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Frontiers in Molecular Biosciences

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https://www.readbyqxmd.com/read/29109951/rna-binding-protein-regulation-and-cross-talk-in-the-control-of-au-rich-mrna-fate
#1
REVIEW
Sofía M García-Mauriño, Francisco Rivero-Rodríguez, Alejandro Velázquez-Cruz, Marian Hernández-Vellisca, Antonio Díaz-Quintana, Miguel A De la Rosa, Irene Díaz-Moreno
mRNA metabolism is tightly orchestrated by highly-regulated RNA Binding Proteins (RBPs) that determine mRNA fate, thereby influencing multiple cellular functions across biological contexts. Here, we review the interplay between six well-known RBPs (TTP, AUF-1, KSRP, HuR, TIA-1, and TIAR) that recognize AU-rich elements (AREs) at the 3' untranslated regions of mRNAs, namely ARE-RBPs. Examples of the links between their cross-regulations and modulation of their targets are analyzed during mRNA processing, turnover, localization, and translational control...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/29075633/structure-and-interactions-of-the-tpr-domain-of-sgt2-with-yeast-chaperones-and-ybr137wp
#2
Ewelina M Krysztofinska, Nicola J Evans, Arjun Thapaliya, James W Murray, Rhodri M L Morgan, Santiago Martinez-Lumbreras, Rivka L Isaacson
Small glutamine-rich tetratricopeptide repeat-containing protein 2 (Sgt2) is a multi-module co-chaperone involved in several protein quality control pathways. The TPR domain of Sgt2 and several other proteins, including SGTA, Hop, and CHIP, is a highly conserved motif known to form transient complexes with molecular chaperones such as Hsp70 and Hsp90. In this work, we present the first high resolution crystal structures of Sgt2_TPR alone and in complex with a C-terminal peptide PTVEEVD from heat shock protein, Ssa1...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/29057226/holm-oak-quercus-ilex-transcriptome-de-novo-sequencing-and-assembly-analysis
#3
Victor M Guerrero-Sanchez, Ana M Maldonado-Alconada, Francisco Amil-Ruiz, Jesús V Jorrin-Novo
No abstract text is available yet for this article.
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/29046875/asymmetric-rna-distribution-among-cells-and-their-secreted-exosomes-biomedical-meaning-and-considerations-on-diagnostic-applications
#4
REVIEW
Marco Ragusa, Cristina Barbagallo, Matilde Cirnigliaro, Rosalia Battaglia, Duilia Brex, Angela Caponnetto, Davide Barbagallo, Cinzia Di Pietro, Michele Purrello
Over the past few years, exosomes and their RNA cargo have been extensively studied because of the fascinating biological roles they play in cell-to-cell communication, including the signal exchange among cancer, stromal, and immune cells, leading to modifications of tumor microenvironment. RNAs, especially miRNAs, stored within exosomes, seem to be among the main determinants of such signaling: their sorting into exosomes appears to be cell-specific and related to cellular physiopathology. Accordingly, the identification of exosomal miRNAs in body fluids from pathological patients has become one of the most promising activity in the field of biomarker discovery...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/29034245/handshakes-and-fights-the-regulatory-interplay-of-rna-binding-proteins
#5
REVIEW
Erik Dassi
What drives the flow of signals controlling the outcome of post-transcriptional regulation of gene expression? This regulatory layer, presiding to processes ranging from splicing to mRNA stability and localization, is a key determinant of protein levels and thus cell phenotypes. RNA-binding proteins (RBPs) form a remarkable army of post-transcriptional regulators, strong of more than 1,500 genes implementing this expression fine-tuning plan and implicated in both cell physiology and pathology. RBPs can bind and control a wide array of RNA targets...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/29018806/a-simple-pb-lie-free-energy-function-accurately-predicts-the-peptide-binding-specificity-of-the-tiam1-pdz-domain
#6
Nicolas Panel, Young Joo Sun, Ernesto J Fuentes, Thomas Simonson
PDZ domains generally bind short amino acid sequences at the C-terminus of target proteins, and short peptides can be used as inhibitors or model ligands. Here, we used experimental binding assays and molecular dynamics simulations to characterize 51 complexes involving the Tiam1 PDZ domain and to test the performance of a semi-empirical free energy function. The free energy function combined a Poisson-Boltzmann (PB) continuum electrostatic term, a van der Waals interaction energy, and a surface area term. Each term was empirically weighted, giving a Linear Interaction Energy or "PB/LIE" free energy...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/29018805/insight-into-the-selectivity-of-the-g7-18nate-inhibitor-peptide-for-the-grb7-sh2-domain-target
#7
Gabrielle M Watson, William A H Lucas, Menachem J Gunzburg, Jacqueline A Wilce
Growth factor receptor bound protein 7 (Grb7) is an adaptor protein with established roles in the progression of both breast and pancreatic cancers. Through its C-terminal SH2 domain, Grb7 binds to phosphorylated tyrosine kinases to promote proliferative and migratory signaling. Here, we investigated the molecular basis for the specificity of a Grb7 SH2-domain targeted peptide inhibitor. We identified that arginine 462 in the BC loop is unique to Grb7 compared to Grb2, another SH2 domain bearing protein that shares the same consensus binding motif as Grb7...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28975129/retraction-structural-basis-of-the-substrate-specificity-and-enzyme-catalysis-of-a-papaver-somniferum-tyrosine-decarboxylase
#8
(no author information available yet)
[This retracts the article on p. 5 in vol. 4, PMID: 28232911.].
