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Published on Nov 24, 2019in bioRxiv
Yun Deng (UKC: University of Kent), Jeremie Kalfon (UKC: University of Kent)+ 1 AuthorsTobias von der Haar22
Estimated H-index: 22
(UKC: University of Kent)
The genetic code encodes 20 amino acids using 64 nucleotide triplets or codons. 18 of the 20 amino acids are encoded by multiple synonymous codons which are used in organismal genomes in a biased fashion. Codon bias arises because evolutionary selection favours particular nucleotide sequences over others encoding the same amino acid sequence. Despite many existing hypotheses, there is no current consensus on what the evolutionary drivers are. Using ideas from stochastic thermodynamics we derive ...
Published in bioRxiv
Poonam Mishra3
Estimated H-index: 3
(IISc: Indian Institute of Science),
R. Narayanan
The concomitant roles of synaptic plasticity and neuron-specific intrinsic plasticity as putative cellular substrates of learning and memory are well established. Although the dentate gyrus (DG) was the first brain region to provide us electrophysiological insights about plasticity in synaptic strength and in intrinsic excitability, the assessment of the protocols, mechanisms and implications associated with intrinsic plasticity in DG has been surprisingly limited. In this study, we focused on i...
Published in bioRxiv
Mandeep Kaur , Ashutosh K. Shukla11
Estimated H-index: 11
+ -3 AuthorsPramod K. Pandey25
Estimated H-index: 25
Inositol pyrophosphates (PPx-InsPs) are of key interest, since they are known to participate in multiple physiological processes from lower eukaryotes to humans. However, limited knowledge is available for their role in plants and especially in crops. In this study, two diphosphoinositol pentakisphosphate kinase PPIP5K wheat homologs, TaVIH1 and TaVIH2 were identified and characterized for their spatio-temporal expression along with their physiological functions. The biochemical assay demonstrat...
Published in bioRxiv
M. Barthez (AMU: Aix-Marseille University), M. Poplineau + -3 AuthorsAndrew J. Saurin15
Estimated H-index: 15
Autophagy is an essential cellular process that maintains homeostasis by recycling damaged organelles and nutrients during development and cellular stress. ZKSCAN3 is the sole identified master transcriptional repressor of autophagy in humans. How ZKSCAN3 achieves autophagy repression at the mechanistic or organismal level however still remains to be elucidated. Here, we demonstrate that vertebrate ZKSCAN3 and Drosophila M1BP are functionally homologous transcription factors in autophagy repress...
Published in bioRxiv
Jenna M. Lentini2
Estimated H-index: 2
(UR: University of Rochester),
D. Fu
In mammals, a subset of arginine tRNA isoacceptors are methylated in the anticodon loop by the METTL2 methyltransferase to form the 3-methylcytosine (m3C) modification. However, the mechanism by which METTL2 identifies specific arginine tRNAs for m3C formation as well as the biological role of m3C in mammals is unknown. Here, we show that human METTL2 forms a complex with DALR anticodon binding domain containing 3 (DALRD3) protein in order to recognize particular arginine tRNAs destined for m3C ...
Published in bioRxiv
M. Ishragi (Scripps Research Institute), U. N. Ramirez Jarquin + -3 AuthorsAlessandro Usiello32
Estimated H-index: 32
The therapeutic benefits of L3,4 dihydroxyphenylalanine (L-DOPA) in Parkinson disease (PD) patients diminishes with the onset of abnormal involuntary movements (L-DOPA induced dyskinesia), a debilitating motor side effect. L-DOPA induced dyskinesia are due to altered dopaminergic signaling in the striatum, a brain region that controls motor and cognitive functions. However, the molecular mechanisms that promote L-DOPA-induced dyskinesia remain unclear. Here, we have reported that RasGRP1 (also k...
Published in bioRxiv
Dagmar Iber15
Estimated H-index: 15
(ETH Zurich),
M. Kokic , A. Stopka
During morphogenesis, epithelial tubes elongate. In case of the mammalian lung, biased elongation has been linked to a bias in cell shape and cell division, but it has remained unclear whether a bias in cell shape along the axis of outgrowth is sufficient for biased outgrowth and how it arises. Here, we use our 2D cell-based tissue simulation software LBIBCell to investigate the conditions for biased epithelial outgrowth. We show that the observed bias in cell shape and cell division can result ...
Published in bioRxiv
K. Rajeeve (University of Würzburg), Nadine Vollmuth2
Estimated H-index: 2
+ -3 AuthorsF. R. Dejure
Obligate intracellular bacteria like Chlamydia trachomatis undergo a complex developmental cycle between infectious non-replicative (EBs) and non-infectious replicative (RBs) forms. EBs shortly after entering a host cell transform to RBs, a crucial process in infection, initiating chlamydial replication. As Chlamydia fail to replicate outside the host cell it is currently unknown how the transition from EBs to RBs is initiated. Here we show in a cell-free approach in axenic media that uptake of ...
Published in bioRxiv
B. J. Lim (UCSD: University of California, San Diego), B. E. Ackermann , G. T. Debelouchina
Dynamic nuclear polarization (DNP) has shown great promise as a tool to enhance the nuclear magnetic resonance (NMR) signals of proteins in the cellular environment. As the sensitivity increases, the ability to select and efficiently polarize a specific macromolecule over the cellular background has become desirable. Here, we address this need and present a tetrazine-based DNP polarization agent that can be targeted selectively to proteins containing the unnatural amino acid (UAA) norbornene-lys...
Published in bioRxiv
Sahba Kasiri15
Estimated H-index: 15
(UTSW: University of Texas Southwestern Medical Center),
Baozhi Chen6
Estimated H-index: 6
+ -3 AuthorsWei Lu17
Estimated H-index: 17
Activation of the Hedgehog (Hh) signaling pathway by mutations within its components drives the growth of several cancers. However, the role of Hh pathway activation in lung cancers has been controversial. We demonstrate that the Hh signaling pathway is activated in lung stroma in a paracrine manner. Genetic deletion of Shh in autochthonous murine lung adenocarcinoma had no effect on survival. Early abrogation of the pathway by an anti-SHH/IHH antibody 5E1 led to significantly worse survival wit...
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