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Rejeeth C, Varukattu NB, Kumar RS, Almansour AI, Arumugam N. A novel device for swift and efficient CD44 protein digestion of pipette tips in human serum. J Chromatogr B Analyt Technol Biomed Life Sci 2023; 1227:123840. [PMID: 37494752 DOI: 10.1016/j.jchromb.2023.123840] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 06/12/2023] [Accepted: 07/20/2023] [Indexed: 07/28/2023]
Abstract
For molecular diagnostics in modern biomedical research, electrospray ionisation mass spectrometry (ESI-MS) based on proteome profiling is important. Now a days, sample preparation such as proteolysis and protein extraction remain incredibly challenging and inefficient. Recent sample-preparation methods based on micro tips show promising results toward the aim "a proteome in an hour". Proteolysis at the tip, is still infrequently observed and does not represent the processing of complex bio-samples. In this study, we outline a unique technique for detecting and extracting human serum CD44 biomarkers by ligand-protein interactions. This method employs macropores silica particles (MPSP) or (MOSF) modified with hyaluronic acid (HA). In order to assist in the profile of the human serum proteome, we limitations of immunoassays for rapid and multimodal proteolysis. For effective in situ proteolysis, in micropipette tips, MPSP were designed as nanoreactors with variable pore size and surface chemistry. In MS-based bottom-up proteome analysis, the device as-built demonstrated favourable sensitivity (LOD of 0.304 ± 0.007 ng/mL and LOQ of 0.973 ± 0.054 ng/mL), selectivity, durability (at -20 °C for 2 months), reuse (at least 10 times), and minimal memory impact. In addition, we examined into specific surface chemistries of nanoparticles for the absorption of proteins in serum and profiled the HA-binding serum proteome, setting a new preliminary benchmark for future databases. Our study not only helped establish a new platform for extracting/detection of CD44 and identifying the HA-binding proteome, but it also offered design recommendations for ligand affinity-based techniques for the antibody-free study of serum biomarkers with a view towards diagnostic applications.
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Affiliation(s)
- Chandrababu Rejeeth
- Department of Biochemistry, Periyar University, Salem, Tamil Nadu 636011, India.
| | - Nipun Babu Varukattu
- Department of Nutrition and Health Sciences, The University of Nebraska Lincoln, Lincoln, NE 68583-0806, USA
| | - Raju Suresh Kumar
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Abdulrahman I Almansour
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Natarajan Arumugam
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
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Li C, Pan Y, Xiao T, Xiang L, Li Q, Tian F, Manners I, Mai Y. Metal Organic Framework Cubosomes. Angew Chem Int Ed Engl 2023; 62:e202215985. [PMID: 36647212 DOI: 10.1002/anie.202215985] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Revised: 01/08/2023] [Accepted: 01/16/2023] [Indexed: 01/18/2023]
Abstract
We demonstrate a general strategy for the synthesis of ordered bicontinuous-structured metal organic frameworks (MOFs) by using polymer cubosomes (PCs) with a double primitive structure (Im 3 ‾ ${\bar{3}}$ m symmetry) as the template. The filling of MOF precursors in the open channel of PCs, followed by their coordination and removal of the template, generates MOF cubosomes with a single primitive topology (Pm 3 ‾ ${\bar{3}}$ m) and average mesopore diameters of 60-65 nm. Mechanism study reveals that the formation of ZIF-8 cubosomes undergoes a new MOF growth process, which involves the formation of individual MOF seeds in the template, their growth and eventual fusion into the cubosomes. Their growth kinetics follows the Avrami equation with an Avrami exponent of n=3 and a growth rate of k=1.33×10-4 , indicating their fast 3D heterogeneous growth mode. Serving as a bioreactor, the ZIF-8 cubosomes show high loading of trypsin enzyme, leading to a high catalytic activity in the proteolysis of bovine serum albumin.
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Affiliation(s)
- Chen Li
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Shanghai Key Laboratory of Electrical Insulation and Thermal Ageing, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China.,Department of Chemistry, Centre for Advanced Materials and Related Technology (CAMTEC), University of Victoria, 3800 Finnerty Road, Victoria, BC, V8P 5C2, Canada
| | - Yi Pan
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Shanghai Key Laboratory of Electrical Insulation and Thermal Ageing, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Tianyu Xiao
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Shanghai Key Laboratory of Electrical Insulation and Thermal Ageing, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Luoxing Xiang
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Shanghai Key Laboratory of Electrical Insulation and Thermal Ageing, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Qian Li
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Shanghai Key Laboratory of Electrical Insulation and Thermal Ageing, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Feng Tian
- Shanghai Synchrotron Radiation Facility, Zhangjiang Lab, Shanghai Advanced Research Institute, Chinese Academy of Sciences, 239 Zhangheng Road, Shanghai, 201204, China
| | - Ian Manners
- Department of Chemistry, Centre for Advanced Materials and Related Technology (CAMTEC), University of Victoria, 3800 Finnerty Road, Victoria, BC, V8P 5C2, Canada
| | - Yiyong Mai
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Shanghai Key Laboratory of Electrical Insulation and Thermal Ageing, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
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Eddy NO, Ukpe RA, Ameh P, Ogbodo R, Garg R, Garg R. Theoretical and experimental studies on photocatalytic removal of methylene blue (MetB) from aqueous solution using oyster shell synthesized CaO nanoparticles (CaONP-O). ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022:10.1007/s11356-022-22747-w. [PMID: 36057067 DOI: 10.1007/s11356-022-22747-w] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/21/2022] [Accepted: 08/22/2022] [Indexed: 06/15/2023]
Abstract
The development of technologies for the removal of dye from aqueous solution is most desirable if the end product is relatively green (i.e., environmentally friendly). Photodegradation (as one of such technology) and photolysis (without the catalyst) was applied to investigate the role of sol-gel synthesized calcium oxide nanoparticle (using the oyster shell as the precursor). The results obtained gave substantial evidence that calcium oxide nanoparticles catalyzed the degradation of the methylene blue dye up to a maximum percentage of 98 % removal. Degradation efficiency displayed a strong dependency on time, initial dye concentration, catalyst load, pH, and ionic strength. Chi-square and sum of square error analysis indicated that the photodegradation kinetics fitted the Langmuir-Hinshelwood, first order, and pseudo first-order models best. The half-life of the dye was significantly reduced from hours to minutes due to photocatalysis. Quantum chemical calculations indicated that the degradation proceeded through adsorption, deformation/degradation, and desorption through the chloride end of the molecule linked to the calcium active center of the catalyst. Results from Fukui functions and molecular descriptors analysis confirmed the mechanism of photocatalysis.
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Affiliation(s)
- Nnabuk Okon Eddy
- Department of Pure and Industrial Chemistry, University of Nigeria, Nsukka, Enugu State, Nigeria.
| | | | - Paul Ameh
- Department of Chemistry, Nigerian Police Academy, Wudi, Kano State, Nigeria
| | - Rapheal Ogbodo
- Department of Chemistry, The University of Iowa, Iowa, USA
| | - Rajni Garg
- R&D Department, Institute of Sci-Tech Affairs, Mohali, India
| | - Rishav Garg
- Department of Civil Engineering, Galgotias College of Engineering and Technology, Greater Noida, India
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4
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Zhu C, Yang S, Li H, Wang Y, Xiong Y, Shen F, Zhang L, Yang P, Liu X. Rapid sample preparation workflow based on enzymatic nanoreactors for potential serum biomarker discovery in pancreatic cancer. Talanta 2022; 238:123018. [PMID: 34808569 DOI: 10.1016/j.talanta.2021.123018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2021] [Revised: 10/27/2021] [Accepted: 10/29/2021] [Indexed: 11/16/2022]
Abstract
Mass spectrometry (MS)-based proteomics have been extensively applied in clinical practice to discover potential protein and peptide biomarkers. However, the traditional sample pretreatment workflow remains labor-intensive and time-consuming, which limits the application of MS-based proteomic biomarker discovery studies in a high throughput manner. In the current work, we improved the previously reported procedure of the simple and rapid sample preparation methods (RSP) by introducing macroporous ordered siliceous foams (MOSF), namely RSP-MOSF. With the aid of MOSF, we further reduced the digestion time to 10 min, facilitating the whole sample handling process within 30 min. Combining with 30 min direct data independent acquisition (DIA) of LC-MS/MS, we accomplished a serum sample analysis in 1 h. Comparing with the RSP method, the performance of protein and peptide identification, quantitation, as well as the reproducibility of RSP-MOSF is comparable or even outperformed the RSP method. We further applied this workflow to analyze serum samples for potential candidate biomarker discovery of pancreatic cancer. Overall, 576 serum proteins were detected with 41 proteins significantly changed, which could serve as potential biomarkers for pancreatic cancer. Additionally, we evaluated the performance of RSP-MOSF method in a 96-well plate format which demonstrated an excellent reproducibility of the analysis. These results indicated that RSP-MOSF method had the potential to be applied on an automatic platform for further scaled analysis.
