keyword
https://read.qxmd.com/read/38532467/high-cell-density-sequential-batch-fermentation-for-enhanced-propionic-acid-production-from-glucose-and-glycerol-glucose-mixture-using-acidipropionibacterium-acidipropionici
#1
JOURNAL ARTICLE
Tarek Dishisha, Mridul Jain, Rajni Hatti-Kaul
BACKGROUND: Propionic acid fermentation from renewable feedstock suffers from low volumetric productivity and final product concentration, which limits the industrial feasibility of the microbial route. High cell density fermentation techniques overcome these limitations. Here, propionic acid (PA) production from glucose and a crude glycerol/glucose mixture was evaluated using Acidipropionibacterium acidipropionici, in high cell density (HCD) batch fermentations with cell recycle. The agro-industrial by-product, heat-treated potato juice, was used as N-source...
March 26, 2024: Microbial Cell Factories
https://read.qxmd.com/read/38532231/determination-of-m1-m2-macrophage-polarization-in-ipsilateral-and-contralateral-rat-testis-tissue-following-unilateral-torsion-detorsion
#2
JOURNAL ARTICLE
Merve Kavak Balgetir, Nalan Kaya Tektemur, Ahmet Tektemur, Gaffari Türk, İbrahim Halil Güngör, Aslıhan Cakir Cihangiroglu, Ramazan Fazıl Akkoç, Tuncay Kuloglu, Durrin Ozlem Dabak
The present study investigates the changes in M1/M2 macrophage polarization resulting from unilateral testicular torsion in the bilateral testis. The study sample included 63 male Sprague-Dawley rats, which were randomly divided into nine groups (n = 7): Control, Sham (4 h (4 h), 24 h, 7 days (7d), 14d), and Torsion/Detorsion (T/D) (4 h, 24 h, 7d, 14d). Histopathological evaluations revealed no changes in the Sham groups, while T/D was noted to cause edema, vascular occlusion, disruption of seminiferous tubule epithelial organization, germ cell abnormalities and structural anomalies in the experimental rats, the severity and extent of which increased from 4 h to 14d after T/D...
March 26, 2024: Reproductive Sciences
https://read.qxmd.com/read/38529712/engineering-the-carbon-and-redox-metabolism-of-paenibacillus-polymyxa-for-efficient-isobutanol-production
#3
JOURNAL ARTICLE
Meliawati Meliawati, Daniel C Volke, Pablo I Nikel, Jochen Schmid
Paenibacillus polymyxa is a non-pathogenic, Gram-positive bacterium endowed with a rich and versatile metabolism. However interesting, this bacterium has been seldom used for bioproduction thus far. In this study, we engineered P. polymyxa for isobutanol production, a relevant bulk chemical and next-generation biofuel. A CRISPR-Cas9-based genome editing tool facilitated the chromosomal integration of a synthetic operon to establish isobutanol production. The 2,3-butanediol biosynthesis pathway, leading to the main fermentation product of P...
March 2024: Microbial Biotechnology
https://read.qxmd.com/read/38523059/iclamp-a-novel-technique-to-explore-adenosine-deamination-via-inosine-chemical-labeling-and-affinity-molecular-purification
#4
JOURNAL ARTICLE
Yuxi Yang, Koki Nakayama, Shunpei Okada, Kazuki Sato, Takeshi Wada, Yuriko Sakaguchi, Ayaka Murayama, Tsutomu Suzuki, Masayuki Sakurai
Recent developments in sequencing and bioinformatics have advanced our understanding of adenosine-to-inosine (A-to-I) RNA editing. Surprisingly, recent analyses have revealed the capability of adenosine deaminase acting on RNA (ADAR) to edit DNA:RNA hybrid strands. However, edited inosines in DNA remain largely unexplored. A precise biochemical method could help uncover these potentially rare DNA editing sites. We explore maleimide as a scaffold for inosine labeling. With fluorophore-conjugated maleimide, we were able to label inosine in RNA or DNA...
