeneder, Annika1 aHaertl, Katja1 aFranz-Oberdorf, Katrin1 aGiri, Ashok1 aHoffmann, Thomas1 aSchwab, Wilfried  uhttps://library.ncl.res.in/content/semirational-design-and-engineering-grapevine-glucosyltransferases-enhanced-activity-and02265nas a2200277   4500008004100000022001400041245008300055210006900138260000800207300001100215490000800226520139500234653002801629653001501657653002201672653002701694653003101721100001801752700001801770700001701788700002001805700001801825700001601843700001701859856011101876       2020                        eng d  a0269-749100aCharacterisation of hyper tolerant Bacillus firmus L-148 for arsenic oxidation0 aCharacterisation of hyper tolerant Bacillus firmus L148 for arse  cJUN  a1141240 v2613 a<p>Groundwater arsenic pollution causes millions of deaths worldwide. Long term natural and anthropogenic activities have increased arsenic levels in groundwater causing higher threats of arsenic exposure. Arsenic hyper-tolerant Firmicute Bacillus firmus L-148 was isolated from arsenic limiting Lonar lake soil, which tolerated more than 3 M arsenic and could oxidize 75 mM arsenite [As(III)] in 14 days. It oxidized As(III) in presence of heavy metals and had unusual pH optima at 9.2. B. firmus L-148 was studied at the biochemical, protein, genomic and transcript level for understanding its arsenic oxidizing machinery. The proteomic and transcript analysis exhibited the presence of ars and aio operon and supported the inducible nature of ars operon. Robust, hyper-tolerant, fast As(III) oxidizing, least nutrient requiring and multi-metal resistance qualities of the strain were used in microcosm studies for bioremediation. Artificial groundwater mimicking microcosm with 75 mM As(III) was developed. Modulation of carbon source, iron and multi metals affected growth and As(III) oxidation rate. The As(III) oxidation was recorded to be 77% in 15 days in presence of sodium acetate and Fe ions. This microcosm study can be explored for bioremediation of arsenic contaminated water and followed by precipitation using other methods. (C) 2020 Elsevier Ltd. All rights reserved.</p>
10aArsenic hyper-tolerance10aLonar lake10aMicrocosm studies10aMulti-metal resistance10aNext generation sequencing1 aBagade, Aditi1 aNandre, Vinod1 aPaul, Dhiraj1 aPatil, Yugendra1 aSharma, Nisha1 aGiri, Ashok1 aKodam, Kisan  uhttps://library.ncl.res.in/content/characterisation-hyper-tolerant-bacillus-firmus-l-148-arsenic-oxidation01473nas a2200229   4500008004100000022001400041245013000055210006900185260000900254300001400263490000800277520066900285653001900954653002100973653002400994653002901018100002001047700002101067700001601088700001701104856012201121       2021                        eng d  a0011-389100aGenome wide analysis of 14-3-3 proteins in Cicer arietinum L. and identification of isoforms responsive to Fusarium oxysporum0 aGenome wide analysis of 1433 proteins in Cicer arietinum L and i  cOCT   a1039-10450 v1213 aIn the present study, we have identified and characterized two 14-3-3 isoforms, namely isoform A and C from chickpea (Cicer arietinum L.), that might play a crucial role during disease resistance. Further, in silico analysis of these 14-3-3 proteins was accomplished, including motif identification and structure prediction from deduced amino acid sequences. Expression profiling of the two representative 14-3-3 isoforms in the roots of wilt resistant and susceptible chickpea varieties upon Fusarium oxysporum f. sp ciceri race 1 (FOC1) challenge, revealed time dependent isoform specific differential expression in induced chickpea roots upon FOC1 colonization.10aBioinformatics10achickpea 14-3-3s10apathogen responsive10atranscriptional analysis1 aGurjar, Gayatri1 aNimbalkar, Suhas1 aGiri, Ashok1 