Multifunctional DNA Nanoflower Applied for High Specific Photodynamic Cancer Therapy in vivo
Chembiochem. 2024 May 3:e202400229. doi: 10.1002/cbic.202400229. Online ahead of print.ABSTRACTPhotodynamic therapy (PDT) is a newly emerged strategy for disease treatment. One challenge of the application of PDT drugs is the side-effect caused by the non-specificity of the photosensitive molecules. Most of the photosensitizers may invade not only the pathogenic cells but also the normal cells. In recent, people tried to use special cargoes to deliver the drugs into target cells. DNA nanoflowers (NFs) are a kind of newly-emerged nanomaterial which constructed through DNA rolling cycle amplification (RCA) reaction. It is re...
Source: Chembiochem - May 3, 2024 Category: Biochemistry Authors: Hao Zheng Xue-Nan Feng Xiang-Wan-Er Jin Zhi-Qi Dai Sha Lu Yun-Xi Cui De Kong Source Type: research
Functionalized DNA Origami-Enabled Detection of Biomarkers
Chembiochem. 2024 May 3:e202400227. doi: 10.1002/cbic.202400227. Online ahead of print.ABSTRACTBiomarkers are crucial physiological and pathological indicators in the host. Over the years, numerous detection methods have been developed for biomarkers, given their significant potential in various biological and biomedical applications. Among these, the detection system based on functionalized DNA origami has emerged as a promising approach due to its precise control over sensing modules, enabling sensitive, specific, and programmable biomarker detection. We summarize the advancements in biomarker detection using functionali...
Source: Chembiochem - May 3, 2024 Category: Biochemistry Authors: Caiqing Yuan Fei Zhou Zhihao Xu Dunkai Wu Pengfei Hou Donglei Yang Li Pan Pengfei Wang Source Type: research
Using LanM Enzymes to Modify Glycagon-Like Peptides 1 and 2 in E.coli
Chembiochem. 2024 May 3:e202400201. doi: 10.1002/cbic.202400201. Online ahead of print.ABSTRACTSelective modification of peptides is often exploited to improve pharmaceutically relevant properties of bioactive peptides like stability, circulation time, and potency. In Nature, natural products belonging to the class of ribosomally synthesized and post-translationally modified peptides (RiPPs) are known to install a number of highly attractive modifications with high selectivity. These modifications are installed by enzymes guided to the peptide by corresponding leader peptides that are removed as the last step of biosynthes...
Source: Chembiochem - May 3, 2024 Category: Biochemistry Authors: Camilla Kjeldgaard Larsen Peter Lindquist Mette Rosenkilde Alice Ravn Madsen Kim Haselmann Tine Glendorf Kjeld Olesen Anne Louise Bank Kodal Thomas T ørring Source Type: research
Synthesis of new bodipy hydrazide fluorescent probes for the detection of carbonylated proteins generated by oxidative stress
We describe the design and the synthetic pathway of new BODIPY fluorescent probes functionalized with hydrazide function for protein carbonyl labeling to improve existing methodologies such as 2D-Oxi electrophoresis. Hydrazide BODIPY analogues show very good fluorescent properties such as NIR emission up to 633 nm and quantum yield up to 0.88. These new probes were validated for the detection and quantification of carbonylated proteins with 2D-Oxi electrophoresis using mouse muscle protein extracts, as well as both flow cytometry and microscopy using oxidant stressed C2C12 cells.PMID:38695553 | DOI:10.1002/cbic.202400093 (Source: Chembiochem)
Source: Chembiochem - May 2, 2024 Category: Biochemistry Authors: Anthony Nina Diogo Janek Hyzewicz Marie-Paule Hamon Jeremy Fort é Serge Thorimbert Bertrand Friguet Candice Botuha Source Type: research
PET Ligands for Imaging Mutant Huntingtin Aggregates: A Case Study in Non-For-Profit Scientific Management
Chembiochem. 2024 May 2:e202400152. doi: 10.1002/cbic.202400152. Online ahead of print.ABSTRACTPositron emission tomography imaging of misfolded proteins with high-affinity and selective radioligands has played a vital role in expanding our knowledge of neurodegenerative diseases such as Parkinson's and Alzheimer's disease. The pathogenesis of Huntington's disease, a CAG trinucleotide repeat disorder, is similarly linked to the presence of protein fibrils formed from mutant huntingtin (mHTT) protein. Development of mHTT fibril-specific radioligands has been limited by the lack of structural knowledge around mHTT and a dear...