March 24, 2024: FEBS Letters
https://read.qxmd.com/read/38521955/an-integrated-metabo-lipidomics-profile-of-induced-sputum-for-the-identification-of-novel-biomarkers-in-the-differential-diagnosis-of-asthma-and-copd
#5
JOURNAL ARTICLE
Serena Correnti, Mariaimmacolata Preianò, Fabia Gamboni, Daniel Stephenson, Corrado Pelaia, Girolamo Pelaia, Rocco Savino, Angelo D'Alessandro, Rosa Terracciano
BACKGROUND: Due to their complexity and to the presence of common clinical features, differentiation between asthma and chronic obstructive pulmonary disease (COPD) can be a challenging task, complicated in such cases also by asthma-COPD overlap syndrome. The distinct immune/inflammatory and structural substrates of COPD and asthma are responsible for significant differences in the responses to standard pharmacologic treatments. Therefore, an accurate diagnosis is of central relevance to assure the appropriate therapeutic intervention in order to achieve safe and effective patient care...
March 23, 2024: Journal of Translational Medicine
https://read.qxmd.com/read/38514838/light-mediated-intracellular-polymerization
#6
REVIEW
Mohamed Abdelrahim, Quan Gao, Yichuan Zhang, Weishuo Li, Qi Xing, Mark Bradley, Jin Geng
The synthesis of synthetic intracellular polymers offers groundbreaking possibilities in cellular biology and medical research, allowing for novel experiments in drug delivery, bioimaging and targeted cancer therapies. These macromolecules, composed of biocompatible monomers, are pivotal in manipulating cellular functions and pathways due to their bioavailability, cytocompatibility and distinct chemical properties. This protocol details two innovative methods for intracellular polymerization. The first one uses 2-hydroxy-4'-(2-hydroxyethoxy)-2-methylpropiophenone (Irgacure 2959) as a photoinitiator for free radical polymerization under UV light (365 nm, 5 mW/cm2 )...
March 21, 2024: Nature Protocols
https://read.qxmd.com/read/38513911/fast-skin-healing-chitosan-peo-hydrogels-in-vitro-and-in-vivo-studies
#7
JOURNAL ARTICLE
Mona Moaness, Amira M Kamel, Abeer Salama, Rabab Kamel, Hanan H Beherei, Mostafa Mabrouk
Due to its outstanding qualities, particularly when it takes the shape of hydrogels, chitosan is a well-known biological macromolecule with many applications. When chitosan hydrogels modified with other polymers, the desirable function of skin regeneration hydrogels is compromised; nevertheless, the mechanical properties can be improved, which is crucial for commercialization. In this study, for the first time, bimetallic zinc silver metal-organic frameworks (ZAg MOF) loaded with ascorbic acid were added to chitosan/polyethylene oxide (PEO) based interpenetrating polymer network (IPN) hydrogels that were crosslinked with biotin to improve their antimicrobial activity, mechanical characteristics, and sustainable treatment of wounds...
March 19, 2024: International Journal of Biological Macromolecules
https://read.qxmd.com/read/38513099/the-focal-adhesion-protein-talin-is-a-mechanically-gated-a-kinase-anchoring-protein
#8
JOURNAL ARTICLE
Mingu Kang, Yasumi Otani, Yanyu Guo, Jie Yan, Benjamin T Goult, Alan K Howe
Protein kinase A (PKA) is a ubiquitous, promiscuous kinase whose activity is specified through subcellular localization mediated by A-kinase anchoring proteins (AKAPs). PKA has complex roles as both an effector and a regulator of integrin-mediated cell adhesion to extracellular matrix (ECM). Recent observations demonstrate that PKA is an active component of focal adhesions (FA), suggesting the existence of one or more FA AKAPs. Using a promiscuous biotin ligase fused to PKA type-IIα regulatory (RIIα) subunits and subcellular fractionation, we identify the archetypal FA protein talin1 as an AKAP...