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Affiliation(s)
- Chenxin Zhu
- The Fifth People Hospital, Fudan University, And the Shanghai Key Laboratory of Medical Epigenetics, The International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institute of Biomedical Science, Fudan University, Shanghai, 200433, China
| | - Shuang Yang
- The Fifth People Hospital, Fudan University, And the Shanghai Key Laboratory of Medical Epigenetics, The International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institute of Biomedical Science, Fudan University, Shanghai, 200433, China
| | - Hengchao Li
- Department of Pancreatic Surgery, Huashan Hospital, Fudan University, Shanghai, 200040, China
| | - Yuning Wang
- Department of Chemistry, Fudan University, Shanghai, 200433, China
| | - Yueting Xiong
- The Fifth People Hospital, Fudan University, And the Shanghai Key Laboratory of Medical Epigenetics, The International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institute of Biomedical Science, Fudan University, Shanghai, 200433, China
| | - Fenglin Shen
- The Fifth People Hospital, Fudan University, And the Shanghai Key Laboratory of Medical Epigenetics, The International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institute of Biomedical Science, Fudan University, Shanghai, 200433, China
| | - Lei Zhang
- The Fifth People Hospital, Fudan University, And the Shanghai Key Laboratory of Medical Epigenetics, The International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institute of Biomedical Science, Fudan University, Shanghai, 200433, China
| | - Pengyuan Yang
- The Fifth People Hospital, Fudan University, And the Shanghai Key Laboratory of Medical Epigenetics, The International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institute of Biomedical Science, Fudan University, Shanghai, 200433, China
| | - Xiaohui Liu
- The Fifth People Hospital, Fudan University, And the Shanghai Key Laboratory of Medical Epigenetics, The International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Institute of Biomedical Science, Fudan University, Shanghai, 200433, China.
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5
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Sanna Angotzi M, Mameli V, Cara C, Borchert KBL, Steinbach C, Boldt R, Schwarz D, Cannas C. Meso- and macroporous silica-based arsenic adsorbents: effect of pore size, nature of the active phase, and silicon release. NANOSCALE ADVANCES 2021; 3:6100-6113. [PMID: 36133949 PMCID: PMC9417704 DOI: 10.1039/d1na00487e] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Accepted: 08/22/2021] [Indexed: 05/21/2023]
Abstract
Arsenic pollution in ground and drinking water is a major problem worldwide due to the natural abundance of arsenic by dissolution from ground sediment or mining activities from anthropogenic activities. To overcome this issue, iron oxides as low-cost and non-toxic materials, have been widely studied as efficient adsorbents for arsenic removal, including when dispersed within porous silica supports. In this study, two head-to-head comparisons were developed to highlight the As(v)-adsorptive ability of meso- and macrostructured silica-based adsorbents. First, the role of the textural properties of a meso-(SBA15) and macrostructured (MOSF) silica support in affecting the structural-morphological features and the adsorption capacity of the active phase (Fe2O3) have been studied. Secondly, a comparison of the arsenic removal ability of inorganic (Fe2O3) and organic (amino groups) active phases was carried out on SBA15. Finally, since silica supports are commonly proposed for both environmental and biomedical applications as active phase carriers, we have investigated secondary silicon and iron pollution. The batch tests at different pH revealed better performance from both Fe2O3-composites at pH 3. The values of q m of 7.9 mg g-1 (53 mg gact -1) and 5.5 mg g-1 (37 mg gact -1) were obtained for SBA15 and MOSF, respectively (gact stands for mass of the active phase). The results suggest that mesostructured materials are more suitable for dispersing active phases as adsorbents for water treatment, due to the obtainment of very small Fe2O3 NPs (about 5 nm). Besides studying the influence of the pore size of SBA15 and MOSF on the adsorption process, the impact of the functionalization was analyzed on SBA15 as the most promising sample for As(v)-removal. The amino-functionalized SBA15 adsorbent (3-aminopropyltriethoxysilane, APTES) exhibited a q m of 12.4 mg g-1 and faster kinetics. Furthermore, issues associated with the release of iron and silicon during the sorption process, causing secondary pollution, were evaluated and critically discussed.
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Affiliation(s)
- Marco Sanna Angotzi
- Department of Chemical and Geological Sciences, University of Cagliari S.S. 554 bivio per Sestu 09042 Monserrato CA Italy
- Consorzio Interuniversitario Nazionale per la Scienza e Tecnologia dei Materiali (INSTM), Cagliari Unit Via Giuseppe Giusti 9 50121 Firenze (FI) Italy
| | - Valentina Mameli
- Department of Chemical and Geological Sciences, University of Cagliari S.S. 554 bivio per Sestu 09042 Monserrato CA Italy
- Consorzio Interuniversitario Nazionale per la Scienza e Tecnologia dei Materiali (INSTM), Cagliari Unit Via Giuseppe Giusti 9 50121 Firenze (FI) Italy
| | - Claudio Cara
- Department of Chemical and Geological Sciences, University of Cagliari S.S. 554 bivio per Sestu 09042 Monserrato CA Italy
- Consorzio Interuniversitario Nazionale per la Scienza e Tecnologia dei Materiali (INSTM), Cagliari Unit Via Giuseppe Giusti 9 50121 Firenze (FI) Italy
| | | | - Christine Steinbach
- Leibniz-Institut für Polymerforschung Dresden e.V. Hohe Str. 6 01069 Dresden Germany
| | - Regine Boldt
- Leibniz-Institut für Polymerforschung Dresden e.V. Hohe Str. 6 01069 Dresden Germany
| | - Dana Schwarz
- Leibniz-Institut für Polymerforschung Dresden e.V. Hohe Str. 6 01069 Dresden Germany
| | - Carla Cannas
- Department of Chemical and Geological Sciences, University of Cagliari S.S. 554 bivio per Sestu 09042 Monserrato CA Italy
- Consorzio Interuniversitario Nazionale per la Scienza e Tecnologia dei Materiali (INSTM), Cagliari Unit Via Giuseppe Giusti 9 50121 Firenze (FI) Italy
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6
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Liu X, Song N, Qian D, Gu S, Pu J, Huang L, Liu J, Qian K. Porous Inorganic Materials for Bioanalysis and Diagnostic Applications. ACS Biomater Sci Eng 2021; 8:4092-4109. [PMID: 34494831 DOI: 10.1021/acsbiomaterials.1c00733] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Porous inorganic materials play an important role in adsorbing targeted analytes and supporting efficient reactions in analytical science. The detection performance relies on the structural properties of porous materials, considering the tunable pore size, shape, connectivity, etc. Herein, we first clarify the enhancement mechanisms of porous materials for bioanalysis, concerning the detection sensitivity and selectivity. The diagnostic applications of porous material-assisted platforms by coupling with various analytical techniques, including electrochemical sensing, optical spectrometry, and mass spectrometry, etc., are then reviewed. We foresee that advanced porous materials will bring far-reaching implications in bioanalysis toward real-case applications, especially as diagnostic assays in clinical settings.
