| 31 |
IPD5599 |
Detection of mutated peptides of SARS-CoV-2 from COVID-19-infected patients |
Dr Sanjeeva Srivastava |
This project involves the identification of mutated peptides from swab and plasma samples using an in-house developed Mutant Peptide Database (MPD)
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Indian Institute of Technology Bombay, Maharashtra, India |
Shotgun proteomics |
2024-10-18 |
37093804
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| 32 |
IPD6660 |
Elevated carbon dioxide levels lead to proteome-wide alterations for optimal growth of a fast-growing cyanobacterium, Synechococcus elongatus PCC 11801 |
Dr Prof. Sanjeeva Srivastava |
Biological CO2 mitigation by photosynthetic microorganisms has emerged as a promising approach for generating biomass-based energy during the course of CO2 fixation. Additionally, cyanobacteria-based biofuels have also garnered immense attention lately because of the depleting fossil fuel reserves and the growing energy demands. Synechococcus elongatus PCC 11801, a fast-growing, high...
Biological CO2 mitigation by photosynthetic microorganisms has emerged as a promising approach for generating biomass-based energy during the course of CO2 fixation. Additionally, cyanobacteria-based biofuels have also garnered immense attention lately because of the depleting fossil fuel reserves and the growing energy demands. Synechococcus elongatus PCC 11801, a fast-growing, high CO2 tolerant, novel isolate of cyanobacteria, is an interesting candidate for metabolic engineering applications. Since under laboratory conditions, it exhibited a high level of tolerance to different environmental stresses (CO2, light, temperature, salts and butanol), it seemed like an encouraging prospect for the production of fuels and other industrially relevant chemicals. This is the first-ever functional global proteomics investigation of Synechococcus elongatus PCC 11801 isolate grown at elevated CO2 levels using high-throughput iTRAQ approach. Three independent biological replicates were analyzed and a total of 861 proteins were identified, out of which 492 proteins were found to be present in all the three replicates. Of these, 248 proteins showing the same trend across the three replicates (≥1.5 fold up-regulation or ≤0.66 fold down-regulation) were chosen for pathway analysis. The metabolic responses were marked with a down-regulation of inorganic carbon transporters alongside an induction of nitrogen transport and absorption proteins in order to uphold the apposite carbon-nitrogen equilibrium. Further acclimation progression exposed an increased expression of proteins taking part in photosynthesis and generation of light harvesting pigments such as chlorophyll. Similarly, a downshift of proteins involved in photoprotection and defense against ROS (reactive oxygen species) was observed. Another principal discovery was the perturbation in expression of proteins belonging to central metabolic pathways like glycolysis, TCA cycle, pentose phosphate pathway as a coping mechanism to high CO2 stress. Further, validation studies were carried out using MRM assays and western blotting of key altered proteins.
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Indian Institute of Technology Bombay, Maharashtra, India |
Shotgun proteomics |
2024-10-18 |
31000743
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| 33 |
IPD8953 |
Proteomic Investigation Reveals Dominant Alterations of Neutrophil Degranulation and mRNA Translation Pathways in COVID-19 Patients |
Dr. Sanjeeva Srivastava |
With the increasing cases of SARS-CoV2 mediated COVID-19, which has taken the form of a savagely spreading pandemic, quick and effective detection and diagnosis is the need of the hour. While clinical testing is aimed at identifying the positive vs. negative cases, there are also enormous challenges that have emerged...
With the increasing cases of SARS-CoV2 mediated COVID-19, which has taken the form of a savagely spreading pandemic, quick and effective detection and diagnosis is the need of the hour. While clinical testing is aimed at identifying the positive vs. negative cases, there are also enormous challenges that have emerged with the diagnosis of asymptomatic patients. We have here enumerated identification and detection of SARS-CoV-2 viral peptides and proteins using high throughput mass spectrometry from nasopharyngeal swabs, which can be used for measuring peptides from SARS-CoV-2. This study is aimed at constructing a detection kit and assay via which a simplified sample collection and testing can be performed using swab put in the tubes containing organic solvents (ethanol, acetone or isopropanol), that can then be sent for testing in laboratory using mass spectrometry. This would simplify the detection and increase the robustness of test. Further, the invention has scope for identifying the asymptomatic population using the enumerated proteomics procedure.
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Indian Institute of Technology Bombay, Maharashtra, India |
Shotgun proteomics |
2024-10-18 |
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| 34 |
IPD3877 |
Mass Spectrometry analysis of human matched Anterior and Posterior lobes of Pituitary |
Prof. Sanjeeva Srivastava |
This study provides a comprehensive proteomic analysis of five matched pairs of the anterior and posterior lobe of the pituitary, which was used to study the proteomic signature specific to both anterior and posterior lobes. Anterior Lobe n=5 Posterior Lobe n=5 A441 PT441 A442 PT442 A457 PT457 A459 PT459 A460...
