@AvasthiReading's saved articles
A list by Prachee Avasthi Recommended Reading
See what researchers at Prachee Avasthi’s lab are reading to discover some interesting new work.
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Conserved degronome features governing quality control associated proteolysis
This article has 9 authors:Prachee Avasthi Recommended Reading
How interesting! A peptide screen to identify degrons with E3 ubiquitin ligase specificity in yeast followed by extraction of conserved properties identifies transmembrane domain containing peptides as likely degrons.
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Integrating bulk and single cell RNA-seq refines transcriptomic profiles of specific C. elegans neurons
This article has 18 authors:Prachee Avasthi Recommended Reading
Recognizing the utility of not using <strong>exclusively</strong> cutting edge methods for everything, this important study combines bulk RNAseq (high sensitivity due to capturing more low expression and noncoding RNAs) and single cell RNAseq (high specificity) for a more comprehensive transcriptomic picture.
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Bio-hybrid micro-swimmers propelled by flagella isolated from C. reinhardtii †
This article has 7 authors:Prachee Avasthi Recommended Reading
This is wild! Chlamydomonas flagella were isolated, demembranated, attached to polystyrene beads and reactivated to reconstitute flagellar movement. This yields some interesting insights through experimentation and simulation: Increased calcium concentration affects flagellar waveform and trajectory of bead movement and surprisingly, larger beads have increased rather than decreased velocity.
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ARP2/3 complex associates with peroxisomes to participate in pexophagy in plants
This article has 12 authors:Prachee Avasthi Recommended Reading
Interesting role for ARP2/3 complex in peroxisome autophagy in plants!
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Rapid Rerouting of Myosin Traffic at the T Cell Immunological Synapse
This article has 6 authors:Prachee Avasthi Recommended Reading
This polarity of actin networks and myosin traffic is interesting in light of the parallels between cilium biogenesis and the immune synapse function.
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Structural basis of actin filament assembly and aging
This article has 5 authors:Prachee Avasthi Recommended Reading
A 2.2 angstrom resolution structures of muscle actin filaments in ATP, ADP-Pi and ADP states. Many new insights here about the surprising stability of ADP actin, mechanism of ATP hydrolysis, cofilin binding and more.
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Genome-wide functional analysis reveals key roles for kinesins in the mammalian and mosquito stages of the malaria parasite life cycle
This article has 12 authors:Reviewed by preLights, Review Commons
Prachee Avasthi Recommended Reading
Truly exquisite characterization of kinesins in the malaria parasite. Check out the spectacular expansion microscopy images in figure 7A!
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The molecular organization of flat and curved caveolae indicates bendable structural units at the plasma membrane
This article has 7 authors:Prachee Avasthi Recommended Reading
This is a beautiful characterization of caveolae. In addition to platinum replica EM of these plasma membrane invaginations in various cell types, this work includes molecular identification of proteins associated with caveolae of different curvatures by STED-CLEM (very high-resolution correlative light electron microscopy).
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Spatial snapshots of amyloid precursor protein intramembrane processing via early endosome proteomics
This article has 12 authors:Prachee Avasthi Recommended Reading
Whoa! Successful ID of early endosomal cargoes via pull-down of an early endosomal marker followed by proteomics.
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Systematic analysis of cilia characteristics and Hedgehog signaling in five immortal cell lines
This article has 4 authors:Prachee Avasthi Recommended Reading
I love this kind of study that challenges our assumptions of what cells and models we should use. This is an important comparative characterization of cilium-based hedgehog signaling across a variety of cultured cell types.
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Actin assembly requirements of the formin Fus1 to build the fusion focus
This article has 9 authors:Reviewed by Review Commons
Prachee Avasthi Recommended Reading
This is a great demonstration (using chimeras of formin FH2 and FH1 domains from a diverse range of formins) that tuning the actin nucleation and elongation rates of formins affects actin architecture. This can help explain how various cell types can generate unique actin structures optimized for a particular function as in this case for Fus1’s role in assembling the structure required for fusion of fission yeast cells during mating.
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RNF26 binds perinuclear vimentin filaments to integrate ER and endolysosomal responses to proteotoxic stress
This article has 15 authors:Prachee Avasthi Recommended Reading
Interesting function of intermediate filaments though an ER embedded protein: this protein, a ubiquitin ligase, links the perinuclear ER with vimentin-based intermediate filaments for ER and stress-dependent endosome positioning. The work was done in U2OS cells.
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High-resolution secretory timeline from vesicle formation at the Golgi to fusion at the plasma membrane in S. cerevisiae
This article has 4 authors:This article has been curated by 1 group:Reviewed by eLife
Prachee Avasthi Recommended Reading
This is a must-read spatio-temporal characterization of secretory pathway events during yeast exocytosis. This will undoubtedly impact our thinking about secretory traffic during processes like encystment and ciliogenesis across a range of unicellular eukaryotes.
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Imaging tools generated by CRISPR/Cas9 tagging reveal cytokinetic diversity in mammalian cells
This article has 5 authors:Prachee Avasthi Recommended Reading
This paper is a good reminder of the heterogeneity in phenotypes that can be observed when visualizing molecular players at physiological levels.
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The atypical small GTPase RABL3 interacts with RAB11 to regulate early ciliogenesis in human cells
This article has 5 authors:Prachee Avasthi Recommended Reading
A new GTPase player in ciliogenesis in human (RPE1) cells binds directly to rab11 and is needed for ciliary vesicle formation.
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Identifying the genes impacted by cell proliferation in proteomics and transcriptomics studies
This article has 3 authors:Prachee Avasthi Recommended Reading
Interesting framing…identifying genes that are robustly correlated with cell proliferation not to find novel mechanisms of division but to eliminate confounding contributions of cell proliferation in cellular processes analyzed by large data sets.
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Alterations to the broad-spectrum formin inhibitor SMIFH2 improve potency
This article has 15 authors:Prachee Avasthi Recommended Reading
Thanks to @cdmacquarrie for alerting me to this one! Synthesis of SMIFH2 derivatives identifies more potent versions (5-fold decrease in IC50) that are able to inhibit all human formins. This increased potency may reduce off target inhibition of myosins at higher concentrations. Myosins aren’t directly tested in this study.
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Transient accumulation and bidirectional movement of KIF13B in primary cilia
This article has 7 authors:Prachee Avasthi Recommended Reading
Worm cilia are perhaps not as unique as we thought. A kinesin-3 accumulates in a subset of cilia in human cultured cells and undergoes bursts of bidirectional motor domain dependent movement.
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The dynamics of protein localisation to restricted zones within Drosophila mechanosensory cilia
This article has 5 authors:Prachee Avasthi Recommended Reading
Very interesting study tackling the sub-compartmentalization of cilia. In fly chorodonal neurons, cilia have differences in outer and inner dynein arm complexes along the apical-distal axis of the axoneme. This paper highlights different modes of establishing this subcompartmentalization whether by restriction to proximal regions (ODAs) or by uniform localization and maturation to final proximal restriction (IDAs). Access to the axonemal interior, binding affinities via docking complexes, tubulin modification and pruning of IDA localization by retrograde IFT-mediated removal are suggested as possible factors.
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Moving Yeasts: Resolving the Mystery
This article has 8 authors: