MOLECULES
·
2019
·Vol. 24
·期 17
·3146
·
IF 3.06
Weigui Luo,Yuan Xiao,Qiwen Liang,Yi Su,Langtao Xiao
Small signaling peptides (SSPs) are a class of short peptides playing critical roles in plant growth and development. SSPs are also involved in the phytohormone signaling pathway. However, identification of mature SSPs is still a technical challenge because of their extremely low concentrations in plant tissue and complicated interference by many other metabolites. Here, we report an optimized protocol to extract SSPs based on protoplast extraction and to analyze SSPs based on tandem mass spectrometry peptidomics. Using plant protoplasts as the material, soluble peptides were directly extracted into phosphate buffer. The interference of non-signaling peptides was significantly decreased. Moreover, we applied the protocol to identify potential SSPs in auxin treated wild type and auxin biosynthesis defective mutantyuc2yuc6. Over 100 potential SSPs showed a response to auxin inArabidopsis thaliana.Keywords:small signaling peptides;plant protoplast;peptidomics;auxin
研究领域:
植物生物学
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分子生物学
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生物化学
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DOI
PubMed
高影响因子
Food Chemistry-X
·
2024
·
IF 6.5
Jinyu Xu,Xiaodan Wang,Xiaoxuan Zhao,Hongyu Cao,Yunna Wang,Ning Xie,Xu Li,Xiaoyang Pang,Jiaping Lv,Shuwen Zhang
The quality issues of ultra-high-temperature (UHT) milk, such as protein hydrolysis and aging gels throughout shelf life, are caused by proteases from psychrophilic bacteria. However, existing enzyme activity detection techniques have low sensitivity and cannot accomplish the detection of product deterioration caused by low enzyme activity. In this study, an attempt was made to analyze the relationship between enzymatically cleaved peptides and product quality using peptidomics techniques. The impact of psychrophilic bacteria proteases on the quality of UHT milk was investigated based on peptidomics by exogenously adding proteases. The results indicated that the protease activity and protein hydrolysis increased significantly in UHT milk over the storage period. Through peptidomic analysis, 2479 peptides were identified, in which 32 proteins linked to the identified peptides. 17 potential marker peptides, including αS 1 -casein 143–156 , β -lactoglobulin 99–108 , and β -casein 39–66 , were screened. The correlation of all identified peptides with protease activity and protein hydrolysis was explored by the weighted gene co-expression network analysis (WGCNA) method. The peptidomics technology helps to study the release or degradation of peptides in UHT milk during storage, which can be applied to monitor the shelf life of UHT milk and predict spoilage.
研究领域:
食品科学
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微生物学
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蛋白质组学
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DOI
PubMed
高影响因子
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
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2024
·
IF 3.8
Song Zhijing,Liu Chaoran,Liu Yaozhou,Bian Zheng,Sun Qing,He Ting,Su Rong,Huang Shengchun,Dai Ningbin,Zhao Ke li,Li Yan,Liang Kai
After recovering from COVID-19, many patients experience “long COVID” symptoms. Existing research has predominantly focused on moderate to severe cases, with limited studies examining mild cases and recurrent infections. The circulating low-molecular-weight (LMW) peptidome, involving lipid metabolism, coagulation, and immune pathways, is crucial for understanding COVID-19’s long-term effects. We developed a peptidomics workflow utilizing solid-phase extraction with highly wrinkled GO-Fe 3 O 4 composite materials (HWGO-F) and nanoLC-MS/MS detection. By altering the pH, HWGO-F enhances plasma peptide adsorption and purification. Compared to traditional methods, our workflow offers improved detection depth and reproducibility for over 70% of peptide signals with CV < 20%. We investigated plasma peptide profiles in mild COVID-19 patients post-recovery from single or second infections. The findings indicate persistent abnormalities in initial COVID-19 infections’ plasma peptide profiles, gradually diminishing over time. Secondary infections prolong recovery. Disrupted functions include lipid metabolism, coagulation and complement cascades, and infection-related pathways. Lipid metabolism may normalize within 3 months, while coagulation and immune abnormalities can last 3–6 months. After secondary infections, lipid metabolism irregularities may last at least 1 month, with extended coagulation and immune imbalances. These results provide a theoretical foundation for understanding the widespread occurrence of long COVID and guide recovery care for mild cases. Graphical
研究领域:
医学
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生物化学
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流行病学
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DOI
PubMed
高影响因子
FOOD CHEMISTRY
·
2025
·
IF 9.8
Yongzhao Bi,Xingming Sun,Yan Huang,Baoguo Sun,Li Liang,Yuyu Zhang
The molecular basis of bitterness in soy sauce was investigated through an integrated approach combining peptidomics, sensory evaluation, cell biology, and molecular docking. Ethanol-extracted bitter peptides (BPs) were identified via liquid chromatography-tandem mass spectrometry. Seventeen BP candidates were shortlisted based on toxicity, allergenicity, bitterness predictions and hydrophobicity calculation. Sensory evaluation showed that 13 peptides exhibited bitterness, with 8 significantly enhancing bitterness of 6 key free amino acids in soy sauce. Using a HEK-293T cell-based cAMP assay, FYL and VLY were identified as hTAS2R4 ligands (EC₅₀ = 62.11 and 199.51 μM, respectively). Molecular docking revealed that both peptides bind primarily via hydrophobic interactions to residues such as VAL85, PHE88, and PHE62. These findings provide a theoretical basis for bitterness mechanism and flavor improvement of soy sauce.
