Withdrawal: Blockade of tumor growth due to matrix metalloproteinase-9 inhibition is mediated by sequential activation of {beta}1-integrin, ERK, and NF-{kappa}B. [Withdrawals/Retractions]
This article has been withdrawn by Praveen Bhoopathi, Chandramu Chetty, Sateesh Kunigal, and Sajani S. Lakka upon request by the Journal. Sravan K. Vanamala and Jasti S. Rao could not be reached. The Journal states that in Fig. 2A, the ERK immunoblot contains a splice and the pERK immunoblot was inappropriately manipulated. Fig. 2C was inappropriately manipulated. Lanes 1–4 of the GAPDH immunoblot from Fig. 3A were reused in lanes 1–4 of the GAPDH immunoblot in Fig. 3C. Lane 5 of the GAPDH immunoblot from Fig. 3A was reused in lane 7 of the same immunoblot and in lane 5 of the GAPDH immunoblot from Fig. 3C. Lane 6 of t...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Praveen Bhoopathi, Chandramu Chetty, Sateesh Kunigal, Sravan K. Vanamala, Jasti S. Rao, Sajani S. Lakka Tags: Withdrawals/Retractions Source Type: research
Withdrawal: Myocardial cell death and regeneration during progression of cardiac hypertrophy to heart failure. [Withdrawals/Retractions]
This article has been withdrawn by Sagartirtha Sarkar, Mamta Chawla-Sarkar, Kazutoshi Nishiyama, Joe G. Hollyfield, and Subha Sen. David Young and Mary E. Rayborn could not be reached. The images from 9-month-old mice in Fig. 1A were reused from Sarkar, S., et al. (2004) J. Biol. Chem. 279, 20422–20434 as 1-year-old and 18-week-old mice. The withdrawing authors state that they showed the images of the heart at the recommendation of a reviewer to introduce the model. The first four lanes of the GAPDH immunoblot in Fig. 3B were reused in the last four lanes as well as in Figs. 3D, 6 (B and C), and 8B and Sarkar, S., et al....
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Sagartirtha Sarkar, Mamta Chawla-Sarkar, David Young, Kazutoshi Nishiyama, Mary E. Rayborn, Joe G. Hollyfield, Subha Sen Tags: Withdrawals/Retractions Source Type: research
Withdrawal: Cardiac overexpression of myotrophin triggers myocardial hypertrophy and heart failure in transgenic mice. [Withdrawals/Retractions]
This article has been withdrawn by Sagartirtha Sarkar, Douglas W. Leaman, Parames Sil, Annitta Morehead, Debabrata Mukherjee, Joe Hollyfield, and Subha Sen. Sudhiranjan Gupta, David Young, Norman Ratliff, Yaping Sun, and Mary Rayborn could not be reached. The images from 1-year-old mice shown in Fig. 1A were reused in the subsequent JBC article Sarkar, S., et al. (2004) J. Biol. Chem. 279, 52630–52642 as 9-month-old mice. The images shown in Fig. 1C (II) as 18-week-old mice were also reused in the same publication (Sarkar, S., et al. (2004) J. Biol. Chem. 279, 52630–52642) as 9-month-old mice. The GAPDH immunoblot show...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Sagartirtha Sarkar, Douglas W. Leaman, Sudhiranjan Gupta, Parames Sil, David Young, Annitta Morehead, Debabrata Mukherjee, Norman Ratliff, Yaping Sun, Mary Rayborn, Joe Hollyfield, Subha Sen Tags: Withdrawals/Retractions Source Type: research
Correction: The catalytic mechanism of electron-bifurcating electron transfer flavoproteins (ETFs) involves an intermediary complex with NAD+. [Additions and Corrections]
VOLUME 294 (2018) PAGES 3271–3283A grant number was inadvertently omitted. National Science Foundation, Chemistry of Life Processes, Grant CHE-1808433 is gratefully acknowledged by A.-F. Miller. (Source: Journal of Biological Chemistry)
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Gerrit J. Schut, Nishya Mohamed-Raseek, Monika Tokmina-Lukaszewska, David W. Mulder, Diep M. N. Nguyen, Gina L. Lipscomb, John P. Hoben, Angela Patterson, Carolyn E. Lubner, Paul W. King, John W. Peters, Brian Bothner, Anne-Frances Miller, Michael W. W. A Tags: Additions and Corrections Source Type: research
Presence of hyaluronan in lung alveoli in severe Covid-19: An opening for new treatment options? [Glycobiology and Extracellular Matrices]
Severe coronavirus disease 2019 (Covid-19) is characterized by inflammation of the lungs with increasing respiratory impairment. In fatal Covid-19, lungs at autopsy have been filled with a clear liquid jelly. However, the nature of this finding has not yet been determined. The aim of the study was to demonstrate whether the lungs of fatal Covid-19 contain hyaluronan, as it is associated with inflammation and acute respiratory distress syndrome (ARDS) and may have the appearance of liquid jelly. Lung tissue obtained at autopsy from three deceased Covid-19 patients was processed for hyaluronan histochemistry using a direct s...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Urban Hellman, Mats G. Karlsson, Anna Engstrom–Laurent, Sara Caȷander, Luiza Dorofte, Clas Ahlm, Claude Laurent, Anders Blomberg Tags: Accelerated Communications Source Type: research
