| 91 |
IPD8171 |
Organ wise proteomic profiling of Indian major carp, Labeo rohita |
Dr Sanjeeva Srivastava |
The aim of this study was to develop an organ wise proteome map for Labeo rohita. Using LC-MS/MS, we have performed in-depth proteomics analysis of 19 different sample types, including 17 tissue samples, plasma from female fish and embryo 4-day post fertilization. Whole analysis resulted in the identification of more...
The aim of this study was to develop an organ wise proteome map for Labeo rohita. Using LC-MS/MS, we have performed in-depth proteomics analysis of 19 different sample types, including 17 tissue samples, plasma from female fish and embryo 4-day post fertilization. Whole analysis resulted in the identification of more than more than 8000 proteins with 1% FDR of which more than 76% were identified with two or more than two unique peptides. The dataset show organ wise pattern of protein expression along with extensive catalogue of orgsn wise Post translational modification. This proteomic information would complement the recently published genome to accelerate further research.
Read more
...Read less
|
Proteomics lab, Department of Biosciences and Bioengineering, Indian Institute of Technology Bombay |
Shotgun proteomics, Gel-based experiment |
2025-03-09 |
34962809
|
| 92 |
IPD4061 |
Mass-spectrometry based plasma proteomics identifies biomarkers for the detection of COVID-19 progression |
Dr Sanjeeva Srivastava |
COVID-19 manifests itself in an array of symptoms. While most patients experience very mild-to-moderate symptoms, around one in five patients develop pneumonia coupled with severe respiratory distress. These patients require treatment in the intensive care units (ICU), however, most of the times, it leads to multi-organ dysfunction and death. ...
COVID-19 manifests itself in an array of symptoms. While most patients experience very mild-to-moderate symptoms, around one in five patients develop pneumonia coupled with severe respiratory distress. These patients require treatment in the intensive care units (ICU), however, most of the times, it leads to multi-organ dysfunction and death. Mass spectrometry based proteomics can help us to identify the precise pathophysiological pathways that get perturbed during the course of the disease. Our study involved a comprehensive proteome-wide investigation of COVID negative (n=20), non-severe (n= 18) and severe (n= 36) COVID-19 patients plasma samples. We categorized patients into severe and non-severe groups and conducted LFQ based discovery proteomics for unraveling differentially expressed proteins followed by pathway enrichment studies and validation of targets by targeted studies on a batch of longitudinal samples.
Read more
...Read less
|
Proteomics lab, Department of Biosciences and Bioengineering, Indian Institute of Technology Bombay |
Shotgun proteomics |
2025-03-09 |
|
| 93 |
IPD6020 |
Proteomic analysis of gut tissue of Labeo rohita infected with Aeromonas hydrophila |
Dr Sanjeeva Srivastava |
This study aimed at performing the quantitative proteomics analysis of gut tissue, one of Labeo rohita, one of the important aquaculture fish species. Data was acquired using high resolution mass spectrometry followed by Label free quantification. After performing statistical analysis, a panel of differentially expressed proteins were identified which include...
This study aimed at performing the quantitative proteomics analysis of gut tissue, one of Labeo rohita, one of the important aquaculture fish species. Data was acquired using high resolution mass spectrometry followed by Label free quantification. After performing statistical analysis, a panel of differentially expressed proteins were identified which include extracellular matrix proteins, cytoskeletal proteins, immune related proteins and metabolic enzymes. This analysis revealed important signaling pathways and protein-protein interaction networks which could help in understanding disease pathogenesis. The data acquired in the study would provide a basis for further omics research and can help in elucidating biological processes in healthy or diseased fish.
Read more
...Read less
|
Proteomics lab, Department of Biosciences and Bioengineering, Indian Institute of Technology Bombay |
Shotgun proteomics |
2025-03-09 |
39292008
|
| 94 |
IPD3211 |
A Data-Independent-Acquisition-based proteomic approach towards understanding the acclimation strategy of Microchloropsis gaditana CCMP526 in hypersaline conditions |
Dr Sanjeeva Srivastava |
Salinity is one of the significant factors that affect growth and cellular metabolism, including photosynthesis and lipid accumulation, in microalgae and higher plants. Microchloropsis gaditana CCMP526 can acclimatize to different salinity levels by accumulating compatible solutes, carbohydrates, and lipid as an energy storage molecule. We used proteomics to...
