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Tian M, Han Y, Ma X, Liang W, Meng Z, Cao G, Luo Y, Zang H. Quality study of animal-derived traditional Chinese medicinal materials based on spectral technology: Calculus bovis as a case. Phytochem Anal 2024. [PMID: 38649268 DOI: 10.1002/pca.3358] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Revised: 02/15/2024] [Accepted: 03/24/2024] [Indexed: 04/25/2024]
Abstract
INTRODUCTION Calculus bovis (C. bovis) is a typical traditional Chinese medicine (TCM) derived from animals, which has a remarkable curative effect and high price. OBJECTIVES Rapid identification of C. bovis from different types was realized based on spectral technology, and a rapid quantitative analysis method for the main quality control indicator bilirubin was established. METHODS We conducted a supervised and unsupervised pattern recognition study on 44 batches of different types of C. bovis by five spectral pretreatment methods. Three variable selection methods were used to extract the essential information, and the partial least squares regression (PLSR) quantitative model of bilirubin by near-infrared (NIR) spectroscopy was constructed. RESULTS The partial least squares discriminant analysis (PLS-DA) model could achieve 100% accuracy in identifying different types of C. bovis. The R2 of the NIR quantitative model was 0.979, which is close to 1, and the root mean square error of calibration (RMSEC) was 2.3515, indicating the good prediction ability of the model. CONCLUSION The study was carried out to further improve the basic data of quality control of C. bovis and help the high-quality development of TCM derived from animals.
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Affiliation(s)
- Mengyin Tian
- NMPA Key Laboratory for Technology Research and Evaluation of Drug Products, School of Pharmaceutical Sciences, Cheeloo College of Medicine, Shandong University, Jinan, Shandong, China
- Key Laboratory of Chemical Biology (Ministry of Education), Shandong University, Jinan, Shandong, China
- National Glycoengineering Research Center, Shandong University, Jinan, Shandong, China
| | - Ying Han
- NMPA Key Laboratory for Technology Research and Evaluation of Drug Products, School of Pharmaceutical Sciences, Cheeloo College of Medicine, Shandong University, Jinan, Shandong, China
- Key Laboratory of Chemical Biology (Ministry of Education), Shandong University, Jinan, Shandong, China
- National Glycoengineering Research Center, Shandong University, Jinan, Shandong, China
| | - Xiaobo Ma
- NMPA Key Laboratory for Technology Research and Evaluation of Drug Products, School of Pharmaceutical Sciences, Cheeloo College of Medicine, Shandong University, Jinan, Shandong, China
- Key Laboratory of Chemical Biology (Ministry of Education), Shandong University, Jinan, Shandong, China
- National Glycoengineering Research Center, Shandong University, Jinan, Shandong, China
| | - Wenyan Liang
- NMPA Key Laboratory for Technology Research and Evaluation of Drug Products, School of Pharmaceutical Sciences, Cheeloo College of Medicine, Shandong University, Jinan, Shandong, China
- Key Laboratory of Chemical Biology (Ministry of Education), Shandong University, Jinan, Shandong, China
- National Glycoengineering Research Center, Shandong University, Jinan, Shandong, China
| | - Zhaoqing Meng
- Shandong Hongjitang Pharmaceutical Group Co. Ltd., Jinan, China
| | - Guiyun Cao
- Shandong Hongjitang Pharmaceutical Group Co. Ltd., Jinan, China
| | - Yi Luo
- Shandong Hongjitang Pharmaceutical Group Co. Ltd., Jinan, China
| | - Hengchang Zang
- NMPA Key Laboratory for Technology Research and Evaluation of Drug Products, School of Pharmaceutical Sciences, Cheeloo College of Medicine, Shandong University, Jinan, Shandong, China
- Key Laboratory of Chemical Biology (Ministry of Education), Shandong University, Jinan, Shandong, China
- National Glycoengineering Research Center, Shandong University, Jinan, Shandong, China
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Vasilita C, Feng V, Hansen AK, Hartop E, Srivathsan A, Struijk R, Meier R. Express barcoding with NextGenPCR and MinION for species-level sorting of ecological samples. Mol Ecol Resour 2024; 24:e13922. [PMID: 38240168 DOI: 10.1111/1755-0998.13922] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Revised: 12/15/2023] [Accepted: 12/21/2023] [Indexed: 03/06/2024]
Abstract
The use of DNA barcoding is well established for specimen identification and large-scale biodiversity discovery, but remains underutilized for time-sensitive applications such as rapid species discovery in field stations, identifying pests, citizen science projects, and authenticating food. The main reason is that existing express barcoding workflows are either too expensive or can only be used in very well-equipped laboratories by highly-trained staff. We here show an alternative workflow combining rapid DNA extraction with HotSHOT, amplicon production with NextGenPCR thermocyclers, and sequencing with low-cost MinION sequencers. We demonstrate the power of the approach by generating 250 barcodes for 285 specimens within 6 h including specimen identification through BLAST. The workflow required only the following major equipment that easily fits onto a lab bench: Thermocycler, NextGenPCR, microplate sealer, Qubit, and MinION. Based on our results, we argue that simplified barcoding workflows for species-level sorting are now faster, more accurate, and sufficiently cost-effective to replace traditional morpho-species sorting in many projects.
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Affiliation(s)
| | - Vivian Feng
- Center for Integrative Biodiversity Discovery, Leibniz Institute for Evolution and Biodiversity Science, Museum für Naturkunde, Berlin, Germany
- Humboldt-Universität zu Berlin, Institut für Biologie, Berlin, Germany
| | - Aslak Kappel Hansen
- Center for Integrative Biodiversity Discovery, Leibniz Institute for Evolution and Biodiversity Science, Museum für Naturkunde, Berlin, Germany
| | - Emily Hartop
- Center for Integrative Biodiversity Discovery, Leibniz Institute for Evolution and Biodiversity Science, Museum für Naturkunde, Berlin, Germany
| | - Amrita Srivathsan
- Center for Integrative Biodiversity Discovery, Leibniz Institute for Evolution and Biodiversity Science, Museum für Naturkunde, Berlin, Germany
| | - Robin Struijk
- Molecular Biology Systems B.V., Goes, The Netherlands
| | - Rudolf Meier
- Center for Integrative Biodiversity Discovery, Leibniz Institute for Evolution and Biodiversity Science, Museum für Naturkunde, Berlin, Germany
- Humboldt-Universität zu Berlin, Institut für Biologie, Berlin, Germany
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Shao L, Qiao P, Wang J, Peng Y, Wang Y, Dong W, Li J. Comparative analysis of jujube and sour jujube gave insight into their difference in genetic diversity and suitable habitat. Front Genet 2024; 15:1322285. [PMID: 38380425 PMCID: PMC10878421 DOI: 10.3389/fgene.2024.1322285] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2023] [Accepted: 01/16/2024] [Indexed: 02/22/2024] Open
Abstract
Jujube (Ziziphus jujuba var. jujuba Mill.) and sour jujube (Z. jujuba var. spinosa (Bunge) Hu ex H.F.Chow.) are economically, nutritionally, and ecologically significant members of the Rhamnaceae family. Despite their importance, insufficient research on their genetics and habitats has impeded effective conservation and utilization. To address this knowledge gap, we conducted plastome sequencing, integrated distribution data from China, and assessed genetic diversity and suitable habitat. The plastomes of both species exhibited high conservation and low genetic diversity. A new-found 23 bp species-specific Indel in the petL-petG enabled us to develop a rapid Indel-based identification marker for species discrimination. Phylogenetic analysis and dating illuminated their genetic relationship, showing speciation occurred 6.9 million years ago, in a period of dramatic global temperature fluctuations. Substantial variations in suitable climatic conditions were observed, with the mean temperature of the coldest quarter as the primary factor influencing distributions (-3.16°C-12.73°C for jujube and -5.79°C to 4.11°C for sour jujube, suitability exceeding 0.6). Consequently, distinct conservation strategies are warranted due to differences in suitable habitats, with jujube having a broader distribution and sour jujube concentrated in Northern China. In conclusion, disparate habitats and climatic factors necessitate tailored conservation approaches. Comparing genetic diversity and developing rapid species-specific primers will further enhance the sustainable utilization of these valuable species.
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Affiliation(s)
- Lingzhi Shao
- School of Biology and Food Science, Hebei Normal University for Nationalities, Chengde, China
| | - Ping Qiao
- Dexing Research and Training Center of Chinese Medical Sciences, China Academy of Chinese Medical Sciences, Dexing, China
- State Key Laboratory for Quality Ensurance and Sustainable Use of Dao-di Herbs, National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China
| | - Jingyi Wang
- State Key Laboratory for Quality Ensurance and Sustainable Use of Dao-di Herbs, National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China
| | - Yanfang Peng
- School of Biology and Food Science, Hebei Normal University for Nationalities, Chengde, China
| | - Yiheng Wang
- State Key Laboratory for Quality Ensurance and Sustainable Use of Dao-di Herbs, National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China
| | - Wenpan Dong
- Laboratory of Systematic Evolution and Biogeography of Woody Plants, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
| | - Jie Li
- School of Biology and Food Science, Hebei Normal University for Nationalities, Chengde, China
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Sekhon AS, Unger P, Sharma S, Singh B, Chen X, Ganjyal GM, Michael M. Hyperspectral imaging of foodborne pathogens at colony and cellular levels for rapid identification in dairy products. Food Sci Nutr 2024; 12:239-254. [PMID: 38268868 PMCID: PMC10804082 DOI: 10.1002/fsn3.3766] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Revised: 09/24/2023] [Accepted: 09/27/2023] [Indexed: 01/26/2024] Open
Abstract
This study evaluated the efficacy of hyperspectral imaging (HSI) for the rapid identification of pathogens in dairy products at the colony and cellular levels. The colony and cellular levels studies were designed as completely randomized with six replications. Three strains of Listeria monocytogenes, four strains of Escherichia coli O157: H7, Big Six Shiga toxin-producing E. coli, three strains of Staphylococcus aureus, and ten serovars of Salmonella were used in this study. Pure cultures were streaked for isolation on respective selective media, and hyperspectral data (400-1100 nm wavelength) at the colony and cellular levels were collected and stored as reference libraries. Whole milk and whole milk powder were artificially inoculated (<10 CFU/g or mL) with individual pathogenic strains/serovars. All milk and milk powder samples were enriched using brain heart infusion (BHI) broth at 37°C for 24 h, streaked for isolation on the respective selective media, and hyperspectral data for individual pathogenic strains/serovars at the colony and cellular levels were acquired and treated as test samples data. The acquired colony or cellular images were imported into ENVI software and three regions of interest were selected for each image to obtain hyperspectral data for reference libraries and test samples. Using the kNN classifier and cross-validation technique, overall classification accuracies of 90.38% and 34% were obtained for the colony- and cellular-level identification, respectively. The individual classification accuracies of pathogens in dairy products at the colony level varied between 77.5% to 100%, whereas the accuracy varied between 2.78% and 49.17% for the cellular level.
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Affiliation(s)
| | - Phoebe Unger
- School of Food ScienceWashington State UniversityPullmanWashingtonUSA
| | - Sonali Sharma
- School of Food ScienceWashington State UniversityPullmanWashingtonUSA
| | - Bhupinderjeet Singh
- Biological Systems Engineering DepartmentWashington State UniversityPullmanWashingtonUSA
| | - Xiongzhi Chen
- Department of Mathematics and StatisticsWashington State UniversityPullmanWashingtonUSA
| | - Girish M. Ganjyal
- School of Food ScienceWashington State UniversityPullmanWashingtonUSA
| | - Minto Michael
- School of Food ScienceWashington State UniversityPullmanWashingtonUSA
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Zhang X, Li Z, Zhang Y, Xu D, Zhang L, Xiao F, Wang D. Rapid Discrimination of Panax quinquefolium and Panax ginseng Using the Proofman-Duplex-LMTIA Technique. Molecules 2023; 28:6872. [PMID: 37836715 PMCID: PMC10574230 DOI: 10.3390/molecules28196872] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2023] [Revised: 09/16/2023] [Accepted: 09/28/2023] [Indexed: 10/15/2023] Open
Abstract
This study aims to establish a rapid identification method based on the Proofman-LMTIA technique for distinguishing between Panax quinquefolium and Panax ginseng. By targeting specific 18S rDNA sequences, suitable primers and Proofman probes labeled FAM or JOE were designed for LMTIA. Initially, single-species-primer Proofman-LMTIA assays were performed separately for each ginseng type to optimize reaction temperature, assess sensitivity and specificity, and determine the detection limit. Subsequently, both sets of primers and their corresponding probes were combined in the same reaction system to further optimize reaction conditions, evaluate sensitivity, and assess stability. Finally, the developed Proofman-duplex-LMTIA technique was employed to detect P. quinquefolium and P. ginseng slices available in the market. Single-plex Proofman-LMTIA assays revealed that the optimal reaction temperature for both P. quinquefolium and P. ginseng was 62 °C. The sensitivity was as low as 1 pg/μL, with a detection limit of 0.1%, and both showed excellent specificity. The optimal temperature for Proofman-duplex-LMTIA assays was 58 °C. This method could simultaneously identify P. quinquefolium and P. ginseng. Testing 6 samples of P. ginseng and 11 samples of P. quinquefolium from the market resulted in a 100% positive rate for all samples. This study successfully established a rapid, simple, sensitive, and specific Proofman-duplex-LMTIA identification method for P. quinquefolium and P. ginseng. It provides an effective means for quality control of P. quinquefolium, P. ginseng, and related products.
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Affiliation(s)
- Xiaodong Zhang
- Henan Key Laboratory of Biomarker Based Rapid-Detection Technology for Food Safety, Food and Pharmacy College, Xuchang University, Xuchang 461000, China; (X.Z.); (Z.L.); (L.Z.); (F.X.)
| | - Zongding Li
- Henan Key Laboratory of Biomarker Based Rapid-Detection Technology for Food Safety, Food and Pharmacy College, Xuchang University, Xuchang 461000, China; (X.Z.); (Z.L.); (L.Z.); (F.X.)
| | - Yaoxuan Zhang
- College of Grain and Food, Henan University of Technology, Zhengzhou 450001, China;
| | - Dandan Xu
- School of Food and Biological Engineering, Henan University of Science and Technology, Luoyang 471000, China;
| | - Liang Zhang
- Henan Key Laboratory of Biomarker Based Rapid-Detection Technology for Food Safety, Food and Pharmacy College, Xuchang University, Xuchang 461000, China; (X.Z.); (Z.L.); (L.Z.); (F.X.)
| | - Fugang Xiao
- Henan Key Laboratory of Biomarker Based Rapid-Detection Technology for Food Safety, Food and Pharmacy College, Xuchang University, Xuchang 461000, China; (X.Z.); (Z.L.); (L.Z.); (F.X.)
| | - Deguo Wang
- Henan Key Laboratory of Biomarker Based Rapid-Detection Technology for Food Safety, Food and Pharmacy College, Xuchang University, Xuchang 461000, China; (X.Z.); (Z.L.); (L.Z.); (F.X.)