Source: Chembiochem - May 2, 2024 Category: Biochemistry Authors: Catherine G F Dickmann Selena Milicevic Sephton Roger A Barker Franklin I Aigbirhio Source Type: research
Improvement of heterologous soluble expression of L-amino acid oxidase using logistic regression
In this study, we present a new and more accurate model for predicting amino acids associated with an increased L-amino acid oxidase (LAO) solubility. Expressing LAO from Rhizoctonia solani in Escherichia coli and combining random mutagenesis and statistical logistic regression, we modified 108 amino acid residues by substituting hydrophobic amino acids with serine and hydrophilic amino acids with alanine. Our results indicated that specific mutations in Euclidean distance, glycine, methionine, and secondary structure increased LAO expression. Furthermore, repeated mutations were performed for LAO based on logistic regress...
Source: Chembiochem - May 2, 2024 Category: Biochemistry Authors: Ayuta Nakahara Zhengyu Su Mamoru Wakayama Masaki Nakamura Kazutoshi Sakakibara Daisuke Matsui Source Type: research
Synthesis of new bodipy hydrazide fluorescent probes for the detection of carbonylated proteins generated by oxidative stress
We describe the design and the synthetic pathway of new BODIPY fluorescent probes functionalized with hydrazide function for protein carbonyl labeling to improve existing methodologies such as 2D-Oxi electrophoresis. Hydrazide BODIPY analogues show very good fluorescent properties such as NIR emission up to 633 nm and quantum yield up to 0.88. These new probes were validated for the detection and quantification of carbonylated proteins with 2D-Oxi electrophoresis using mouse muscle protein extracts, as well as both flow cytometry and microscopy using oxidant stressed C2C12 cells.PMID:38695553 | DOI:10.1002/cbic.202400093 (Source: Chembiochem)
Source: Chembiochem - May 2, 2024 Category: Biochemistry Authors: Anthony Nina Diogo Janek Hyzewicz Marie-Paule Hamon Jeremy Fort é Serge Thorimbert Bertrand Friguet Candice Botuha Source Type: research
PET Ligands for Imaging Mutant Huntingtin Aggregates: A Case Study in Non-For-Profit Scientific Management
Chembiochem. 2024 May 2:e202400152. doi: 10.1002/cbic.202400152. Online ahead of print.ABSTRACTPositron emission tomography imaging of misfolded proteins with high-affinity and selective radioligands has played a vital role in expanding our knowledge of neurodegenerative diseases such as Parkinson's and Alzheimer's disease. The pathogenesis of Huntington's disease, a CAG trinucleotide repeat disorder, is similarly linked to the presence of protein fibrils formed from mutant huntingtin (mHTT) protein. Development of mHTT fibril-specific radioligands has been limited by the lack of structural knowledge around mHTT and a dear...
Source: Chembiochem - May 2, 2024 Category: Biochemistry Authors: Catherine G F Dickmann Selena Milicevic Sephton Roger A Barker Franklin I Aigbirhio Source Type: research
Improvement of heterologous soluble expression of L-amino acid oxidase using logistic regression
In this study, we present a new and more accurate model for predicting amino acids associated with an increased L-amino acid oxidase (LAO) solubility. Expressing LAO from Rhizoctonia solani in Escherichia coli and combining random mutagenesis and statistical logistic regression, we modified 108 amino acid residues by substituting hydrophobic amino acids with serine and hydrophilic amino acids with alanine. Our results indicated that specific mutations in Euclidean distance, glycine, methionine, and secondary structure increased LAO expression. Furthermore, repeated mutations were performed for LAO based on logistic regress...
Source: Chembiochem - May 2, 2024 Category: Biochemistry Authors: Ayuta Nakahara Zhengyu Su Mamoru Wakayama Masaki Nakamura Kazutoshi Sakakibara Daisuke Matsui Source Type: research
Probing Peptidoglycan Synthesis in the Gut Commensal Akkermansia muciniphila with Bioorthogonal Chemical Reporters
Chembiochem. 2024 Apr 30:e202400037. doi: 10.1002/cbic.202400037. Online ahead of print.ABSTRACTOur gut microbiota directly influences human physiology in health and disease. The myriad of surface glycoconjugates in both the bacterial cell envelope and our gut cells dominate the microbiota-host interface and play a critical role in host response and microbiota homeostasis. Among these, peptidoglycan is the basic glycan polymer offering the cell rigidity and a basis on which many other glycoconjugates are anchored. To directly study peptidoglycan in gut commensals and obtain the molecular insight required to understand thei...
