| 131 |
IPD1819 |
Proteomic analysis of somatic embryo development in Musa spp. cv. Grand Naine (AAA) |
Dr. Uma Subbaraya |
Somatic embryos are very much similar to zygotic counterparts in many morphological aspects and the somatic embryos are derived from somatic cells by undergoing various metabolic regulations. The somatic embryos have been used in artificial seed technology, genetic engineering and germplasm conservation. Though somatic embryo development is an important topic...
Somatic embryos are very much similar to zygotic counterparts in many morphological aspects and the somatic embryos are derived from somatic cells by undergoing various metabolic regulations. The somatic embryos have been used in artificial seed technology, genetic engineering and germplasm conservation. Though somatic embryo development is an important topic in growth and developmental studies, the molecular mechanism underlying the developmental process remains unclear. Therefore, understanding the molecular basis behind somatic embryo development can provide insight on the signaling pathways integrating this process. Proteomic analysis of somatic embryo development in cv. Grand Naine (AAA) was carried out to identify the differentially accumulated protein using two dimensional gel electrophoresis coupled with mass spectrometry. In total, 25 protein spots were differentially accumulated in different developmental stages of somatic embryos. Among them, three proteins were uniquely present in 30 days globular stage somatic embryos and six proteins were uniquely present in 60 days matured somatic embryo. Functional annotation of identified spots showed that major proteins are involved in growth and developmental process (17 %) followed by defense response (12%) and signal transportation events (12 %). In early stage, cell division and growth related proteins were involved in the induction of somatic embryos whereas in late developmental stage, cell wall modification proteins along with stress related proteins like played a defense role against dehydration and osmotic stress and resulted in maturation of somatic embryo. Alongside some identified stage specific proteins are valuable indicators and have been used as genetic markers.
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National Research Centre for Banana, Trichy, Tamil Nadu, India |
Gel-based experiment |
2025-12-26 |
32161309
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| 132 |
IPD5253 |
Molecular analysis of somatic embryogenesis through proteomic approach and optimization of protocol in recalcitrant Musa spp. |
Dr. Uma Subbaraya |
Somatic embryogenesis (SE) is a complex stress related process regulated by numerous biological factors. SE is mainly applicable to mass propagation and genetic improvement of plants through gene transfer technology and mutation breeding. In banana, SE is highly genome dependent as the efficiency varies with cultivars. To understand molecular mechanism...
Somatic embryogenesis (SE) is a complex stress related process regulated by numerous biological factors. SE is mainly applicable to mass propagation and genetic improvement of plants through gene transfer technology and mutation breeding. In banana, SE is highly genome dependent as the efficiency varies with cultivars. To understand molecular mechanism of SE, proteomics approach was carried out to identify genes responsible for embryogenic calli (EC) induction, regeneration and germination of somatic embryos (se) in cv. Rasthali (AAB). In total, 70 spots were differentially expressed in various developmental stages of SE. Of which, 16 were uniquely expressed and 17 were highly abundant in EC than nonembryogenic calli and explant and four spots were also uniquely expressed in germinating se. Functional annotation of identified proteins revealed that calcium signaling along with stress and endogenous hormones related proteins played a vital role in EC induction and germination of se. Thus based on the outcome, callus induction media was modified and tested in five cultivars. In cv. Grand Naine (AAA), increased concentration of 3- IAA and tryptophan recorded highest EC induction of 24.28% while Red Banana with similar genome showed 18.96% in kinetin supplemented media. Similarly, in cultivars Monthan and Karpuravalli with ABB genome showed maximum EC induction in tryptophan supplemented media (8.54%) and CaCl2 enriched media (17.34%) respectively. In cv. Neypoovan (AB), higher concentration of tryptophan induced more EC. These results illustrated that EC formation is genome as well as cultivar dependent. Simultaneously, germination media was modified to induce proteins responsible for germination. In cv. Rasthali, media supplemented with 10 mM CaCl2 showed maximum increase in germination (51.79%) over control. Thus present study revealed that media modification based on proteomic studies can induce SE in recalcitrant cultivars and also enhance germination in cultivars amenable for SE.
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National Research Centre for Banana, Trichy, Tamil Nadu, India |
Gel-based experiment |
2025-12-26 |
30883793
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| 133 |
IPD9067 |
Identification of the host proteins binding to the CHIKV genomic RNA |
Prof. Sudhanshu Vrati |
RNA-binding proteins (RBPs) play a crucial role in RNA regulation. The RBPs are involved in a variety of functions, including viral RNA stabilisation, translation regulation, and controlling the synthesis of the complementary replication intermediate RNA. In several alphaviruses, Sindbis virus, Ross River virus, and Chikungunya virus (CHIKV), host RBPs are...
RNA-binding proteins (RBPs) play a crucial role in RNA regulation. The RBPs are involved in a variety of functions, including viral RNA stabilisation, translation regulation, and controlling the synthesis of the complementary replication intermediate RNA. In several alphaviruses, Sindbis virus, Ross River virus, and Chikungunya virus (CHIKV), host RBPs are the key replication regulators, thereby controlling the viral life cycle.
Though the coding region of alphaviruses exhibits sequence diversity, their non-coding regions are highly conserved at both sequence and structural levels. This conservation suggests that these sequences are crucial for the virus replication. Also, numerous reports have demonstrated that various RBPs bind to the conserved non-coding regions (NCRs) of the viral genome, thereby modulating its replication.