研究领域:
食品科学
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分子生物学
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感官科学
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细胞生物学
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代谢组学
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DOI
PubMed
高影响因子
JOURNAL OF COLLOID AND INTERFACE SCIENCE
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2022
·
IF 9.965
Lijun Yang,Jiaxing Zhang,Mengfan Wang,Yutong Wang,Wei Qi,Zhimin He
As bridging species between short peptides and macromolecular proteins, peptide assemblies not only provide a supramolecular approach for the fabrication of controllable molecular machines with enzyme-like functions, but also a simplified model for understanding the catalytic mechanism of natural enzymes. In this study, we focused on probing the effect of microenvironment on the catalytic behavior of peptide assemblies. Upon simply replacing the X residue in Fmoc-FFXAH-CONH 2 , we realized the modulation of the microenvironment of the amyloid assemblies, which thus appeared esterase-like function with different catalytic abilities. The chemistry , structure and activity were analyzed to explore the principles that how the hydrophobic, charged, polar and chiral microenvironment deciding the catalytic behavior of the esterase mimic. In addition, we also presented the potential of the catalytic assemblies in the encapsulation, delivery and enzymatic metabolization of a mutual prodrug . This work sheds new insights for understanding the structure–function relationship of catalytic peptide assemblies and natural enzymes, and also provides a new avenue for the designing of artificial enzymes with better functions.
研究领域:
生物化学
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分子生物学
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催化科学
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DOI
PubMed
高影响因子
FOOD CHEMISTRY
·
2024
·
IF 8.5
Rongfang Yan,Ning Zhang,Weihua Liu,Xuelian Hu,Wenxiu Wang,Yiwei Tang,Shuo Wang,Xianghong Wang,Qinghai Sheng
Self-assembled Eu-dipeptide (tryptophan-phenylalanine) microparticles with multi-emission fluorescence was prepared and modified with a single-stranded DNA corresponding to the sulfamethazine (SMZ) adapter (Eu-PMPs@cDNA). Aptamer-functionalized magnetic Fe 3 O 4 (MNPs@aptamer) was used to specifically bind the target SMZ. Using Eu-PMPs@cDNA as fluorescent signal probe and MNPs@aptamer as catcher, a noncompetitive fluorescence sensing strategy was developed for determination of SMZ with good sensitivity, accuracy, selectivity, and stability. Under the optimized conditions, fluorescence increases linearly in the 0–20 ng/mL SMZ concentration range, and the detection limit is 0.014 ng/mL. The fluorescence sensing method was applied to analysis of water and fish muscle samples, and recoveries ranged from 81.78 to 119.46 % with relative standard deviations below 4.2 %. This study offered a reliable and sensitive fluorescence sensing strategy for SMZ determination in food samples, which owns great potential for wide-ranging application in harmful compounds assay by simply changing the type of aptamer and its complementary single-stranded DNA.
研究领域:
分析化学
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食品科学
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生物医学工程
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DOI
PubMed
高影响因子
FOOD RESEARCH INTERNATIONAL
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2024
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IF 7
Xialin Chen,Dandan Li,Rongrong He,Jiajia Wang,Ru Yang,Mengyu Qian,Liang Cao,Yongwen Zhang,Zhenzhong Wang,Wei Xiao
Polyrhachis dives ( P. dives ) is a traditional edible insect with high nutritional value and is the only ant species that is administered as medicine and food. Therefore, it is of great significance to identify the authenticity of the species. In the current study, peptidomics analysis combining untargeted MS with targeted MS was developed and applied for the identification of specific peptides in P. dives and the establishment of quality control. A total of 16 specific peptides were screened, and 7 specific peptides with satisfactory signal response were obtained by targeted mass spectrometry, which could be used to distinguish P. dives from other ant species and ensure the quality of edible ants. Subsequently, the 7 specific peptides were quantitatively analyzed, followed by clustering analysis and biological activity experiments to categorize them into distinct qualities, providing valuable references for further development of quality control methods for P. dives .