Source: Chembiochem - April 30, 2024 Category: Biochemistry Authors: Tjerk Sminia Steven Aalvink Hanna de Jong Marcel Tempelaars Han Zuilhof Tjakko Abee Willem de Vos Hanne Tytgat Tom Wennekes Source Type: research
Probing Peptidoglycan Synthesis in the Gut Commensal Akkermansia muciniphila with Bioorthogonal Chemical Reporters
Chembiochem. 2024 Apr 30:e202400037. doi: 10.1002/cbic.202400037. Online ahead of print.ABSTRACTOur gut microbiota directly influences human physiology in health and disease. The myriad of surface glycoconjugates in both the bacterial cell envelope and our gut cells dominate the microbiota-host interface and play a critical role in host response and microbiota homeostasis. Among these, peptidoglycan is the basic glycan polymer offering the cell rigidity and a basis on which many other glycoconjugates are anchored. To directly study peptidoglycan in gut commensals and obtain the molecular insight required to understand thei...
Source: Chembiochem - April 30, 2024 Category: Biochemistry Authors: Tjerk Sminia Steven Aalvink Hanna de Jong Marcel Tempelaars Han Zuilhof Tjakko Abee Willem de Vos Hanne Tytgat Tom Wennekes Source Type: research
Task-similarity is a crucial factor for few-shot meta-learning of structure-activity relationships
In this study, we assessed the effectiveness of two different meta-learning methods, namely model-agnostic meta-learning (MAML) and adaptive deep kernel fitting (ADKF), specifically in the regression setting. We investigated how factors such as dataset size and the similarity of training tasks impact predictability. The results indicate that ADKF significantly outperformed both MAML and a single-task baseline model on the inhibition data. However, the performance of ADKF varied across different test tasks. Our findings suggest that considerable enhancements in performance can be anticipated primarily when the task of inter...
Source: Chembiochem - April 29, 2024 Category: Biochemistry Authors: Alexander K ötter Stephan Allenspach Christoph Grebner Hans Matter Jan Hiss Gisbert Schneider Gerhard Hessler Source Type: research
Binding and Stabilization of a Semiquinone Radical by an artificial Metalloenzyme containing a Binuclear copper (II) cofactor
Chembiochem. 2024 Apr 29:e202400139. doi: 10.1002/cbic.202400139. Online ahead of print.ABSTRACTA binuclear Cu(II) cofactor was covalently bound to a lauric acid anchor. The resulting conjugate was characterized then combined with beta-lactoglobulin (βLG) to generate a new biohybrid following the so-called "Trojan horse" strategy. This biohybrid was examined for its effectiveness in the oxidation of a catechol derivative to the corresponding quinone. The resulting biohybrid did not exhibit the sought after catecholase activity, likely due to its ability to bind and stabilize the semiquinone radical intermediate DTB-SQ. Th...
Source: Chembiochem - April 29, 2024 Category: Biochemistry Authors: R émy Gay Yannick Masson Wadih Ghattas Guillermo A Oliveira Udry Christian Herrero Agathe Urvoas Jean-Pierre Mahy R émy Ricoux Source Type: research
A Naphthalimide based "Turn-ON" probe for wash-free imaging of lipid-droplet in living cells with an excellent selectivity
Chembiochem. 2024 Apr 29:e202400270. doi: 10.1002/cbic.202400270. Online ahead of print.ABSTRACTThe impacts of dimethylation of 4-Amino-1,8- Naphthalimide (ANI) on its photophysical properties are reported. The resulting 4-DiMe-ANI displays completely different fluorescence properties, conferring it ability to selectively label lipid droplets in living cells. A comprehensive photophysical study revealed that this selectivity arises from an Internal Charge Transfer favored in lipophilic media to the detriment of a non-emissive TICT in more polar media. This results in a very high "LDs/Cytosol" signal ratio, enabling LDs to ...
Source: Chembiochem - April 29, 2024 Category: Biochemistry Authors: Laurane Michel Philippe Durand Arnaud Chevalier Source Type: research
Task-similarity is a crucial factor for few-shot meta-learning of structure-activity relationships
In this study, we assessed the effectiveness of two different meta-learning methods, namely model-agnostic meta-learning (MAML) and adaptive deep kernel fitting (ADKF), specifically in the regression setting. We investigated how factors such as dataset size and the similarity of training tasks impact predictability. The results indicate that ADKF significantly outperformed both MAML and a single-task baseline model on the inhibition data. However, the performance of ADKF varied across different test tasks. Our findings suggest that considerable enhancements in performance can be anticipated primarily when the task of inter...
Source: Chembiochem - April 29, 2024 Category: Biochemistry Authors: Alexander K ötter Stephan Allenspach Christoph Grebner Hans Matter Jan Hiss Gisbert Schneider Gerhard Hessler Source Type: research
