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1. Probing the biotoxicity of starch nanoparticles in vivo and their mechanism to desensitize β-lactoglobulin

Author:
Xiaoning Zhang; Yushi Liu; Sheng Gong; Meifeng Li; Sining Li; Yacine Hemar
Source:
Food hydrocolloids 2023 v.135 pp. 108166
ISSN:
0268-005X
Subject:
epitopes,   etc   ; animals; biosafety; cytokines; hydrocolloids; hydrophobicity; immunoglobulin E; intestinal microorganisms; nanoparticles; protein corona; starch; thermodynamics;     Show all 12 Subjects
Abstract:
... Starch nanoparticles (SNPs) were synthesized and characterized in vivo for their subacute biotoxicity. Animal experiments revealed that SNPs would not induce changes in inflammatory cytokines and gut microbiota, avoiding damage to mice's organs. Moreover, SNPs were rapidly excreted from the body after 6 h without any accumulation, demonstrating their biosafety. Based on these findings, SNPs were u ...
DOI:
10.1016/j.foodhyd.2022.108166

2. Regulation of action sites for reducing the allergenicity of pea protein based on enzymatic hydrolysis with Alcalase

Author:
Jie Ding; Liu Dong; Pengfei Jiang; Yue Tang; Songyi Lin
Source:
Food chemistry 2023 v.398 pp. 133930
ISSN:
0308-8146
Subject:
epitopes,   etc   ; allergenicity; bioinformatics; electrophoresis; enzymatic hydrolysis; experimental design; food chemistry; hydrophobicity; models; pea protein; peptides; peptidomics; subtilisin; vicilin;     Show all 14 Subjects
Abstract:
... Enzymatic hydrolysis could reduce the allergenicity of pea protein. Box-Behnken model was used to extract vicilin with the lowest and highest allergenicity, and enzymatic hydrolysis, electrophoresis, spectroscopy, bioinformatics, and peptidomics of Nano-LC-MS/MS were utilized to explore the relationship between reduced allergenicity and structural changes. After enzymatic hydrolysis, the allergeni ...
DOI:
10.1016/j.foodchem.2022.133930

3. Characterization of the improved functionality in soybean protein-proanthocyanidins conjugates prepared by the alkali treatment

Author:
Xiaowen Pi; Yuxue Sun; Jiafei Liu; Xu Wang; Weichen Hong; Jianjun Cheng; Mingruo Guo
Source:
Food hydrocolloids 2023 v.134 pp. 108107
ISSN:
0268-005X
Subject:
epitopes,   etc   ; alkali treatment; allergens; antioxidant activity; chemical structure; enzyme-linked immunosorbent assay; hydrocolloids; hydrophobicity; liquid chromatography; peptides; polyacrylamide gel electrophoresis; polyphenols; protein composition; soybeans;     Show all 14 Subjects
Abstract:
... This study investigated the changes in functionality, structure, and protein composition in soybean protein-proanthocyanidins (SPI-PC) conjugates prepared by the alkali method with dose-ranging PC molecular grafting (0.5, 1, 2 mg/mL). Sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) demonstrated that more >180 kDa polymers were formed in SPI-PC conjugates with the increase of P ...
DOI:
10.1016/j.foodhyd.2022.108107

4. Comparison of tropomyosin released peptide and epitope mapping after in vitro digestion from fish (Larimichthys crocea), shrimp (Litopenaeus vannamei) and clam (Ruditapes philippinarum) through SWATH-MS based proteomics