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Affiliation(s)
- Xun Liu
- School of Biomedical Engineering, Institute of Medical Robotics and Med-X Research Institute, Shanghai Jiao Tong University, Shanghai 200030, P. R. China
| | - Naikun Song
- School of Biomedical Engineering, Institute of Medical Robotics and Med-X Research Institute, Shanghai Jiao Tong University, Shanghai 200030, P. R. China
| | - Dahong Qian
- School of Biomedical Engineering, Institute of Medical Robotics and Med-X Research Institute, Shanghai Jiao Tong University, Shanghai 200030, P. R. China
| | - Sai Gu
- School of Engineering, University of Warwick, Coventry CV4 7AL, W Midlands, England.,Department of Chemical and Process Engineering, University of Surrey, Guildford, Surrey GU27XH, United Kingdom
| | - Jun Pu
- Division of Cardiology, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, 160 Pujian Road, Shanghai 200127, P. R. China
| | - Lin Huang
- Stem Cell Research Center, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, 160 Pujian Road, Shanghai 200127, P. R. China
| | - Jian Liu
- Department of Chemical and Process Engineering, University of Surrey, Guildford, Surrey GU27XH, United Kingdom.,Chinese Academy of Sciences, Dalian Institute of Chemical Physics, CAS State Key Laboratory of Catalysis, 568 Zhongshan Road, Dalian 116023, P. R. China
| | - Kun Qian
- School of Biomedical Engineering, Institute of Medical Robotics and Med-X Research Institute, Shanghai Jiao Tong University, Shanghai 200030, P. R. China.,Division of Cardiology, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, 160 Pujian Road, Shanghai 200127, P. R. China
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7
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Zhao J, Jian R, Wang Y, Yang B, Zhao D, Shen C, Qiao L, Liu B. Mesoporous Silica as Sorbents and Enzymatic Nanoreactors for Microbial Membrane Proteomics. ACS APPLIED MATERIALS & INTERFACES 2021; 13:11571-11578. [PMID: 33661597 DOI: 10.1021/acsami.0c19528] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The membrane proteins of microbes are at the forefront of host and parasite interactions. Having a general view of the functions of microbial membrane proteins is vital for many biomedical studies on microbiota. Nevertheless, due to the strong hydrophobicity and low concentration of membrane proteins, it is hard to efficiently enrich and digest the proteins for mass spectrometry analysis. Herein, we design an enzymatic nanoreactor for the digestion of membrane proteins using methylated well-ordered hexagonal mesoporous silica (Met-SBA-15). The material can efficiently extract hydrophobic membrane proteins and host the proteolysis in nanopores. The performance of the enzymatic nanoreactor is first demonstrated using standard hydrophobic proteins and then validated using membrane proteins extracted from Escherichia coli (E. coli) or a mixed bacterial sample of eight strains. Using the nanoreactor, 431 membrane proteins are identified from E. coli, accounting for 38.5% of all membrane proteins of the species, which is much more than that by the widely used in-solution digestion protocol. From the mixed bacterial sample of eight strains, 1395 membrane proteins are identified using the nanoreactor. On the contrary, the traditional in-solution proteolysis workflow only leads to the identification of 477 membrane proteins, demonstrating that the Met-SBA-15 can be offered as an excellent tool for microbial membrane proteome research and is expected to be used in human microbiota studies, e.g. host-microbe interactions.
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Affiliation(s)
- Jinzhi Zhao
- Department of Chemistry and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
| | - Ruijun Jian
- Department of Chemistry and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
| | - Yuning Wang
- Department of Chemistry and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
| | - Beibei Yang
- Department of Chemistry and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
- Department of Chemistry and Chemical Engineering, Nantong University, Nantong 226000, China
| | - Dan Zhao
- Shanghai Omicsolution Co., Ltd., Shanghai 201100, China
| | - Chengpin Shen
- Shanghai Omicsolution Co., Ltd., Shanghai 201100, China
| | - Liang Qiao
- Department of Chemistry and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
| | - Baohong Liu
- Department of Chemistry and Shanghai Stomatological Hospital, Fudan University, Shanghai 200000, China
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8
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AZHAR I, LIU X, HE HY, QU QS, YANG L. A Syringe-Filter-based Portable Microreactor for Size-selective Proteolysis of Low Molecular-weight Proteins. CHINESE JOURNAL OF ANALYTICAL CHEMISTRY 2020. [DOI: 10.1016/s1872-2040(20)60061-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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9
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Zhong W, Zhang X, Zhao M, Wu J, Lin D. Advancements in nanotechnology for the diagnosis and treatment of multiple myeloma. Biomater Sci 2020; 8:4692-4711. [PMID: 32779645 DOI: 10.1039/d0bm00772b] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Multiple myeloma (MM), known as a tumor of plasma cells, is not only refractory but also has a high relapse rate, and is the second-most common hematologic tumor after lymphoma. It is often accompanied by multiple osteolytic damage, hypercalcemia, anemia, and renal insufficiency. In terms of diagnosis, conventional detection methods have many limitations, such as it is invasive and time-consuming and has low accuracy. Measures to change these limitations are urgently needed. At the therapeutic level, although the survival of MM continues to prolong with the advent of new drugs, MM remains incurable and has a high recurrence rate. With the development of nanotechnology, nanomedicine has become a powerful way to improve the current diagnosis and treatment of MM. In this review, the research progress and breakthroughs of nanomedicine in MM will be presented. Meanwhile, both superiorities and challenges of nanomedicine were discussed. As a new idea for the diagnosis and treatments of MM, nanomedicine will play a very important role in the research field of MM.
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Affiliation(s)
- Wenhao Zhong
- Department of Hematology, The Seventh Affiliated Hospital, Sun Yat-sen University, Shenzhen, 518107, P.R. China.
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Yan Y, Wang J, Chang S, Geng Y, Chen L, Gan Y. Nanofluidic devices prepared by an atomic force microscopy-based single-scratch approach. RSC Adv 2019; 9:38814-38821. [PMID: 35540223 PMCID: PMC9075969 DOI: 10.1039/c9ra06428a] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2019] [Accepted: 11/15/2019] [Indexed: 11/21/2022] Open
Abstract
Nanofluidic chips with different numbers of nanochannels were fabricated based on a commercial AFM system using a single-scratch approach. The electrical characterization and enzymatic reactions at the nanoscale were demonstrated using the obtained chips. The effects of the number of nanochannels and the solution concentration on the measured electric current were investigated. The influence of the hydrodynamic convection generated from the induced inflow at the end of the nanochannel on the ion transport through the nanochannel was also studied. Moreover, the enzymatic reactions for trypsin towards poly-l-lysine (PLL) or thrombin were conducted with a nanofluidic chip to investigate the reaction specificity between trypsin and PLL. Results show that the electric current change during the experimental process could be used as a label-free indicator to detect the enzymatic activity. A nanofluidic chip was prepared based on a commercial AFM system. Effects on ion transport and enzymatic reaction specificity were demonstrated.![]()
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Affiliation(s)
- Yongda Yan
- Key Laboratory of Micro-systems and Micro-structures Manufacturing of Ministry of Education, Harbin Institute of Technology Harbin Heilongjiang 150001 P. R. China +86-451-86415244 +86-451-86412924.,Center for Precision Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 P. R. China
| | - Jiqiang Wang
- Center for Precision Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 P. R. China
| | - Shunyu Chang
- Center for Precision Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 P. R. China
| | - Yanquan Geng
- Key Laboratory of Micro-systems and Micro-structures Manufacturing of Ministry of Education, Harbin Institute of Technology Harbin Heilongjiang 150001 P. R. China +86-451-86415244 +86-451-86412924.,Center for Precision Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 P. R. China.,School of Chemistry and Chemical Engineering, Harbin Institute of Technology Harbin 150001 China
| | - Leyi Chen
- Center for Precision Engineering, Harbin Institute of Technology Harbin Heilongjiang 150001 P. R. China
| | - Yang Gan
- School of Chemistry and Chemical Engineering, Harbin Institute of Technology Harbin 150001 China
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11
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Li Z, Xing X, Meng D, Wang Z, Xue J, Wang R, Chu J, Li M, Yang Y. Hierarchical Structure with Highly Ordered Macroporous-Mesoporous Metal-Organic Frameworks as Dual Function for CO 2 Fixation. iScience 2019; 15:514-523. [PMID: 31132745 PMCID: PMC6538925 DOI: 10.1016/j.isci.2019.05.006] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2018] [Revised: 04/19/2019] [Accepted: 05/04/2019] [Indexed: 11/28/2022] Open
Abstract
As a major greenhouse gas, the continuous increase of carbon dioxide (CO2) in the atmosphere has caused serious environmental problems, although CO2 is also an abundant, inexpensive, and nontoxic carbon source. Here, we use metal-organic framework (MOF) with highly ordered hierarchical structure as adsorbent and catalyst for chemical fixation of CO2 at atmospheric pressure, and the CO2 can be converted to the formate in excellent yields. Meanwhile, we have successfully integrated highly ordered macroporous and mesoporous structures into MOFs, and the macro-, meso-, and microporous structures have all been presented in one framework. Based on the unique hierarchical pores, high surface area (592 m2/g), and high CO2 adsorption capacity (49.51 cm3/g), the ordered macroporous-mesoporous MOFs possess high activity for chemical fixation of CO2 (yield of 77%). These results provide a promising route of chemical CO2 fixation through MOF materials.