We, therefore, hypothesised that host RBPs binding to the conserved sequences within the NCRs of CHIKV may have a role in the viral replication. To validate the hypothesis, we used an RNA pull-down-based approach to identify the host proteins binding to the conserved RNAs specifically. To this end, biotinylated RNA, representing the conserved NCR sequence, was used as a bait to pull down the RBPs from the host cell lysates. The bound proteins were then eluted and analysed by mass spectrometry.
The identified RBPs were potential regulators of viral genome replication, providing insights into the host-virus interactions. Overall, this study aims to identify the host RBPs interacting with the CHIKV genome and understand their role in CHIKV replication.
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DBT-Regional Centre for Biotechnology, Haryana, Faridabad, India |
Bottom-up |
2026-01-14 |
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| 134 |
IPD7164 |
Delineating the role of human β-microseminoprotein in male reproduction |
Dr. Dhanashree Jagtap |
Background: Beta-microseminoprotein (MSMB, β-MSP) is a non-glycosylated, cysteine
rich protein secreted by the epithelial cells of the prostate. β-MSP is found in abundance in
human seminal plasma and is also present on the spermatozoa. It is introduced into the semen during ejaculation and found to be absent in post-capacitated spermatozoa. Its abundance...
Background: Beta-microseminoprotein (MSMB, β-MSP) is a non-glycosylated, cysteine
rich protein secreted by the epithelial cells of the prostate. β-MSP is found in abundance in
human seminal plasma and is also present on the spermatozoa. It is introduced into the semen during ejaculation and found to be absent in post-capacitated spermatozoa. Its abundance in semen along with the fact that it is present on the pre-capacitated spermatozoa suggests that it may have a function which has not yet been elucidated.
b) Novelty: Many functions have been attributed to β-MSP but its exact role in human
reproduction is unclear. The difference between β-MSP levels of fertile and infertile
individuals will be delineated. Identification and characterization of novel binding partners of
β-MSP on spermatozoa of fertile versus infertile men will be accomplished. The mechanism
by which β-MSP exerts its action will be elucidated. Sperm capacitation which is essential for successful fertilization is associated with modification of protein composition of spermatozoa. The mechanism by which β-MSP is lost during this process will be deciphered.
c) Objectives: To investigate the difference in β-MSP levels and identify its novel binding
partners in fertile.
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ICMR-National Institute for Research in Reproductive and Child Health, Mumbai, Maharashtra, India |
Bottom-up |
2026-02-21 |
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| 135 |
IPD6181 |
Delineating pathogenesis of obese and lean PCOS phenotype using integrated transcriptomics and proteomics approach |
Dr. Pallavi Shukla |
This study explores the metabolic and hormonal impact of polycystic ovary syndrome
(PCOS) in women aged 18-39, incorporating plasma protein analysis to deepen
understanding of its biological mechanisms. Patients were recruited from the PCOS Clinic at
the National Institute for Research in Reproductive and Child Health (ICMR-NIRRCH) and
non-PCOS participants from general clinics and...
This study explores the metabolic and hormonal impact of polycystic ovary syndrome
(PCOS) in women aged 18-39, incorporating plasma protein analysis to deepen
understanding of its biological mechanisms. Patients were recruited from the PCOS Clinic at
the National Institute for Research in Reproductive and Child Health (ICMR-NIRRCH) and
non-PCOS participants from general clinics and communities. Blood and plasma samples
were collected for comprehensive biochemical and proteomic profiling. Participants were
categorized into four groups: Obese PCOS (N=33), Lean PCOS (N=11), Obese non-PCOS
(N=12), and Lean non-PCOS (N=25), with diagnoses based on the Rotterdam criteria.
Exclusion criteria ensured chronic diseases, medications, or interfering conditions did not
affect reproductive physiology. A total of 117 women were studied, with 57 diagnosed with
PCOS and 60 serving as controls.
PCOS patients demonstrated higher insulin resistance, as reflected in fasting insulin
levels and HOMA-IR scores. Testosterone levels were elevated across PCOS cases, with lean
PCOS participants exhibiting even higher androgen concentrations. Variations in LH and
FSH ratios further emphasized reproductive hormonal imbalances, while obese PCOS women
had lower sex hormone-binding globulin (SHBG) levels. Lipid profiles revealed elevated
very-low-density lipoprotein (VLDL) cholesterol in PCOS patients, reinforcing concerns
regarding cardiovascular risks. Though total cholesterol and triglyceride levels showed no
clear trend, HDL cholesterol was notably lower in obese PCOS participants.
To understand molecular variations in PCOS, plasma protein quantification and
depletion were performed. A total of 15 samples were pooled into four subgroups for
depletion, following strict protocols using the High Select Top 14 Abundant Protein
Depletion Resin. Plasma samples underwent two rounds of depletion to remove dominant
proteins, such as albumin and immunoglobulins, ensuring accuracy before being sent to IIT-
SAIF for liquid chromatography-mass spectrometry (LC-MS). After depletion, samples were
enzymatically digested and labeled using iTRAQ reagents for multiplex quantification. The
fractions were analyzed using an Orbitrap high-resolution mass spectrometer, generating
MS/MS spectra that mapped peptide identifications back to corresponding proteins. Using
stringent statistical criteria (False Discovery Rate <1%), a distinct list of differentially
expressed proteins (DEPs) was developed. Plasma proteome profiling revealed unique DEPs across four comparative groups:
Obese PCOS vs Obese Control (OP vs OC), Lean PCOS vs Lean Control (LP vs LC), Obese
Control vs Lean Control (OC vs LC), and Obese PCOS vs Lean Control (OP vs LC).
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National Institute for Research in Reproductive Health, Mumbai, Maharashtra, India |
Non targated proteomcis |
2028-12-23 |
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