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28971099/effect-of-theobromine-consumption-on-serum-lipoprotein-profiles-in-apparently-healthy-humans-with-low-hdl-cholesterol-concentrations
#9
Doris M Jacobs, Lotte Smolders, Yuguang Lin, Niels de Roo, Elke A Trautwein, John van Duynhoven, Ronald P Mensink, Jogchum Plat, Velitchka V Mihaleva
Scope: Theobromine is a major active compound in cocoa with allegedly beneficial effect on high-density-lipoprotein-cholesterol (HDL-CH). We have investigated the effect of theobromine (TB) consumption on the concentrations of triglyceride (TG) and cholesterol (CH) in various lipoprotein (LP) subclasses. Methods: In a randomized, double-blind, placebo-controlled, cross-over study, 44 apparently healthy women and men (age: 60 ± 6 years, BMI: 29 ± 3 kg/m(2)) with low baseline HDL-CH concentrations consumed a drink supplemented with 500 mg/d theobromine for 4 weeks...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28932739/agonist-binding-to-chemosensory-receptors-a-systematic-bioinformatics-analysis
#10
Fabrizio Fierro, Eda Suku, Mercedes Alfonso-Prieto, Alejandro Giorgetti, Sven Cichon, Paolo Carloni
Human G-protein coupled receptors (hGPCRs) constitute a large and highly pharmaceutically relevant membrane receptor superfamily. About half of the hGPCRs' family members are chemosensory receptors, involved in bitter taste and olfaction, along with a variety of other physiological processes. Hence these receptors constitute promising targets for pharmaceutical intervention. Molecular modeling has been so far the most important tool to get insights on agonist binding and receptor activation. Here we investigate both aspects by bioinformatics-based predictions across all bitter taste and odorant receptors for which site-directed mutagenesis data are available...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28894739/immune-modulating-activity-of-hydrogel-microparticles-contributes-to-the-host-defense-in-a-murine-model-of-cutaneous-anthrax
#11
Allison L Teunis, Taissia G Popova, Virginia Espina, Lance A Liotta, Serguei G Popov
We recently reported that the open-mesh (0.7 μ) polyacrylamide microparticles (MPs) with internally-coupled Cibacron affinity dye demonstrate protective effect in mice challenged into footpads with high doses (200 LD50) of anthrax (Sterne) spores. A single injection of MPs before spore challenge reduces inflammatory response, delays onset of mortality and promotes survival. In this study, we show that the effect of MPs was substantially increased at the lower spore dose (7 LD50). The inflammation of footpads was reduced to the background level, and 60% of animals survived for 16 days while all untreated infected animals died within 6 days with strong inflammation...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28884116/the-role-of-pontin-and-reptin-in-cellular-physiology-and-cancer-etiology
#12
REVIEW
Yu-Qian Mao, Walid A Houry
Pontin (RUVBL1, TIP49, TIP49a, Rvb1) and Reptin (RUVBL2, TIP48, TIP49b, Rvb2) are highly conserved ATPases of the AAA+ (ATPases Associated with various cellular Activities) superfamily and are involved in various cellular processes that are important for oncogenesis. First identified as being upregulated in hepatocellular carcinoma and colorectal cancer, their overexpression has since been shown in multiple cancer types such as breast, lung, gastric, esophageal, pancreatic, kidney, bladder as well as lymphatic, and leukemic cancers...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28879185/increased-potency-of-a-bi-specific-tl1a-adam17-tace-inhibitor-by-cell-surface-targeting
#13
Tomer Weizman, Itay Levin, Marianna Zaretsky, Irit Sagi, Amir Aharoni
Inflammatory bowel disease (IBD) is a multifactorial disease characterized by the dysregulated activity of many pro-inflammatory factors. Thus, bi-specific inhibitors for the simultaneous inhibition of two pro-inflammatory factors can exhibit high therapeutic potential. Here, we developed a novel bi-specific inhibitor targeting the TL1A cytokine and ADAM17/TACE metalloprotease. Biochemical analysis of the bi-specific inhibitor revealed high TL1A binding and TACE inhibition that is similar to the two respective mono-specific inhibitors...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28879184/hsp78-78-kda-heat-shock-protein-a-representative-aaa-family-member-found-in-the-mitochondrial-matrix-of-saccharomyces-cerevisiae
#14
REVIEW
Josielle Abrahão, David Z Mokry, Carlos H I Ramos
ATPases associated with diverse cellular activities (AAA+) form a superfamily of proteins involved in a variety of functions and are characterized by the presence of an ATPase module containing two conserved motifs known as Walker A and Walker B. ClpB and Hsp104, chaperones that have disaggregase activities, are members of a subset of this superfamily, known as the AAA family, and are characterized by the presence of a second highly conserved motif, known as the second region of homology (SRH). Hsp104 and its homolog Hsp78 (78 kDa heat shock protein) are representatives of the Clp family in yeast...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28879183/deep-sequencing-transcriptome-analysis-of-murine-wound-healing-effects-of-a-multicomponent-multitarget-natural-product-therapy-tr14