Author:
LiLi Xu; Xiao Mei Zhang; Yun Qi Wen; Jin Long Zhao; Tong Cheng Xu; Ling Yong; Hong Lin; Hong Wei Zhang; Zhen Xing Li
Source:
Food chemistry 2023 v.403 pp. 134314
ISSN:
0308-8146
Subject:
epitopes,   etc   ; B-lymphocytes; Larimichthys crocea; Litopenaeus vannamei; Ruditapes philippinarum; allergenicity; allergens; anaphylaxis; clams; digestion; fish; food chemistry; gastric juice; gastrointestinal system; intestinal secretions; pepsin; peptides; proteomics; shellfish; shrimp; tropomyosins;     Show all 21 Subjects
Abstract:
... Tropomyosin (TM) is a major shellfish allergen and a minor fish allergen. Different digestion profiles affect potential allergen anaphylaxis of protein. In this study, released peptides of fish-TM, shrimp-TM, and clam-TM by in vitro digestion of simulated gastric fluid (SGF), simulated intestinal fluid (SIF), and gastrointestinal (GI) were analyzed using sequential windowed acquisition of all theo ...
DOI:
10.1016/j.foodchem.2022.134314

5. Double and Triple Combinations of Broadly Neutralizing Antibodies Provide Efficient Neutralization of All HIV-1 Strains from the Global Panel

Author:
Evgeniya A. Kochina; Felix A. Urusov; Artem A. Kruglov; Dina V. Glazkova; German A. Shipulin; Elena V. Bogoslovskaya
Source:
Viruses 2022 v.14 no.9 pp. -
ISSN:
1999-4915
Subject:
epitopes,   etc   ; Pseudoviridae; neutralization;     Show all 3 Subjects
Abstract:
... The use of broadly neutralizing antibodies (bNAbs) is a promising approach to HIV-1 treatment. In this work, we evaluate the neutralizing activity of the following HIV-1 bNAbs: VCR07-523, N6, PGDM1400, CAP256-VRC26.25, 10-1074, PGT128, 10E8, and DH511.11P, which are directed to different Env surface epitopes. We used the global panel of HIV-1 pseudoviruses to analyze the bNAbs’ potency and chose t ...
DOI:
10.3390/v14091910

6. Nanobodies as solubilization chaperones for the expression and purification of inclusion-body prone proteins

Author:
Guangshuai Yao; Chundong Huang; Fangling Ji; Jun Ren; Xiuna Luo; Berlin Zang; Lingyun Jia
Source:
Chemical communications 2022 v.58 no.17 pp. 2898-2901
ISSN:
1364-548X
Subject:
epitopes,   etc   ; Escherichia coli; solubilization;     Show all 3 Subjects
Abstract:
... Here, we report a new protocol for enhancing the soluble expression of inclusion body (IB)-prone proteins in E. coli using nanobodies (Nbs) as a molecular-specific chaperone. The specific intracellular binding between the cognate-Nbs and the antigen is successfully achieved and enables the formation of a soluble Nb–antigen complex in E. coli. We further expand this method by adding an epitope tag ...
DOI:
10.1039/d1cc07105j

7. Generation, selection and modification of anti-cardiac troponin I antibodies with high specificity and affinity

Author:
Hui Ma; Arabelle Cassedy; Ciarán Ó'Fágáin; Richard O'Kennedy
Source:
Journal of immunological methods 2022 v.500 pp. 113183
ISSN:
0022-1759
Subject:
epitopes,   etc   ; bacteriophages; myocardial infarction; recombinant antibodies;     Show all 4 Subjects
Abstract:
... Current diagnosis of acute myocardial infarction involves quantification of circulating cTn levels. This work endeavoured to generate and enhance recombinant antibody fragments targeting various epitopes on the N- and C-terminals of the cTnI molecule, thereby facilitating highly sensitive detection of the troponin molecule. From this approach, two anti-cTnI scFv antibodies were successfully select ...
DOI:
10.1016/j.jim.2021.113183

8. Use of lysates from pooled human mononuclear cells to activate CD3 T cells in humanized mice with low human cell engraftment efficiency

Author:
A-Reum Han; Jeoung Eun Lee; Seung Young Ko; Hyun Soo Shin; Jung Ho Im; Ji Yoon Lee; Dong Ryul Lee
Source:
In vitro cellular & developmental biology 2022 v.58 no.7 pp. 571-578
ISSN:
1071-2690
Subject:
epitopes,   etc   ; humans; medicine; phenotype; spleen; therapeutics;     Show all 6 Subjects
Abstract:
... In regenerative medicine, humanized mice (hu-mice) are extremely valuable for verifying the cross talk between immune cells and therapeutic cells. Given the highly dynamic nature of the activities of immune cells, the in vitro platform does not allow for screening of their exact interactions with different therapeutic cells. By contrast, hu-mice have been widely applied for in vivo studies, especi ...
DOI:
10.1007/s11626-022-00701-x