March 26, 2024: Proceedings of the National Academy of Sciences of the United States of America
https://read.qxmd.com/read/38513058/eif4a3-bound-hsa_circ_0006847-exerts-a-tumor-suppressive-role-in-gastric-cancer
#9
JOURNAL ARTICLE
Chunli Cao, Xinxin Wu, Zhe Li, Yaoyao Xie, Shiyi Xu, Junming Guo, Weiliang Sun
Numerous studies have shown that circular RNAs are associated with the occurrence and development of various cancers, but the biological functions and mechanisms of hsa_circ_0006847 (circASPHD1) in gastric cancer (GC) remain unclear. The expression of hsa_circ_0006847 in GC cell lines, tissue, and plasma from GC patients was assayed by quantitative real-time reverse transcription-polymerase chain reaction. Hsa_circ_0006847 expression in cells was downregulated or upregulated by transfected small interfering RNA (siRNA) or overexpression plasmid...
March 22, 2024: DNA and Cell Biology
https://read.qxmd.com/read/38511872/climbing-into-their-skin-to-understand-contextual-protein-protein-associations-and-localizations-functional-investigations-in-transgenic-live-model-organisms
#10
REVIEW
Marcus J C Long, Yimon Aye
Borrowing some quotes from Harper Lee's novel "To Kill A Mockingbird" to help frame our manuscript, we discuss methods to profile local proteomes. We initially focus on chemical biology regimens that function in live organisms and use reactive biotin species for this purpose. We then consider ways to add new dimensions to these experimental regimens, principally by releasing less reactive (i. e., more selective) (preter)natural electrophiles. Although electrophile release methods may have lower resolution and label fewer proteins than biotinylation methods, their ability to probe simultaneously protein function and locale raises new and interesting possibilities for the field...
March 21, 2024: Chembiochem: a European Journal of Chemical Biology
https://read.qxmd.com/read/38507741/exploring-options-for-proximity-dependent-biotinylation-experiments-comparative-analysis-of-labeling-enzymes-and-affinity-purification-resins
#11
JOURNAL ARTICLE
Karl J Schreiber, Eileigh Kadijk, Ji-Young Youn
Proximity-dependent biotinylation (PDB) techniques provide information about the molecular neighborhood of a protein of interest, yielding insights into its function and localization. Here, we assessed how different labeling enzymes and streptavidin resins influence PDB results. We compared the high-confidence interactors of the DNA/RNA-binding protein transactive response DNA-binding protein 43 kDa (TDP-43) identified using either miniTurbo (biotin ligase) or APEX2 (peroxidase) enzymes. We also evaluated two commercial affinity resins for purification of biotinylated proteins: conventional streptavidin sepharose versus a new trypsin-resistant streptavidin conjugated to magnetic resin, which significantly reduces the level of contamination by streptavidin peptides following on-bead trypsin digestion...
March 20, 2024: Journal of Proteome Research
https://read.qxmd.com/read/38506450/post-transfusion-biotin-labeled-red-blood-cell-survival-studies-in-pediatric-sickle-cell-disease-with-antibodies-of-uncertain-significance
#12
JOURNAL ARTICLE
Marianne E M Yee, Patricia E Zerra, James W McCoy, Mischa L Covington, Sean R Stowell, Clinton H Joiner, Christopher M Lough, Bhaveshkumar B Delvadia, Cassandra D Josephson, John D Roback, Ross M Fasano
BACKGROUND: Red blood cell (RBC) antibodies are common in multiply transfused patients with sickle cell disease (SCD). Unlike RBC alloantibodies, the potential of autoantibodies to cause post-transfusion hemolysis may be uncertain. Biotin-labeling provides a direct measurement of red cell survival (RCS) over time, thus can be used to assess the clinical significance of RBC antibodies. Antibodies to biotinylated RBC (B-RBC) occasionally are detected after exposure, which may impact B-RBC survival in subsequent RCS studies...