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Ma C, Lu J, Ren M, Wang Q, Li C, Xi X, Liu Z. Rapid identification of α-glucosidase inhibitors from Poria using spectrum-effect, component knock-out, and molecular docking technique. Front Nutr 2023; 10:1089829. [PMID: 37637945 PMCID: PMC10448901 DOI: 10.3389/fnut.2023.1089829] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2022] [Accepted: 07/11/2023] [Indexed: 08/29/2023] Open
Abstract
Instruction Poria (Poria cocos) is known for its health-promoting effects and is consumed as a food due to its potential hypoglycemic activity. However, the composition of Poria is complex, and the bioactive compounds that inhibit α-glucosidase are not clear. Methods In this study, the fingerprint of the Poria methanol extract characterized by high-performance liquid chromatography (HPLC) and the model of the corresponding spectrum-effect relationship for α-glucosidase was first established to screen the active compounds from Poria. Then, the predicted bioactive compounds were knocked out and identified using mass spectrometry. Finally, the potential binding sites and main bonds of each compound with α-glucosidase were studied using molecular docking. Results The results have shown that at least 11 compounds from Poria could inhibit α-glucosidase effectively. Moreover, eight individual compounds, i.e., poricoic acid B (P8), dehydrotumulosic acid (P9), poricoic acid A (P10), polyporenic acid C (P12), 3- epidehydrotumulosic acid (P13), dehydropachymic acid (P14), 3-O-acetyl-16α-hydroxytrametenolic acid (P21), and pachymic acid (P22), were identified, and they exhibited effective inhibitory activity against α-glucosidase. Discussion The possible inhibitory mechanism of them based on molecular docking showed that the binding sites are mainly found in the rings A, B, and C of these compounds, and C-3 C-16 and side chains of C-17, with the phenylalanine, arginine, tyrosine, histidine, and valine of α-glucosidase. The main interactions among them might be alkyl and hydrogen bonds, which theoretically verified the inhibitory activity of these compounds on α-glucosidase. The achievements of this study provided useful references for discovering bioactive compounds with hypoglycemic effects from Poria.
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Affiliation(s)
- Changyang Ma
- National R&D Center for Edible Fungus Processing Technology, Henan University, Kaifeng, China
- Shenzhen Research Institute of Henan University, Shenzhen, China
- Joint International Research Laboratory of Food and Medicine Resource Function, Kaifeng, Henan, China
- Henan Province Functional Food Engineering Technology Research Center, Kaifeng, Henan, China
| | - Jie Lu
- National R&D Center for Edible Fungus Processing Technology, Henan University, Kaifeng, China
- Joint International Research Laboratory of Food and Medicine Resource Function, Kaifeng, Henan, China
| | - Mengjie Ren
- National R&D Center for Edible Fungus Processing Technology, Henan University, Kaifeng, China
- Henan Province Functional Food Engineering Technology Research Center, Kaifeng, Henan, China
| | - Qiuyi Wang
- National R&D Center for Edible Fungus Processing Technology, Henan University, Kaifeng, China
- Henan Province Functional Food Engineering Technology Research Center, Kaifeng, Henan, China
| | - Changqin Li
- National R&D Center for Edible Fungus Processing Technology, Henan University, Kaifeng, China
| | - Xuefeng Xi
- National R&D Center for Edible Fungus Processing Technology, Henan University, Kaifeng, China
- College of Physical Education, Henan University, Kaifeng, Henan, China
- Kaifeng Key Laboratory of Functional Components in Health Food, Kaifeng, China
| | - Zhenhua Liu
- National R&D Center for Edible Fungus Processing Technology, Henan University, Kaifeng, China
- Shenzhen Research Institute of Henan University, Shenzhen, China
- Joint International Research Laboratory of Food and Medicine Resource Function, Kaifeng, Henan, China
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Zhang L, Zhao YP, Pang KK, Zhou SB, Liu YS. [Hyperspectral imaging technology distinguishes between Puerariae Lobatae Radix and Puerariae Lobatae Caulis]. Zhongguo Zhong Yao Za Zhi 2023; 48:4362-4369. [PMID: 37802862 DOI: 10.19540/j.cnki.cjcmm.20230515.103] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 10/08/2023]
Abstract
Puerariae Lobatae Radix, the dried root of Pueraria lobata, is a traditional Chinese medicine with a long history. Puerariae Lobatae Caulis as an adulterant is always mixed into Puerariae Lobatae Radix for sales in the market. This study employed hyperspectral imaging(HSI) to distinguish between the two products. VNIR lens(spectral scope of 410-990 nm) and SWIR lens(spectral scope of 950-2 500 nm) were used for image acquiring. Multi-layer perceptron(MLP), partial least squares discriminant analysis(PLS-DA), and support vector machine(SVM) were employed to establish the full-waveband models and select the effective wavelengths for the distinguishing between Puerariae Lobatae Caulis and Puerariae Lobatae Radix, which provided technical and data support for the development of quick inspection equipment based on HSI. The results showed that MLP model outperformed PLS-DA and SVM models in the accuracy of discrimination with full wavebands in VNIR, SWIR, and VNIR+SWIR lens, which were 95.26%, 99.11%, and 99.05%, respectively. The discriminative band selection(DBS) algorithm was employed to select the effective wavelengths, and the discrimination accuracy was 93.05%, 98.05%, and 98.74% in the three different spectral scopes, respectively. On this basis, the MLP model combined with the effective wavelengths within the range of 2 100-2 400 nm can achieve the accuracy of 97.74%, which was close to that obtained with the full waveband. This waveband can be used to develop quick inspection devices based on HSI for the rapid and non-destructive distinguishing between Puerariae Lobatae Radix and Puerariae Lobatae Caulis.
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Affiliation(s)
- Lei Zhang
- School of Pharmacy,Jiangxi University of Chinese Medicine Nanchang 330004,China China Academy of Chinese Medical Sciences Beijing 100700,China
| | - Yu-Ping Zhao
- School of Pharmacy,Jiangxi University of Chinese Medicine Nanchang 330004,China China Academy of Chinese Medical Sciences Beijing 100700,China
| | - Kun-Kun Pang
- Guangdong Institute of Intelligent Manufacturing,Guangdong Academy of Sciences Guangzhou 510070,China
| | - Song-Bin Zhou
- Guangdong Institute of Intelligent Manufacturing,Guangdong Academy of Sciences Guangzhou 510070,China
| | - Yi-Sen Liu
- Guangdong Institute of Intelligent Manufacturing,Guangdong Academy of Sciences Guangzhou 510070,China
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Kakizaki N, Asai K, Kuroda M, Watanabe R, Kujiraoka M, Sekizuka T, Katagiri M, Moriyama H, Watanabe M, Saida Y. Rapid identification of bacteria using a multiplex polymerase chain reaction system for acute abdominal infections. Front Microbiol 2023; 14:1220651. [PMID: 37492262 PMCID: PMC10363666 DOI: 10.3389/fmicb.2023.1220651] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2023] [Accepted: 06/23/2023] [Indexed: 07/27/2023] Open
Abstract
Purpose Acute abdominal infections can be fatal if the causative organism (s) are misidentified. The spread of antimicrobial-resistant bacteria has become a serious problem worldwide, making antibiotic selection extremely difficult. Using quantitative metagenomic analysis, we evaluated a commercial multiplex polymerase chain reaction (PCR) system (FilmArray™, bioMérieux, Marcy-l'Étoile, France) for the rapid identification of causative bacteria. Methods The cases of 10 patients with acute abdominal infections were enrolled in this retrospective study. There were six cases of perforated peritonitis and four cases of intraabdominal abscess. Fluid collected from the acute surgical abdominal infections were examined. Results All specimens tested positive for microorganisms in culture, and six involved two or more microorganisms. Using the multiplex PCR system, nine of ten specimens were found to involve at least one microorganism. One specimen was not included in the multiplex PCR system panel. Nineteen of 21 microorganisms (90.5%) isolated by culture were detected by the multiplex PCR system. Microorganisms with very small numbers of reads (19 reads) were detectable. Conclusion This multiplex PCR system showed a high detection rate for causative microorganisms in ascites and intraabdominal abscesses. This system may be suitable as an affordable rapid identification system for causative bacteria in these cases.
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Affiliation(s)
- Nanako Kakizaki
- Department of Surgery, Toho University Ohashi Medical Center, Tokyo, Japan
- Department of Clinical Oncology, Toho University Graduate School of Medicine, Tokyo, Japan
| | - Koji Asai
- Department of Surgery, Toho University Ohashi Medical Center, Tokyo, Japan
| | - Makoto Kuroda
- Laboratory of Bacterial Genomics, National Institute of Infectious Diseases, Pathogen Genomics Center, Tokyo, Japan
| | - Ryutaro Watanabe
- Department of Surgery, Toho University Ohashi Medical Center, Tokyo, Japan
| | - Manabu Kujiraoka
- Department of Surgery, Toho University Ohashi Medical Center, Tokyo, Japan
| | - Tsuyoshi Sekizuka
- Laboratory of Bacterial Genomics, National Institute of Infectious Diseases, Pathogen Genomics Center, Tokyo, Japan
| | - Miwa Katagiri
- Department of Surgery, Toho University Ohashi Medical Center, Tokyo, Japan
| | - Hodaka Moriyama
- Department of Surgery, Toho University Ohashi Medical Center, Tokyo, Japan
| | - Manabu Watanabe
- Department of Surgery, Toho University Ohashi Medical Center, Tokyo, Japan
| | - Yoshihisa Saida
- Department of Surgery, Toho University Ohashi Medical Center, Tokyo, Japan
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Li MX, Qin YW, Li Y, Zhang JB, Ji D, Qu LY, Gong JW, Jia AM, Mao CQ, Lu TL. [ Rapid identification and differential markers of Curcumae Radix decoction pieces of different sources based on Heracles Neo ultra-fast gas phase electronic nose]. Zhongguo Zhong Yao Za Zhi 2023; 48:1518-1525. [PMID: 37005839 DOI: 10.19540/j.cnki.cjcmm.20221203.301] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 04/04/2023]
Abstract
Since Curcumae Radix decoction pieces have multiple sources, it is difficult to distinguish depending on traditional cha-racters, and the mixed use of multi-source Curcumae Radix will affect its clinical efficacy. Heracles Neo ultra-fast gas phase electronic nose was used in this study to quickly identify and analyze the odor components of 40 batches of Curcumae Radix samples from Sichuan, Zhejiang, and Guangxi. Based on the odor fingerprints established for Curcumae Radix decoction pieces of multiple sources, the odor components was identified and analyzed, and the chromatographic peaks were processed and analyzed to establish a rapid identification method. Principal component analysis(PCA), discriminant factor analysis(DFA), and soft independent modeling cluster analysis(SIMCA) were constructed for verification. At the same time, one-way analysis of variance(ANOVA) combined with variable importance in projection(VIP) was employed to screen out the odor components with P<0.05 and VIP>1, and 13 odor components such as β-caryophyllene and limonene were hypothesized as the odor differential markers of Curcumae Radix decoction pieces of diffe-rent sources. The results showed that Heracles Neo ultra-fast gas phase electronic nose can well analyze the odor characteristics and rapidly and accurately discriminate Curcumae Radix decoction pieces of different sources. It can be applied to the quality control(e.g., online detection) in the production of Curcumae Radix decoction pieces. This study provides a new method and idea for the rapid identification and quality control of Curcumae Radix decoction pieces.
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Affiliation(s)
- Ming-Xuan Li
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China
| | - Yu-Wen Qin
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China
| | - Yu Li
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China
| | - Jiu-Ba Zhang
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China
| | - De Ji
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China
| | - Ling-Yun Qu
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China
| | - Jing-Wen Gong
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China
| | - Ao-Meng Jia
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China
| | - Chun-Qin Mao
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China Jiangsu Provincial Engineering Research Center of TCM External Medication Development and Application Nanjing 210023,China Traditional Chinese Medicine Processing Technology Inheritance Base of the State Administration of Traditional Chinese Medicine Nanjing 210023,China
| | - Tu-Lin Lu
- School of Pharmacy,Nanjing University of Chinese Medicine Nanjing 210023,China Jiangsu Provincial Engineering Research Center of TCM External Medication Development and Application Nanjing 210023,China Traditional Chinese Medicine Processing Technology Inheritance Base of the State Administration of Traditional Chinese Medicine Nanjing 210023,China
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10
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Ma T, Zhang Y, Yan C, Zhang C. Phenotypic and Genomic Difference among Four Botryosphaeria Pathogens in Chinese Hickory Trunk Canker. J Fungi (Basel) 2023; 9:204. [PMID: 36836318 PMCID: PMC9963396 DOI: 10.3390/jof9020204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2023] [Revised: 01/25/2023] [Accepted: 01/31/2023] [Indexed: 02/09/2023] Open
Abstract
Botryosphaeria species are amongst the most widespread and important canker and dieback pathogens of trees worldwide, with B. dothidea as one of the most common Botryosphaeria species. However, the information related to the widespread incidence and aggressiveness of B. dothidea among various Botryosphaeria species causing trunk cankers is still poorly investigated. In this study, the metabolic phenotypic diversity and genomic differences of four Chinese hickory canker-related Botryosphaeria pathogens, including B. dothidea, B. qingyuanensis, B. fabicerciana, and B. corticis, were systematically studied to address the competitive fitness of B. dothidea. Large-scale screening of physiologic traits using a phenotypic MicroArray/OmniLog system (PMs) found B. dothidea has a broader spectrum of nitrogen source and greater tolerance toward osmotic pressure (sodium benzoate) and alkali stress among Botryosphaeria species. Moreover, the annotation of B. dothidea species-specific genomic information via a comparative genomics analysis found 143 B. dothidea species-specific genes that not only provides crucial cues in the prediction of B. dothidea species-specific function but also give a basis for the development of a B. dothidea molecular identification method. A species-specific primer set Bd_11F/Bd_11R has been designed based on the sequence of B. dothidea species-specific gene jg11 for the accurate identification of B. dothidea in disease diagnoses. Overall, this study deepens the understanding in the widespread incidence and aggressiveness of B. dothidea among various Botryosphaeria species, providing valuable clues to assist in trunk cankers management.
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Affiliation(s)
| | | | | | - Chuanqing Zhang
- Department of Plant Pathology, Zhejiang Agriculture and Forest University, Hangzhou 311300, China
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11
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Liu Z, Xue Y, Yang C, Li B, Zhang Y. Rapid identification and drug resistance screening of respiratory pathogens based on single-cell Raman spectroscopy. Front Microbiol 2023; 14:1065173. [PMID: 36778844 PMCID: PMC9909742 DOI: 10.3389/fmicb.2023.1065173] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2022] [Accepted: 01/03/2023] [Indexed: 01/27/2023] Open
Abstract
Respiratory infections rank fourth in the global economic burden of disease. Lower respiratory tract infections are the leading cause of death in low-income countries. The rapid identification of pathogens causing lower respiratory tract infections to help guide the use of antibiotics can reduce the mortality of patients with lower respiratory tract infections. Single-cell Raman spectroscopy is a "whole biological fingerprint" technique that can be used to identify microbial samples. It has the advantages of no marking and fast and non-destructive testing. In this study, single-cell Raman spectroscopy was used to collect spectral data of six respiratory tract pathogen isolates. The T-distributed stochastic neighbor embedding (t-SNE) isolation analysis algorithm was used to compare the differences between the six respiratory tract pathogens. The eXtreme Gradient Boosting (XGBoost) algorithm was used to establish a Raman phenotype database model. The classification accuracy of the isolated samples was 93-100%, and the classification accuracy of the clinical samples was more than 80%. Combined with heavy water labeling technology, the drug resistance of respiratory tract pathogens was determined. The study showed that single-cell Raman spectroscopy-D2O (SCRS-D2O) labeling could rapidly identify the drug resistance of respiratory tract pathogens within 2 h.
