Biology subjects

Pardeshi, L.

Publications and source records attributed to Pardeshi, L..

3 recordsLinked to original sources

bioRxiv2024

Role of Y box-binding protein 1 (Ybx1/ybx1) in zebrafish folliculogenesis: Promoting follicle cell proliferation via suppression of cell cycle inhibitor p21 (cdkn1a)

Y box-binding protein 1 (YB-1; Ybx1/ybx1) regulates transcription and translation of targeted genes through DNA/RNA-binding. Our research in zebrafish has revealed a high abundance of Ybx1 in the primary growth (PG) follicles in the ovary, which decreases precipitously as the follicles enter the secondary growth (SG) phase. To understand the function of Ybx1 in folliculogenesis, we created an ybx1 mutant using TALEN and observed a disruption in folliculogenesis in the mutant (ybx1-/-) during the transition from previtellogenic (PV) to early vitellogenic (EV) stage of the SG phase, resulting in underdeveloped ovaries and reduced female fertility. Transcriptome and Western blot analyses identified several differentially expressed genes between mutant (ybx1-/-) and control (ybx1+/-) ovaries. Notably, the expression of cdkn1a (p21), a cell cycle inhibitor, increased dramatically in ybx1-/- follicles. Disrupting cdkn1a gene with CRISPR/Cas9 resulted in embryonic lethality. In p21 heterozygote (cdkn1a+/-), however, follicle activation and maturation in the ovary were both advanced, contrasting with the ybx1-/- mutant. Interestingly, partial loss of p21 could alleviate the phenotype of ybx1-/-. Folliculogenesis resumed in ybx1-/-;p21+/- females with normal follicle activation (PG-PV transition) and vitellogenic growth (PV-EV transition). Interestingly, the follicle cells from the ybx1-/- mutant displayed a poor proliferative activity both in vivo and in vitro; however, the cells from the ybx1-/-;p21+/- follicles resumed normal proliferation. In conclusion, our study suggests that Ybx1 serves a pivotal role in controlling early folliculogenesis in zebrafish, and its acts, at least partly, by repressing the expression of cdkn1a, a cell cycle inhibitor.

developmental biology↗

bioRxiv2021

Heterogeneity in the transcriptional response of the human pathogen Aspergillus fumigatus to the antifungal agent caspofungin

Aspergillus fumigatus is the main causative agent of invasive pulmonary aspergillosis (IPA), a severe disease that affects immunosuppressed patients worldwide. The fungistatic drug caspofungin is the second line therapy against IPA but has increasingly been used against clinical strains that are resistant to azoles, the first line antifungal therapy. In high concentrations, caspofungin induces a tolerance phenotype with partial reestablishment of fungal growth called caspofungin paradoxical effect (CPE), resulting from a change in the composition of the cell wall. An increasing number of studies has shown that different isolates of A. fumigatus exhibit phenotypic heterogeneity, including heterogeneity in their CPE response. To gain insights into the underlying molecular mechanisms of CPE response heterogeneity, we analyzed the transcriptomes of two A. fumigatus reference strains, Af293 and CEA17, exposed to low and high caspofungin concentrations. We found that there is a core transcriptional response that involves genes related to cell wall remodeling processes, mitochondrial function, transmembrane transport, and amino acid and ergosterol metabolism, and a variable response related to secondary metabolite (SM) biosynthesis and iron homeostasis. Specifically, we show here that the overexpression of a SM pathway that works as an iron chelator extinguishes the CPE in both backgrounds, whereas iron depletion is detrimental for the CPE in Af293 but not in CEA17. We next investigated the function of the transcription factor CrzA, whose deletion was previously shown to result in heterogeneity in the CPE response of the Af293 and CEA17 strains. We found that CrzA constitutively binds to and modulates the expression of several genes related to processes involved in caspofungin tolerance, and that crzA deletion differentially impacts the SM production and growth of Af293 and CEA17. As opposed to the {Delta}crzACEA17 mutant, the {Delta}crzAAf293 mutant fails to activate cell wall remodeling genes upon caspofungin exposure, which most likely severely affects its macrostructure and extinguishes its CPE. This work describes how heterogeneity in the response to an antifungal agent between A. fumigatus strains stems from heterogeneity in the function of a transcription factor and its downstream target genes.

microbiology↗

bioRxiv2021

Chromatin profiling reveals genome stability heterogeneity in clinical isolates of the human pathogen Aspergillus fumigatus

Invasive Pulmonary aspergillosis is a life-threatening infection in immunosuppressed patients caused by the filamentous fungus Aspergillus fumigatus. Chromatin structure regulation is important for genome stability maintenance and has the potential to lead to genome rearrangements driving differences in virulence and pathogenesis of different A. fumigatus isolates. Here, we compared the chromatin activities of the most investigated clinical isolates Af293 and CEA17 and uncovered striking differences in the number, locations and expression of transposable elements. We found evidence for higher genome instability in Af293 as compared to CEA17 and identified a spontaneous Af293 variant that exhibits gross chromosomal alterations including the loss of a 320 kb long segment in chromosome VIII and the amplification of a biosynthetic gene cluster. As a consequence of these re-arrangements, the variant shows increased secondary metabolites production, growth and virulence. Our work emphasizes genome stability heterogeneity as an evolutionary driver of A. fumigatus fitness and virulence.

molecular biology↗