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Affiliation(s)
- Zhenxing Li
- State Key Laboratory of Heavy Oil Processing, Institute of New Energy, China University of Petroleum (Beijing), Beijing 102249, China; Department of Materials Science and Engineering, University of California, Los Angeles, CA 90095, USA; California NanoSystems Institute, University of California, Los Angeles, CA 90095, USA.
| | - Xiaofei Xing
- State Key Laboratory of Heavy Oil Processing, Institute of New Energy, China University of Petroleum (Beijing), Beijing 102249, China
| | - Dong Meng
- Department of Materials Science and Engineering, University of California, Los Angeles, CA 90095, USA; California NanoSystems Institute, University of California, Los Angeles, CA 90095, USA
| | - Zhengxu Wang
- Department of Materials Science and Engineering, University of California, Los Angeles, CA 90095, USA; California NanoSystems Institute, University of California, Los Angeles, CA 90095, USA
| | - Jingjing Xue
- Department of Materials Science and Engineering, University of California, Los Angeles, CA 90095, USA; California NanoSystems Institute, University of California, Los Angeles, CA 90095, USA
| | - Rui Wang
- Department of Materials Science and Engineering, University of California, Los Angeles, CA 90095, USA; California NanoSystems Institute, University of California, Los Angeles, CA 90095, USA
| | - Junmei Chu
- State Key Laboratory of Heavy Oil Processing, Institute of New Energy, China University of Petroleum (Beijing), Beijing 102249, China
| | - Mingming Li
- State Key Laboratory of Heavy Oil Processing, Institute of New Energy, China University of Petroleum (Beijing), Beijing 102249, China
| | - Yang Yang
- Department of Materials Science and Engineering, University of California, Los Angeles, CA 90095, USA; California NanoSystems Institute, University of California, Los Angeles, CA 90095, USA.
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12
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Long S, Qin Q, Wang Y, Yang Y, Wang Y, Deng A, Qiao L, Liu B. Nanoporous silica coupled MALDI-TOF MS detection of Bence-Jones proteins in human urine for diagnosis of multiple myeloma. Talanta 2019; 200:288-292. [PMID: 31036186 DOI: 10.1016/j.talanta.2019.03.067] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2018] [Revised: 03/12/2019] [Accepted: 03/16/2019] [Indexed: 01/12/2023]
Abstract
Bence-Jones protein is a biomarker in urine for multiple myeloma. Traditional methods for urine Bence-Jones protein detection are either less-sensitive or laborious. Herein, we describe a new method for the detection of urine Bence-Jones protein using nanoporous materials and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS). Macroporous ordered silica foams (MOSF) were used to enrich proteins in urine, and then the materials-proteins composites were analyzed by MALDI-TOF MS. Based on the presence of specific mass spectrometric signals, Bence-Jones protein can be detected for the diagnosis of multiple myeloma. Twenty-one clinical positive and twenty-seven clinical negative urine samples were analyzed by the method. High sensitivity (95.24%, 20/21) and specificity (100%, 27/27) for the diagnosis of multiple myeloma were achieved. Compared to other methods for multiple myeloma diagnosis, e.g. immunofixation electrophoresis and immunonephelometry, our approach is more rapid, economical and convenient, which can be a new choice for the clinical diagnosis of Bence-Jones protein related diseases.
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Affiliation(s)
- Shuping Long
- Changhai Hospital, The Naval Military Medical University, Shanghai, China
| | - Qin Qin
- Changhai Hospital, The Naval Military Medical University, Shanghai, China
| | - Yuning Wang
- Department of Chemistry, Shanghai Stomatological Hospital, Fudan University, Shanghai, China
| | - Yi Yang
- Department of Chemistry, Shanghai Stomatological Hospital, Fudan University, Shanghai, China
| | - Yan Wang
- Department of Chemistry, Shanghai Stomatological Hospital, Fudan University, Shanghai, China
| | - Anmei Deng
- Changhai Hospital, The Naval Military Medical University, Shanghai, China.
| | - Liang Qiao
- Department of Chemistry, Shanghai Stomatological Hospital, Fudan University, Shanghai, China.
| | - Baohong Liu
- Department of Chemistry, Shanghai Stomatological Hospital, Fudan University, Shanghai, China
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13
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Wu ZQ, Li ZQ, Li JY, Gu J, Xia XH. Contribution of convection and diffusion to the cascade reaction kinetics of β-galactosidase/glucose oxidase confined in a microchannel. Phys Chem Chem Phys 2017; 18:14460-5. [PMID: 27174424 DOI: 10.1039/c6cp01785a] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The spatial positioning of enzymes and mass transport play crucial roles in the functionality and efficiency of enzyme cascade reactions. To fully understand the mass transport regulating kinetics of enzyme cascade reactions, we investigated the contribution of convective and diffusive transports to a cascade reaction of β-galactosidase (β-Gal)/glucose oxidase (GOx) confined in a microchannel. β-Gal and GOx are assembled on two separated gold films patterned in a polydimethylsiloxane (PDMS) microchannel with a controllable distance from 50 to 100 μm. Experimental results demonstrated that the reaction yield increases with decreasing distance between two enzymes and increasing substrate flow rate. Together with the simulation results, we extracted individual reaction kinetics of the enzyme cascade reaction and found that the reaction rate catalyzed by β-Gal occurred much faster than by GOx, and thus, the β-Gal catalytic reaction showed diffusion controll, whereas the GOx catalytic reaction showed kinetic controll. Since the decrease in the enzymes distance shortens the transport length of intermediate glucose to GOx, the amount of glucose reaching GOx will be increased in the unit time, and in turn, the enzyme cascade reaction yield will be increased with decreasing the gap distance. This phenomenon is similar to the intermediates pool of tricarboxylic acid (TCA) cycle in the metabolic system. This study promotes the understanding of the metabolic/signal transduction processes and active transport in biological systems and promises to design high performance biosensors and biofuel cells systems.
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Affiliation(s)
- Zeng-Qiang Wu
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210093, China.
| | - Zhong-Qiu Li
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210093, China.
| | - Jin-Yi Li
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210093, China.
| | - Jing Gu
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210093, China.
| | - Xing-Hua Xia
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210093, China.
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14
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Fang X, Duan Y, Liu Y, Adkins G, Zang W, Zhong W, Qiao L, Liu B. Photochemical Bionanoreactor for Efficient Visible-Light-Driven in Vitro Drug Metabolism. Anal Chem 2017; 89:7365-7372. [DOI: 10.1021/acs.analchem.7b00677] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Xiaoni Fang
- Department
of Chemistry, Institute of Biomedical Sciences and State Key Lab of
Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
| | - Yaokai Duan
- Department
of Chemistry, University of California, Riverside 92501, United States
| | - Yujie Liu
- Department
of Chemistry, Institute of Biomedical Sciences and State Key Lab of
Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
| | - Gary Adkins
- Department
of Chemistry, University of California, Riverside 92501, United States
| | - Weijun Zang
- Department
of Chemistry, Institute of Biomedical Sciences and State Key Lab of
Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
| | - Wenwan Zhong
- Department
of Chemistry, University of California, Riverside 92501, United States
| | - Liang Qiao
- Department
of Chemistry, Institute of Biomedical Sciences and State Key Lab of
Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
- Shanghai
Stomatological Hospital, Fudan University, Shanghai 200433, China
| | - Baohong Liu
- Department
of Chemistry, Institute of Biomedical Sciences and State Key Lab of
Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
- Shanghai
Stomatological Hospital, Fudan University, Shanghai 200433, China
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15
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Yan L, Qiao L, Ji J, Li Y, Yin X, Lin L, Liu X, Yao J, Wang Y, Liu B, Qian K, Liu B, Yang P. In-tip nanoreactors for cancer cells proteome profiling. Anal Chim Acta 2017; 949:43-52. [DOI: 10.1016/j.aca.2016.11.021] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2016] [Revised: 09/29/2016] [Accepted: 11/02/2016] [Indexed: 12/31/2022]
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16
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Duan C, Alibakhshi MA, Kim DK, Brown CM, Craik CS, Majumdar A. Label-Free Electrical Detection of Enzymatic Reactions in Nanochannels. ACS NANO 2016; 10:7476-84. [PMID: 27472431 DOI: 10.1021/acsnano.6b02062] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
We report label-free electrical detection of enzymatic reactions using 2-D nanofluidic channels and investigate reaction kinetics of enzymatic reactions on immobilized substrates in nanoscale-confined spaces. Trypsin proteolysis is chosen for demonstration of the detection scheme. When trypsin cleaves poly-l-lysine coated on the surface of silica nanochannels, the resulting change of surface charge density can be detected by monitoring the ionic conductance of the nanochannels. Our results show that detection of such surface enzymatic reactions is faster than detection of surface binding reactions in nanochannels for low-concentration analytes. Furthermore, the nanochannel sensor has a sensitivity down to 5 ng/mL, which statistically corresponds to a single enzyme per nanochannel. Our results also suggest that enzyme kinetics in nanochannels is fundamentally different from that in bulk solutions or plain surfaces. Such enzymatic reactions form two clear self-propagating reaction fronts inside the nanochannels, and the reaction fronts follow square-root time dependences at high enzyme concentrations due to significant nonspecific adsorption. However, at low enzyme concentrations when nonspecific adsorption is negligible, the reaction fronts propagate linearly with time, and the corresponding propagation speed is related to the channel geometry, enzyme concentration, catalytic reaction constant, diffusion coefficient, and substrate surface density. Optimization of this nanochannel sensor could lead to a quick-response, highly sensitive, and label-free sensor for enzyme assay and kinetic studies.