Structural basis for the core-mannan biosynthesis of cell wall fungal-type galactomannan in Aspergillus fumigatus [Protein Structure and Folding]
In this study we present the 3D structures of the soluble catalytic domain of CmsA/Ktr4, as determined by X-ray crystallography at a resolution of 1.95 Å, as well as the enzyme and Mn2+/GDP complex to 1.90 Å resolution. The CmsA/Ktr4 protein not only contains a highly conserved binding pocket for the donor substrate, GDP-mannose, but also has a unique broad cleft structure formed by its N- and C-terminal regions and is expected to recognize the acceptor substrate, a mannan chain. Based on these crystal structures, we also present a 3D structural model of the enzyme–substrate complex generated using docking and molecula...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Daisuke Hira, Takuya Onoue, Takuji Oka Tags: Glycobiology and Extracellular Matrices Source Type: research
A predicted transmembrane region in plant diacylglycerol acyltransferase 2 regulates specificity toward very-long-chain acyl-CoAs [Plant Biology]
Triacylglycerols are the main constituent of seed oil. The specific fatty acid composition of this oil is strongly impacted by the substrate specificities of acyltransferases involved in lipid synthesis, such as the integral membrane enzyme diacylglycerol acyltransferase (DGAT). Two forms of DGAT, DGAT1 and DGAT2, are thought to contribute to the formation of seed oil, and previous characterizations of various DGAT2 enzymes indicate that these often are associated with the incorporation of unusual fatty acids. However, the basis of DGAT2's acyl-donor specificity is not known because of the inherent challenges of predicting...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Simon Jeppson, Helena Mattisson, Kamil Demski, Ida Lager Tags: Lipids Source Type: research
Replication stress at microsatellites causes DNA double-strand breaks and break-induced replication [Cell Biology]
Short tandemly repeated DNA sequences, termed microsatellites, are abundant in the human genome. These microsatellites exhibit length instability and susceptibility to DNA double-strand breaks (DSBs) due to their tendency to form stable non-B DNA structures. Replication-dependent microsatellite DSBs are linked to genome instability signatures in human developmental diseases and cancers. To probe the causes and consequences of microsatellite DSBs, we designed a dual-fluorescence reporter system to detect DSBs at expanded (CTG/CAG)n and polypurine/polypyrimidine (Pu/Py) mirror repeat structures alongside the c-myc replicatio...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Rujuta Yashodhan Gadgil, Eric J. Romer, Caitlin C. Goodman, S. Dean Rider Jr., French J. Damewood, Joanna R. Barthelemy, Kazuo Shin-ya, Helmut Hanenberg, Michael Leffak Tags: DNA and Chromosomes Source Type: research
Plants in the real world: An introduction to the JBC Reviews thematic series [Plant Biology]
The deep relationship between plants and humans predates civilization, and our reliance on plants as sources of food, feed, fiber, fuels, and pharmaceuticals continues to increase. Understanding how plants grow and overcome challenges to their survival is critical for using these organisms to meet current and future demands for food and other plant-derived materials. This thematic review series on “plants in the real world” presents a set of eight reviews that highlight advances in understanding plant health, including the role of thiamine (vitamin B1), iron, and the plant immune system; how plants use ethylene and ubi...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Joseph M. Jez Tags: JBC Reviews Source Type: research
Capping protein is dispensable for polarized actin network growth and actin-based motility [Molecular Biophysics]
Heterodimeric capping protein (CP) binds the rapidly growing barbed ends of actin filaments and prevents the addition (or loss) of subunits. Capping activity is generally considered to be essential for actin-based motility induced by Arp2/3 complex nucleation. By stopping barbed end growth, CP favors nucleation of daughter filaments at the functionalized surface where the Arp2/3 complex is activated, thus creating polarized network growth, which is necessary for movement. However, here using an in vitro assay where Arp2/3 complex-based actin polymerization is induced on bead surfaces in the absence of CP, we produce robust...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Maȷdouline Abou–Ghali, Remy Kusters, Sarah Korber, John Manzi, Jan Faix, Cecile Sykes, Julie Plastino Tags: Cell Biology Source Type: research
Receptor-independent modulation of cAMP-dependent protein kinase and protein phosphatase signaling in cardiac myocytes by oxidizing agents [Signal Transduction]