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Affiliation(s)
- Ziyu Liu
- Department of Pediatric Respiratory, The First Hospital of Jilin University, Changchun, China,School of Life Science, Jilin University, Changchun, China
| | - Ying Xue
- HOOKE Instruments Ltd., Changchun, China
| | - Chun Yang
- Department of Laboratory Medicine, First Hospital of Jilin University, Changchun, Jilin, China
| | - Bei Li
- HOOKE Instruments Ltd., Changchun, China,The State Key Lab of Applied Optics, Changchun Institute of Optics, Fine Mechanics and Physics, Chinese Academy of Sciences (CAS), Changchun, China
| | - Ying Zhang
- Department of Pediatric Respiratory, The First Hospital of Jilin University, Changchun, China,*Correspondence: Ying Zhang ✉
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12
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David S, Munteanu RE, Tițoiu AM, Petcu IC, Cernat IC, Leancu C, Gheorghiu M, Gheorghiu E. Direct, Rapid Detection of Pathogens from Urine Samples. Materials (Basel) 2022; 15:ma15217640. [PMID: 36363232 PMCID: PMC9656601 DOI: 10.3390/ma15217640] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2022] [Revised: 10/17/2022] [Accepted: 10/26/2022] [Indexed: 06/02/2023]
Abstract
The problem of rapidly detecting pathogens directly from clinical samples poses significant analytical challenges. Addressing this issue in relation to urinary tract infections, we propose an effective protocol and related immunomagnetic test kits enabling versatile screening for the presence of pathogenic bacteria in unprocessed urine samples. To achieve this, the components of a typical immunomagnetic separation protocol were optimized towards the sensitive assessment of the aggregates formed out of immunomagnetically tagged target pathogens collected from clinical samples. Specifically, a dedicated immunomagnetic material was developed via the functionalization of standardized, micron-sized magnetic beads with generic antibodies against gram-specific bacterial constituents with mannan binding lectin. As such, we demonstrate efficient procedures for achieving the enhanced, specific, and pathogen-mediated cluster formation of these tailored affinity-coated magnetic beads in complex samples. We further show how cluster analysis, in conjunction with the use of nonspecific, inexpensive fluorescent dye, allows for a straightforward optical assessment of the bacterial load directly from urine samples. The optimized sensing protocol and related kits provide, in less than 60 min, qualitative (positive/negative) information on the bacterial load with 85% specificity and 96% sensitivity, which is appropriate to empower clinical microscopy with a new analytic dimension. The procedure is prone to automation, can be conveniently used in clinical microbiology laboratories and, since it preserves the viability of the captured bacteria, can be interfaced with downstream analyses and antimicrobial susceptibility testing. Moreover, the study emphasizes a suite of practical validation assays that are useful for bringing the tool-box of immunomagnetic materials outside the academic laboratory and into real-life applications.
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Affiliation(s)
- Sorin David
- International Centre of Biodynamics, Intrarea Portocalelor 1B, 060101 Bucharest, Romania
| | - Raluca-Elena Munteanu
- International Centre of Biodynamics, Intrarea Portocalelor 1B, 060101 Bucharest, Romania
- Faculty of Biology, University of Bucharest, Splaiul Independenței 91-95, 050095 Bucharest, Romania
| | - Ana-Maria Tițoiu
- International Centre of Biodynamics, Intrarea Portocalelor 1B, 060101 Bucharest, Romania
| | - Ionela-Cristina Petcu
- International Centre of Biodynamics, Intrarea Portocalelor 1B, 060101 Bucharest, Romania
| | - Ioana-Cristina Cernat
- International Centre of Biodynamics, Intrarea Portocalelor 1B, 060101 Bucharest, Romania
| | - Corina Leancu
- Laboratoarele SynLab, Bld. Tudor Vladimirescu nr.29, 050881 Bucharest, Romania
| | - Mihaela Gheorghiu
- International Centre of Biodynamics, Intrarea Portocalelor 1B, 060101 Bucharest, Romania
- Faculty of Biology, University of Bucharest, Splaiul Independenței 91-95, 050095 Bucharest, Romania
| | - Eugen Gheorghiu
- International Centre of Biodynamics, Intrarea Portocalelor 1B, 060101 Bucharest, Romania
- Faculty of Biology, University of Bucharest, Splaiul Independenței 91-95, 050095 Bucharest, Romania
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13
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Tansarli GS, Chapin KC. A Closer Look at the Laboratory Impact of Utilizing ePlex Blood Culture Identification Panels: a Workflow Analysis Using Rapid Molecular Detection for Positive Blood Cultures. Microbiol Spectr 2022; 10:e0179622. [PMID: 36069598 DOI: 10.1128/spectrum.01796-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Abstract
Rapid identification of pathogens is critical in bloodstream infections. We evaluated the diagnostic performance of the GenMark Dx ePlex blood culture identification (BCID) panels and the adoption of the ePlex system into the clinical laboratory workflow. Nonduplicate remnant specimens of positive blood cultures were prospectively tested using ePlex panels between January and March 2020. A total of 313 unique positive blood culture specimens were tested. The identified organisms consisted of 98 Gram-negative rods (GNR), 90 Gram-positive cocci (GPC) in clusters, 62 GPC in chains, 21 Gram-positive rods, and 20 yeasts; 22 organisms were off panel. The positive percent agreement was 100% across all organisms tested after discordancy resolution, while the negative percent agreement was 100% across all targets except Corynebacterium spp., where it was 99.7%. The ePlex BCID panels accurately detected 5 pan targets and 42 antimicrobial resistance gene markers, including 31 mecA, 4 vanA, 6 CTX-M, and 1 KPC gene. The median times to result were calculated as 2.5 h for Xpert MRSA/SA in GPC in clusters, 9.5 h for Accelerate Pheno (identification and susceptibility) in GNR, 6 h for peptide nucleic acid fluorescent in situ hybridization [PNA-FISH] in yeasts, 27 h for the latex agglutination test in S. aureus, 29 h for Lancefield serotyping in GPC in chains, and 29 h for Vitek-MS in GNR. In our laboratory, the ePlex panels could substantially reduce the time to result for bloodstream infection (BSI) caused by Streptococcus spp., Enterococcus spp., and Candida spp. The highly accurate ePlex panels can help streamline laboratory efficiency in the blood bench workflow, reducing the time to result for identification of BSI pathogens. IMPORTANCE Sepsis is a leading cause of morbidity and mortality worldwide. Rapid identification of the causative agent is of critical importance for the prompt initiation of the appropriate antibiotic treatment. In this study, we evaluated the diagnostic performance of the GenMark Dx ePlex blood culture identification (BCID) panels and their adoption into the clinical laboratory workflow. We prospectively tested 313 blood culture isolates and found that ePlex BCID panels had a positive percent agreement of 100% across all organisms tested after discordancy resolution. The negative percent agreement was 100% across all targets except Corynebacterium spp., where it was 99.7%. This new rapid technology (turnaround time of ~90 min) can help streamline laboratory efficiency in the blood bench workflow, reducing the time to result for identification of BSI pathogens. Adoption should be individualized based on the needs of the patient population and capabilities of the laboratory.
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14
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Jing R, Yin XL, Xie XL, Lian HQ, Li J, Zhang G, Yang WH, Sun TS, Xu YC. Morphologic identification of clinically encountered moulds using a residual neural network. Front Microbiol 2022; 13:1021236. [PMID: 36312928 PMCID: PMC9614265 DOI: 10.3389/fmicb.2022.1021236] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2022] [Accepted: 09/30/2022] [Indexed: 11/04/2022] Open
Abstract
The use of morphology to diagnose invasive mould infections in China still faces substantial challenges, which often leads to delayed diagnosis or misdiagnosis. We developed a model called XMVision Fungus AI to identify mould infections by training, testing, and evaluating a ResNet-50 model. Our research achieved the rapid identification of nine common clinical moulds: Aspergillus fumigatus complex, Aspergillus flavus complex, Aspergillus niger complex, Aspergillus terreus complex, Aspergillus nidulans, Aspergillus sydowii/Aspergillus versicolor, Syncephalastrum racemosum, Fusarium spp., and Penicillium spp. In our study, the adaptive image contrast enhancement enabling XMVision Fungus AI as a promising module by effectively improve the identification performance. The overall identification accuracy of XMVision Fungus AI was up to 93.00% (279/300), which was higher than that of human readers. XMVision Fungus AI shows intrinsic advantages in the identification of clinical moulds and can be applied to improve human identification efficiency through training. Moreover, it has great potential for clinical application because of its convenient operation and lower cost. This system will be suitable for primary hospitals in China and developing countries.
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Affiliation(s)
- Ran Jing
- Department of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing, China,Graduate School, Chinese Academy of Medical Science and Peking Union Medical College, Beijing, China,Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, China
| | - Xiang-Long Yin
- Beijing Hao Chen Xing Yue Technology Co., Ltd., Beijing, China
| | - Xiu-Li Xie
- Department of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing, China,Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, China
| | - He-Qing Lian
- Beijing Xiaoying Technology Co., Ltd., Beijing, China
| | - Jin Li
- Department of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing, China,Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, China
| | - Ge Zhang
- Department of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing, China,Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, China
| | - Wen-Hang Yang
- Department of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing, China,Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, China
| | - Tian-Shu Sun
- Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, China,Medical Research Center, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China,*Correspondence: Tian-Shu Sun,
| | - Ying-Chun Xu
- Department of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing, China,Graduate School, Chinese Academy of Medical Science and Peking Union Medical College, Beijing, China,Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, China,Ying-Chun Xu,
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15
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Wang Z, Jin Q, Li Q, Ou X, Li S, Liu Z, Huang J. Multiplex PCR Identification of Aspergillus cristatus and Aspergillus chevalieri in Liupao Tea Based on Orphan Genes. Foods 2022; 11:2217. [PMID: 35892804 DOI: 10.3390/foods11152217] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2022] [Revised: 07/19/2022] [Accepted: 07/22/2022] [Indexed: 11/21/2022] Open
Abstract
“Golden flower” fungi in dark tea are beneficial to human health. The rapid identification method of “golden flower” fungi can verify the quality of dark tea products and ensure food safety. In this study, 6 strains were isolated from Liupao tea. They were respectively identified as A. cristatus, A. chevalieri, and A. pseudoglaucus. A. pseudoglaucus was reported as Liupao tea “golden flower” fungus for the first time. It was found that the ITS and BenA sequences of A. cristatus and A. chevalieri were highly conserved. It is difficult to clearly distinguish these closely related species by ITS sequencing. To rapidly identify species, multiplex PCR species-specific primers were designed based on orphan genes screened by comparative genomics analysis. Multiplex PCR results showed that orphan genes were specific and effective for the identification of A. cristatus and A. chevalieri isolated from Liupao tea and Fu brick tea. We confirmed that orphan genes can be used for identification of closely related Aspergillus species. Validation showed that the method is convenient, rapid, robust, sequencing-free, and economical. This promising method will be greatly beneficial to the dark tea processing industry and consumers.
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16
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Zhang JB, Zhang W, Fei CH, Su LL, Mao CQ, Wang XC, Xu JG, Lu TL. [ Rapid identification of raw and sulfur-fumigated Paeoniae Radix Alba based on Heracles NEO ultra-fast gas phase electronic nose]. Zhongguo Zhong Yao Za Zhi 2022; 47:3781-3787. [PMID: 35850835 DOI: 10.19540/j.cnki.cjcmm.20211222.301] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Since the current identification method for Paeoniae Radix Alba is complex in operation and long time-consuming with high requirements for technicians, the present study employed Heracles NEO ultra-fast gas phase electronic nose(E-nose) technology to identify raw and sulfur-fumigated Paeoniae Radix Alba decoction pieces in order to establish a rapid identification method for sulfur-fumigated Paeoniae Radix Alba. The odors of raw Paeoniae Radix Alba and its sulfur-fumigated products were analyzed by Heracles NEO ultra-fast gas phase E-nose to obtain the odor chromatographic information. The chemometric model was established, and the data were processed by principal component analysis(PCA), discriminant function analysis(DFA), soft independent modeling of class analogy(SIMCA), and partial least squares discriminant analysis(PLS-DA). The differential compounds of raw and sulfur-fumigated samples were qualitatively analyzed based on the Kovats retention index and Arochembase. As revealed by the comparison of gas chromatograms of raw and sulfur-fumigated Paeoniae Radix Alba, the heights of several peaks in the chromatograms before and after sulfur fumigation changed significantly. The peak(No.8) produced by ethylbenzene disappeared completely due to sulfonation reaction in the process of sulfur fumigation, indicating that ethylbenzene may be the key component in the identification of Paeoniae Radix Alba and its sulfur-fumigated products. In PCA, DFA, SIMCA, and PLS-DA models, the two types of samples were separated into two different regions, indicating that the established models can clearly distinguish between raw and sulfur-fumigated Paeoniae Radix Alba. The results showed that Heracles NEO ultra-fast gas phase E-nose technology could realize the rapid identification of raw and sulfur-fumigated Paeoniae Radix Alba, which provides a new method and idea for the rapid identification of sulfur-fumigated Chinese medicine.
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Affiliation(s)
- Jiu-Ba Zhang
- School of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023, China
| | - Wei Zhang
- School of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023, China College of Pharmacy, Anhui University of Chinese Medicine Hefei 230012, China
| | - Cheng-Hao Fei
- School of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023, China
| | - Lian-Lin Su
- School of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023, China
| | - Chun-Qin Mao
- School of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023, China
| | - Xia-Chang Wang
- School of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023, China
| | - Jin-Guo Xu
- School of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023, China
| | - Tu-Lin Lu
- School of Pharmacy, Nanjing University of Chinese Medicine Nanjing 210023, China
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17
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Chen J, Li JQ, Li T, Liu HG, Wang YZ. Rapid identification of the storage duration and species of sliced boletes using near-infrared spectroscopy. J Food Sci 2022; 87:2908-2919. [PMID: 35735248 DOI: 10.1111/1750-3841.16220] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2022] [Revised: 04/16/2022] [Accepted: 05/17/2022] [Indexed: 12/24/2022]
Abstract
Boletes are recognized as a worldwide delicacy. Adulteration of the expired and low-value sliced boletes is a pressing problem in the supply chain of commercial sliced boletes. This study aimed at developing a rapid method to identify the storage duration and species of sliced boletes, using near-infrared (NIR) spectroscopy. In the study, 1376 fruiting bodies of wild-grown boletes were collected from 2017 to 2020 in Yunnan, containing four common species of edible boletes. A NIR spectroscopy-based strategy was proposed, that is, identify the storage duration of sliced boletes to ensure that they are within the shelf life firstly; then identify the species of sliced boletes within the shelf life to evaluate their economic value. Three supervised methods, partial least squares discriminant analysis (PLS-DA), extreme learning machine (ELM), and two-dimensional correlation spectroscopy (2DCOS) images with residual convolutional neural network (ResNet) model were applied to identify. The results showed that PLS-DA model cannot accurately identify the storage duration and species of sliced boletes, and the ELM model can identify the storage duration of boletes samples, but cannot accurately discriminate different species of samples. And ResNet model established by 2DCOS images showed superiority in classification performance, 100% accuracy was obtained for both the storage duration and species classification. Moreover, compared to traditional methods, the 2DCOS images with ResNet model was free of complicated data preprocessing. The results obtained in the present study indicated a promising way of combining 2DCOS images with ResNet methods, in tandem with NIR for the rapid identification of the storage duration and species of sliced boletes. PRACTICAL APPLICATION: In the boletes supply chain, the method can be considered as a reliable method for testing the authenticity of boletes slices. The current study can also provide a reference for quality control of other edible mushroom.