aGupta, Vidya  uhttps://library.ncl.res.in/content/genome-wide-analysis-14-3-3-proteins-cicer-arietinum-l-and-identification-isoforms07622nas a2201957   4500008004100000022001400041245016800055210006900223260000800292300001100300490000800311520199500319653001102314653001202325653001302337653002102350653001402371653002102385653001502406100001902421700002102440700002302461700001902484700001902503700002002522700002402542700001902566700001802585700002002603700001502623700002702638700003402665700002102699700001702720700001702737700001902754700002402773700003002797700001902827700001802846700002102864700001402885700002502899700001702924700001702941700001202958700002002970700001902990700001703009700002103026700002603047700002603073700001903099700001803118700002403136700003003160700002703190700001703217700002703234700003503261700002503296700002403321700002303345700002803368700002703396700002703423700002103450700002903471700001903500700001603519700001703535700001803552700001603570700001803586700001703604700002003621700001903641700002403660700002103684700001903705700001803724700002203742700002203764700002403786700002603810700002203836700002403858700002803882700002103910700001803931700001703949700002603966700001603992700001704008700001904025700002204044700001804066700001604084700001904100700002704119700002704146700002404173700001704197700002104214700002304235700001804258700002504276700002804301700001904329700002204348700002204370700001604392700001804408700002004426700001704446700001904463700001504482700002704497700003004524700001604554700001204570700001804582700002804600700002204628700002104650700002704671700002004698700001804718700002104736700001804757700002004775700002004795700001704815700001904832700001604851700001904867700001604886700002004902700002204922700002104944700001804965700001904983700002105002700002005023700002005043700002105063700002005084700002205104700003105126700001905157700002705176700003505203700002605238700002405264700002405288700003205312700003905344700002305383700001805406700002405424700002505448700002005473700002305493700001805516856013005534       2022                        eng d  a0010-482500aMachine learning-based approach to determine infection status in recipients of BBV152 (Covaxin) whole-virion inactivated SARS-CoV-2 vaccine for serological surveys0 aMachine learningbased approach to determine infection status in   cJUL  a1054190 v1463 a<p>Data science has been an invaluable part of the COVID-19 pandemic response with multiple applications, ranging from tracking viral evolution to understanding the vaccine effectiveness. Asymptomatic breakthrough infections have been a major problem in assessing vaccine effectiveness in populations globally. Serological discrimination of vaccine response from infection has so far been limited to Spike protein vaccines since whole virion vaccines generate antibodies against all the viral proteins. Here, we show how a statistical and machine learning (ML) based approach can be used to discriminate between SARS-CoV-2 infection and immune response to an inactivated whole virion vaccine (BBV152, Covaxin). For this, we assessed serial data on antibodies against Spike and Nucleocapsid antigens, along with age, sex, number of doses taken, and days since last dose, for 1823 Covaxin recipients. An ensemble ML model, incorporating a consensus clustering approach alongside the support vector machine model, was built on 1063 samples where reliable qualifying data existed, and then applied to the entire dataset. Of 1448 self-reported negative subjects, our ensemble ML model classified 724 to be infected. For method validation, we determined the relative ability of a random subset of samples to neutralize Delta versus wild-type strain using a surrogate