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Affiliation(s)
- Chuanhua Duan
- Department of Mechanical Engineering, Boston University , Boston, Massachusetts 02215, United States
| | - Mohammad Amin Alibakhshi
- Department of Mechanical Engineering, Boston University , Boston, Massachusetts 02215, United States
| | - Dong-Kwon Kim
- Department of Mechanical Engineering, Ajou University , Suwon 443-749, South Korea
| | - Christopher M Brown
- Department of Pharmaceutical Chemistry, University of California , San Francisco, California 94158, United States
| | - Charles S Craik
- Department of Pharmaceutical Chemistry, University of California , San Francisco, California 94158, United States
| | - Arun Majumdar
- Department of Mechanical Engineering, Stanford University , Stanford, California 94305, United States
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17
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Fang X, Zhao J, Zhang K, Yang P, Qiao L, Liu B. Polydopamine Grafted Porous Graphene as Biocompatible Nanoreactor for Efficient Identification of Membrane Proteins. ACS APPLIED MATERIALS & INTERFACES 2016; 8:6363-6370. [PMID: 26913964 DOI: 10.1021/acsami.6b00407] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Functional nanomaterials, used as nanoreactors, have shown great advantages in a variety of applications in biomedical fields. Herein, we designed a novel nanoreactor system toward the application in membrane proteomics by using polydopamine-coated nanoporous graphene foams (NGFs-PD) prepared by a facile in situ oxidative polymerization. Taking advantage of the unique 3-D structure and surface functionalization, NGFs-PD can quickly adsorb a large amount of hydrophobic membrane proteins dissolved in sodium dodecyl sulfonate (SDS)/methanol and hydrophilic trypsin in aqueous solution, and then confine the proteolysis in the nanoscale domains to fasten the reaction rate. Therefore, the current nanoreactor system combines the multifunctions of highly efficient solubilization, immobilization, and proteolysis of membrane proteins. With the nanoreactor, digestion of standard membrane proteins can be finished in 10 min. 893 membrane proteins were identified from human glioma cells (U251). All these superiorities indicate that the biocompatible NGFs-PD nanoreactor system is of great promise to facilitate high-throughput membrane proteomic analysis.
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Affiliation(s)
- Xiaoni Fang
- Department of Chemistry, Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Jingjing Zhao
- Department of Chemistry, Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Kun Zhang
- Department of Chemistry, Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Pengyuan Yang
- Department of Chemistry, Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Liang Qiao
- Department of Chemistry, Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Baohong Liu
- Department of Chemistry, Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
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18
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Lu J, Shen Y, Liu S. Enhanced light-driven catalytic performance of cytochrome P450 confined in macroporous silica. Chem Commun (Camb) 2016; 52:7703-6. [DOI: 10.1039/c6cc03867k] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
A light-driven approach combined with a macroporous reactor for the enzymatic biocatalytic reaction has been developed by confining the enzyme/photosensitizer nanohybrids in a macroporous material, which exhibits high bio-conversion efficiency due to the fast diffusion and collision between the enzyme/photosensitizer nanohybrid and the substrate in the reactor.
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Affiliation(s)
- Jusheng Lu
- Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research
- School of Chemistry and Chemical Engineering
- Southeast University
- Nanjing 211189
- P. R. China
| | - Yanfei Shen
- Medical School
- Southeast University
- Nanjing 210009
- P. R. China
| | - Songqin Liu
- Jiangsu Province Hi-Tech Key Laboratory for Bio-medical Research
- School of Chemistry and Chemical Engineering
- Southeast University
- Nanjing 211189
- P. R. China
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19
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Porous silica enhanced proteolysis during Off-Gel separation for efficient protein identification. Talanta 2015; 144:1182-8. [PMID: 26452945 DOI: 10.1016/j.talanta.2015.07.087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2015] [Accepted: 07/30/2015] [Indexed: 11/22/2022]
Abstract
An advanced approach is developed in this work for simultaneous on-line separation and digestion of proteins by combining the Off-Gel isoelectric focusing (IEF) and enzymatic nanoreactor enhanced proteolysis. The nanoreactor was prepared by preloading trypsin in amino-functionalized macroporous silica, and then directly added into Off-Gel wells. With the nanoreactor loaded Off-Gel device, effective digestion of proteins happened during IEF electrophoresis to generate directly fractionated tryptic peptides, which not only accelerated the experimental flow but also avoided sample loss, leading to a more comprehensive protein identification from complex biological samples. A successful identification of 3592 proteins was achieved from Hela cell line by using the approach followed with LC-MS/MS analysis, while only 1877 proteins were identified from the same sample when using standard in-solution proteolysis followed with Off-Gel electrophoresis and then LC-MS/MS analysis. Therefore, we have demonstrated that the approach can greatly simplify high-throughput proteomics and significantly improve protein identification.
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20
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Fang X, Qiao L, Yan G, Yang P, Liu B. Multifunctional nanoreactor for comprehensive characterization of membrane proteins based on surface functionalized mesoporous foams. Anal Chem 2015; 87:9360-7. [PMID: 26305297 DOI: 10.1021/acs.analchem.5b02135] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
An integrated protocol is proposed here for efficient analysis of membrane proteins based on surface functionalized mesoporous graphene foams (MGF). The inherent hydrophobic nature of MGF and surface modification with hydrophilic chitosan (CS) make it highly suitable for the enrichment of hydrophobic membrane proteins from organic solvent, while remaining well-dispersed in aqueous solution for subsequent proteolysis. Therefore, such a multifunctional reactor ensures a facile solvent adjustment route. Furthermore, as a chitosan modified nanoporous reactor, it also provides a biocompatible nanoenvironment that can maintain the stability and activity of enzymes to realize efficient in situ digestion of the enriched membrane proteins. The concept was first proved with a standard hydrophobic membrane protein, bacteriorhodopsin, where a high number of identified peptides and amino acid sequence coverage were achieved even at extremely low protein concentration. The mesoporous reaction system was further applied to the analysis of complex real-case proteome samples, where 931 membrane proteins were identified in triplicate analyses by 2D LC-MS/MS. In contrast, with in-solution proteolysis, only 73 membrane proteins were identified from the same sample by the same 2D LC-MS/MS. The identified membrane proteins by the MGF-CS protocol include many biomarkers of the cell line. These results suggest that the multifunctional MGF-CS protocol is of great value to facilitate the comprehensive characterization of membrane proteins in the proteome research.
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Affiliation(s)
- Xiaoni Fang
- Department of Chemistry, Institutes of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Liang Qiao
- Department of Chemistry, Institutes of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Guoquan Yan
- Department of Chemistry, Institutes of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Pengyuan Yang
- Department of Chemistry, Institutes of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
| | - Baohong Liu
- Department of Chemistry, Institutes of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers, Fudan University , Shanghai 200433, China
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21
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Wang GX, Yang Z, Li ZH, Zhao BT. Electrochemical Behavior of Cytochrome C as a Self-Assembled Monolayer on a Porous Gold Electrode. ANAL LETT 2015. [DOI: 10.1080/00032719.2014.968926] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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22
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Li Y, Yan L, Liu Y, Qian K, Liu B, Yang P, Liu B. High-efficiency nano/micro-reactors for protein analysis. RSC Adv 2015. [DOI: 10.1039/c4ra12333f] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
This article reviews the recent advances regarding the development of nanomaterial-based nanoreactors and microfluidic droplet reactors and their applications in protein analysis.