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Affiliation(s)
- Jian Chen
- Institute of Medicinal Plants, Yunnan Academy of Agricultural Sciences, Kunming, China.,College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China
| | - Jie Qing Li
- College of Resources and Environmental, Yunnan Agricultural University, Kunming, China
| | - Tao Li
- College of Resources and Environment, Yuxi Normal University, Yuxi, China
| | - Hong Gao Liu
- College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming, China.,Zhaotong University, Zhaotong, China
| | - Yuan Zhong Wang
- Institute of Medicinal Plants, Yunnan Academy of Agricultural Sciences, Kunming, China
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18
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Wang Y, Hua L, Fu Q, Wu C, Zhang C, Li H, Xu G, Ni Q, Zhang Y. Rapid Identification of Adulteration in Extra Virgin Olive Oil via Dynamic Headspace Sampling and High-Pressure Photoionization Time-of-Flight Mass Spectrometry. J Agric Food Chem 2022; 70:6775-6784. [PMID: 35623031 DOI: 10.1021/acs.jafc.2c01361] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
High-pressure photoionization time-of-flight mass spectrometry (HPPI-TOFMS) combined with dynamic headspace sampling was developed for rapid identification of adulteration in extra virgin olive oil (EVOO). The volatile organic compound (VOC) fingerprints of EVOO, refined rapeseed oil (r-RO), peanut oil (PO), corn oil (CO), fragrant rapeseed oil (f-RO), and sunflower oil (SO) were obtained in just 1.5 min, which enabled satisfactory classification of different edible oils. 1,4-Bis(methylene)cyclohexane and dimethyl disulfide were unique VOCs in r-RO and f-RO, respectively, while 2,5-dimethylpyrazine and 2-methylpyrazine were distinctive VOCs in PO. Percentages as low as 3% r-RO, 1% PO, and 1% f-RO in r-RO-EVOO, PO-EVOO, and f-RO-EVOO mixtures, respectively, were successfully identified based on the characteristic VOCs. Linear regression equations of these VOCs were established and utilized for predicting the adulteration proportions. The good agreements between the actual adulteration proportions and the predicted ones demonstrated that HPPI-TOFMS was reliable for the quantification of EVOO adulteration.
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Affiliation(s)
- Yan Wang
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Food and Health, Zhejiang A & F University, Linan, Hangzhou 311300, China
| | - Lei Hua
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, Liaoning 116023, People's Republic of China
- Dalian Key Laboratory for Online Analytical Instrumentation, Dalian, Liaoning 116023, People's Republic of China
| | - Qianwen Fu
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Food and Health, Zhejiang A & F University, Linan, Hangzhou 311300, China
| | - Chenxin Wu
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, Liaoning 116023, People's Republic of China
- Dalian Key Laboratory for Online Analytical Instrumentation, Dalian, Liaoning 116023, People's Republic of China
| | - Chong Zhang
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, Liaoning 116023, People's Republic of China
- Dalian Key Laboratory for Online Analytical Instrumentation, Dalian, Liaoning 116023, People's Republic of China
| | - Haiyang Li
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, Liaoning 116023, People's Republic of China
- Dalian Key Laboratory for Online Analytical Instrumentation, Dalian, Liaoning 116023, People's Republic of China
| | - Guangzhi Xu
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Food and Health, Zhejiang A & F University, Linan, Hangzhou 311300, China
| | - Qinxue Ni
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Food and Health, Zhejiang A & F University, Linan, Hangzhou 311300, China
| | - Youzuo Zhang
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, College of Food and Health, Zhejiang A & F University, Linan, Hangzhou 311300, China
- Zhejiang Jiaozhi Technology Co., Ltd., Linan, Hangzhou 311300, China
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19
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Chen B, Zheng J, Gao K, Hu X, Guo SS, Zhao XZ, Liao F, Yang Y, Liu W. Noninvasive Optical Isolation and Identification of Circulating Tumor Cells Engineered by Fluorescent Microspheres. ACS Appl Bio Mater 2022; 5:2768-2776. [PMID: 35537085 DOI: 10.1021/acsabm.2c00204] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
Circulating tumor cells (CTCs) are rare, meaning that current isolation strategies can hardly satisfy efficiency and cell biocompatibility requirements, which hinders clinical applications. In addition, the selected cells require immunofluorescence identification, which is a time-consuming and expensive process. Here, we developed a method to simultaneously separate and identify CTCs by the integration of optical force and fluorescent microspheres. Our method achieved high-purity separation of CTCs without damage through light manipulation and avoided additional immunofluorescence staining procedures, thus achieving rapid identification of sorted cells. White blood cells (WBCs) and CTCs are similar in size and density, which creates difficulties in distinguishing them optically. Therefore, fluorescent PS microspheres with high refractive index (RI) are designed here to capture the CTCs (PS-CTCs) and increase the average index of refraction of PS-CTCs. In optofluidic chips, PS-CTCs were propelled to the collection channel from the sample mixture, under the radiation of light force. Cells from the collection outlet were easily identified under a fluorescence microscope due to the fluorescence signals of PS microspheres. This method provides an approach for the sorting and identification of CTCs, which holds great potential for clinical applications in early diagnosis of disease.
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Affiliation(s)
- Bei Chen
- Key Laboratory of Artificial Micro- and Nano-Structures of Ministry of Education, School of Physics and Technology, Wuhan University, Wuhan, Hubei 430072, China
| | - Jingjing Zheng
- Key Laboratory of Artificial Micro- and Nano-Structures of Ministry of Education, School of Physics and Technology, Wuhan University, Wuhan, Hubei 430072, China
| | - Kefan Gao
- Key Laboratory of Artificial Micro- and Nano-Structures of Ministry of Education, School of Physics and Technology, Wuhan University, Wuhan, Hubei 430072, China
| | - Xuejia Hu
- Department of Electronic Engineering School of Electronic Science and Engineering, Xiamen University, Xiamen, Fujian Province 361005, China
| | - Shi-Shang Guo
- Key Laboratory of Artificial Micro- and Nano-Structures of Ministry of Education, School of Physics and Technology, Wuhan University, Wuhan, Hubei 430072, China
| | - Xing-Zhong Zhao
- Key Laboratory of Artificial Micro- and Nano-Structures of Ministry of Education, School of Physics and Technology, Wuhan University, Wuhan, Hubei 430072, China
| | - Fei Liao
- Gastroenterology Department, Renmin Hospital of Wuhan University, Wuhan, Hubei 430060, China
| | - Yi Yang
- Key Laboratory of Artificial Micro- and Nano-Structures of Ministry of Education, School of Physics and Technology, Wuhan University, Wuhan, Hubei 430072, China
| | - Wei Liu
- Key Laboratory of Artificial Micro- and Nano-Structures of Ministry of Education, School of Physics and Technology, Wuhan University, Wuhan, Hubei 430072, China.,Wuhan Institute of Quantum Technology, Wuhan 430206, China.,Hubei Luojia Laboratory, Wuhan University, Wuhan, Hubei 430072, China
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20
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Unger P, Sekhon AS, Chen X, Michael M. Developing an affordable hyperspectral imaging system for rapid identification of Escherichia coli O157:H7 and Listeria monocytogenes in dairy products. Food Sci Nutr 2022; 10:1175-1183. [PMID: 35432977 PMCID: PMC9007299 DOI: 10.1002/fsn3.2749] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2021] [Revised: 12/29/2021] [Accepted: 01/02/2022] [Indexed: 01/31/2023] Open
Abstract
The objective of this foundational study was to develop and evaluate the efficacy of an affordable hyperspectral imaging (HSI) system to identify single and mixed strains of foodborne pathogens in dairy products. This study was designed as a completely randomized design with three replications. Three strains each of Escherichia coli O157:H7 and Listeria monocytogenes were evaluated either as single or mixed strains with the HSI system in growth media and selected dairy products (whole milk, and cottage and cheddar cheeses). Test samples from freshly prepared single or mixed strains of pathogens in growth media or inoculated dairy products were streaked onto selective media (PALCAM and/or Sorbitol MacConkey agar) for isolation. An isolated colony was selected and mixed with 1 ml of HPLC grade water, vortexed for 1 min, and spread over a microscope slide. Images were captured at 2000× magnification on the built HSI system at wavelengths ranging from 400 nm to 1100 nm with 5‐nm band intervals. For each image, three cells were selected as regions of interest (ROIs) to obtain hyperspectral signatures of respective bacteria. Reference pathogen libraries were created using growth media, and then test pathogenic cells were classified by their hyperspectral signatures as either L. monocytogenes or E. coli O157:H7 using k‐nearest neighbor (kNN) and cross‐validation technique in R‐software. With the implementation of kNN (k = 3), overall classification accuracies of 58.97% and 61.53% were obtained for E. coli O157:H7 and L. monocytogenes, respectively.
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Affiliation(s)
- Phoebe Unger
- School of Food Science Washington State University Pullman Washington USA
| | | | - Xiongzhi Chen
- Department of Mathematics and Statistics Washington State University Pullman Washington USA
| | - Minto Michael
- School of Food Science Washington State University Pullman Washington USA
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21
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Furutani S, Furutani N, Kawai Y, Nakayama A, Nagai H. Rapid DNA Sequencing Technology Based on the Sanger Method for Bacterial Identification. Sensors (Basel) 2022; 22:2130. [PMID: 35336302 PMCID: PMC8955868 DOI: 10.3390/s22062130] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Revised: 03/03/2022] [Accepted: 03/07/2022] [Indexed: 06/14/2023]
Abstract
Antimicrobial resistance, a global health concern, has been increasing due to inappropriate use of antibacterial agents. To facilitate early treatment of sepsis, rapid bacterial identification is imperative to determine appropriate antibacterial agent for better therapeutic outcomes. In this study, we developed a rapid PCR method, rapid cycle sequencing, and microchip electrophoresis, which are the three elemental technologies for DNA sequencing based on the Sanger sequencing method, for bacterial identification. We achieved PCR amplification within 13 min and cycle sequencing within 14 min using a rapid thermal cycle system applying microfluidic technology. Furthermore, DNA analysis was completed in 14 min by constructing an algorithm for analyzing and performing microchip electrophoresis. Thus, the three elemental Sanger-based DNA sequencing steps were accomplished within 41 min. Development of a rapid purification process subsequent to PCR and cycle sequence using a microchip would help realize the identification of causative bacterial agents within one hour, and facilitate early treatment of sepsis.
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Affiliation(s)
- Shunsuke Furutani
- Advanced Photonics and Biosensing Open Innovation Laboratory (Photo-BIO OIL), National Institute of Advanced Industrial Science and Technology (AIST), 2-1 Yamadaoka, Suita 565-0871, Osaka, Japan; (S.F.); (N.F.)
| | - Nozomi Furutani
- Advanced Photonics and Biosensing Open Innovation Laboratory (Photo-BIO OIL), National Institute of Advanced Industrial Science and Technology (AIST), 2-1 Yamadaoka, Suita 565-0871, Osaka, Japan; (S.F.); (N.F.)
| | - Yasuyuki Kawai
- Department of Emergency and Critical Care Medicine, Nara Medical University, 840 Shijo, Kashihara 634-8522, Nara, Japan;
| | - Akifumi Nakayama
- Department of Medical Technology, School of Health Sciences, Gifu University of Medical Science, 795-1 Ichihiraga, Seki 501-3892, Gifu, Japan;
| | - Hidenori Nagai
- Advanced Photonics and Biosensing Open Innovation Laboratory (Photo-BIO OIL), National Institute of Advanced Industrial Science and Technology (AIST), 2-1 Yamadaoka, Suita 565-0871, Osaka, Japan; (S.F.); (N.F.)
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22
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Li X, Wu X, Xu Y, Liu Y. First Report of Bacteremia Caused by Clostridium cadaveris in China. Infect Drug Resist 2021; 14:5411-5415. [PMID: 34955643 PMCID: PMC8692879 DOI: 10.2147/idr.s344062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2021] [Accepted: 12/01/2021] [Indexed: 11/25/2022] Open
Abstract
Background Bacteremia caused by C. cadaveris is an extremely rare infection that accounts for 0.5–2% of all positive blood cultures. C. cadaveris is an opportunistic agent that is highly lethal in immunocompromised or epithelial barrier disruption hosts. Case Presentation A 74-year-old woman was admitted to our hospital with a high fever. The patient was diagnosed with an abdominal infection after a bowel invasion and recurrence of an ovarian tumor after surgery. Blood sample culturing yielded transparent, smooth, moist, slightly raised colonies without a hemolytic ring. C. cadaveris was identified by gram staining and MALDI-TOF MS. 16S rRNA gene sequencing confirmed a sequence homologous to C. cadaveris in the GenBank database. Drug susceptibility testing showed that C. cadaveris was sensitive to cefoxitin, clindamycin, imipenem, meropenem, metronidazole, and vancomycin. After treatment, the patient’s body temperature was normal and she was discharged from the hospital. Conclusion This is the first case report of bacteremia caused by C. cadaveris in China and also the first report of identifying C. cadaveris in clinical specimens by MALDI-TOF MS. This case study could increase the awareness of these infections in China.
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Affiliation(s)
- Xiangyun Li
- Department of Laboratory Medicine, The First Affiliated Hospital of Anhui Medical University, Hefei, Anhui, People's Republic of China
| | - Xiujie Wu
- Department of Laboratory Medicine, Anhui Medical University, Hefei, Anhui, People's Republic of China
| | - Yuanhong Xu
- Department of Laboratory Medicine, The First Affiliated Hospital of Anhui Medical University, Hefei, Anhui, People's Republic of China
| | - Yajing Liu
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Anhui Medical University, Hefei, Anhui, People's Republic of China.,NHC Key Laboratory of Study on Abnormal Gametes and Reproductive Tract, Anhui Medical University, Hefei, Anhui, People's Republic of China.,Anhui Province Key Laboratory of Reproductive Health and Genetics, Anhui Medical University, Hefei, Anhui, People's Republic of China
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23
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Zengin Canalp H, Bayraktar B. Direct Rapid Identification from Positive Blood Cultures by MALDI-TOF MS: Specific Focus on Turnaround Times. Microbiol Spectr 2021; 9:e0110321. [PMID: 34908465 DOI: 10.1128/spectrum.01103-21] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Early availability of pathogen identification in bloodstream infections has critical importance in patients' management. This study investigated the accuracy and feasibility of the direct rapid identification (RID) method from positive blood cultures (BCs) by MALDI-TOF MS and its impact on the turnaround time (TAT) compared to the short-term incubation routine identification (SIRID) method. Pellets prepared from 328 BCs using a serum separator tube in the RID method and colonies on agar plates in the SIRID method were identified with MALDI Biotyper. BCs on weekdays from 6 a.m. to 4 p.m. were defined as the daytime signal group (DSG); BCs from 4 p.m. to 6 a.m. were defined as the night signal group (NSG). Comparison between the two methods was performed with 310 monomicrobial BCs. Two hundred ninety-five (95.2%) monomicrobial BCs yielded an identification result with the RID method. Of the 295 BCs, 289 (97.9%) were identified correctly at the species level, 4 (1.4%) were at the genus level, and 2 (0.7%) were misidentified. In the RID method, at score cutoff values of 1.2, 1.3, 1.4 and 1.5, the rates of correct identifications at the species level were 97.9%, 98.9%, 99.3%, and 100%, respectively. The mean TAT in the DSG was significantly lower (P < 0.001) in the RID method (mean: 2.86 h; 95% CI: 2.65 to 3.07) compared to the SIRID method (mean: 19.49 h; 95% CI: 18.08 to 20.89). Correct identification rates at the species level were 100% in Gram-negative bacteria, 88.9% in Gram-positive bacteria, and 93.2% of all BCs isolates with the RID method. The TAT was improved remarkably in DSG, which might contribute to empirical antibiotic therapies of patients. IMPORTANCE Using MALDI-TOF MS directly from BCs reduces the time required for pathogen identification, and the TATs for final identification have been compared with overnight incubation from solid media in previous studies. However, identification from a short incubation of agar plates has been increasingly accepted and successfully implemented in routine laboratories, but there is no data comparing direct MALDI-TOF MS with the short-term incubated agar plates. Our study showed that the TAT improved remarkably by applying a RID method by MALDI-TOF MS twice a day periodically when compared to the SIRID method.