neutralization assay. We worked on the premise that antibodies generated by a whole virion vaccine would neutralize wild type more efficiently than delta strain. In 100 of 156 samples, where ML prediction differed from self-reported uninfected status, neutralization against Delta strain was more effective, indicating infection. We found 71.8% subjects predicted to be infected during the surge, which is concordant with the percentage of sequences classified as Delta (75.6%-80.2%) over the same period. Our approach will help in real-world vaccine effectiveness assessments where whole virion vaccines are commonly used.</p>
10aBBV15210aCovaxin10aCOVID-1910aEnsemble methods10aInfection10amachine learning10aSARS-CoV-21 aSingh, Prateek1 aUjjainiya, Rajat1 aPrakash, Satyartha1 aNaushin, Salwa1 aSardana, Viren1 aBhatheja, Nitin1 aSingh, Ajay, Pratap1 aBarman, Joydeb1 aKumar, Kartik1 aGayali, Saurabh1 aKhan, Raju1 aRawat, Birendra, Singh1 aTallapaka, Karthik, Bharadwaj1 aAnumalla, Mahesh1 aLahiri, Amit1 aKar, Susanta1 aBhosale, Vivek1 aSrivastava, Mrigank1 aMugale, Madhav, Nilakanth1 aPandey, C., P.1 aKhan, Shaziya1 aKatiyar, Shivani1 aRaj, Desh1 aIshteyaque, Sharmeen1 aKhanka, Sonu1 aRani, Ankita1 aPromila1 aSharma, Jyotsna1 aSeth, Anuradha1 aDutta, Mukul1 aSaurabh, Nishant1 aVeerapandian, Murugan1 aVenkatachalam, Ganesh1 aBansal, Deepak1 aGupta, Dinesh1 aHalami, Prakash, M.1 aPeddha, Muthukumar, Serva1 aVeeranna, Ravindra, P.1 aPal, Anirban1 aSingh, Ranvijay, Kumar1 aAnandasadagopan, Suresh, Kumar1 aKaruppanan, Parimala1 aRahman, Syed, Nasar1 aSelvakumar, Gopika1 aVenkatesan, Subramanian1 aKarmakar, Malay, Kumar1 aSardana, Harish, Kumar1 aKothari, Anamika1 aParihar, Devendra, Singh1 aThakur, Anupma1 aSaifi, Anas1 aGupta, Naman1 aSingh, Yogita1 aReddu, Ritu1 aGautam, Rizul1 aMishra, Anuj1 aMishra, Avinash1 aGogeri, Iranna1 aRayasam, Geethavani1 aPadwad, Yogendra1 aPatial, Vikram1 aHallan, Vipin1 aSingh, Damanpreet1 aTirpude, Narendra1 aChakrabarti, Partha1 aMaity, Sujay, Krishna1 aGanguly, Dipyaman1 aSistla, Ramakrishna1 aBalthu, Narender, Kumar1 aKumar, Kiran, A.1 aRanjith, Siva1 aKumar, Vijay1 aJamwal, Piyush, Singh1 aWali, Anshu1 aAhmed, Sajad1 aChouhan, Rekha1 aGandhi, Sumit, G.1 aSharma, Nancy1 aRai, Garima1 aIrshad, Faisal1 aJamwal, Vijay, Lakshmi1 aPaddar, Masroor, Ahmad1 aKhan, Sameer, Ullah1 aMalik, Fayaz1 aGhosh, Debashish1 aThakkar, Ghanshyam1 aBarik, S., K.1 aTripathi, Prabhanshu1 aSatija, Yatendra, Kumar1 aMohanty, Sneha1 aKhan, Md, Tauseef1 aSubudhi, Umakanta1 aSen, Pradip1 aKumar, Rashmi1 aBhardwaj, Anshu1 aGupta, Pawan1 aSharma, Deepak1 aTuli, Amit1 aChaudhuri, Saumya, Ray1 aKrishnamurthi, Srinivasan1 aPrakash, L.1 aRao, Ch1 aSingh, B., N.1 aChaurasiya, Arvindkumar1 aChaurasiya, Meera1 aBhadange, Mayuri1 aLikhitkar, Bhagyashree1 aMohite, Sharada1 aPatil, Yogita1 aKulkarni, Mahesh1 aJoshi, Rakesh1 aPandya, Vaibhav1 aMahajan, Sachin1 aPatil, Amita1 aSamson, Rachel1 aVare, Tejas1 aDharne, Mahesh1 aGiri, Ashok1 aMahajan, Sachin1 aParanjape, Shilpa1 aSastry, Narahari1 aKalita, Jatin1 aPhukan, Tridip1 aManna, Prasenjit1 aRomi, Wahengbam1 aBharali, Pankaj1 aOzah, Dibyajyoti1 aSahu, RaviKumar1 aDutta, Prachurjya1 aSingh, Moirangthem, Goutam1 aGogoi, Gayatri1 aTapadar, Yasmin, Begam1 aBabu, Elapavalooru, V. S. S. K1 aSukumaran, Rajeev, K.1 aNair, Aishwarya, R.1 aPuthiyamadam, Anoop1 aValappil, Prajeesh, Kooloth1 aPrasannakumari, Adrash, Velayudhan1 aChodankar, Kalpana1 aDamare, Samir1 aAgrawal, Ved, Varun1 aChaudhary, Kumardeep1 aAgrawal, Anurag1 aSengupta, Shantanu1 aDash, Debasis  uhttps://library.ncl.res.in/content/machine-learning-based-approach-determine-infection-status-recipients-bbv152-covaxin-whole02574nas a2200337   