研究领域:
昆虫学
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食品科学
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质谱分析
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DOI
PubMed
高影响因子
JOURNAL OF FOOD COMPOSITION AND ANALYSIS
·
2025
·
IF 4.6
Ying Sun,Dong Wei,Ziming Huang,Jinyao Song,Yiyang Zhang,Yueting Zhou,Bingbing Wang,Can Wang,Jing Wang,Hao Zhang
The inhibitory activity of different ultrafiltration fractions derived from the water-soluble extract of Zhenjiang aromatic vinegar (ZAV) on angiotensin-converting enzyme (ACE) was evaluated, and endogenous peptides with potential ACE inhibition were screened through ultrafiltration and reversed-phase high-performance liquid chromatography (RP–HPLC) coupled with ACE inhibition detection. Several novel ACE inhibitory peptides were identified using a peptidomic approach based on nanoLC-MS/MS. A total of 710 peptides were identified in the RP–HPLC fractions. Additionally, four novel peptides with potential ACE inhibitory activity were identified: FPEQPP, VVPPGHPV, FPPQQP, and YGRGPIE, with IC 50 values of 3.7 ± 0.1 μM, 3.3 ± 0.4 μM, 1.6 ± 0.2 μM, and 5.9 ± 0.2 μM, respectively. Of these novel peptides, FPPQQP was the peptide with the most potent antihypertensive activity, which acted as a strong inhibitor of ACE through molecular docking. These findings suggest that integrating peptidomics and molecular docking provides an efficient strategy for the rapid investigation of ACE inhibitory peptides in food matrices.
研究领域:
食品科学
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生物化学
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药理学
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DOI
高影响因子
Journal of Materials Chemistry B
·
2018
·Vol. 7
·期 6
·915-926
·
IF 4.776
Hong Liang,Ao Hu,Xiaobing Chen,Rongrong Jin,Kefeng Wang,Bowen Ke,Yu Nie
Disulfide modified lipopeptide assemblies with an arginine-rich dendritic periphery provide a promising platform for effective gene transfer. Dendritic arginine peptides that mimic the cell-penetrating peptides of a virus envelope are vital for complexation, interaction with physical barriers, and final gene release. Here, we report three lipopeptides with different-generation dendritic peripheries (R1LS, R2LS and R3LS), each of which contains a dioleoyl-L-lysinate hydrophobic tail. Such molecules were proven to self-assemble in aqueous solution with different morphologies, sizes, and surface zeta potentials. R2LS and R3LS assemblies showed spherical and spindle shapes with zeta potentials of 27.2 and 32.8 mV, respectively. They exhibited complete condensation of pDNA at a low N/P ratio, while R1LS assemblies displayed a fiber pattern with a relatively low electric potential of 10.9 mV with poor DNA binding ability. In a cellular viability experiment, R1LS and R2LS have no significant cytotoxicity even at high dosage, while R3LS showed conspicuous toxicity. As a gene vector, R2LS presented high gene transfection efficiency either in the presence or the absence of serum, which was 58.7% greater than liposome 2000 and PEI in the condition of 10% fetal bovine serum for HeLa cells. While R3LS showed good results just without serum and R1LS was unserviceable in all situations. Moreover, molecular dynamic simulation was exploited to analyze the kinestate of the signal molecule and the interactions of multiple molecules, which could assist us in better understanding the experimental phenomena. The simulation results indicated that the R2LS molecule has better flexibility, which was favorable for interaction with the cell membrane. And it could generate tight integration in self-assembly while R1LS and R3LS assemblies have a large molecular interval, which led to a controllable release of cargos for R2LS in a reductive environment. In summary, the generation of the dendrimer in lipopeptides is vital for the gene transfer effect. For optimization, it is necessary to study the structure–function relationship, and molecular dynamic simulation is an effective strategy for screening the molecular structure and even for predicting experimental results.