Salinity is one of the significant factors that affect growth and cellular metabolism, including photosynthesis and lipid accumulation, in microalgae and higher plants. Microchloropsis gaditana CCMP526 can acclimatize to different salinity levels by accumulating compatible solutes, carbohydrates, and lipid as an energy storage molecule. We used proteomics to understand the molecular basis for acclimation of M. gaditana to increased salinity levels (55 and 100 PSU). Correspondence analysis (CA) was used for identification of salinity-responsive proteins (SRPs). The highest number of altered proteins was observed in 100 PSU. Gene Ontology (GO) enrichment analysis revealed a separate path of acclimation for cells exposed to 55 and 100 PSU. Osmolyte and lipid biosynthesis was up-regulated in high saline conditions. However, concomitantly lipid oxidation pathways were also up-regulated at high saline conditions, providing acetyl-CoA for energy metabolism through the TCA cycle. Carbon fixation and photosynthesis were tightly regulated, while chlorophyll biosynthesis was affected under high salinity conditions. Importantly, temporal proteome analysis of salinity-challenged M. gaditana revealed vital salinity-responsive proteins which could be used for strain engineering for improved salinity resistance.
Read more
...Read less
|
Proteomics lab, Department of Biosciences and Bioengineering, Indian Institute of Technology Bombay |
SWATH MS |
2025-03-09 |
34497906
|
| 95 |
IPD3725 |
A Data-Independent-Acquisition-based proteomic approach towards understanding the acclimation strategy of Microchloropsis gaditana CCMP526 in hypersaline conditions |
Dr Sanjeeva Srivastava |
Salinity is one of the significant factors that affect growth and cellular metabolism, including photosynthesis and lipid accumulation, in microalgae and higher plants. Microchloropsis gaditana CCMP526 can acclimatize to different salinity levels by accumulating compatible solutes, carbohydrates, and lipid as an energy storage molecule. We used proteomics to...
Salinity is one of the significant factors that affect growth and cellular metabolism, including photosynthesis and lipid accumulation, in microalgae and higher plants. Microchloropsis gaditana CCMP526 can acclimatize to different salinity levels by accumulating compatible solutes, carbohydrates, and lipid as an energy storage molecule. We used proteomics to understand the molecular basis for acclimation of M. gaditana to increased salinity levels (55 and 100 PSU). Correspondence analysis (CA) was used for identification of salinity-responsive proteins (SRPs). The highest number of altered proteins was observed in 100 PSU. Gene Ontology (GO) enrichment analysis revealed a separate path of acclimation for cells exposed to 55 and 100 PSU. Osmolyte and lipid biosynthesis was up-regulated in high saline conditions. However, concomitantly lipid oxidation pathways were also up-regulated at high saline conditions, providing acetyl-CoA for energy metabolism through the TCA cycle. Carbon fixation and photosynthesis were tightly regulated, while chlorophyll biosynthesis was affected under high salinity conditions. Importantly, temporal proteome analysis of salinity-challenged M. gaditana revealed vital salinity-responsive proteins which could be used for strain engineering for improved salinity resistance.
Read more
...Read less
|
Proteomics lab, Department of Biosciences and Bioengineering, Indian Institute of Technology Bombay |
Shotgun proteomics |
2025-03-09 |
8412934
|
| 96 |
IPD1063 |
Identifying alterations post ILK inhibition in Meningioma cell lines |
Dr Sanjeeva Srivastava |
The current study reports alterations in PI3-Akt and Focal adhesion pathway post ILK inhibition in meningioma cell lines. The inhibition is done using a pyrazole that specifically inhibits Integrin Link Kinase. The global proteomic profile was analysed post treatment (24 hours) in treated vs untreated cell line replicates.
|
Proteomics lab, Department of Biosciences and Bioengineering, Indian Institute of Technology Bombay |
Shotgun proteomics |
2025-03-09 |
32974197
|
| 97 |
IPD5439 |
An integrated proteo-transcriptomics approach reveals novel drug targets against multidrug resistant Escherichia coli |
Manish Kumar |
Infections due to multidrug-resistant (MDR) Escherichia coli are associated with severe morbidity and mortality, worldwide. Microbial drug resistance is a complex phenomenon which is conditioned by an interplay of several genomic, transcriptomic and proteomic factors. Here, we have conducted an integrated transcriptomics and proteomics analysis of MDR E. coli to...