4500008004100000022001400041245017400055210006900229260000800298300001100306490000800317520145400325653002101779653001301800653002701813653001801840653002301858100001801881700001601899700002201915700001901937700001901956700002001975700001901995700002602014700002402040700001602064700001602080700001702096856012302113       2022                        eng d  a0925-521400aTranscriptional and translational perturbation in abiotic stress induced physiological activities and metabolic pathway networks in spongy tissue disorder of mango fruit0 aTranscriptional and translational perturbation in abiotic stress  cJUN  a1118800 v1883 a<p>
	Spongy tissue formation is economically the most detrimental but agriculturally less focused physiological disorder in mango. `Alphonso' cultivar is highly prone to oxidative stress induced spongy tissue disorder impacting biochemical and metabolic profile, thereby affecting pulp quality and nutritional value of the fruit. In the present study, comparative analysis of spongy and healthy mesocarp tissues of `Alphonso' mango by transcriptomics using Illumina sequencing and proteomics using LC-MS approaches, respectively identified and quantified many genes and proteins in the metabolic pathways responsible for the spongy tissue development. The table green and the mid ripe stages of `Alphonso' fruit ripening were evaluated by the transcriptomic study and outcomes were validated using proteomic investigations for all the four ripening stages. Colossal amount of data including 30,582 transcripts, 10,800 gene ontologies and 387 putative proteins was generated from this analysis. Current multi-omics exploration revealed the development of abiotic stress (mainly oxidative stress) induced perturbations in various metabolic pathways and their interconnections, leading to the spongy tissue formation in mango. This further unfolded the altered cell wall degradation, ethylene and flavonoid biosynthesis, fruit ripening and flavor formation, thus hampering the fruit specific characteristics in mango with spongy tissue disorder.</p>
10aOxidative stress10aProteome10aspongy tissue disorder10aTranscriptome10a` Alphonso ` mango1 aOak, Pranjali1 aJha, Vineet1 aDeshpande, Ashish1 aTanpure, Rahul1 aDawkar, Vishal1 aMundhe, Swapnil1 aGhuge, Sandeep1 aPrabhudesai, Shrikant1 aKrishanpal, Anamika1 aJere, Abhay1 aGiri, Ashok1 aGupta, Vidya  uhttps://library.ncl.res.in/content/transcriptional-and-translational-perturbation-abiotic-stress-induced-physiological02575nas a2200325   4500008004100000245017700041210006900218260000800287300000800295490000700303520150700310653001401817653001301831653001601844653001501860653001501875653001501890100001901905700002401924700002201948700001701970700002301987700001802010700001802028700001602046700002102062700001802083700002202101856012602123       2023                        eng d00aComprehensive molecular and clinical investigation of approved Anti-HCV drugs repurposing against SARS-CoV-2 infection: a glaring gap between benchside and bedside medicine0 aComprehensive molecular and clinical investigation of approved A  cMAR  a5150 v113 a<p>
	The limited availability of effective treatment against SARS-CoV-2 infection is a major challenge in managing COVID-19. This scenario has augmented the need for repurposing anti-virals for COVID-19 mitigation. In this report, the anti-SARS-CoV-2 potential of anti-HCV drugs such as daclatasvir (DCV) or ledipasvir (LDP) in combination with sofosbuvir (SOF) was evaluated. The binding mode and higher affinity of these molecules with RNA-dependent-RNA-polymerase of SARS-CoV-2 were apparent by computational analysis. In vitro anti-SARS-CoV-2 activity depicted that SOF/DCV and SOF/LDP combination has IC50 of 1.8 and 2.0 mu M, respectively, comparable to remdesivir, an approved drug for