研究领域:
生物化学
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分子生物学
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药剂学
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产品关联
DOI
PubMed
高影响因子
LWT-FOOD SCIENCE AND TECHNOLOGY
·
2025
·
IF 6.6
Peng Sun,Wenjiao Du,Yijia Zheng,Qi Sun,Xiaomeng Wu,Qing Zhao,Guangqing Mu,Changhong Ma,Zhaoxu Li,Fanhua Kong
β-lactoglobulin (β-LG) is a major allergen in dairy, and enzymatic hydrolysis is an effective way to reduce its antigenicity. This research aimed to explore the differential mechanisms of the effects of Alcalase and Flavourzyme from different manufacturers, Novozymes (N) and Yuanye (Y), on the antigenicity of β-LG. Following optimization using Response Surface Methodology, the antigenicity reduction rates of β-LG by the two Alcalase enzymes were both higher than those of Flavourzyme. However, the degree of hydrolysis indicated that there was no linear relationship between the DH and antigenicity. The results of conformational changes indicated that compared with the other three enzymes, N-Alcalase treatment significantly altered the vibrational stretching of C=O and N-H groups, accompanied by a reduction in α-helix content, fluorescence intensity, and surface hydrophobicity. Peptidomics analysis further revealed that N-Alcalase effectively removed critical allergenic linear epitope regions of β-LG, including amino acids (AA) 16–22, 88–107, and 150–158, where AA 88–107 tends to exhibit higher allergenic potential. In contrast, Flavourzyme exhibited limited efficacy in this regard. The findings indicate that N-Alcalase holds greater potential for reducing β-LG antigenicity, providing a theoretical foundation and technical support for the production of hypoallergenic dairy-based materials.
研究领域:
食品科学
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过敏研究
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酶学
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分子生物学
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乳品技术
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产品关联
DOI
高影响因子
JOURNAL OF PROTEOME RESEARCH
·
2023
·
IF 4.4
Xuetong Qu,Bin He,Zekuan Li,Xinrong Jiang,Xingyue Liu,Xisheng Chen,Xiaoming Chen,Xiao Liang,Zhijun Jiang,Jianmin Wu
Cholangiocarcinoma (CCA) is an aggressive malignant tumor with a poor prognosis. Carbohydrate antigen 19-9 is an essential biomarker for CCA diagnosis, but its low sensitivity (72%) makes the diagnosis unreliable. To explore potential biomarkers for the diagnosis of CCA, a high-throughput nanoassisted laser desorption ionization mass spectrometry technique was constructed. We performed serum lipidomics and peptidomics analyses from 112 patients with CCA and 123 patients with benign biliary diseases. Lipidomics analysis showed that various lipids, such as glycerophospholipids, glycerides, and sphingolipids, were perturbed. Peptidomics analysis revealed perturbations of multiple proteins involved in the coagulation cascade, lipid transport, and so on. After data mining, 25 characteristic molecules including 20 lipids and 5 peptides were identified as potential diagnostic biomarkers. After screening various machine learning algorithms, artificial neural network was selected to construct a multiomics model for CCA diagnosis with 96.5% sensitivity and 96.4% specificity. The sensitivity and specificity of the model in the independent test cohort were 93.8 and 87.5%, respectively. Furthermore, integrated analysis with transcriptomic data in the cancer genome atlas confirmed that genes altered in CCA significantly affected multiple lipid- and protein-related pathways. Data are available via MetaboLights with the identifier MTBLS6712.
研究领域:
医学
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分子生物学
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肿瘤学
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产品关联
DOI
PubMed
高影响因子
JOURNAL OF FOOD SCIENCE
·
2025
·Vol. 90
·期 1
·e17604
·
IF 3.4
Yujiao Zhang,Li Zhang,Like Lin,Yiran Zhang,Cong Li,Bang Chen,Yehua Shen
The purpose of this article is to investigate the effects of walnut ( Juglans regia L.) kernel pellicle on the composition and properties of enzymatic hydrolysis products of walnut meal using peptidomics and bioinformatics. In this study, a total of 3423 peptide sequences were identified in peeled walnut protein hydrolysates (PWPH) and unpeeled walnut protein hydrolysates (UWPH). Due to the presence of the walnut kernel pellicle, the enzyme cleavage sites of alkaline proteases on walnut precursor proteins were altered, resulting in differences in the number and length of the peptides obtained. Principal component analysis indicates significant differences between PWPH and UWPH. Combined with bioinformatics analysis, it was shown that walnut kernel peeling improved the release of peptides, formed more bioactive peptides, reduced allergenicity, and improved water solubility. Seven peptides with acetylcholinesterase (AChE) inhibitory activity were identified, and the peptide Val-Gly-Ala-Pro-Phe-Asp-Gly-Ala (VGAPFDGA) has the strongest inhibitory activity with an IC 50 of 0.38 ± 0.01 mg/mL. These results confirmed that walnut kernel peeling could greatly change the composition of the walnut protein hydrolysates, and seven novel peptides were reported that showed significant AChE inhibitory activity.
研究领域:
食品科学
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生物化学
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营养学
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产品关联
DOI
PubMed
高影响因子
危险品化学品经营许可证（带存储）