March 20, 2024: Transfusion
https://read.qxmd.com/read/38504674/microrna-190b-targets-rfwd3-in-estrogen-receptor-positive-breast-cancer
#13
JOURNAL ARTICLE
Elisabet Alexandra Frick, Karen Kristjansdottir, Snaedís Ragnarsdottir, Arnar Ingi Vilhjalmsson, Maria Rose Bustos, Linda Vidarsdottir, Thorkell Gudjonsson, Stefan Sigurdsson
BACKGROUND: In the year 2020, breast cancer was the most common form of cancer worldwide. Roughly 70% of breast cancers are estrogen receptor-positive (ER+). MicroRNA-190b (miR-190b) has previously been reported to be upregulated in ER+ breast cancers. Previously, we have demonstrated that miR-190b is hypomethylated in ER+ breast cancers, potentially leading to its upregulation. OBJECTIVES: To further study the role of miR-190b in ER+ breast cancer and to identify its clinically relevant targets in breast cancer...
2024: Breast Cancer: Basic and Clinical Research
https://read.qxmd.com/read/38503871/development-of-nucleic-acid-lateral-flow-immunoassay-for-molecular-detection-of-entamoeba-moshkovskii-and-entamoeba-dispar-in-stool-samples
#14
JOURNAL ARTICLE
Sunna Vyatra Hutagalung, Pongruj Rattaprasert, Chamras Promptmas, Saengduen Moonsom, Suganya Yongkiettrakul, Kanthinich Thima, Porntip Chavalitshewinkoon-Petmitr
Entamoeba moshkovskii, recently known as a possible pathogenic amoeba, and the non-pathogenic Entamoeba dispar are morphologically indistinguishable by microscopy. Although PCR was used for differential diagnosis, gel electrophoresis is labor-intensive, time-consuming, and exposed to hazardous elements. In this study, nucleic acid lateral flow immunoassay (NALFIA) was developed to detect E. moshkovskii and E. dispar by post-PCR amplicon analysis. E. moshkovskii primers were labeled with digoxigenin and biotin whereas primers of E...
March 19, 2024: Scientific Reports
https://read.qxmd.com/read/38498918/selective-late-stage-functionalization-of-tryptophan-containing-peptides-to-facilitate-bioorthogonal-tetrazine-ligation
#15
JOURNAL ARTICLE
Nagaraju Mupparapu, Basir Syed, Diem N Nguyen, Thao H Vo, Angelica Trujillo, Sherif I Elshahawi
Site-selective modification of complex peptides and the functionalization of their C-H bonds hold great promise for expanding their use in therapeutics and biomedical research. Herein, we leverage the power of late-stage chemoenzymatic catalysis using an indole prenyltransferase (IPT) enzyme and alkyl diphosphates to specifically modify the indole ring of tryptophan in clinically relevant peptides. Furthermore, the installed handle enables bioorthogonal click chemistry through an inverse electron-demand Diels-Alder (IEDDA) reaction with a biotin-conjugated tetrazine probe...
March 18, 2024: Organic Letters
https://read.qxmd.com/read/38498381/top-down-proteomic-assay-to-evaluate-kras4b-compound-engagement
#16
JOURNAL ARTICLE
Robert A D'Ippolito, Dana Rabara, Maria Abreu Blanco, Emily Alberico, Matthew R Drew, Nitya Ramakrishnan, Dara Sontan, Stephanie R T Widmeyer, Grace M Scheidemantle, Simon Messing, David Turner, Michelle Arkin, Anna E Maciag, Andrew G Stephen, Dominic Esposito, Frank McCormick, Dwight V Nissley, Caroline J DeHart
Development of new targeted inhibitors for oncogenic KRAS mutants may benefit from insight into how a given mutation influences the accessibility of protein residues and how compounds interact with mutant or wild-type KRAS proteins. Targeted proteomic analysis, a key validation step in the KRAS inhibitor development process, typically involves both intact mass- and peptide-based methods to confirm compound localization or quantify binding. However, these methods may not always provide a clear picture of the compound binding affinity for KRAS, how specific the compound is to the target KRAS residue, and how experimental conditions may impact these factors...