#15
Georges St Laurent, Bernd Seilheimer, Michael Tackett, Jianhua Zhou, Dmitry Shtokalo, Yuri Vyatkin, Maxim Ri, Ian Toma, Dan Jones, Timothy A McCaffrey
Wound healing involves an orchestrated response that engages multiple processes, such as hemostasis, cellular migration, extracellular matrix synthesis, and in particular, inflammation. Using a murine model of cutaneous wound repair, the transcriptome was mapped from 12 h to 8 days post-injury, and in response to a multicomponent, multi-target natural product, Tr14. Using single-molecule RNA sequencing (RNA-seq), there were clear temporal changes in known transcripts related to wound healing pathways, and additional novel transcripts of both coding and non-coding genes...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28848737/lysine-directed-post-translational-modifications-of-tau-protein-in-alzheimer-s-disease-and-related-tauopathies
#16
REVIEW
Christiana Kontaxi, Pedro Piccardo, Andrew C Gill
Tau is a microtubule-associated protein responsible mainly for stabilizing the neuronal microtubule network in the brain. Under normal conditions, tau is highly soluble and adopts an "unfolded" conformation. However, it undergoes conformational changes resulting in a less soluble form with weakened microtubule stabilizing properties. Altered tau forms characteristic pathogenic inclusions in Alzheimer's disease and related tauopathies. Although, tau hyperphosphorylation is widely considered to be the major trigger of tau malfunction, tau undergoes several post-translational modifications at lysine residues including acetylation, methylation, ubiquitylation, SUMOylation, and glycation...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28824921/bardet-biedl-syndrome-as-a-chaperonopathy-dissecting-the-major-role-of-chaperonin-like-bbs-proteins-bbs6-bbs10-bbs12
#17
REVIEW
María Álvarez-Satta, Sheila Castro-Sánchez, Diana Valverde
Bardet-Biedl syndrome (BBS) is a rare genetic disorder that belongs to the group of ciliopathies, defined as diseases caused by defects in cilia structure and/or function. The six diagnostic features considered for this syndrome include retinal dystrophy, obesity, polydactyly, cognitive impairment and renal and urogenital anomalies. Furthermore, three of the 21 genes currently known to be involved in BBS encode chaperonin-like proteins (MKKS/BBS6, BBS10, and BBS12), so BBS can be also considered a member of the growing group of chaperonopathies...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28824920/comparative-analysis-of-the-structure-and-function-of-aaa-motors-clpa-clpb-and-hsp104-common-threads-and-disparate-functions
#18
REVIEW
Elizabeth C Duran, Clarissa L Weaver, Aaron L Lucius
Cellular proteostasis involves not only the expression of proteins in response to environmental needs, but also the timely repair or removal of damaged or unneeded proteins. AAA+ motor proteins are critically involved in these pathways. Here, we review the structure and function of AAA+ proteins ClpA, ClpB, and Hsp104. ClpB and Hsp104 rescue damaged proteins from toxic aggregates and do not partner with any protease. ClpA functions as the regulatory component of the ATP dependent protease complex ClpAP, and also remodels inactive RepA dimers into active monomers in the absence of the protease...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28798917/corrigendum-biomarkers-and-algorithms-for-the-diagnosis-of-vitamin-b12-deficiency
#19
Luciana Hannibal, Vegard Lysne, Anne-Lise Bjørke-Monsen, Sidney Behringer, Sarah C Grünert, Ute Spiekerkoetter, Donald W Jacobsen, Henk J Blom
[This corrects the article on p. 27 in vol. 3, PMID: 27446930.].
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28791296/metabolomics-and-proteomics-of-brassica-napus-guard-cells-in-response-to-low-co2
#20
Sisi Geng, Bing Yu, Ning Zhu, Craig Dufresne, Sixue Chen
Stomatal guard cell response to various stimuli is an important process that balances plant carbon dioxide (CO2) uptake and water transpiration. Elevated CO2 induces stomatal closure, while low CO2 promotes stomatal opening. The signaling process of elevated CO2 induced stomatal closure has been extensively studied in recent years. However, the mechanism of low CO2 induced stomatal opening is not fully understood. Here we report metabolomic and proteomic responses of Brassica napus guard cells to low CO2 using hyphenated mass spectrometry technologies...
2017: Frontiers in Molecular Biosciences
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