Like higher eukaryotes, diploid MATa/MATα budding yeasts can undergo both mitosis and meiosis. Al... more Like higher eukaryotes, diploid MATa/MATα budding yeasts can undergo both mitosis and meiosis. Although the potential reason for their phase switching is elucidated by two consecutive processes, i.e. transition from fermentation (mitotic growth) to respiration in glucose-deficient media and then complete shift to meiotic phase in combined nitrogen- and glucose-starved media, the genomic interactions and regulatory cascade operating this drive remain elusive. Here, we aim to explore the regulatory cross-talk that mediates the phase transition. We have hypothesized that pre-growth in glucose-starved condition (yeast extract–peptone–acetate media) not only causes switch from fermentation to respiration but also prepares them for meiosis via a myriad of signaling events regulated by transcription factors (TFs). We have identified 23 putative TFs from integrated protein–protein interaction and gene regulatory network that were reconstructed from predicted and experimentally validated dat...
Complex-forming proteins escape the robust regulations of miRNA in human
FEBS Letters, 2013
Most proteins carry out their functions by participating in protein complexes. Recently, miRNAs w... more Most proteins carry out their functions by participating in protein complexes. Recently, miRNAs were identified as promising post-transcriptional regulators that influence a large proportion of genes in higher eukaryotes. We aim to understand the role of miRNAs in the regulation of human proteins that are present in protein complexes. Here, we show that robust regulation by miRNA is absent in human complex-forming proteins. Moreover, the numbers of miRNA hits cannot direct the evolutionary fate of complex-forming proteins independently. However, the duplicated complex-forming proteins having a severe effect on organismal fitness are profoundly targeted by miRNA, probably to reduce the chances of dosage imbalance.
Evolutionary rate heterogeneity between multi- and single-interface hubs across human housekeeping and tissue-specific protein interaction network: Insights from proteins' and its partners' properties
Insights into Eukaryotic Interacting Protein Evolution
The overall molecular architecture of all organisms is mainly mediated through the sophisticated ... more The overall molecular architecture of all organisms is mainly mediated through the sophisticated coordination of protein–protein interactions. It has immensely prospered the arena of systems biology providing an inclusive perspective of the interrelationships between proteins. The evolutionary mechanisms of protein–protein interaction networks are now being appreciated as a major factor in shaping their present-day structures and properties. This chapter provides
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Papers by Soumita Podder