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24
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Oviaño M, Ingebretsen A, Steffensen AK, Croxatto A, Prod’hom G, Quiroga L, Bou G, Greub G, Rodríguez-Temporal D, Rodríguez-Sánchez B. Multicenter Evaluation of Rapid BACpro ® II for the Accurate Identification of Microorganisms Directly from Blood Cultures Using MALDI-TOF MS. Diagnostics (Basel) 2021; 11:diagnostics11122251. [PMID: 34943488 PMCID: PMC8700617 DOI: 10.3390/diagnostics11122251] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2021] [Revised: 11/23/2021] [Accepted: 11/28/2021] [Indexed: 01/14/2023] Open
Abstract
The identification of microorganisms directly from blood cultures using MALDI-TOF MS has been shown to be the most impacting application of this methodology. In this study, a novel commercial method was evaluated in four clinical microbiology laboratories. Positive blood culture samples (n = 801) were processed using a rapid BACpro® II kit and then compared with the routine gold standard. A subset of monomicrobial BCs (n = 560) were analyzed in parallel with a Sepsityper® Kit (Bruker Daltonics, Bremen, Germany) and compared with the rapid BACpro® II kit. In addition, this kit was also compared with two different in-house methods. Overall, 80.0% of the monomicrobial isolates (609/761; 95% CI 71.5-88.5) were correctly identified by the rapid BACpro® II kit at the species level (92.3% of the Gram negative and 72.4% of the Gram positive bacteria). The comparison with the Sepsityper® Kit showed that the rapid BACpro® II kit generated higher rates of correct species-level identification for all categories (p > 0.0001), except for yeasts identified with score values > 1.7. It also proved superior to the ammonium chloride method (p > 0.0001), but the differential centrifugation method allowed for higher rates of correct identification for Gram negative bacteria (p > 0.1). The percentage of accurate species-level identification of Gram positive bacteria was particularly noteworthy in comparison with other commercial and in-house methods.
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Affiliation(s)
- Marina Oviaño
- Department of Microbiology, Complejo Hospitalario Universitario A Coruña, 15006 A Coruña, Spain; (M.O.); (G.B.)
| | - André Ingebretsen
- Department of Microbiology, Oslo University Hospital, P.O. Box 4950 Nydalen, 0188 Oslo, Norway; (A.I.); (A.K.S.)
| | - Anne K. Steffensen
- Department of Microbiology, Oslo University Hospital, P.O. Box 4950 Nydalen, 0188 Oslo, Norway; (A.I.); (A.K.S.)
- Faculty of Medicine, University of Oslo, 0372 Oslo, Norway
| | - Antony Croxatto
- Institute of Microbiology, University Hospital of Lausanne, CH-1011 Lausanne, Switzerland; (A.C.); (G.P.); (G.G.)
| | - Guy Prod’hom
- Institute of Microbiology, University Hospital of Lausanne, CH-1011 Lausanne, Switzerland; (A.C.); (G.P.); (G.G.)
| | - Lidia Quiroga
- Department of Clinical Microbiology and Infectious Diseases, Hospital General Universitario Gregorio Marañón, 28007 Madrid, Spain;
- Instituto de Investigación Sanitaria and Hospital General Universitario Gregorio Marañón (IiSGM), 28007 Madrid, Spain
| | - Germán Bou
- Department of Microbiology, Complejo Hospitalario Universitario A Coruña, 15006 A Coruña, Spain; (M.O.); (G.B.)
| | - Gilbert Greub
- Institute of Microbiology, University Hospital of Lausanne, CH-1011 Lausanne, Switzerland; (A.C.); (G.P.); (G.G.)
| | - David Rodríguez-Temporal
- Department of Clinical Microbiology and Infectious Diseases, Hospital General Universitario Gregorio Marañón, 28007 Madrid, Spain;
- Instituto de Investigación Sanitaria and Hospital General Universitario Gregorio Marañón (IiSGM), 28007 Madrid, Spain
- Correspondence: (D.R.-T.); (B.R.-S.)
| | - Belén Rodríguez-Sánchez
- Department of Clinical Microbiology and Infectious Diseases, Hospital General Universitario Gregorio Marañón, 28007 Madrid, Spain;
- Instituto de Investigación Sanitaria and Hospital General Universitario Gregorio Marañón (IiSGM), 28007 Madrid, Spain
- Correspondence: (D.R.-T.); (B.R.-S.)
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25
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Gao X, Zeng XB, Chen Q, Bai LY, Shan H, Wu CX, Su SM. [Comparison in cadmium accumulation capacities of different leafy vegetables through cadmium-rich substrate cultivation]. Ying Yong Sheng Tai Xue Bao 2021; 31:2740-2748. [PMID: 34494797 DOI: 10.13287/j.1001-9332.202008.039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
To acquire a feasible method for a rapid comparison of the cadmium (Cd) accumulation capacities of different leafy vegetables, using substrate cultivation with different contents of Cd and cultivation time, we compared the observed Cd accumulation capacity with these obtained in the field. The results showed that the Cd content and bio-concentration factors (BCFs) value in the aboveground tissue of leafy vegetable varied significantly with Cd content and cultivation time. Multi-factor analysis of variance showed that vegetable variety, cultivation time, Cd content in substrate and their interaction had significant effects on BCFs of Cd in leafy vegetable. Leafy vegetable variety was the dominant factor affecting BCFs of Cd in leafy vegetable and controlled its absolute level. When Cd content in the substrate reached 1.0 mg·kg-1 with a cultivation of 10 days, the correlation coefficient of Cd BCFs between the substrate cultivation and field experiments was the highest, with a R2 value of 0.90. The results of cluster analysis and one-way ANOVA had the highest consistence with the field results. Comparatively, the substrate cultivation with Cd content of 1.0 mg·kg-1 and a cultivation of 10 days showed a good reproducibility and stability in reflecting the difference in Cd accumulation capacities of different leafy vegetable varieties. The Cd-rich substrate cultivation could be used to screen the vegetables with low Cd accumulation and also would promote the field application of the vegetables with low Cd accumulation in the Cd-contaminated area of China.
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Affiliation(s)
- Xin Gao
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Environment, Ministry of Agriculture, Beijing 100081, China.,College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China
| | - Xi-Bai Zeng
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Environment, Ministry of Agriculture, Beijing 100081, China.,College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China
| | - Qing Chen
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Environment, Ministry of Agriculture, Beijing 100081, China.,College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China
| | - Ling-Yu Bai
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Environment, Ministry of Agriculture, Beijing 100081, China.,College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China
| | - Hong Shan
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Environment, Ministry of Agriculture, Beijing 100081, China.,College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China
| | - Cui-Xia Wu
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Environment, Ministry of Agriculture, Beijing 100081, China.,College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China
| | - Shi-Ming Su
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Environment, Ministry of Agriculture, Beijing 100081, China.,College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China Beijing 100081, China.,College of Resources and Environmental Sciences, China Agricultural University, Beijing 100193, China
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26
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Fu X, Zhao X, Zheng X, Wang T, Shayiranbieke A, Li L, Cao F, Ren J, Li Q, Zhao X. Rapidly identifying bioactive compounds from Zhisou oral liquid by immobilized receptor-based high-performance affinity chromatography. J Sep Sci 2021; 44:3219-3228. [PMID: 34212514 DOI: 10.1002/jssc.202100174] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2021] [Revised: 06/09/2021] [Accepted: 06/30/2021] [Indexed: 11/10/2022]
Abstract
The identification of bioactive compounds in complex matrices remains a major challenge due to the lack of highly efficient and specific methods. This work developed an approach based on high-performance affinity chromatography to identify the potential antitussive compounds from Zhisou oral liquid . The main methods include the synthesis of immobilized beta2-adrenoceptor by a one-step method, the screening and identification of the potential bioactive compounds by the receptor column coupled with mass spectrometry, and the binding mechanism analysis of the compounds to the receptor by the in vivo experiment, injection amount dependent method and molecular simulation. We identified the potential bioactive compounds of Zhisou oral liquid as glycyrrhizic acid, platycodin D, tuberostemonine, and hesperidin. In vivo experiment showed that the combinational utilization of the four compounds was possible to present an equivalent antitussive effect to the formula. The docking results demonstrated that hydrogen bonds and Van der Waals forces were the main forces to drive the binding of the four compounds to beta2-adrenoceptor. We concluded that the four compounds are the effective components in Zhisou oral liquid. The proposed strategy is possible to provide an alternative for the development of highly efficient methods to pursue the bioactive compounds of complex matrices.
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Affiliation(s)
- Xiaoying Fu
- College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Xue Zhao
- College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Xinxin Zheng
- College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Taotao Wang
- College of Life Sciences, Northwest University, Xi'an, P. R. China
| | | | - Linkang Li
- College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Fang Cao
- Shaanxi Pharmaceutical Holding Group Shanhaidan Pharmaceutical Co., Ltd., Xi'an, P. R. China
| | - Jianping Ren
- Medicine Research Institution of Shaanxi Pharmaceutical Holding Cooperation, Xi'an, P. R. China
| | - Qian Li
- College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Xinfeng Zhao
- College of Life Sciences, Northwest University, Xi'an, P. R. China
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27
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Yang RS, Ni MY, Gu YJ, Xu JS, Jin Y, Zhang JH, Wang Y, Qin L. Newly Emerging Pest in China, Rhynchaenusmaculosus (Coleoptera: Curculionidae): Morphology and Molecular Identification with DNA Barcoding. Insects 2021; 12:insects12060568. [PMID: 34205814 PMCID: PMC8235397 DOI: 10.3390/insects12060568] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/19/2021] [Revised: 06/16/2021] [Accepted: 06/18/2021] [Indexed: 11/16/2022]
Abstract
The oak flea weevil, Rhynchaenusmaculosus Yang et Zhang 1991, is a newly emerging pest that severely damages oak (genus Quercus) in China. The first R. maculosus outbreak occurred in 2020 and caused spectacular damage to all oak forests in Jilin province, northeast China. The lack of key morphological characters complicates the identification of this native pest, especially in larva and pupa stages. This is problematic because quick and accurate species identification is crucial for early monitoring and intervention during outbreaks. Here, we provided the first detailed morphological description of R. maculosus at four life stages. Additionally, we used DNA barcodes from larva and pupa specimens collected from three remote locations for molecular identification. The average pairwise divergence of all sequences in this study was 0.51%, well below the 2% to 3% (K-2-parameter) threshold set for one species. All sample sequences matched the R. maculosus morphospecies (KX657706.1 and KX657707.1), with 99.23% to 100% (sequence identity, E value: 0.00) matching success. The tree based on barcodes placed the specimens into the Rhynchaenus group, and the phylogenetic relationship between 62 sequences (30 samples and 32 from GeneBank) had high congruence with the morphospecies taxa. The traditional DNA barcodes were successfully transformed into quick response codes with larger coding capacity for information storage. The results showed that DNA barcoding is reliable for R. maculosus identification. The integration of molecular and morphology-based methods contributes to accurate species identification of this newly emerging oak pest.
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Affiliation(s)
- Rui-Sheng Yang
- College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang 110866, China; (M.-Y.N.); (Y.-J.G.); (Y.W.)
- Correspondence: (R.-S.Y.); (L.Q.); Tel.: +86-024-8848-7163 (R.-S.Y.)
| | - Ming-Yang Ni
- College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang 110866, China; (M.-Y.N.); (Y.-J.G.); (Y.W.)
| | - Yu-Jian Gu
- College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang 110866, China; (M.-Y.N.); (Y.-J.G.); (Y.W.)
| | - Jia-Sheng Xu
- School of Life and Environmental Sciences, Gannan Normal University, Ganzhou 341000, China;
| | - Ying Jin
- Jilin Provincial Sericulture Institution, Agriculture Committee of Jilin Province, Jilin 132012, China; (Y.J.); (J.-H.Z.)
| | - Ji-Hui Zhang
- Jilin Provincial Sericulture Institution, Agriculture Committee of Jilin Province, Jilin 132012, China; (Y.J.); (J.-H.Z.)
| | - Yong Wang
- College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang 110866, China; (M.-Y.N.); (Y.-J.G.); (Y.W.)
| | - Li Qin
- College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang 110866, China; (M.-Y.N.); (Y.-J.G.); (Y.W.)
- Correspondence: (R.-S.Y.); (L.Q.); Tel.: +86-024-8848-7163 (R.-S.Y.)
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de Jong AW, Dieleman C, Carbia M, Mohd Tap R, Hagen F. Performance of Two Novel Chromogenic Media for the Identification of Multidrug-Resistant Candida auris Compared with Other Commercially Available Formulations. J Clin Microbiol 2021; 59:e03220-20. [PMID: 33536293 DOI: 10.1128/JCM.03220-20] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2020] [Accepted: 01/25/2021] [Indexed: 12/22/2022] Open
Abstract
Non-albicans Candida species are emerging in the nosocomial environment, with the multidrug-resistant (MDR) species Candida auris being the most notorious example. Consequently, rapid and accurate species identification has become essential. The objective of this study was to evaluate five commercially available chromogenic media for the presumptive identification of C. auris Two novel chromogenic formulations, CHROMagar Candida Plus (CHROMagar) and HiCrome C. auris MDR selective agar (HiMedia), and three reference media, CandiSelect (Bio-Rad), CHROMagar Candida (CHROMagar), and Chromatic Candida (Liofilchem), were inoculated with a collection of 9 genetically diverse C. auris strains and 35 strains from closely related comparator species. After 48 h of incubation, the media were evaluated for their ability to detect and identify C. auris All media had the same limitations in the differentiation of the more common species Candida dubliniensis and Candida glabrata Only on CHROMagar Candida Plus did C. auris colonies develop a species-specific coloration. Nevertheless, the closely related pathogenic species Candida pseudohaemulonii and Candida vulturna developed a similar appearance as C. auris on this medium. CHROMagar Candida Plus was shown to be superior in the detection and identification of C. auris, with 100% inclusivity for C. auris compared to 0% and 33% for the reference media and HiCrome C. auris MDR selective agar, respectively. Although C. vulturna and C. pseudohaemulonii can cause false positives, CHROMagar Candida Plus was shown to be a valuable addition to the plethora of mostly molecular methods for C. auris detection and identification.
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Das S, Singh S, Tawde Y, Chakrabarti A, Rudramurthy SM, Kaur H, Shankarnarayan SA, Ghosh A. A Selective Medium for Isolation and Detection of Candida auris, an Emerging Pathogen. J Clin Microbiol 2021; 59:e00326-20. [PMID: 33208474 DOI: 10.1128/JCM.00326-20] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2020] [Accepted: 11/06/2020] [Indexed: 12/25/2022] Open
Abstract
Identification of Candida auris is challenging and requires molecular or protein profiling-based approaches, availability of which is limited in many routine diagnostic laboratories, necessitating the development of a cost-effective, rapid, and reliable method of identification. The objective of this study was to develop a selective medium for C. auris identification. Eighteen C. auris and 30 non-C. auris yeasts were used for the standardization of the selective medium. Sodium chloride (10% to 13% concentration) and ferrous sulfate (8 mM to 15 mM) were added to yeast extract-peptone-dextrose (YPD) agar in various combinations followed by incubation at 37°C, 40°C, or 42°C for 2 to 3 days. For validation, 579 yeast isolates and 40 signal-positive Bactec blood culture (BC) broths were used. YPD agar comprising 12.5% NaCl and 9 mM ferrous sulfate incubated at 42°C for 48 h, named Selective Auris Medium (SAM), allowed selective growth of C. auris A total of 95% (127/133) of C. auris isolates tested grew on the standardized media within 48 h, and the remaining 6 isolates grew after 72 h, whereas the growth of 446 non-C. auris yeast isolates was completely inhibited. The specificity and sensitivity of the test medium were both 100% after 72 h of incubation. The positive and negative predictive values were also noted to be 100% after 72 h of incubation. The formulated selective medium can be used for the detection and identification of C. auris The SAM is inexpensive, can easily be prepared, and can be used as an alternative to molecular diagnostic tools in the clinical microbiology laboratory.