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Affiliation(s)
- Yixin Li
- Department of Chemistry and Institutes of Biomedical Sciences
- Fudan University
- Shanghai 200433
- China
| | - Ling Yan
- Department of Chemistry and Institutes of Biomedical Sciences
- Fudan University
- Shanghai 200433
- China
| | - Yun Liu
- Department of Chemistry and Institutes of Biomedical Sciences
- Fudan University
- Shanghai 200433
- China
| | - Kun Qian
- Center for Bio-Nano-Chips and Diagnostics in Translational Medicine
- School of Biomedical Engineering and Med-X Research Institute
- Shanghai Jiao Tong University
- Shanghai
- China
| | - Bin Liu
- Center for Bio-Nano-Chips and Diagnostics in Translational Medicine
- School of Biomedical Engineering and Med-X Research Institute
- Shanghai Jiao Tong University
- Shanghai
- China
| | - Pengyuan Yang
- Department of Chemistry and Institutes of Biomedical Sciences
- Fudan University
- Shanghai 200433
- China
| | - Baohong Liu
- Department of Chemistry and Institutes of Biomedical Sciences
- Fudan University
- Shanghai 200433
- China
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23
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Li J, Zhou L, Wang H, Yan H, Li N, Zhai R, Jiao F, Hao F, Jin Z, Tian F, Peng B, Zhang Y, Qian X. A new sample preparation method for the absolute quantitation of a target proteome using 18O labeling combined with multiple reaction monitoring mass spectrometry. Analyst 2015; 140:1281-90. [DOI: 10.1039/c4an02092h] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
A new sample preparation method for target proteome absolute quantitation using 18O labeling-MRM MS.
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24
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Fang X, Zhang P, Qiao L, Feng X, Zhang X, Girault HH, Liu B. Efficient Drug Metabolism Strategy Based on Microsome–Mesoporous Organosilica Nanoreactors. Anal Chem 2014; 86:10870-6. [DOI: 10.1021/ac503024h] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Affiliation(s)
- Xiaoni Fang
- Department
of Chemistry, Institutes of Biomedical Sciences, and State Key Laboratory
of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
| | - Peng Zhang
- Department
of Chemistry, Institutes of Biomedical Sciences, and State Key Laboratory
of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
| | - Liang Qiao
- Laboratoire
d’Electrochimie Physique et Analytique, Ecole Polytechnique Fédérale de Lausanne, CH-1015 Lausanne, Switzerland
| | - Xiaoyan Feng
- Department
of Chemistry, Institutes of Biomedical Sciences, and State Key Laboratory
of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
| | - Xiangmin Zhang
- Department
of Chemistry, Institutes of Biomedical Sciences, and State Key Laboratory
of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
| | - Hubert H. Girault
- Laboratoire
d’Electrochimie Physique et Analytique, Ecole Polytechnique Fédérale de Lausanne, CH-1015 Lausanne, Switzerland
| | - Baohong Liu
- Department
of Chemistry, Institutes of Biomedical Sciences, and State Key Laboratory
of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
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25
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Abstract
Sample preparation has lagged far behind the evolution of instrumentation used in mass-linked protein analysis. Trypsin digestion, for example, still takes a day, as it did 50 years ago, while mass spectral analyses are achieved in seconds. Higher order structure of proteins is frequently modified by varying digestion conditions: shifting the initial points of trypsin cleavage, changing digestion pathways, accelerating peptide bond demasking and altering the distribution of miscleaved products at the completion of proteolysis. Reduction and alkylation are even circumvented in many cases. This review focuses on immobilized enzyme reactor technology as a means to achieve accelerated trypsin digestion by exploiting these phenomena.
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26
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Lei C, Noonan O, Jambhrunkar S, Qian K, Xu C, Zhang J, Nouwens A, Yu C. Sensitive detection of human insulin using a designed combined pore approach. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2014; 10:2413-8. [PMID: 24599559 DOI: 10.1002/smll.201303748] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2013] [Revised: 01/18/2014] [Indexed: 05/26/2023]
Abstract
A unique combined pore approach to the sensitive detection of human insulin is developed. Through a systematic study to understand the impact of pore size and surface chemistry of nanoporous materials on their enrichment and purification performance, the advantages of selected porous materials are integrated to enhance detection sensitivity in a unified two-step process. In the first purification step, a rationally designed large pore material (ca. 100 nm in diameter) is chosen to repel the interferences from nontarget molecules. In the second enrichment step, a hydrophobically modified mesoporous material with a pore size of 5 nm is selected to enrich insulin molecules. A low detection limit of 0.05 ng mL(-1) in artificial urine is achieved by this advanced approach, similar to most antibody-based analysis protocols. This designer approach is efficient and low cost, and thus has great potential in the sensitive detection of biomolecules in complex biological systems.
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Affiliation(s)
- Chang Lei
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, QLD, 4072, Australia
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27
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Qian K, Zhou L, Zhang J, Lei C, Yu C. A combo-pore approach for the programmable extraction of peptides/proteins. NANOSCALE 2014; 6:5121-5. [PMID: 24695592 DOI: 10.1039/c4nr00633j] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
A novel combo-pore approach has been designed for the programmable purification, minimisation of sample complexity, enrichment and sensitive detection of peptides in biosamples. This approach has a superior performance to conventional protocols and commercial products.
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Affiliation(s)
- Kun Qian
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, QLD 4072, Australia.
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28
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Yu J, Zhang Y, Liu S. Enzymatic reactivity of glucose oxidase confined in nanochannels. Biosens Bioelectron 2014; 55:307-12. [DOI: 10.1016/j.bios.2013.12.042] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2013] [Revised: 12/18/2013] [Accepted: 12/18/2013] [Indexed: 12/18/2022]
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29
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Cheng G, Chen P, Wang ZG, Sui XJ, Zhang JL, Ni JZ. Immobilization of trypsin onto multifunctional meso-/macroporous core-shell microspheres: A new platform for rapid enzymatic digestion. Anal Chim Acta 2014; 812:65-73. [DOI: 10.1016/j.aca.2013.12.035] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2013] [Revised: 12/16/2013] [Accepted: 12/24/2013] [Indexed: 10/25/2022]
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30
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Fan C, Shi Z, Pan Y, Song Z, Zhang W, Zhao X, Tian F, Peng B, Qin W, Cai Y, Qian X. Dual Matrix-Based Immobilized Trypsin for Complementary Proteolytic Digestion and Fast Proteomics Analysis with Higher Protein Sequence Coverage. Anal Chem 2014; 86:1452-8. [DOI: 10.1021/ac402696b] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Chao Fan
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
- Graduate School of Anhui Medical University, Hefei, Chian
| | - Zhaomei Shi
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
- Graduate School of Anhui Medical University, Hefei, Chian
| | - Yiting Pan
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
| | - Zifeng Song
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
| | - Wanjun Zhang
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
| | - Xinyuan Zhao
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
| | - Fang Tian
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
| | - Bo Peng
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
| | - Weijie Qin
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
| | - Yun Cai
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
| | - Xiaohong Qian
- National
Center for Protein Sciences Beijing, State Key Laboratory of Proteomics,
Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China
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31
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Gao M, Deng C, Zhang X. Magnetic nanoparticles-based digestion and enrichment methods in proteomics analysis. Expert Rev Proteomics 2014; 8:379-90. [DOI: 10.1586/epr.11.25] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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32
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Lei C, Qian K, Noonan O, Nouwens A, Yu C. Applications of nanomaterials in mass spectrometry analysis. NANOSCALE 2013; 5:12033-12042. [PMID: 24162102 DOI: 10.1039/c3nr04194h] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Mass spectrometry (MS) based analyses have received intense research interest in a series of rapidly developing disciplines. Although current MS techniques have enjoyed great successes, several key challenges still remain in practical applications, especially for the detection of biomolecules in biological systems. The use of nanomaterials in MS based analysis provides a promising approach due to their unique physical and chemical properties. In this review, nanomaterials with different compositions and nanostructures employed in MS applications are summarised and classified by their functions. Such an integrated and wide reaching review will provide a comprehensive handbook to researchers with various backgrounds working in this exciting interdisciplinary area.
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Affiliation(s)
- Chang Lei
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, QLD 4072, Australia.
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33
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Cao X, Li Y, Zhang Z, Yu J, Qian J, Liu S. Catalytic activity and stability of glucose oxidase/horseradish peroxidase co-confined in macroporous silica foam. Analyst 2013; 137:5785-91. [PMID: 23096254 DOI: 10.1039/c2an36237f] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Investigation of the catalytic activity and stability of enzymes in confined nano/microspace provides valuable contributions to the fundamental understanding of biological reactions taking place on a mesoscopic scale within confined spaces. In this paper, macroporous silica foam (MSF) is used as a nanoreactor to co-confine glucose oxidase (GOD) and horseradish peroxidase (HRP). Then, the enzymatic cascade reactions, which act in tandem inside nanoreactors, for oxidation of glucose and 3,3',5,5'-tetramethylbenzidine (TMB) were studied. The catalytic kinetic parameters of apparent Michaelis constant (K(m)(app)) and maximum rate (V(max)) were obtained from Lineweaver-Burk plot by UV-vis spectrometry. Results showed that the catalytic activity of the co-confined enzymes is reduced compared to that of free enzymes in solution at room temperature. The stabilities of co-confined enzymes in denaturing agents, such as guanidinium chloride (GdmCl) and urea, were higher than those of free enzymes in solution. When employing a co-confined bienzyme system as a biosensor for the detection of glucose, a wider linear range of glucose was obtained for the co-confined bienzyme system than for free enzymes in solution.