COVID-19. Furthermore, the clinical trial was conducted in 183 mild COVID-19 patients for 14 days to check the efficacy and safety of SOF/DCV and SOF/LDP compared to standard of care (SOC) in a parallel-group, hybrid, individually randomized, controlled clinical study. The primary outcomes of the study suggested no significant difference in negativity after 3, 7 and 14 days in both treatments. None of the patients displayed any worsening in the disease severity, and no mortality was observed in the study. Although, the post hoc exploratory analysis indicated significant normalization of the pulse rate showed in SOF/DCV and SOF/LDP treatment vs. SOC. The current study highlights the limitations of bench side models in predicting the clinical efficacy of drugs that are planned for repurposing.</p>
10aantiviral10aCOVID-1910adaclatasvir10aledipasvir10aSARS-CoV-210asofosbuvir1 aBansode, Sneha1 aSingh, Pawan, Kumar1 aTellis, Meenakshi1 aChugh, Anita1 aDeshmukh, Narendra1 aGupta, Mahesh1 aVerma, Savita1 aGiri, Ashok1 aKulkarni, Mahesh1 aJoshi, Rakesh1 aChaudhary, Dhruva  uhttps://library.ncl.res.in/content/comprehensive-molecular-and-clinical-investigation-approved-anti-hcv-drugs-repurposing02606nas a2200265   4500008004100000022001400041245009700055210006900152260000800221300001100229490000800240520174200248653001601990653001202006653001402018653002002032653005502052100001602107700001802123700001702141700002102158700002102179700001602200856012402216       2026                        eng d  a0981-942800aPhenylpropanoid-specific glycosyltransferases from mango and their potential role in defense0 aPhenylpropanoidspecific glycosyltransferases from mango and thei  cMAR  a1111370 v2323 a<p>
	Alphonso mango (Mangifera indica cv. Alphonso) is a cornerstone of India's fruit industry due to its distinct aroma and shelf-life characteristics. The uridine diphosphate-dependent glycosyltransferases (UGTs) play a crucial role in stabilising aroma and defense-related specialised metabolites in fruits. The present study explores the potential role of UGTs during mango ripening and Colletotrichum gloeosporioides infection. Gene expression analysis indicated that UGTs showed dynamic expression in skin and pulp during ripening. Phylogenetic analysis revealed substrate-driven divergence of UGTs, with MiUGT92A14 and MiUGT95B15 forming distinct clades associated with flavonoid glycosylation. Recombinant UGTs showed a higher preference for UDP-glucose, which is corroborated by the high accumulation of UDP-glucose during ripening. Furthermore, it was observed that MiUGT92A14 prefers phenolic acids as substrates, while MiGT95B15 shows flavonoid specificity. Spore germination assays demonstrated that both aglycones and their glycosylated derivatives suppressed early fungal morphogenesis, supporting a role for UGT-mediated glycosylation in maintaining defense-related metabolites in a bioactive yet non-toxic form during fruit ripening. Additionally, Colletotrichum gloeosporioides inhibition assays demonstrated that glycosylated products of selected UGTs exhibited equal or enhanced antifungal activity compared with their aglycone forms, indicating that glycosylation promotes the safe accumulation of antifungal compounds by reducing aglycone toxicity to the plant. These findings suggest that glycosylation of specific metabolites is a key for ripening process and to potentiate defence against fungal pathogen.</p>
10aAnthracnose10adefense10aFlavonoid10aGlycoconjugates10aUridine diphosphate-dependent glycosyl-transferase1 aVare, Tejas1 aJoshi, Rakesh1 aLiao, Jieren1 aHoffmann, Thomas1 aSchwab, Wilfried1 aGiri, Ashok  uhttps://library.ncl.res.in/content/phenylpropanoid-specific-glycosyltransferases-mango-and-their-potential-role-defense