This study provides a comprehensive proteomic analysis of five matched pairs of the anterior and posterior lobe of the pituitary, which was used to study the proteomic signature specific to both anterior and posterior lobes. Anterior Lobe n=5 Posterior Lobe n=5 A441 PT441 A442 PT442 A457 PT457 A459 PT459 A460 PT460
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Indian Institute of Technology Bombay, Maharashtra, India |
Shotgun proteomics |
2024-10-19 |
36470533
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| 35 |
IPD3886 |
Mining the meningioma lanscape to identify biomarkers using LFQ |
Dr SANJEEVA SRIVASTAVA |
The project involved use of surgically resected meningioma tumor tissue and non tumor controls for performing global proteomic analysis on individual patient samples. The data generated was analysed using WHO grades and other radiological parameters inorder to identify markers that can aid in better patient prognostication.
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Indian Institute of Technology Bombay, Maharashtra, India |
Shutgun proteomics |
2024-10-19 |
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| 36 |
IPD8252 |
An Integrated Quantitative Proteomics Workflow for Biomarker Discovery and Validation in Plasma |
Prof. Sanjeeva Srivastava |
Blood plasma is one of the most widely used samples for biomarker discovery research as well as clinical investigations for diagnostic and therapeutic purposes. However, the plasma proteome is extremely complex due to its wide dynamic range of protein concentrations and the presence of high-abundance proteins. Here we are describing...
Blood plasma is one of the most widely used samples for biomarker discovery research as well as clinical investigations for diagnostic and therapeutic purposes. However, the plasma proteome is extremely complex due to its wide dynamic range of protein concentrations and the presence of high-abundance proteins. Here we are describing an optimized integrated quantitative proteomics pipeline combining the label-free and multiplexed-labeling-based (Isobaric tags for relative and absolute quantitation) proteome profiling methods for biomarker discovery, followed by the targeted approaches for validation of the identified potential marker proteins. In this workflow, the targeted quantitation of proteins is carried out by multiple-reaction monitoring (MRM) and parallel-reaction monitoring (PRM) mass spectrometry. Thus, our approach enables both unbiased screenings of biomarkers and their subsequent selective validation in human plasma. The overall procedure takes only 1–2 days to complete including the time for data acquisition (excluding database searching). This protocol is quick, flexible and eliminates the need for a separate immunoassay-based validation workflow in blood biomarker investigations.
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Indian Institute of Technology Bombay, Maharashtra, India |
Shotgun proteomics |
2024-10-19 |
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| 37 |
IPD9154 |
Cerulenin action on colon cancer cell line |
Dr. Sanjeeva Srivastava |
Showing the anti cancer activity of Cerulenin on colon cancer cell lines. The study shows the mechanismm of apoptosis induction as a result of cerulenin treatment to colon cancer cell lines.
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Indian Institute of Technology Bombay, Maharashtra, India |
Shotgun proteomics |
2024-10-19 |
36731020
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| 38 |
IPD9499 |
Human Brain Proteomics uncovers the Inter-hemispheric laterality & Inter-regional proteomic signature |
Dr Sanjeeva Srivastava |
This study provides a comprehensive proteomic analysis of 19 different neuroanatomical regions of human brain from both left and right hemisphere. This study has also investigated the proteomic signature in regards to the brain hemisphere.
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Indian Institute of Technology Bombay, Maharashtra, India |
Shotgun proteomics |
2024-10-19 |
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| 39 |
IPD1305 |
Next-generation diagnostic biomarkers for vivax malaria |
Dr Sanjeeva Srivastava |
The global impact of Plasmodium vivax has been largely underestimated for several decades due to lower mortality rates compared to P. falciparum. However, in recent times, the parasite has become a serious threat to public health due to its ability to cause severe malaria with fatal outcomes. Its unique biology...
The global impact of Plasmodium vivax has been largely underestimated for several decades due to lower mortality rates compared to P. falciparum. However, in recent times, the parasite has become a serious threat to public health due to its ability to cause severe malaria with fatal outcomes. Its unique biology makes it resilient to control measures and poses a challenge to available diagnostic methods. Diagnosis by RDTs is further restricted due to inadequate P. vivax specific antigens for species identification. Therefore, there is an urgent need to develop tests that employ antigens unique to the parasite. This study represents the first in-depth proteomics analysis of human plasma and parasite isolates to identify P. vivax protein biomarkers that can be tested for use in RDTs while developing diagnostics for malaria. Here we report 39 P. vivax proteins in human plasma and 103 highly expressed P. vivax proteins from parasite isolates with high confidence. Interestingly, five proteins, found to be unique to P. vivax were detected in both sources, representing the best candidates for evaluation as diagnostic markers. Moreover, targeted proteomics assays were used to validate some of these proteins. This study represents the first step in the development of new diagnostic assays for P. vivax malaria.
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Indian Institute of Technology Bombay, Maharashtra, India |
SRM/MRM, Shotgun proteomics |
2024-10-23 |
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| 40 |
IPD3931 |
Mining Meningioma Proteomics Alterations Using IP MS |
Dr Sanjeeva Srivastava |
Herein we have used IP-MS based approach to identify potential interactors (PPI) that bind to Annexin A2. We have used Immunoaffinity based enrichment using antibody specific to ANXA2 followed by LC MS-MS of the Complex post running it in SDS-PAGE
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Indian Institute of Technology Bombay, Maharashtra, India |
Gel-based experiment |
2024-10-23 |
32974197
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