The contraction and relaxation of the heart is controlled by stimulation of the β1-adrenoreceptor (AR) signaling cascade, which leads to activation of cAMP-dependent protein kinase (PKA) and subsequent cardiac protein phosphorylation. Phosphorylation is counteracted by the main cardiac protein phosphatases, PP2A and PP1. Both kinase and phosphatases are sensitive to intramolecular disulfide formation in their catalytic subunits that inhibits their activity. Additionally, intermolecular disulfide formation between PKA type I regulatory subunits (PKA-RI) has been described to enhance PKA's affinity for protein kinase A anch...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Simon Diering, Konstantina Stathopoulou, Mara Goetz, Laura Rathȷens, Sonke Harder, Angelika Piasecki, Janice Raabe, Steven Schulz, Mona Brandt, Julia Pflaumenbaum, Ulrike Fuchs, Sonia Donzelli, Sakthivel Sadayappan, Viacheslav O. Nikolaev, Frederik Tags: Cell Biology Source Type: research
G protein-coupled receptor Gpr115 (Adgrf4) is required for enamel mineralization mediated by ameloblasts [Gene Regulation]
Dental enamel, the hardest tissue in the human body, is derived from dental epithelial cell ameloblast-secreted enamel matrices. Enamel mineralization occurs in a strictly synchronized manner along with ameloblast maturation in association with ion transport and pH balance, and any disruption of these processes results in enamel hypomineralization. G protein–coupled receptors (GPCRs) function as transducers of external signals by activating associated G proteins and regulate cellular physiology. Tissue-specific GPCRs play important roles in organ development, although their activities in tooth development remain poorly u...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Yuta Chiba, Keigo Yoshizaki, Kan Saito, Tomoko Ikeuchi, Tsutomu Iwamoto, Craig Rhodes, Takashi Nakamura, Susana de Vega, Robert J. Morell, Erich T. Boger, Daniel Martin, Ryoko Hino, Hiroyuki Inuzuka, Christopher K. E. Bleck, Aya Yamada, Yoshihiko Yamada, Tags: Developmental Biology Source Type: research
Exploring cellular biochemistry with nanobodies [Methods and Resources]
Reagents that bind tightly and specifically to biomolecules of interest remain essential in the exploration of biology and in their ultimate application to medicine. Besides ligands for receptors of known specificity, agents commonly used for this purpose are monoclonal antibodies derived from mice, rabbits, and other animals. However, such antibodies can be expensive to produce, challenging to engineer, and are not necessarily stable in the context of the cellular cytoplasm, a reducing environment. Heavy chain–only antibodies, discovered in camelids, have been truncated to yield single-domain antibody fragments (VHHs or...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Ross W. Cheloha, Thibault J. Harmand, Charlotte Wijne, Thomas U. Schwartz, Hidde L. Ploegh Tags: JBC Reviews Source Type: research
Alternative signaling pathways from IGF1 or insulin to AKT activation and FOXO1 nuclear efflux in adult skeletal muscle fibers [Cell Biology]
Muscle atrophy is regulated by the balance between protein degradation and synthesis. FOXO1, a transcription factor, helps to determine this balance by activating pro-atrophic gene transcription when present in muscle fiber nuclei. Foxo1 nuclear efflux is promoted by AKT-mediated Foxo1 phosphorylation, eliminating FOXO1's atrophy-promoting effect. AKT activation can be promoted by insulin-like growth factor 1 (IGF1) or insulin via a pathway including IGF1 or insulin, phosphatidylinositol 3-kinase, and AKT. We used confocal fluorescence time-lapse imaging of FOXO1–GFP in adult isolated living muscle fibers maintained in c...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Sarah J. Russell, Martin F. Schneider Tags: Signal Transduction Source Type: research
A suite of mathematical solutions to describe ternary complex formation and their application to targeted protein degradation by heterobifunctional ligands [Methods and Resources]
Small molecule–induced targeted protein degradation by heterobifunctional ligands or molecular glues represents a new modality in drug development, allowing development of therapeutic agents for targets previously considered undruggable. Successful target engagement requires the formation of a ternary complex (TC) when the ligand brings its target protein in contact with an E3 ubiquitin ligase. Unlike traditional drugs, where target engagement can be described by a simple bimolecular equilibrium equation, similar mathematical tools are currently not available to describe TC formation in a universal manner. This current l...
Source: Journal of Biological Chemistry - November 6, 2020 Category: Chemistry Authors: Bomie Han Tags: Protein Synthesis and Degradation Source Type: research