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LEI DERU, CHEN PEIYING, CHEN XUETING, ZONG YUJIE, LI XIANGYANG. Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry for Identification of Microorganisms in Clinical Urine Specimens after Two Pretreatments. Pol J Microbiol 2021; 70:1-7. [PMID: 34131429 PMCID: PMC8196241 DOI: 10.33073/pjm-2021-018] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2021] [Revised: 03/29/2021] [Accepted: 04/06/2021] [Indexed: 02/06/2023] Open
Abstract
Rapid identification of microorganisms in urine is essential for patients with urinary tract infections (UTIs). Matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) has been proposed as a method for the direct identification of urinary pathogens. Our purpose was to compare centrifugation-based MALDI-TOF MS and short-term culture combined with MALDI-TOF MS for the direct identification of pathogens in urine specimens. We collected 965 urine specimens from patients with suspected UTIs, 211/965 isolates were identified as positive by conventional urine culture. Compared with the conventional method, the results of centrifugation-based MALDI-TOF MS were consistent in 159/211 cases (75.4%), of which 135/159 (84.9%) had scores ≥ 2.00; 182/211 cases (86.3%) were detected using short-term culture combined with MALDI-TOF MS, of which 153/182 (84.1%) had scores ≥ 2.00. There were no apparent differences among the three methods (p = 0.135). MALDI-TOF MS appears to accelerate the microbial identification speed in urine and saves at least 24 to 48 hours compared with the routine urine culture. Centrifugation-based MALDI-TOF MS is characterized by faster identification speed; however, it is substantially affected by the number of bacterial colonies. In contrast, short-term culture combined with MALDI-TOF MS has a higher detection rate but a relatively slow identification speed. Combining these characteristics, the two methods may be effective and reliable alternatives to traditional urine culture.
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Affiliation(s)
- DERU LEI
- The Center of Laboratory Medicine, The Second Affiliated Hospital and Yuying Children’s Hospital of Wenzhou Medical University, Wenzhou, China
| | - PEIYING CHEN
- The Center of Laboratory Medicine, The Second Affiliated Hospital and Yuying Children’s Hospital of Wenzhou Medical University, Wenzhou, China
| | - XUETING CHEN
- The Center of Laboratory Medicine, The Second Affiliated Hospital and Yuying Children’s Hospital of Wenzhou Medical University, Wenzhou, China
| | - YUJIE ZONG
- The Center of Laboratory Medicine, The Second Affiliated Hospital and Yuying Children’s Hospital of Wenzhou Medical University, Wenzhou, China
| | - XIANGYANG LI
- The Center of Laboratory Medicine, The Second Affiliated Hospital and Yuying Children’s Hospital of Wenzhou Medical University, Wenzhou, China
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Xu Y, Liu C, Zhang Z, Tian Y, Hao J. The role of Periodic Acid Schiff stain on bone marrow smear to rapid identification of Talaromyces marneffei in a HIV-positive patient. Int J Lab Hematol 2020; 43:e107-e109. [PMID: 33217162 DOI: 10.1111/ijlh.13393] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Revised: 10/09/2020] [Accepted: 10/27/2020] [Indexed: 11/26/2022]
Affiliation(s)
- Yi Xu
- Department of Clinical Laboratory, The Fifth Hospital of Shijiazhuang, Shijiazhuang, China
| | - Chen Liu
- Department of Clinical Laboratory, The Second Hospital of Hebei Medical University, Shijiazhuang, China
| | - Zhi Zhang
- Department of Clinical Laboratory, The Fifth Hospital of Shijiazhuang, Shijiazhuang, China
| | - Yueyang Tian
- Department of Clinical Laboratory, The Fifth Hospital of Shijiazhuang, Shijiazhuang, China
| | - Jihong Hao
- Department of Clinical Laboratory, The Second Hospital of Hebei Medical University, Shijiazhuang, China
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Wang K, Chen L, Ma X, Ma L, Chou KC, Cao Y, Khan IUH, Gölz G, Lu X. Arcobacter Identification and Species Determination Using Raman Spectroscopy Combined with Neural Networks. Appl Environ Microbiol 2020; 86:e00924-20. [PMID: 32801186 DOI: 10.1128/AEM.00924-20] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Accepted: 08/05/2020] [Indexed: 12/23/2022] Open
Abstract
Rapid and accurate identification of Arcobacter is of great importance because it is considered an emerging food- and waterborne pathogen and potential zoonotic agent. Raman spectroscopy can differentiate bacteria based on Raman scattering spectral patterns of whole cells in a fast, reagentless, and easy-to-use manner. We aimed to detect and discriminate Arcobacter bacteria at the species level using confocal micro-Raman spectroscopy (785 nm) coupled with neural networks. A total of 82 reference and field isolates of 18 Arcobacter species from clinical, environmental, and agri-food sources were included. We determined that the bacterial cultivation time and growth temperature did not significantly influence the Raman spectral reproducibility and discrimination capability. The genus Arcobacter could be successfully differentiated from the closely related genera Campylobacter and Helicobacter using principal-component analysis. For the identification of Arcobacter to the species level, an accuracy of 97.2% was achieved for all 18 Arcobacter species using Raman spectroscopy combined with a convolutional neural network (CNN). The predictive capability of Raman-CNN was further validated using an independent data set of 12 Arcobacter strains. Furthermore, a Raman spectroscopy-based fully connected artificial neural network (ANN) was constructed to determine the actual ratio of a specific Arcobacter species in a bacterial mixture ranging from 5% to 100% by biomass (regression coefficient >0.99). The application of both CNN and fully connected ANN improved the accuracy of Raman spectroscopy for bacterial species determination compared to the conventional chemometrics. This newly developed approach enables rapid identification and species determination of Arcobacter within an hour following cultivation.IMPORTANCE Rapid identification of bacterial pathogens is critical for developing an early warning system and performing epidemiological investigation. Arcobacter is an emerging foodborne pathogen and has become more important in recent decades. The incidence of Arcobacter species in the agro-ecosystem is probably underestimated mainly due to the limitation in the available detection and characterization techniques. Raman spectroscopy combined with machine learning can accurately identify Arcobacter at the species level in a rapid and reliable manner, providing a promising tool for epidemiological surveillance of this microbe in the agri-food chain. The knowledge elicited from this study has the potential to be used for routine bacterial screening and diagnostics by the government, food industry, and clinics.
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Li P, Niu W, Fang Y, Zou D, Liu H, Qin Y, Zheng J, Yin X, Li F, Liu Y, Yuan X, Huang L, Bai C. Development and Evaluation of a Loop-Mediated Isothermal Amplification Assay for Rapid and Specific Identification of Carbapenem-Resistant Acinetobacter baumannii Strains Harboring blaOXA-23, and the Epidemiological Survey of Clinical Isolates. Microb Drug Resist 2020; 26:1458-1465. [PMID: 32412826 DOI: 10.1089/mdr.2019.0441] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Acinetobacter baumannii is an important nosocomial pathogen in hospital-acquired infections, and carbapenem resistance has been increasingly observed worldwide. Oxacillinase production by blaOXA-23 is a predominant and prevalent carbapenem resistance mechanism of A. baumannii, especially in China. Rapid and specific detection of blaOXA-23 may offer valuable insight for administration of directed antimicrobial therapy. In this study, we aimed to develop a loop-mediated isothermal amplification (LAMP)-based method for identifying carbapenem-resistant A. baumannii (CRAB) harboring the blaOXA-23 gene. High-specificity primers for screening blaOXA-23 were designed and synthesized, and the LAMP reactions were performed. Clinical A. baumannii strains isolated from the Former 307th Hospital of People's Liberation Army were used to determine the sensitivity and specificity of this method compared with those of phenotypic antimicrobial susceptibility testing and the traditional PCR method. Multilocus sequence typing (MLST) was performed to investigate the epidemiology of the A. baumannii bacterial population. Compared with antimicrobial susceptibility testing, the sensitivity and specificity of LAMP in detecting blaOXA-23 were 88.4% and 97.7%, respectively. However, the LAMP method is much simpler and less time-consuming (within 60 minutes) than conventional PCR and phenotypic susceptibility testing. The 113 isolates could be clustered into 30 sequence types, and most strains (83/113) belonged to clonal complex (CC) 92, which is also the dominant CC in China. The LAMP-based method detected blaOXA-23 in a simpler manner and could provide rapid results for identifying CRAB. Consequently, blaOXA-23 may serve as a surrogate marker for the presence of CRAB in patients with serious infections in clinical practice.
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Affiliation(s)
- Puyuan Li
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Wenkai Niu
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Yun Fang
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Dayang Zou
- The Institute for Disease Prevention and Control of PLA, Beijing, China
| | - Huiying Liu
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Yanhong Qin
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Jing Zheng
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Xiuyun Yin
- Department of Clinical Laboratory, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Fengjiang Li
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Yannan Liu
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Xin Yuan
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China
| | - Liuyu Huang
- The Institute for Disease Prevention and Control of PLA, Beijing, China
| | - Changqing Bai
- Department of Respiratory and Critical Care Diseases, The Fifth Medical Center, Chinese PLA General Hospital (Former 307th Hospital of PLA), Beijing, China.,Department of Respiratory and Critical Care Diseases, General Hospital of Shenzhen University, Shenzhen, China
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Borman AM, Fraser M, Szekely A, Johnson EM. Rapid and robust identification of clinical isolates of Talaromyces marneffei based on MALDI-TOF mass spectrometry or dimorphism in Galleria mellonella. Med Mycol 2020; 57:969-975. [PMID: 30649411 DOI: 10.1093/mmy/myy162] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2018] [Revised: 11/29/2018] [Accepted: 12/21/2018] [Indexed: 11/14/2022] Open
Abstract
Talaromyces marneffei is a thermally dimorphic fungal pathogen that causes serious infections particularly in patients with human immunodeficiency virus (HIV). Although the mould form typically produces a characteristic red-diffusing pigment, and conidia from penicillate heads, several nonpathogenic Talaromyces/Penicillium species are morphologically and phenotypically similar. While those other species do not exhibit thermal dimorphism, conversion of T. marneffei to the distinctive fission yeast form in vitro is arduous and frequently incomplete. Here we show that T. marneffei can be rapidly and unambiguously discriminated from related nonpathogenic Talaromyces/Penicillium spp., either by matrix-assisted laser desorption ionisation time-of-flight (MALDI-TOF) mass spectrometry or conversion to fission yeast after introduction into Galleria mellonella. Conversion of T. marneffei conidia to the fission yeast form in G. mellonella larvae occurred as early as 24 h post inoculation at 37oC. Identification by MALDI-TOF was possible after supplementation of the commercial Bruker database with in-house mass spectral profiles created from either the yeast or mycelial phase of T. marneffei. In addition, we show that in-house generated mass spectral profiles could be successfully used to identify T. marneffei with a recently published on-line MALDI-TOF database, circumventing the need to create extensive in-house additional databases for rarely encountered fungal pathogens.
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Affiliation(s)
- Andrew M Borman
- UK National Mycology Reference Laboratory (MRL), Public Health England South-West, Bristol, United Kingdom
| | - Mark Fraser
- UK National Mycology Reference Laboratory (MRL), Public Health England South-West, Bristol, United Kingdom
| | - Adrien Szekely
- UK National Mycology Reference Laboratory (MRL), Public Health England South-West, Bristol, United Kingdom
| | - Elizabeth M Johnson
- UK National Mycology Reference Laboratory (MRL), Public Health England South-West, Bristol, United Kingdom
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Bal AM, McGill M. Rapid species identification of Candida directly from blood culture broths by Sepsityper-MALDI-TOF mass spectrometry: impact on antifungal therapy. J R Coll Physicians Edinb 2019; 48:114-119. [PMID: 29992199 DOI: 10.4997/jrcpe.2018.203] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
Abstract
Rapid identification of Candida species facilitates pathogen-directed therapy with either fluconazole or an echinocandin. METHOD We applied Sepsityper matrix-assisted laser desorption ionisation time of flight mass spectrometry (MALDI-TOF-MS) technology on positive blood culture broths for rapid species identification. RESULTS Of the 74 patients with candidaemia, 25 had the species identified on the day of the positive blood culture directly from the broth (rapid identification group) while the remaining 49 had the species identified from culture (conventional identification group). Three (13.6%) out of 22 treated patients in the rapid identification group received echinocandin compared to 20/45 (44.4%) in the conventional identification group. The appropriateness of therapy was 90.9% in the rapid identification group and 62.2% in the conventional identification group (p = 0.01). Cost savings were more than £10,000 in the first three days of treatment. CONCLUSION Sepsityper-MALDI-TOF-MS is a useful tool in supporting antifungal stewardship programmes.
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Affiliation(s)
- A M Bal
- Department of Microbiology, University Hospital, Crosshouse, Kilmarnock KA2 0BE, UK,
| | - M McGill
- Department of Microbiology, University Hospital Crosshouse, Kilmarnock, UK
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Rocco VG, Intra J, Sarto C, Tiberti N, Savarino C, Brambilla M, Brambilla P. Rapid Identification of Carbapenemase-producing Klebsiella pneumoniae strains by Matrix-Assisted Laser Desorption/Ionization-Time of Flight using Vitek ® Mass Spectrometry System. Eurasian J Med 2019; 51:209-213. [PMID: 31693719 DOI: 10.5152/eurasianjmed.2019.18405] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
Objective The analysis of the protein pattern of Klebsiella pneumoniae carbapenemase (KPC)-producing strains by Bruker Matrix-Assisted Laser Desorption Ionization (MALDI) Biotyper system has revealed the presence, in the majority of cases, of an 11.109 m/z peak. The peak corresponds to the gene product named p019 of the bla KPC-bearing plasmids and has been suggested as a candidate for a biomarker that is able to distinguish KPC-producers from non-KPC-producers. The aim of this study was to evaluate the rapid detection of the 11.109 m/z peak of KPC-producer strains in the clinical laboratory routine by Matrix-Assisted Laser Desorption Ionization-Time of Flight (MALDI-TOF) technique, using the Vitek® Research-User-Only (RUO) Mass Spectrometry (MS) system without changing the instrument parameters. Materials and Methods Globally, 373 K. pneumoniae isolates were investigated and identified by MALDI-TOF MS analysis. KPC-producers were distinguished from non-KPC-producers by Antimicrobial Susceptibility Testing (AST) and phenotypic carbapenemase resistance assays. Results The MALDI-TOF Vitek MS RUO detected the 11.109 m/z peak in 95.7% of KPC-producers with 100% specificity before traditional test results became available. Conclusion Our approach is appropriate as a first screening step for the rapid identification of KPC isolates, which will help to improve infection control in clinical practice and prevent the outbreak and dissemination of resistant bacteria.
