1
|
Li Y, Sun J, Wang Q, Su C, Chen X, Ma C, Yang X, Feng C, Shi C. Lysis-Free Isolation and Direct Amplification of Pathogenic Bacterial DNA Using Diatom Frustules. Anal Chem 2024; 96:9113-9121. [PMID: 38771353 DOI: 10.1021/acs.analchem.4c00671] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/22/2024]
Abstract
DNA has been implicated as an important biomarker for the diagnosis of bacterial infections. Herein, we developed a streamlined methodology that uses diatom frustules (DFs) to liberate and capture bacterial DNA and allows direct downstream amplification tests without any lysis, washing, or elution steps. Unlike most conventional DNA isolation methods that rely on cell lysis to release bacterial DNA, DFs can trigger the oxidative stress response of bacterial cells to promote bacterial membrane vesicle formation and DNA release by generating reactive oxygen species in aqueous solutions. Due to the hierarchical porous structure, DFs provided high DNA capture efficiency exceeding 80% over a wide range of DNA amounts from 10 pg to 10 ng, making only 10 μg DFs sufficient for each test. Since laborious liquid handling steps are not required, the entire DNA sample preparation process using DFs can be completed within 3 min. The diagnostic use of this DF-based methodology was illustrated, which showed that the DNA of the pathogenic bacteria in serum samples was isolated by DFs and directly detected using polymerase chain reaction (PCR) at concentrations as low as 102 CFU/mL, outperforming the most used approaches based on solid-phase DNA extraction. Furthermore, most of the bacterial cells were still alive after DNA isolation using DFs, providing the possibility of recycling samples for storage and further diagnosis. The proposed DF-based methodology is anticipated to simplify bacterial infection diagnosis and be broadly applied to various medical diagnoses and biological research.
Collapse
Affiliation(s)
- Yang Li
- Qingdao Nucleic Acid Rapid Testing International Science and Technology Cooperation Base, College of Life Sciences, Department of Clinical Laboratory, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao 266071, P. R. China
| | - Jiachen Sun
- Qingdao Nucleic Acid Rapid Testing International Science and Technology Cooperation Base, College of Life Sciences, Department of Clinical Laboratory, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao 266071, P. R. China
| | - Qing Wang
- Qingdao Nucleic Acid Rapid Testing International Science and Technology Cooperation Base, College of Life Sciences, Department of Clinical Laboratory, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao 266071, P. R. China
| | - Chang Su
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, P. R. China
| | - Xiguang Chen
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, P. R. China
- Sanya Oceanographic Institute, Ocean University of China, Floor 7, Building 1, Yonyou Industrial Park, Yazhou Bay Science & Technology City, Sanya 572025, P. R. China
| | - Cuiping Ma
- Shandong Provincial Key Laboratory of Biochemical Engineering, Qingdao Nucleic Acid Rapid Detection Engineering Research Center, Qingdao Key Laboratory of Nucleic Acid Rapid Detection, Sino-UAE International Cooperative Joint Laboratory of Pathogenic Microorganism Rapid Detection, College of Biological Engineering, Qingdao University of Science and Technology, Qingdao 266042, P. R. China
| | - Xuecheng Yang
- Qingdao Nucleic Acid Rapid Testing International Science and Technology Cooperation Base, College of Life Sciences, Department of Clinical Laboratory, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao 266071, P. R. China
| | - Chao Feng
- College of Marine Life Sciences, Ocean University of China, Qingdao 266003, P. R. China
- Sanya Oceanographic Institute, Ocean University of China, Floor 7, Building 1, Yonyou Industrial Park, Yazhou Bay Science & Technology City, Sanya 572025, P. R. China
| | - Chao Shi
- Qingdao Nucleic Acid Rapid Testing International Science and Technology Cooperation Base, College of Life Sciences, Department of Clinical Laboratory, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao 266071, P. R. China
- Qingdao JianMa Gene Technology Co., Ltd., Qingdao 266114, P. R. China
| |
Collapse
|
2
|
Ding Y, Mu Y, Hu Y, Liu J, Su C, Sun X, Chen X, Jia N, Feng C. Zinc-mineralized diatom biosilica/hydroxybutyl chitosan composite hydrogel for diabetic chronic wound healing. J Colloid Interface Sci 2024; 656:1-14. [PMID: 37980719 DOI: 10.1016/j.jcis.2023.11.083] [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: 09/11/2023] [Revised: 11/07/2023] [Accepted: 11/13/2023] [Indexed: 11/21/2023]
Abstract
For sustained and stable improvement of the diabetic wound microenvironment, a temperature-sensitive composite hydrogel (ZnDBs/HBC) composed of inorganic zinc mineralized diatom biosilica (ZnDBs) and hydroxybutyl chitosan (HBC) was developed. The interfacial anchoring effect between ZnDBs and HBC enhanced the mechanical strength of the hydrogel. The mechanical strength of the composite hydrogel containing 3 wt% ZnDBs was increased by nearly 2.3times. The hydrogel can be used as a carrier for sustained release of Zn2+ for at least 72 h. In diabetic rats models, ZnDBs/HBC composite hydrogel could accelerate the inflammatory process by regulating the expression of pro-inflammatory factor IL-6 and anti-inflammatory factor IL-10, and also promote tissue cell proliferation and collagen deposition, thereby restoring the normal healing process and accelerating wound healing. The wound contraction rate of the composite hydrogel group was more than 2 times that of the control group. Therefore, ZnDBs/HBC composite hydrogel has the potential to be used as a therapeutic dressing for diabetic chronic wounds.