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Affiliation(s)
- Xiaodong Cao
- School of Chemistry and Chemical Engineering, Southeast University Jiangning, Nanjing 211189, People's Republic of China
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34
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Gan J, Qian K, Wan J, Qiao L, Guo W, Yang P, Girault HH, Liu B. Amino-functionalized macroporous silica for efficient tryptic digestion in acidic solutions. Proteomics 2013; 13:3117-23. [DOI: 10.1002/pmic.201300108] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2013] [Revised: 06/23/2013] [Accepted: 08/28/2013] [Indexed: 01/04/2023]
Affiliation(s)
- Jinrui Gan
- Department of Chemistry; Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers; Fudan University; Shanghai China
| | - Kun Qian
- Department of Chemistry; Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers; Fudan University; Shanghai China
| | - Jingjing Wan
- Department of Chemistry; Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers; Fudan University; Shanghai China
| | - Liang Qiao
- Laboratoire d'Electrochimie Physique et Analytique; Ecole Polytechnique Fédérale de Lausanne; Lausanne Switzerland
| | - Weichao Guo
- Department of Chemistry; Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers; Fudan University; Shanghai China
| | - Pengyuan Yang
- Department of Chemistry; Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers; Fudan University; Shanghai China
| | - Hubert H. Girault
- Laboratoire d'Electrochimie Physique et Analytique; Ecole Polytechnique Fédérale de Lausanne; Lausanne Switzerland
| | - Baohong Liu
- Department of Chemistry; Institute of Biomedical Sciences and State Key Lab of Molecular Engineering of Polymers; Fudan University; Shanghai China
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35
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Mechanism exploration of adsorption-immobilized enzymatic reactor using polymer-coated silica microbeads. Talanta 2013; 110:101-7. [DOI: 10.1016/j.talanta.2013.02.021] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2012] [Revised: 02/04/2013] [Accepted: 02/08/2013] [Indexed: 11/22/2022]
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36
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Gan J, Zhu J, Yan G, Liu Y, Yang P, Liu B. Periodic mesoporous organosilica as a multifunctional nanodevice for large-scale characterization of membrane proteins. Anal Chem 2012; 84:5809-15. [PMID: 22663254 DOI: 10.1021/ac301146a] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
A versatile protocol has been developed for large-scale characterization of hydrophobic membrane proteins based on the periodic mesoporous organosilica (PMO) acting as both an extractor for hydrophobic substrate capture and a nanoreactor for efficient in situ digestion. With introduction of organic groups in the pore frameworks and the presence of hydrophilic silanol groups on the surface, PMO can be well-dispersed into not only an organic solution to concentrate the dissolved membrane proteins but also an aqueous solution containing enzymes for sequential rapid proteolysis in the nanopores. The unique amphiphilic property of PMO ensures a facile switch in different solutions to realize the processes of substrate dissolution, enrichment, and digestion effectively. Furthermore, this novel PMO-assisted protocol has been successfully applied for identification of complex membrane proteins extracted from mouse liver as proof of general applicability.
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Affiliation(s)
- Jinrui Gan
- Department of Chemistry, Institute of Biomedical Sciences, Fudan University, Shanghai 200433, China
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37
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Bioactivity of horseradish peroxidase entrapped in silica nanospheres. Biosens Bioelectron 2012; 35:101-107. [DOI: 10.1016/j.bios.2012.02.027] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2012] [Accepted: 02/15/2012] [Indexed: 11/22/2022]
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38
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Qin W, Song Z, Fan C, Zhang W, Cai Y, Zhang Y, Qian X. Trypsin Immobilization on Hairy Polymer Chains Hybrid Magnetic Nanoparticles for Ultra Fast, Highly Efficient Proteome Digestion, Facile 18O Labeling and Absolute Protein Quantification. Anal Chem 2012; 84:3138-44. [DOI: 10.1021/ac2029216] [Citation(s) in RCA: 78] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Weijie Qin
- State Key Laboratory of Proteomics, Beijing Proteome
Research Center, Beijing Institute of Radiation Medicine, No. 33 Life Science Park Road, Changping District, Beijing 102206,
P. R. China
| | - Zifeng Song
- State Key Laboratory of Proteomics, Beijing Proteome
Research Center, Beijing Institute of Radiation Medicine, No. 33 Life Science Park Road, Changping District, Beijing 102206,
P. R. China
| | - Chao Fan
- State Key Laboratory of Proteomics, Beijing Proteome
Research Center, Beijing Institute of Radiation Medicine, No. 33 Life Science Park Road, Changping District, Beijing 102206,
P. R. China
| | - Wanjun Zhang
- State Key Laboratory of Proteomics, Beijing Proteome
Research Center, Beijing Institute of Radiation Medicine, No. 33 Life Science Park Road, Changping District, Beijing 102206,
P. R. China
| | - Yun Cai
- State Key Laboratory of Proteomics, Beijing Proteome
Research Center, Beijing Institute of Radiation Medicine, No. 33 Life Science Park Road, Changping District, Beijing 102206,
P. R. China
| | - Yangjun Zhang
- State Key Laboratory of Proteomics, Beijing Proteome
Research Center, Beijing Institute of Radiation Medicine, No. 33 Life Science Park Road, Changping District, Beijing 102206,
P. R. China
| | - Xiaohong Qian
- State Key Laboratory of Proteomics, Beijing Proteome
Research Center, Beijing Institute of Radiation Medicine, No. 33 Life Science Park Road, Changping District, Beijing 102206,
P. R. China
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39
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Jia F, Sun W, Zhang J, Li Y, Yang B. A facile approach to fabricate three-dimensional ordered macroporous rutile titania at low calcination temperature. ACTA ACUST UNITED AC 2012. [DOI: 10.1039/c1jm14319k] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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40
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Yang J, Yuan P, Chen HY, Zou J, Yuan Z, Yu C. Rationally designed functional macroporous materials as new adsorbents for efficient phosphorus removal. ACTA ACUST UNITED AC 2012. [DOI: 10.1039/c2jm16681j] [Citation(s) in RCA: 78] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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41
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TiO2-functionalized mesoporous materials for sensitive analysis of multi-phosphopeptides. Sci China Chem 2011. [DOI: 10.1007/s11426-011-4344-5] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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42
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Savino R, Casadonte F, Terracciano R. In mesopore protein digestion: a new forthcoming strategy in proteomics. Molecules 2011; 16:5938-62. [PMID: 21765391 PMCID: PMC6264412 DOI: 10.3390/molecules16075938] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2011] [Revised: 07/07/2011] [Accepted: 07/13/2011] [Indexed: 01/11/2023] Open
Abstract
The conventional protocols for in solution or in gel protein digestion require many steps and long reaction times. The use of trypsin immobilized onto solid supports has recently captured the attention of many research groups, because these systems can speed-up protein digestion significantly. The utilization of new materials such as mesoporous silica as supports, in which enzyme and substrate are dramatically concentrated and confined in the nanospace, offers new opportunities to reduce the complexity of proteomics workflows. An overview of the procedures for in situ proteolysis of single proteins or complex protein mixtures is reported, with a special focus on porous materials used as catalysts. The challenging efforts for designing such systems aimed at mimicking the biochemistry of living cells are reviewed. Potentials, limitations and challenges of this branch of enzyme catalysis, which we indicate as in mesopore digestion, are discussed, in relation to its suitability for high-speed and high-throughput proteomics.