Infections due to multidrug-resistant (MDR) Escherichia coli are associated with severe morbidity and mortality, worldwide. Microbial drug resistance is a complex phenomenon which is conditioned by an interplay of several genomic, transcriptomic and proteomic factors. Here, we have conducted an integrated transcriptomics and proteomics analysis of MDR E. coli to identify genes which are differentially expressed at both mRNA and protein levels. Using RNA-Seq and SWATH-LC MS/MS it was discerned that 763 genes/proteins exhibited differential expression. Of these, 52 genes showed concordance in differential expression at both mRNA and protein levels with 41 genes exhibiting overexpression and 11 genes exhibiting under expression. Bioinformatic analysis using GO-terms, COG and KEGG functional annotations revealed that the concordantly overexpressed genes of MDR E. coli were involved primarily in biosynthesis of secondary metabolites, aminoacyl-tRNAs and ribosomes. Protein–protein interaction (PPI) network analysis of the concordantly overexpressed genes revealed 81 PPI networks and 10 hub proteins. The hub proteins (rpsI, aspS, valS, lysS, accC, topA, rpmG, rpsR, lysU, and spmB) were found to be involved in aminoacylation of tRNA and lysyl-tRNA and, translation. Further, it was discerned that three hub proteins - smpB, rpsR, and topA were non homologous to human proteins and were involved in several biological pathways directly and/or indirectly related to antibiotic stress. Also, absence of homology ensures a little cross-reactivity of their inhibitors/drugs with human proteins and undesirable side effects. Thus, these proteins might be explored as novel drug targets against both drug-resistant and -sensitive populations of E. coli.
Read more
...Read less
|
University of Delhi, New Delhi, Delhi, India |
Bottom-up |
2025-03-12 |
11893563
|
| 98 |
IPD2711 |
Hiss of death - Biogeographical venom variation in the Indian spectacled cobra (Naja naja) underscores the pressing need for pan-India efficacious snakebite therapy |
Dr. Kartik Sunagar |
The project aims at investigating the snake venom variability of Naja naja populations from six different biogeographic zones across India
|
Evolutionary Venomics Lab, Center for Ecological Sciences, Indian Institute of Science, Bangalore, India |
Shotgun proteomics |
2025-03-29 |
|
| 99 |
IPD9759 |
From birth to bite: the evolutionary ecology of India's medically most important snake venoms |
Dr. Kartik Sunagar |
Venoms of N. naja and D. russelii individuals of various developmental stages, including neonates (<30 days), juveniles (between 1 to 12 months), and mature individuals (>36 months), were sampled with permission from the state forest department of Karnataka. 226 individuals and 9 clutches were examined, including periodic venom collection (every...
Venoms of N. naja and D. russelii individuals of various developmental stages, including neonates (<30 days), juveniles (between 1 to 12 months), and mature individuals (>36 months), were sampled with permission from the state forest department of Karnataka. 226 individuals and 9 clutches were examined, including periodic venom collection (every three months) from the same N. naja and D. russelii juvenile individuals to track ontogenetic changes across time. Freshly collected venoms were flash-frozen in liquid nitrogen, lyophilised and stored at -80° C. Venoms were fractionated using RP-HPLC and SDS-PAGE and subjected to tandem mass spectrometry for toxin identification. The relative abundance of each toxin family were estimated and compared across different developmental stages.
Read more
...Read less
|
Evolutionary Venomics Lab, Center for Ecological Sciences, Indian Institute of Science, Bangalore, India |
Bottom-up |
2025-03-29 |
39075553
|
| 100 |
IPD6520 |
Elusive elapid: Biogeographic venom variation in Indian kraits and its repercussion on snakebite therapy |
Dr. Kartik Sunagar |
Snakebite is a major public health concern in many parts of the world, including India, where over 58,000 deaths occur annually due to this highly neglected tropical disease. The common krait (Bungarus caeruleus), one of the ‘big four’ Indian snakes, is responsible for the second-highest number of snakebite-related deaths in...
Snakebite is a major public health concern in many parts of the world, including India, where over 58,000 deaths occur annually due to this highly neglected tropical disease. The common krait (Bungarus caeruleus), one of the ‘big four’ Indian snakes, is responsible for the second-highest number of snakebite-related deaths in the country. The venom protein composition of common krait venoms from different locations were investigated. Venoms were pre-fractionated using RP-HPLC and SDS-PAGE, and subjected to mass spectromentry analysis. The relative abundance of each toxin family was estimated and compared across different locations.
Read more
...Read less
|
Evolutionary Venomics Lab, Center for Ecological Sciences, Indian Institute of Science, Bangalore, India |
Bottom-up |
2025-03-29 |
|