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Affiliation(s)
- Vanessa Gaia Rocco
- Department of Laboratory Medicine, University of Milano-Bicocca, Azienda Socio Sanitaria Territoriale di Monza ASST-Monza, Desio Hospital, Desio (MB), Italy
| | - Jari Intra
- Department of Laboratory Medicine, University of Milano-Bicocca, Azienda Socio Sanitaria Territoriale di Monza ASST-Monza, Desio Hospital, Desio (MB), Italy
| | - Cecilia Sarto
- Department of Laboratory Medicine, University of Milano-Bicocca, Azienda Socio Sanitaria Territoriale di Monza ASST-Monza, Desio Hospital, Desio (MB), Italy
| | - Natalia Tiberti
- Department of Infectious - Tropical Diseases and Microbiology, IRCCS Sacro Cuore - Don Calabria Hospital, Negrar (Verona), Italy
| | - Cinzia Savarino
- Department of Laboratory Medicine, University of Milano-Bicocca, Azienda Socio Sanitaria Territoriale di Monza ASST-Monza, Desio Hospital, Desio (MB), Italy
| | - Maura Brambilla
- Department of Laboratory Medicine, University of Milano-Bicocca, Azienda Socio Sanitaria Territoriale di Monza ASST-Monza, Desio Hospital, Desio (MB), Italy
| | - Paolo Brambilla
- Department of Laboratory Medicine, University of Milano-Bicocca, Azienda Socio Sanitaria Territoriale di Monza ASST-Monza, Desio Hospital, Desio (MB), Italy
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Yang L, Liu RH, He JW. Rapid Analysis of the Chemical Compositions in Semiliquidambar cathayensis Roots by Ultra High-Performance Liquid Chromatography and Quadrupole Time-of-Flight Tandem Mass Spectrometry. Molecules 2019; 24:E4098. [PMID: 31766221 PMCID: PMC6891699 DOI: 10.3390/molecules24224098] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2019] [Revised: 11/03/2019] [Accepted: 11/07/2019] [Indexed: 12/23/2022] Open
Abstract
Semiliquidambar cathayensis Chang was a traditional medicinal plant and used to treat rheumatism arthritis and rheumatic arthritis for centuries in China with no scientific validation, while only 15 components were reported. Thus, a rapid, efficient, and precise method based on ultra-high-performance liquid chromatography coupled with quadrupole time-of-flight tandem mass spectrometry (UHPLC-Q-TOF-MS/MS) was applied in both positive- and negative-ion modes to rapidly analysis the main chemical compositions in S. cathayensis for the first time. Finally, a total of 85 chemical compositions, including 35 alkaloids, 12 flavonoids, 7 terpenoids, 5 phenylpropanoids, 9 fatty acids, 7 cyclic peptides, and 10 others were identified or tentatively characterized in the roots of S. cathayensis based on the accurate mass within 5 ppm error. Moreover, alkaloid, flavonoid, phenylpropanoid, and cyclic peptide were reported from S. cathayensis for the first time. This rapid and sensitive method was highly useful to comprehend the chemical compositions and will provide scientific basis for further study on the material basis, mechanism and clinical application of S. cathayensis roots.
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Affiliation(s)
- Li Yang
- Key Laboratory of Modern Preparation of TCM, Jiangxi University of Traditional Chinese Medicine, Ministry of Education, Nanchang 330004, China;
| | - Rong-Hua Liu
- College of Pharmacy, Jiangxi University of Traditional Chinese Medicine, Nanchang 330004, China
| | - Jun-Wei He
- Research Center of Natural Resources of Chinese Medicinal Materials and Ethnic Medicine, Jiangxi University of Traditional Chinese Medicine, Nanchang 330004, China
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Wang Z, Sun N, Liu H, Chen C, Ding P, Yue X, Zou H, Xing C, Pei R. High-Efficiency Isolation and Rapid Identification of Heterogeneous Circulating Tumor Cells (CTCs) Using Dual-Antibody-Modified Fluorescent-Magnetic Nanoparticles. ACS Appl Mater Interfaces 2019; 11:39586-39593. [PMID: 31577122 DOI: 10.1021/acsami.9b14051] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Extreme rarity and inherent heterogeneity of circulating tumor cells (CTCs) result in a tremendous challenge for the CTC isolation from patient blood samples with high efficiency and purity. Current CTC isolation approaches mainly rely on the epithelial cell adhesion molecule (EpCAM), which may significantly reduce the ability to capture CTCs when the expression of EpCAM is lost or down-regulated in epithelial-mesenchymal transition. Here, a rapid and highly efficient method is developed to isolate and identify heterogeneous CTCs with high efficiency from patient blood samples using the fluorescent-magnetic nanoparticles (F-MNPs). A dual-antibody interface targeting EpCAM and N-cadherin is fabricated onto the F-MNPs to capture epithelial CTCs as well as mesenchymal CTCs from whole blood samples. The poly(carboxybetaine methacrylate) brushes of excellent antifouling properties are employed to decrease nonspecific cell adhesion. Moreover, the F-MNPs provide a prompt identification strategy for heterogeneous CTCs (F-MNPs+, Hoechst 33342+, and CD45-) that can directly identify CTCs in a gentle one-step processing within 1 h after isolation from patient blood samples. This has been demonstrated through artificial samples as well as patient samples in details.
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Affiliation(s)
- Zhili Wang
- CAS Key Laboratory of Nano-Bio Interface, Suzhou Institute of Nano-Tech and Nano-Bionics , Chinese Academy of Sciences , Suzhou 215123 , China
| | - Na Sun
- CAS Key Laboratory of Nano-Bio Interface, Suzhou Institute of Nano-Tech and Nano-Bionics , Chinese Academy of Sciences , Suzhou 215123 , China
| | - Hui Liu
- CAS Key Laboratory of Nano-Bio Interface, Suzhou Institute of Nano-Tech and Nano-Bionics , Chinese Academy of Sciences , Suzhou 215123 , China
| | - Changchong Chen
- CAS Key Laboratory of Nano-Bio Interface, Suzhou Institute of Nano-Tech and Nano-Bionics , Chinese Academy of Sciences , Suzhou 215123 , China
| | - Pi Ding
- CAS Key Laboratory of Nano-Bio Interface, Suzhou Institute of Nano-Tech and Nano-Bionics , Chinese Academy of Sciences , Suzhou 215123 , China
| | - Xinmin Yue
- State Key Laboratory of Medicinal Chemical Biology, College of Pharmacy and Tianjin Key Laboratory of Molecular Drug Research , Nankai University , Tianjin 300353 , China
| | - Hanqing Zou
- The Second Affiliated Hospital of Soochow University , Suzhou 215008 , China
| | - Chungen Xing
- The Second Affiliated Hospital of Soochow University , Suzhou 215008 , China
| | - Renjun Pei
- CAS Key Laboratory of Nano-Bio Interface, Suzhou Institute of Nano-Tech and Nano-Bionics , Chinese Academy of Sciences , Suzhou 215123 , China
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Michael M, Phebus RK, Amamcharla J. Hyperspectral imaging of common foodborne pathogens for rapid identification and differentiation. Food Sci Nutr 2019; 7:2716-2725. [PMID: 31428359 PMCID: PMC6694429 DOI: 10.1002/fsn3.1131] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2019] [Revised: 06/13/2019] [Accepted: 06/16/2019] [Indexed: 11/11/2022] Open
Abstract
Hyperspectral imaging (HSI) provides both spatial and spectral information of a sample by combining imaging with spectroscopy. The objective of this study was to generate hyperspectral graphs of common foodborne pathogens and to develop and validate prediction models for the classification of these pathogens. Four strains of Cronobacter sakazakii, five strains of Salmonella spp., eight strains of Escherichia coli, and one strain each of Listeria monocytogenes and Staphylococcus aureus were used in the study. Principal component analysis and kNN (k-nearest neighbor) classifier model were used for the classification of hyperspectra of various bacterial cells, which were then validated using the cross-validation technique. Classification accuracy of various strains within genera including C. sakazakii, Salmonella spp., and E. coli, respectively, was 100%; except within C. sakazakii, strain BAA-894, and E. coli, strains O26, O45, and O121 had 66.67% accuracy. When all strains were studied together (irrespective of their genus) for the classification, only C. sakazakii P1, E. coli O104, O111, and O145, S. Montevideo, and L. monocytogenes had 100% classification accuracy, whereas E. coli O45 and S. Tennessee were not classified (classification accuracy of 0%). Lauric arginate treatment of C. sakazakii BAA-894, E. coli O157, S. Senftenberg, L. monocytogenes, and S. aureus significantly affected their hyperspectral signatures, and treated cells could be differentiated from the healthy, nontreated cells.
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Affiliation(s)
- Minto Michael
- School of Food ScienceWashington State UniversityPullmanWAUSA
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Huang YH, Xu MF, Quan YB, Chi YL, Lin W, Liao L, Zhang WD. [Establishment of a quantitative real-time PCR for rapid detection of Panax quinquefolius]. Zhongguo Zhong Yao Za Zhi 2019; 43:4050-4054. [PMID: 30486529 DOI: 10.19540/j.cnki.cjcmm.2018.0106] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Indexed: 11/18/2022]
Abstract
In this study, the specific primers and probes of Panax quinquefolius were designed for a quantitative real-time PCR, and the rapid identification method of P. quinquefolius was established by optimizing conditions. The method was used to validate 43 samples of the traditional Chinese medicine,and the results showed that 22 samples of P. quinquefolius were identified accurately. The limit of detection of the method can be reach to 1×10⁻⁴ ng. The method is accurate, fast, sensitive and specifically.
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Affiliation(s)
- Yong-Hui Huang
- Technology Center of Zhuhai Entry-Exit Inspection and Quarantine Bureau, Zhuhai 519000, China
| | - Miao-Feng Xu
- Technology Center of Zhuhai Entry-Exit Inspection and Quarantine Bureau, Zhuhai 519000, China
| | - Yong-Bing Quan
- Technology Center of Zhuhai Entry-Exit Inspection and Quarantine Bureau, Zhuhai 519000, China
| | - Yuan-Li Chi
- Technology Center of Zhuhai Entry-Exit Inspection and Quarantine Bureau, Zhuhai 519000, China
| | - Wei Lin
- Technology Center of Zhuhai Entry-Exit Inspection and Quarantine Bureau, Zhuhai 519000, China
| | - Li Liao
- Technology Center of Zhuhai Entry-Exit Inspection and Quarantine Bureau, Zhuhai 519000, China
| | - Wei-Dong Zhang
- Technology Center of Zhuhai Entry-Exit Inspection and Quarantine Bureau, Zhuhai 519000, China
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Su YY, Wu L, Ding DD, Ma TY, Yang L, Xiang L, Xue JP. [ Rapid identification of Gekko gecko by loop-mediated isothermal amplification based on 12S rRNA sequence]. Zhongguo Zhong Yao Za Zhi 2019; 43:2509-2515. [PMID: 29950068 DOI: 10.19540/j.cnki.cjcmm.20180329.009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 01/24/2018] [Indexed: 11/18/2022]
Abstract
Gekko gecko (Tokay Gecko) is a valuable traditional Chinese medicine. In this study, the loop-mediated isothermal amplification (LAMP) technique was introduced for visual rapid identification of G. gecko from adulterants. A total of sixty-five 12S rRNA sequences of fourteen species of G. gecko and its adulterants were obtained. The results showed that G. gecko could be identified from its adulterants through BLAST analysis based on 12S rRNA regions. The 12S rRNA sequences of ten batches of G. gecko were conserved. There were only two haplotypes and three variation sites in the available regions for primers design. Six specific LAMP primers were successfully designed online based on 12S rRNA sequences. The visual rapid detection of G. gecko could be achieved with the optimized conditions (64 °C for 1 h and 80 °C for 5 min). And the required minimal template concentration was 5 μg·L⁻¹ while conventional PCR with 0.5 mg·L⁻¹. Consequently, the LAMP method established from this study was rapid, specific, highly sensitive, and simple. It could be applied to detect G. gecko from its adulterants efficiently.
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Affiliation(s)
- Yan-Yan Su
- College of Life Science, Huaibei Normal University, Huaibei 235000, China.,Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700, China
| | - Lan Wu
- Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700, China
| | - Dan-Dan Ding
- Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700, China
| | - Ting-Yu Ma
- Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700, China
| | - Li Yang
- Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700, China
| | - Li Xiang
- Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700, China
| | - Jian-Ping Xue
- College of Life Science, Huaibei Normal University, Huaibei 235000, China
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42
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Lau SKP, Xing F, Tsang CC, Tang JYM, Tan YP, Ye H, Lau RWT, Chen JHK, Lo SKF, Woo PCY. Clinical characteristics, rapid identification, molecular epidemiology and antifungal susceptibilities of Talaromyces marneffei infections in Shenzhen, China. Mycoses 2019; 62:450-457. [PMID: 30597630 DOI: 10.1111/myc.12887] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2018] [Accepted: 12/27/2018] [Indexed: 11/30/2022]
Abstract
Although case series of talaromycosis have been reported in China, their detailed clinical and microbiological characteristics have never been systematically profiled. In this study, we report the clinical characteristics, molecular epidemiology, rapid identification and antifungal susceptibilities of talaromycosis in The University of Hong Kong-Shenzhen Hospital in Shenzhen. Seven cases of talaromycosis were observed since commencement of hospital service in 2012. Three patients were local Shenzhen residents, whereas the other four were immigrants from other parts of China. Two patients were HIV-negative, but with underlying diseases requiring immunosuppressive therapy. Two of the seven patients succumbed. All the seven isolates were successfully identified as T. marneffei by MALDI-TOF MS using Bruker database expanded with in-house generated T. marneffei mass spectra. MLST showed that the seven strains belonged to six different, novel sequences types. Phylogenetic analyses of the concatenated five-locus sequence revealed that the seven strains were scattered amongst other T. marneffei strains. The MICs of itraconazole, isavuconazole, posaconazole and voriconazole against the seven clinical isolates were low but MICs of anidulafungin were high. Underlying diseases other than HIV infection are increasingly important risk factors of talaromycosis. MALDI-TOF MS is useful for rapid identification. Highly diverse T. marneffei sequence types were observed.
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Affiliation(s)
- Susanna K P Lau
- Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong.,State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, Pokfulam, Hong Kong.,Carol Yu Centre for Infection, The University of Hong Kong, Pokfulam, Hong Kong.,Collaborative Innovation Centre for Diagnosis and Treatment of Infectious Diseases, The University of Hong Kong, Pokfulam, Hong Kong.,Department of Clinical Microbiology and Infection Control, The University of Hong Kong-Shenzhen Hospital, Shenzhen, China
| | - Fanfan Xing
- Department of Clinical Microbiology and Infection Control, The University of Hong Kong-Shenzhen Hospital, Shenzhen, China
| | - Chi-Ching Tsang
- Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong
| | - James Y M Tang
- Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong
| | - Yen-Pei Tan
- Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong
| | - Haiyan Ye
- Department of Clinical Microbiology and Infection Control, The University of Hong Kong-Shenzhen Hospital, Shenzhen, China
| | - Ricky W T Lau
- Department of Clinical Microbiology and Infection Control, The University of Hong Kong-Shenzhen Hospital, Shenzhen, China
| | - Jonathan H K Chen
- Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong
| | - Simon K F Lo
- Department of Clinical Microbiology and Infection Control, The University of Hong Kong-Shenzhen Hospital, Shenzhen, China
| | - Patrick C Y Woo
- Department of Microbiology, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong.,State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, Pokfulam, Hong Kong.,Carol Yu Centre for Infection, The University of Hong Kong, Pokfulam, Hong Kong.,Collaborative Innovation Centre for Diagnosis and Treatment of Infectious Diseases, The University of Hong Kong, Pokfulam, Hong Kong.,Department of Clinical Microbiology and Infection Control, The University of Hong Kong-Shenzhen Hospital, Shenzhen, China
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43
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Su RN, Luo WZ, Wei RR, Ao WLJ, Zhong GY. [ Rapid identification of constituents of Urtica hyperborea using UPLC-ESI-Q-TOF-MS/MS method]. Zhongguo Zhong Yao Za Zhi 2019; 44:1607-1614. [PMID: 31090325 DOI: 10.19540/j.cnki.cjcmm.20190118.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
This paper deals with the application of ultra-performance liquid chromatography tandem quadrupole time of flight mass spectrometry(UPLC-ESI-Q-TOF-MS/MS) method to rapidly determine and analyze the chemical constituents of methanol extract of Urtica hyperborea. We employed UPLC YMC-Triart C18(2. 1 mm×100 mm,1. 9 μm) column to UPLC analysis with acetonitrile-water(containing 0. 4% formic acid) in gradient as mobile phase. The flow rate was 0. 3 m L·min-1 gradient elution and column temperature was 30℃; the injection volume was 4 μL. ESI ion source was used to ensure the data collected in anegative ion mode. The chemical components of U. hyperborea were identified through retention time,exact relative molecular mass,cleavage fragments of MS/MS and reported data.The results indicated that a total of 31 compounds were identified,including 8 flavonoids,14 phenolic compounds,8 phenylpropanoids(4 coumarins and 4 lignans),and 1 steroidal compound,13 of which were confirmed by comparison. The UPLC-ESI-Q-TOF-MS/MS method could rapid identify the chemical components of U. hyperborea. The above compounds were discovered in U. hyperborea for the first time,which could provide theoretical foundation for further research on the basis of the pharmacodynamics of U. hyperborea.