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Affiliation(s)
| | | | - Rosa Terracciano
- Author to whom correspondence should be addressed; ; Tel.: +39-0961-3694085; Fax: +39-0961-3694090
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43
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Electrochemistry and biosensing activity of cytochrome c immobilized in macroporous materials. Mikrochim Acta 2011. [DOI: 10.1007/s00604-011-0638-8] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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44
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Guo W, Bi H, Qiao L, Wan J, Qian K, Girault HH, Liu B. Characterization of efficient proteolysis by trypsin loaded macroporous silica. MOLECULAR BIOSYSTEMS 2011; 7:2890-8. [DOI: 10.1039/c1mb05140g] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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45
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Qiao L, Liu B, Girault HH. Nanomaterial-assisted laser desorption ionization for mass spectrometry-based biomedical analysis. Nanomedicine (Lond) 2010; 5:1641-52. [DOI: 10.2217/nnm.10.127] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023] Open
Abstract
Nanomaterials have been widely used to assist laser desorption ionization of biomolecules for mass spectrometry analysis. Compared with classical matrix-assisted laser desorption ionization, strategies based on nanomaterial-assisted ionization generate a clean background, which is of great benefit for the qualitative and quantitative analysis of small biomolecules, such as therapeutic and diagnostic molecules. As label-free platforms, they have successfully been used for high-throughput enzyme activity/inhibition monitoring and also for tissue imaging to map in situ the distribution of peptides, metabolites and drugs. In addition to widely used porous silicon nanomaterials, gold nanoparticles can be easily chemically modified by thiol-containing compounds, opening novel interesting perspectives. Such functionalized nanoparticles have been used both as probes to extract target molecules and as matrices to assist laser desorption ionization for developing new enzyme immunoassays or for studying DNA hybridization. More recently, semiconductor nanomaterials or quantum dots acting as photosensitive centers to induce in-source redox reactions for proteomics and to investigate biomolecule oxidation for metabolomics have been shown to offer new analytical strategies.
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Affiliation(s)
- Liang Qiao
- Laboratoire d’Electrochimie Physique et Analytique, Ecole Polytechnique Fédérale de Lausanne, Station 6, CH-1015 Lausanne, Switzerland
| | - BaoHong Liu
- Department of Chemistry, Fudan University, Shanghai, P.R. China
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46
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Liu Y, Wang H, Liu Q, Qu H, Liu B, Yang P. Improvement of proteolytic efficiency towards low-level proteins by an antifouling surface of alumina gel in a microchannel. LAB ON A CHIP 2010; 10:2887-2893. [PMID: 20927474 DOI: 10.1039/c0lc00016g] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
A microfluidic reactor has been developed for rapid enhancement of protein digestion by constructing an alumina network within a poly(ethylene terephthalate) (PET) microchannel. Trypsin is stably immobilized in a sol-gel network on the PET channel surface after pretreatment, which produces a protein-resistant interface to reduce memory effects, as characterized by X-ray fluorescence spectrometry and electroosmotic flow. The gel-derived network within a microchannel provides a large surface-to-volume ratio stationary phase for highly efficient proteolysis of proteins existing both at a low level and in complex extracts. The maximum reaction rate of the encapsulated trypsin reactor, measured by kinetic analysis, is much faster than in bulk solution. Due to the microscopic confinement effect, high levels of enzyme entrapment and the biocompatible microenvironment provided by the alumina gel network, the low-level proteins can be efficiently digested using such a microreactor within a very short residence time of a few seconds. The on-chip microreactor is further applied to the identification of a mixture of proteins extracted from normal mouse liver cytoplasm sample via integration with 2D-LC-ESI-MS/MS to show its potential application for large-scale protein identification.
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Affiliation(s)
- Yun Liu
- Department of Chemistry and Institute of Biomedical Sciences, Fudan University, Shanghai, 200433, China
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47
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Zhang X, Liu B, Zhang L, Zou H, Cao J, Gao M, Tang J, Liu Y, Yang P, Zhang Y. Recent advances in proteolysis and peptide/protein separation by chromatographic strategies. Sci China Chem 2010; 53:685-694. [PMID: 32214996 PMCID: PMC7089403 DOI: 10.1007/s11426-010-0135-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2010] [Accepted: 01/28/2010] [Indexed: 11/05/2022]
Abstract
This review gives a broad glance on the progress of recent advances on proteolysis and peptide/protein separation by chromatographic strategies in the past ten years, covering the main research in these areas especially in China. The reviewed research focused on enzymatic micro-reactors and peptide separation in bottom-up approaches, and protein and peptide separation in top-down approaches. The new enzymatic micro-reactor is able to accelerate proteolytic reaction rate from conventionally a couple of hours to a few seconds, and the multiple dimensional chromatographic-separation with various models or arrays could sufficiently separate the proteomic mixture. These advances have significantly promoted the research of protein/peptide separation and identification in proteomics.
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Affiliation(s)
- XiangMin Zhang
- 1Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433 China
| | - BaoHong Liu
- 1Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433 China
| | - LiHua Zhang
- 2Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, 116023 China
| | - HanFa Zou
- 2Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, 116023 China
| | - Jing Cao
- 1Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433 China
| | - MingXia Gao
- 1Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433 China
| | - Jia Tang
- 1Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433 China
| | - Yun Liu
- 1Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433 China
| | - PengYuan Yang
- 1Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai, 200433 China
| | - YuKui Zhang
- 2Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, 116023 China
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48
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Wan J, Qian K, Zhang J, Liu F, Wang Y, Yang P, Liu B, Yu C. Functionalized periodic mesoporous organosilicas for enhanced and selective peptide enrichment. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2010; 26:7444-7450. [PMID: 20095532 DOI: 10.1021/la9041698] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
The analysis of peptides by the mass spectrometry (MS) technique is important in modern life science. The enrichment of peptides can increase the detection efficiency and is sometimes indispensable for collecting the information on proteins with low-abundance. Herein, we first report that functionalized periodic mesoporous organosilica (PMO) materials have a superior peptide enrichment property. It is demonstrated that the PMO materials with an organo-bridged (-CH(2)-) hybrid wall composition display a highly enhanced peptide enrichment ability compared to the pure silica material (SBA-15) with similar mesostructured parameters and morphology. More importantly, by surface modification of PMO with amino groups (denoted NH(2)-PMO), PMO and NH(2)-PMO with opposite charged surfaces (-25.2 and +39.0 mV, respectively) show selective affinities for positively and negatively charged peptides, respectively. By directly adding PMO, NH(2)-PMO as well as pure silica materials to the peptides solution with a low concentration (1-2 fmol/microL), 36 and 28 peptides can be detected from the BSA digestion in the presence of PMO and NH(2)-PMO, respectively, while only 6 and 4 are monitored in the case of SBA-15 enrichment and from solution without enrichment, respectively. Moreover, 69.4% (25 of 36) of enriched peptides by PMO have pI > or = 6 and 80% (21 of 28) of enriched peptides by NH(2)-PMO possess pI < or = 6. Combining the results from the NH(2)-PMO and PMO enrichment together, 51 peptides can be identified with a MOWSE score of 333. It is also noted that similar conclusions can also be obtained from the peptides solution originated from other proteins. This might be an important contribution to the understanding of the interaction between peptides and porous hosts, and the proposed method is promising for the development of both material science and biotechnology.
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Affiliation(s)
- Jingjing Wan
- Department of Chemistry, Institute of Biomedical Sciences and Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials, Fudan University, Shanghai 200433, PR China
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49
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Qian K, Wan J, Huang X, Yang P, Liu B, Yu C. A Smart Glycol-Directed Nanodevice from Rationally Designed Macroporous Materials. Chemistry 2009; 16:822-8. [DOI: 10.1002/chem.200902535] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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50
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Qian K, Wan J, Liu F, Girault HH, Liu B, Yu C. A phospho-directed macroporous alumina-silica nanoreactor with multi-functions. ACS NANO 2009; 3:3656-3662. [PMID: 19842678 DOI: 10.1021/nn900739z] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
A phospho-directed nanoreactor with multiple functions is reported. Alumina-functionalized macroporous ordered silica foams (Al-MOSF) have been developed with large pore size, high pore volume (1.6 cm(3)/g), and a surface area of 186 m(2)/g rich in coordination unsaturated Al species, which can be used as phospho-directed nanoreactors for integrated in situ digestion and in situ phosphoisolation. By directly adding Al-MOSF to the conventional in-solution digestion system, both enzymes and proteins are quickly enriched in the macropores of the reactor to achieve a fast proteolysis without increasing the enzyme/protein concentration or using a preimmobilization process, thus the digestion time and the cost can be greatly reduced. Meanwhile, due to the chemo-affinity between alumina and phosphor groups, the Al-MOSF reactor can in situ isolate specific products of the enzymatic reaction (i.e., phosphopeptides) and release the nonspecific peptides to the solution. This strategy is simple, efficient, and successfully applied in the detection of phosphoproteins in real samples.
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Affiliation(s)
- Kun Qian
- Department of Chemistry, Institute of Biomedical Sciences, and Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials, Fudan University, Shanghai, People's Republic of China
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