Collapse
Affiliation(s)
- Yuqi Ding
- College of Marine Life Science, Ocean University of China, 5# Yushan Road, Qingdao 266003, Shandong Province, China
| | - Yuzhi Mu
- College of Marine Life Science, Ocean University of China, 5# Yushan Road, Qingdao 266003, Shandong Province, China
| | - Yi Hu
- College of Marine Life Science, Ocean University of China, 5# Yushan Road, Qingdao 266003, Shandong Province, China
| | - Jiahao Liu
- Minimally Invasive Interventional Therapy Center, Qingdao Hospital, University of Health and Rehabilitation Sciences(Qingdao Municipal Hospital), 5# Donghai Middle Road, Qingdao 266000, Shandong Province, China
| | - Chang Su
- College of Marine Life Science, Ocean University of China, 5# Yushan Road, Qingdao 266003, Shandong Province, China
| | - Xiaojie Sun
- College of Marine Life Science, Ocean University of China, 5# Yushan Road, Qingdao 266003, Shandong Province, China
| | - Xiguang Chen
- College of Marine Life Science, Ocean University of China, 5# Yushan Road, Qingdao 266003, Shandong Province, China; Sanya Oceanographic Institute, Ocean University of China, Yonyou Industrial Park, Yazhou Bay Science & Technology City, Sanya 572024, Hainan Province, China; Laoshan Laboratory, 1# Wenhai Road, Qingdao 266000, Shandong Province, China
| | - Nan Jia
- Minimally Invasive Interventional Therapy Center, Qingdao Hospital, University of Health and Rehabilitation Sciences(Qingdao Municipal Hospital), 5# Donghai Middle Road, Qingdao 266000, Shandong Province, China.
| | - Chao Feng
- College of Marine Life Science, Ocean University of China, 5# Yushan Road, Qingdao 266003, Shandong Province, China; Sanya Oceanographic Institute, Ocean University of China, Yonyou Industrial Park, Yazhou Bay Science & Technology City, Sanya 572024, Hainan Province, China.
| |
Collapse
|
3
|
Sun X, Zhang M, Liu J, Hui G, Chen X, Feng C. The Art of Exploring Diatom Biosilica Biomaterials: From Biofabrication Perspective. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024; 11:e2304695. [PMID: 38044309 PMCID: PMC10853744 DOI: 10.1002/advs.202304695] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Revised: 10/18/2023] [Indexed: 12/05/2023]
Abstract
Diatom is a common single-cell microalgae with large species and huge biomass. Diatom biosilica (DB), the shell of diatom, is a natural inorganic material with a micro-nanoporous structure. Its unique hierarchical porous structure gives it great application potential in drug delivery, hemostat materials, and biosensors, etc. However, the structural diversity of DB determines its different biological functions. Screening hundreds of thousands of diatom species for structural features of DB that meet application requirements is like looking for a needle in a seaway. And the chemical modification methods lack effective means to control the micro-nanoporous structure of DB. The formation of DB is a typical biomineralization process, and its structural characteristics are affected by external environmental conditions, genes, and other factors. This allows to manipulate the micro-nanostructure of DB through biological regulation method, thereby transforming the screening mode of the structure function of DB from a needle in a seaway to biofabrication mode. This review focuses on the formation, biological modification, functional activity of DB structure, and its application in biomaterials field, providing regulatory strategies and research idea of DB from the perspective of biofabrication. It will also maximize the possibility of using DB as biological materials.
Collapse
Affiliation(s)
- Xiaojie Sun
- College of Marine Life ScienceOcean University of China5# Yushan RoadQingdaoShandong Province266003China
| | - Mengxue Zhang
- College of Marine Life ScienceOcean University of China5# Yushan RoadQingdaoShandong Province266003China
| | - Jinfeng Liu
- College of Marine Life ScienceOcean University of China5# Yushan RoadQingdaoShandong Province266003China
- Department of StomatologyQingdao Women and Children’s Hospital, QingdaoQingdao266034China
| | - Guangyan Hui
- Department of StomatologyQingdao Special Servicemen Recuperation Center of PLA NavyNo.18 Yueyang RoadQingdaoShandong Province266071China
| | - Xiguang Chen
- College of Marine Life ScienceOcean University of China5# Yushan RoadQingdaoShandong Province266003China
- Sanya Oceanographic Institute, Ocean University of ChinaYazhou Bay Science & Technology CityFloor 7, Building 1, Yonyou Industrial ParkSanyaHainan Province572024P. R. China
- Laoshan Laboratory1# Wenhai RoadQingdaoShandong Province266000China
| | - Chao Feng
- College of Marine Life ScienceOcean University of China5# Yushan RoadQingdaoShandong Province266003China
- Sanya Oceanographic Institute, Ocean University of ChinaYazhou Bay Science & Technology CityFloor 7, Building 1, Yonyou Industrial ParkSanyaHainan Province572024P. R. China
| |
Collapse
|