9. Comprehensive Immunopeptidome Analysis of I-Ab-bound peptides from Thymus, Splenic B cells and Dendritic cells in C57BL/6 mice

Author:
Padma Nanaware; Mauricio Calvo-Calle; Liying Lu; Mollie Jurewicz; Laura Santambrogio; Lawrence Stern
Source:
Molecular immunology 2022 v.150 no. pp. -
ISSN:
0161-5890
Subject:
epitopes,   etc   ; antigen presentation; hydrophobicity; mass spectrometry; peptides;     Show all 5 Subjects
Abstract:
... Antigen presentation in the thymus is central to selection of CD4+ and CD8+ T cells. Despite postulated roles for differential central and peripheral antigen presentation pathways for MHC-I and MHC-II, comprehensive MHC Class II immunopeptidome analysis of the thymus has not been reported. Advances in mass spectrometry (MS) technology now allow analysis of the MHC-presented peptidomes of tissue sa ...
DOI:
10.1016/j.molimm.2022.05.097

10. Folding of Flexible Protein Fragments and Design of Nanoparticle-Based Artificial Antibody Targeting Lysozyme

Author:
Yan Wang; Xinping Wang; Tiange Gao; Chenxi Lou; Haifang Wang; Yuanfang Liu; Aoneng Cao
Source:
Journal of physical chemistry 2022 v.126 no.27 pp. 5045-5054
ISSN:
1520-5207
Subject:
epitopes,   etc   ; antibodies; circular dichroism spectroscopy; lysozyme; nanogold;     Show all 5 Subjects
Abstract:
... It is generally believed that a protein’s sequence solely determines its native structure, but how the long- and short-range interactions jointly determine the native structure/conformation of the protein or every local fragment of the protein is still not fully understood. Since most protein fragments are unstructured on their own, direct observation of the folding of flexible protein fragments i ...
DOI:
10.1021/acs.jpcb.2c03200

11. A plant tethering system for the functional study of protein-RNA interactions in vivo

Author:
Diego Cuerda-Gil; Yu-Hung Hung; Kaushik Panda; R. Keith Slotkin
Source:
Plant methods 2022 v.18 no.1 pp. 75
ISSN:
1746-4811
Subject:
epitopes,   etc   ; Arabidopsis; RNA interference; phenotype; protein synthesis;     Show all 5 Subjects
Abstract:
... The sorting of RNA transcripts dictates their ultimate post-transcriptional fates, such as translation, decay or degradation by RNA interference (RNAi). This sorting of RNAs into distinct fates is mediated by their interaction with RNA-binding proteins. While hundreds of RNA binding proteins have been identified, which act to sort RNAs into different pathways is largely unknown. Particularly in pl ...
DOI:
10.1186/s13007-022-00907-w

12. Components of a HIV-1 vaccine mediate virus-like particle (VLP)-formation and display of envelope proteins exposing broadly neutralizing epitopes

Author:
Jamila Franca Rosengarten; Stefanie Schatz; Tobias Wolf; Stephan Barbe; Jörn Stitz
Source:
Virology 2022 v.568 pp. 41-48
ISSN:
0042-6822
Subject:
epitopes,   etc   ; gene transfer; sequence diversity; vaccines; virology;     Show all 5 Subjects
Abstract:
... The sequence diversity of HIV-1 is the biggest hurdle for the design of a prophylactic vaccine. Mosaic (Mos) antigens consisting of synthetically shuffled epitopes from various HIV-1 strains are currently tested in the clinical vaccine trial Mosaico (NCT03964415). Besides adenovirus vectors encoding variants of Mos.Gag-Pol and soluble Mos.Env proteins, the Mosaico vaccine entails vectors mediating ...
DOI:
10.1016/j.virol.2022.01.008