March 18, 2024: Analytical Chemistry
https://read.qxmd.com/read/38497627/mesoporous-silica-nanoparticles-enhanced-microarray-technology-for-highly-sensitive-simultaneous-detection-of-multiplex-foodborne-pathogens
#17
JOURNAL ARTICLE
Timpika Hormsombut, Nutsara Mekjinda, Surachate Kalasin, Werasak Surareungchai, Patsamon Rijiravanich
Ensuring food safety is paramount for the food industry and global health concerns. In this study, we have developed a method for the detection of prevalent foodborne pathogenic bacteria, including Escherichia coli , Salmonella spp., Listeria spp., Shigella spp., Campylobacter spp., Clostridium spp., and Vibrio spp., utilizing antibody-aptamer arrays. To enhance the fluorescence signals on the microarray, the mesoporous silica nanoparticles (MSNs) conjugated with fluorescein, streptavidin, and seven detection antibodies-biotin were employed, forming fluorescein doped mesoporous silica nanoparticles conjugated with detection antibodies (MSNs-Flu-SA-Abs) complexes...
March 18, 2024: ACS Applied Bio Materials
https://read.qxmd.com/read/38497408/novel-methods-for-the-rapid-and-sensitive-detection-of-nipah-virus-based-on-a-crispr-cas12a-system
#18
JOURNAL ARTICLE
Xi Yang, Kexin Xu, Siying Li, Jiangnian Zhang, Yinli Xie, Yongliang Lou, Xingxing Xiao
Nipah virus (NiV), a bat-borne zoonotic viral pathogen with high infectivity and lethality to humans, has caused severe outbreaks in several countries of Asia during the past two decades. Because of the worldwide distribution of the NiV natural reservoir, fruit bats, and lack of effective treatments or vaccines for NiV, routine surveillance and early detection are the key measures for containing NiV outbreaks and reducing its influence. In this study, we developed two rapid, sensitive and easy-to-conduct methods, RAA-CRISPR/Cas12a-FQ and RAA-CRISPR/Cas12a-FB, for NiV detection based on a recombinase-aided amplification (RAA) assay and a CRISPR/Cas12a system by utilizing dual-labeled fluorophore-quencher or fluorophore-biotin ssDNA probes...
March 18, 2024: Analyst
https://read.qxmd.com/read/38495912/efficacy-and-safety-of-skin-radiance-collagen-on-skin-and-hair-matrix-a-placebo-controlled-clinical-trial-in-healthy-human-subjects
#19
JOURNAL ARTICLE
Anupam Trehan, Rachna Anand, Garima Chaudhary, Himanshi Garg, Manoj Kumar Verma
PURPOSE: Collagen supplements are rising in the market as collagen has been demonstrated to be an important protein in the human aging process. Also, it is safe and easily absorbed in the body. Hence the aim of this study was to examine the effectiveness and safety of a collagen and antioxidant-rich treatment compared to a placebo in relation to various skin and hair indicators in healthy adult human subjects. PATIENTS AND METHODS: Forty healthy adult non-pregnant/non-lactating women (aged 38-50 years) provided their informed consent in writing before their participation...
2024: Clinical, Cosmetic and Investigational Dermatology
https://read.qxmd.com/read/38492954/single-molecule-tethering-methods-for-membrane-proteins
#20
JOURNAL ARTICLE
Daehyo Lee, Duyoung Min
Molecular tethering of a single membrane protein between the glass surface and a magnetic bead is essential for studying the structural dynamics of membrane proteins using magnetic tweezers. However, the force-induced bond breakage of the widely-used digoxigenin-antidigoxigenin tether complex has imposed limitations on its stable observation. In this chapter, we describe the procedures of constructing highly stable single-molecule tethering methods for membrane proteins. These methods are established using dibenzocyclooctyne click chemistry, traptavidin-biotin binding, SpyCatcher-SpyTag conjugation, and SnoopCatcher-SnoopTag conjugation...
2024: Methods in Enzymology
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