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Affiliation(s)
- Ri-Na Su
- Research Center for Traditional Chinese Medicine Research and Ethnic Minority Medicine,Jiangxi University of Traditional Chinese Medicine Nanchang 330004,China
| | - Wei-Zao Luo
- Chongqing Academy of Chinese Meteria Medica Chongqing 400065,China
| | - Rong-Rui Wei
- Research Center for Traditional Chinese Medicine Research and Ethnic Minority Medicine,Jiangxi University of Traditional Chinese Medicine Nanchang 330004,China
| | - Wu-Li-Ji Ao
- School of Mongol Medicine,Inner Mongolia University for Nationalities Tongliao 028000,China
| | - Guo-Yue Zhong
- Research Center for Traditional Chinese Medicine Research and Ethnic Minority Medicine,Jiangxi University of Traditional Chinese Medicine Nanchang 330004,China
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Jiang W, Lian W, Chen J, Li W, Huang J, Lai B, Li L, Huang Z, Xu J. Rapid identification of genome-edited mesenchymal stem cell colonies via Cas9. Biotechniques 2019; 66:231-234. [PMID: 30924368 DOI: 10.2144/btn-2018-0183] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Abstract
Mesenchymal stem cells (MSCs) have been intensively investigated and widely applied in regenerative medicine and immune modulation. However, their efficacy declines during the aging or disease process. Thus, genome-edited MSCs with over-expression or inhibition of specific genes hold a great deal of promise in terms of their therapeutic application. Here we optimized the direct PCR approach for rapid identification of genome-edited MSCs with only ten cells required, which reduces the time and labor to expand the MSC colonies. Combined with our previously optimized guide RNA structure and plasmid construction strategy for Cas9, we successfully identified MSC colonies over-expressing IL-10 in the AAVS1 locus.
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Affiliation(s)
- Wei Jiang
- Department of Anatomy, Histology & Developmental Biology, School of Basic Medical Sciences, Shenzhen University Health Science Centre, Shenzhen, P.R. China
| | - Wei Lian
- Department of Immunology, School of Medicine, Shenzhen University, Shenzhen, P.R. China
| | - Jieting Chen
- Department of Obstetrics, People's Hospital of Baoan, Shenzhen, P.R. China
| | - Wenlei Li
- Department of Obstetrics, Women & Children Health Institute of Futian, Shenzhen, P.R. China
| | - Jieyong Huang
- Department of Immunology, School of Medicine, Shenzhen University, Shenzhen, P.R. China
| | - Baoyu Lai
- Department of Immunology, School of Medicine, Shenzhen University, Shenzhen, P.R. China
| | - Lingyun Li
- Department of Immunology, School of Medicine, Shenzhen University, Shenzhen, P.R. China
| | - Zhong Huang
- Department of Immunology, School of Medicine, Shenzhen University, Shenzhen, P.R. China
| | - Jianyong Xu
- Department of Immunology, School of Medicine, Shenzhen University, Shenzhen, P.R. China
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Freimann S, Shapira M, Athamna A. Serum separator tube method for matrix-assisted laser desorption/ionization time-of-flight analysis. Access Microbiol 2019; 1:e000011. [PMID: 32974509 PMCID: PMC7470352 DOI: 10.1099/acmi.0.000011] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2019] [Accepted: 02/08/2019] [Indexed: 01/13/2023] Open
Abstract
Background Without appropriate treatment, bloodstream infections have a high mortality rate. Quicker identification of the microbial pathogen allows the clinician to develop an initial strategy of antimicrobial therapy. Sample preparation protocols for matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-ToF MS; Bruker Daltonics for Microflex LT spectrometer) technology were evaluated in an attempt to identify pathogens directly from positive blood culture bottles and thus shorten the time to identify them. This application requires preparatory processing because blood culture bottles contain undesirable proteins. This study aimed to evaluate two methods for microbial preparation for identification by MALDI-ToF MS. Methods This study evaluated two methods for microbial preparation from 200 positive blood culture samples, half prepared by the differential centrifugation method and half with the serum separator tube method for identification by MALDI-ToF MS. Both methods were compared to conventional methods such as VITEK II and ChromAgar culture plates. Results All Gram-negative bacteria tested were identified correctly by MALDI-ToF MS compared to conventional methods, regardless of the preparation method. However, more Gram-positive bacteria were identified when the serum separator tube method was used (83.3%) compared with the differential centrifugation method (65.3 %). Moreover, the serum separator tube protocol requires 12–15 min, while the differential centrifugation protocol requires 30–45 min. Conclusions Sample preparation using the serum separator tube method is easy to perform, fast and reliable for accurate microbial identification by MALDI-ToF MS technology.
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Affiliation(s)
- Sarit Freimann
- Clinical Microbiology Laboratory, Hillel Yaffe Medical Center, Hadera, Israel
| | - Maanit Shapira
- Laboratory Division, Hillel Yaffe Medical Center, Hadera, Israel
| | - Abed Athamna
- Clinical Microbiology Laboratory, Hillel Yaffe Medical Center, Hadera, Israel
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Liu F, Wang W, Shen T, Peng J, Kong W. Rapid Identification of Kudzu Powder of Different Origins Using Laser-Induced Breakdown Spectroscopy. Sensors (Basel) 2019; 19:s19061453. [PMID: 30934580 PMCID: PMC6470848 DOI: 10.3390/s19061453] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/12/2019] [Revised: 03/16/2019] [Accepted: 03/20/2019] [Indexed: 12/21/2022]
Abstract
The rapid identification of kudzu powder of different origins is of great significance for studying the authenticity identification of Chinese medicine. The feasibility of rapidly identifying kudzu powder origin was investigated based on laser-induced breakdown spectroscopy (LIBS) technology combined with chemometrics methods. The discriminant models based on the full spectrum include extreme learning machine (ELM), soft independent modeling of class analogy (SIMCA), K-nearest neighbor (KNN) and random forest (RF), and the accuracy of models was more than 99.00%. The prediction results of KNN and RF models were best: the accuracy of calibration and prediction sets of kudzu powder from different producing areas both reached 100%. The characteristic wavelengths were selected using principal component analysis (PCA) loadings. The accuracy of calibration set and the prediction set of discrimination models, based on characteristic wavelengths, is all higher than 98.00%. Random forest and KNN have the same excellent identification results, and the accuracy of calibration and prediction sets of kudzu powder from different producing areas reached 100%. Compared with the full spectrum discriminant analysis model, the discriminant analysis model based on the characteristic wavelength had almost the same discriminant effects, and the input variables were reduced by 99.92%. The results of this research show that the characteristic wavelength can be used instead of the LIBS full spectrum to quickly identify kudzu powder from different producing areas, which had the advantages of reducing input, simplifying the model, increasing the speed and improving the model effect. Therefore, LIBS technology is an effective method for rapid identification of kudzu powder from different habitats. This study provides a basis for LIBS to be applied in the genuineness and authenticity identification of Chinese medicine.
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Affiliation(s)
- Fei Liu
- College of Biosystems Engineering and Food Science, Zhejiang University, 866 Yuhangtang Road, Hangzhou 310058, China.
| | - Wei Wang
- College of Biosystems Engineering and Food Science, Zhejiang University, 866 Yuhangtang Road, Hangzhou 310058, China.
| | - Tingting Shen
- College of Biosystems Engineering and Food Science, Zhejiang University, 866 Yuhangtang Road, Hangzhou 310058, China.
| | - Jiyu Peng
- College of Biosystems Engineering and Food Science, Zhejiang University, 866 Yuhangtang Road, Hangzhou 310058, China.
| | - Wenwen Kong
- School of Information Engineering, Zhejiang A & F University, 666 Wusu Street, Hangzhou 311300, China.
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Abstract
An imidazolium-derived pyrene aggregation was developed to rapidly identify and quantify different bacteria species. When the nonemissive aggregates bound to the anionic bacteria surface, the sensor disassembled to turn on significant fluorescence. At the same time, ratiometric signals between pyrene monomer and excimer emission were controlled by different interactions with various bacteria surfaces. The resulted different fluorescent emission profiles then were obtained as fingerprints for various bacterial species. By converting emission profiles directly into output signals of two channels, fluorescence increase and ratiometric change, a two-dimensional analysis map was generated for bacteria identification. We demonstrated that our sensor rapidly identified 10 species of bacteria and 14 clinical isolated multidrug-resistant bacteria, and we determined their staining properties (Gram-positive or Gram-negative).
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Affiliation(s)
- Shuangshuang Long
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Lu Miao
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Ruihua Li
- The Second Affiliated Hospital of Dalian Medical University, Dalian 116023, China
| | - Fei Deng
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Qinglong Qiao
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
| | - Xiaogang Liu
- Singapore University of Technology and Design, Singapore 487372, Singapore
| | - Aixin Yan
- School of Biological Sciences, The University of Hong Kong, Pok Fu Lam, Hong Kong, China
| | - Zhaochao Xu
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
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Huang Q, Li Z, Ma Z, Li H, Mao R. Specific and rapid identification of the Pheretima aspergillum by loop-mediated isothermal amplification. Biosci Rep 2019; 39:BSR20181943. [PMID: 30705087 DOI: 10.1042/BSR20181943] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2018] [Revised: 01/27/2019] [Accepted: 01/30/2019] [Indexed: 11/17/2022] Open
Abstract
Guang-dilong (Pheretima aspergillum) is a traditional Chinese animal medicine that has been used for thousands of years in China. In the present study, we purposed to establish a new rapid identification method for Guang-dilong. We provided a useful technique, loop-mediated isothermal amplification (LAMP), to differentiate Guang-dilong from other species. Four specific LAMP primers were designed based on mitochondrial cytochrome c oxidase I (COI) gene sequences of Guang-dilong. LAMP reaction, containing DNA template, four primers, 10× Bst DNA polymerase reaction buffer, dNTPs, MgSO4, and Bst DNA polymerase, was completed within 60 min at 63°C. The LAMP product can be visualized by adding SYBR Green I or detected by 2% gel electrophoresis. LAMP technology was successfully established for rapid identification of Guang-dilong. In addition, DNA template concentration of 675 fg/μl was the detection limit of LAMP in Guang-dilong, which was 1000-times higher than conventional PCR. The simple, sensitive, and convenient LAMP technique is really suited for on-site identification of Guang-dilong in herbal markets.
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Yanqing C, Bo W, Ping W, Bisheng H, Hegang L, Chao X, Mingli W, Nili W, Di L, Zhigang H, Shilin C. Rapid identification of common medicinal snakes and their adulterants using the Bar-HRM analysis method. Mitochondrial DNA A DNA Mapp Seq Anal 2019; 30:367-374. [PMID: 30686100 DOI: 10.1080/24701394.2018.1532417] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Effective identification methods for snake species are lacking, exacerbating the extermination of medicinal and commercially valuable snake species. Hence, it is imperative to find fast and reliable methods to distinguish snake samples available on the market. Seventy-three samples from four families belonging to 13 genera were collected in China and found to contain common medicinal snakes and their adulterants. Cytochrome oxidase I (COI) was utilized as a DNA barcode to analyse these common snakes, and a DNA mini-barcode was employed for fast detection. Then, the DNA mini-barcode assays were coupled with a high-resolution melting (HRM) analysis (Bar-HRM) to realize the rapid discrimination of these snake species. The results showed the power of DNA barcoding with COI, which was capable of distinguishing all collected snake samples, and the combined Bar-HRM method can successfully identify the adulterants and different snake species. In particular, Bar-HRM revealed Bungarus fasciatus adulterants in B. multicinctus at concentrations as low as 1.6%. Moreover, the results of the study confirmed the effectiveness of the technique in terms of the rapid identification of snakes, which has great potential for ensuring the safety of commercially valuable snake species.
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Affiliation(s)
- Chen Yanqing
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China
| | - Wang Bo
- b Hubei Institute for Drug Control , Wuhan , China
| | - Wang Ping
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China
| | - Huang Bisheng
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China
| | - Liu Hegang
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China.,c Zhan Yahua National Famous Traditional Chinese Medicine Experts Inheritance Studio , Wuhan , China
| | - Xiong Chao
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China
| | - Wu Mingli
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China
| | - Wang Nili
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China
| | - Liu Di
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China.,c Zhan Yahua National Famous Traditional Chinese Medicine Experts Inheritance Studio , Wuhan , China
| | - Hu Zhigang
- a College of Pharmacy , Hubei University of Chinese Medicine , Wuhan , China.,c Zhan Yahua National Famous Traditional Chinese Medicine Experts Inheritance Studio , Wuhan , China
| | - Chen Shilin
- d Artemisinin Research Center, Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences , Beijing , China
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Gu YF, Li Y, Zhang XL, Yu LM, Huang BH, Sun CM. A New Method Aimed to Quickly Identify Pathogen and Drug Susceptibility Test Based on Matrix-Assisted Laser Desorption/Ionization Time of Flight Mass Spectrometry Combined with Flow Cytometry. Surg Infect (Larchmt) 2019; 20:219-224. [PMID: 30657423 DOI: 10.1089/sur.2018.145] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Abstract
AIM To discuss the significance and applied value in the rapid identification and drug susceptibility test for blood stream infection (BSI) using matrix-assisted laser desorption/ionization time of flight mass spectrometry (MALDI-TOF MS) combined with flow cytometry (FCM). METHODS The bacteria were separated from the positive blood culture bottle using the separation gel-adsorption method system, and then applying MALDI-TOF MS combined with FCM to identify pathogen and drug susceptibility test quickly. RESULTS The efficiency of the separation gel-adsorption method for gram-negative bacterium, gram-positive bacteria, and fungi is 71%, 74%, and 88%, respectively. The results of identifying pathogens using MALDI-TOFMS are in agreement with results obtained using VITEK®2 (bioMérieux, Marcy l'Etoile, France); both methods can identify 90% of bacteria to species. For fungi, MALDI-TOF MS can identify 75% fungi to species, which is superior to VITEK2, which identifies 60% fungi to species. The results of drug susceptibility test using FCM are almost identical to VITEK2; additionally, the addition of fluorescein diacetate can identify the heterogenic drug-resistant strains. CONCLUSIONS We can quickly identify pathogen and drug-susceptibility test based on MALDI-TOF MS combined with FCM, which is consistent with traditional methods and can shorten the report time from 36-72 hour to 3 hours. More importantly, these methods are of great significance and clinical importance for the rapid identification of BSI.
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Affiliation(s)
- Yu-Feng Gu
- Department of Clinical Laboratory Center, Yantai Yuhuangding Hospital, Yantai, Shandong, China
| | - Yu Li
- Department of Clinical Laboratory Center, Yantai Yuhuangding Hospital, Yantai, Shandong, China
| | - Xiao-Lu Zhang
- Department of Clinical Laboratory Center, Yantai Yuhuangding Hospital, Yantai, Shandong, China
| | - Li-Mei Yu
- Department of Clinical Laboratory Center, Yantai Yuhuangding Hospital, Yantai, Shandong, China
| | - Bao-Hua Huang
- Department of Clinical Laboratory Center, Yantai Yuhuangding Hospital, Yantai, Shandong, China
| | - Cheng-Ming Sun
- Department of Clinical Laboratory Center, Yantai Yuhuangding Hospital, Yantai, Shandong, China
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