13. Improved Swiss-rolling method for histological analyses of colon tissue

Author:
Julie Le Naour; Léa Montégut; Adrien Joseph; Kévin Garbin; Erika Vacchelli; Guido Kroemer; Jonathan G. Pol; Maria Chiara Maiuri
Source:
MethodsX 2022 v.9 no. pp. 101630
ISSN:
2215-0161
Subject:
epitopes,   etc   ; carcinogenesis; colon; immunohistochemistry; inflammation; mice; resection;     Show all 7 Subjects
Abstract:
... Since the introduction of the Swiss-rolling technique by Reilly and Kirsner in 1965, various methodological approaches have been developed for histological analyses of intestinal tissues. Here, we describe an improved protocol for the processing of freshly harvested murine colons that can be extended to other intestinal tissues. With simple tools, this technique allows to tightly wrap the organ th ...
DOI:
10.1016/j.mex.2022.101630

14. RIF1 acts in DNA repair through phosphopeptide recognition of 53BP1

Author:
Dheva Setiaputra; Cristina Escribano-Díaz; Julia K. Reinert; Pooja Sadana; Dali Zong; Elsa Callen; Chérine Sifri; Jan Seebacher; André Nussenzweig; Nicolas H. Thomä; Daniel Durocher
Source:
Molecular cell 2022 v.82 no.7 pp. 1359-1371.e9
ISSN:
1097-2765
Subject:
epitopes,   etc   ; DNA; DNA damage; DNA repair; mutation; phosphopeptides;     Show all 6 Subjects
Abstract:
... The chromatin-binding protein 53BP1 promotes DNA repair by orchestrating the recruitment of downstream effectors including PTIP, RIF1, and shieldin to DNA double-strand break sites. While we know how PTIP recognizes 53BP1, the molecular details of RIF1 recruitment to DNA-damage sites remains undefined. Here, we report that RIF1 is a phosphopeptide-binding protein that directly interacts with three ...
DOI:
10.1016/j.molcel.2022.01.025

15. Antibodies to Crucial Epitopes on HSV-2 Glycoprotein D as a Guide to Dosing an mRNA Genital Herpes Vaccine

Author:
Lauren M. Hook; Sita Awasthi; Tina M. Cairns; Mohamad-Gabriel Alameh; Bernard T. Fowler; Kevin P. Egan; Molly M. H. Sung; Drew Weissman; Gary H. Cohen; Harvey M. Friedman
Source:
Viruses 2022 v.14 no.3 pp. -
ISSN:
1999-4915
Subject:
epitopes,   etc   ; blood serum; glycoproteins; humans; toxicity; vaccines; viruses;     Show all 7 Subjects
Abstract:
... The toxicity of mRNA-lipid nanoparticle (LNP) vaccines depends on the total mRNA-LNP dose. We established that the maximum tolerated dose of our trivalent mRNA-LNP genital herpes vaccine was 10 μg/immunization in mice. We then evaluated one of the mRNAs, gD2 mRNA-LNP, to determine how much of the 10 μg total dose to assign to this immunogen. We immunized mice with 0.3, 1.0, 3.0, or 10 μg of gD2 mR ...
DOI:
10.3390/v14030540

16. Immunogenicity and humanization of single‐domain antibodies

Author:
Martin A. Rossotti; Kasandra Bélanger; Kevin A. Henry; Jamshid Tanha
Source:
FEBS journal 2022 v.289 no.14 pp. 4304-4327
ISSN:
1742-464X
Subject:
epitopes,   etc   ; Camelidae; antibodies; genes; humans; immunogenicity; risk; sharks;     Show all 8 Subjects
Abstract:
... Single‐domain antibodies (sdAbs), the autonomous variable domains of camelid and shark heavy‐chain antibodies, have many desirable properties as components of biologic drugs. However, their sequences may increase the risk of immunogenicity and antidrug antibody (ADA) development in humans, and thus, sdAbs are routinely humanized during development. Here, we review and summarize the available evide ...
DOI:
10.1111/febs.15809

17. Epitope mapping of antibodies in C-reactive protein assay kits by hydrogen-deuterium exchange mass spectrometry explains differential results across kits

Author:
Haofeng Sun; Jianyi Liu; Peng Xiao; Yi Zhou; Hongmei Li; Min Shen; Keqi Sun; Xiaojian Wang; Min Zhou; Dewei Song
Source:
Analytical and bioanalytical chemistry 2022 v.414 no.13 pp. 3875-3884
ISSN:
1618-2642
Subject:
epitopes,   etc   ; C-reactive protein; analytical chemistry; inflammation; mass spectrometry;     Show all 5 Subjects
Abstract:
... C-Reactive protein (CRP) is an important marker for in vitro diagnosis (IVD) of inflammation. However, CRP immunoturbidimetric kits from different manufacturers exhibit inconsistency in evaluation, making clinical diagnosis challenging. The use of immunological methods in diagnosis means that the differences in epitopes across kits may directly lead to inconsistent results. Therefore, to provide c ...
DOI:
10.1007/s00216-022-04029-z

18. Non-linear in cis-spliced bacterial MHC class II epitopes are formed in human monocyte-derived dendritic cells and are recognized by human CD4+ T cells

Author:
Hugo D. Meiring; Betsy A.J. Kuipers; Jacqueline A.M. van Gaans-van den Brink; Martien C.M. Poelen; Ad P.J.M. de Jong; Albert J.R. Heck; Cecile A.C.M. van Els
Source:
Molecular immunology 2022 v.150 no. pp. -
ISSN:
0161-5890
Subject:
epitopes,   etc   ; Neisseria meningitidis; homozygosity; humans; immunogenicity; peptides; porins; proteinases;     Show all 8 Subjects
Abstract:
... Pathogen-derived spliced MHC class II epitopes have not been reported so far. Earlier we studied HLA-DRB*0101-presented peptides derived from P1.7-2,4, a major outer membrane porin (PorA) serosubtype from Neisseria meningitidis, using stable isotope-tagging of the antigens. We found evidence for +114Da and +270Da in cis-spliced peptide variants, but could not unequivocally identify their sequence ...
DOI:
10.1016/j.molimm.2022.05.083

19. Resting and Activated DCs Present Exogenous Antigens to CD4 T Cells by Distinct Antigen Processing Pathways

Author:
Paul Roche; Kyung-Jin Cho; Satoshi Ishido; Laurence Eisenlohr
Source:
Molecular immunology 2022 v.150 no. pp. -
ISSN:
0161-5890
Subject:
epitopes,   etc   ; CD4-positive T-lymphocytes; Orthomyxoviridae; endosomes; hemagglutinins; labor; peptides;     Show all 7 Subjects
Abstract:
... Activation of immature DCs by pathogens results in an APC that is a highly efficient stimulator of naïve CD4 T cells. Curiously, even fully-mature DCs can efficiently process and present antigenic peptide to CD4 T cells, however the mechanism used by mature DCs to function as APCs and whether these mechanisms are identical in immature DC and mature DC is not known. We now show that that immature a ...
DOI:
10.1016/j.molimm.2022.05.110

20. Characterization of the Reduced IgE Binding Capacity in Boiled and Autoclaved Soybeans through Proteomic Approaches

Author:
Xiaowen Pi; Yuxue Sun; Xiaomin Deng; Dawei Xin; Jianjun Cheng; Mingruo Guo
Source:
Foods 2022 v.11 no.3 pp. -
ISSN:
2304-8158
Subject:
epitopes,   etc   ; allergens; autoclaving; heat; peptides; polyacrylamide gel electrophoresis; proteomics; soybeans;     Show all 8 Subjects
Abstract:
... The study investigated the changes in IgE binding capacity, protein profiles and peptide compositions after soybeans were boiled and autoclaved. The results of ELISA showed that the IgE binding capacity of soybean was reduced by 69.3% and 88.9% after boiling and autoclaving, respectively. Above 43 and 10 kDa proteins disappeared in boiled and autoclaved soybeans from SDS-PAGE, respectively. A Venn ...
DOI:
10.3390/foods11030479