TALANTA
·
2025
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IF 6.1
Qishuo Wang,Yixuan Wu,Yunqing Wang,Rongchao Mei,Rui Zhao,Xiaoyan Wang,Lingxin Chen
Rapid and precise DNA barcode-based identification of biological species holds significant potential for pharmaceutical authentication and biomedical diagnostics. Herein, we present a polymerase chain reaction (PCR)–surface-enhanced Raman scattering (SERS) platform that integrates SERS tags for ultrasensitive and fast authentication of Hippocampus trimaculatus , a high-value traditional Chinese medicine (TCM). The SERS tags are composed of gold nanostars, near-infrared cyanine7 Raman reporters and carboxylated polystyrene shells, which achieve single-particle detection sensitivity under 780 nm irradiation. The tags also show excellent colloidal and SERS stability under physiologically relevant conditions (e.g., phosphate buffer saline, serum, 1 mM NaCl, and pH 1–12), with signal variations less than 5 %. The carboxylated polystyrene shells enable efficient DNA functionalization. Leveraging these advancements, the PCR-SERS assay detects genomic DNA (gDNA) at concentrations as low as 10 copies/μL within 20 thermal cycles, with remarkable specificity for Hippocampus trimaculatus over four common adulterant species. Notably, the method reduces amplification requirements to 5 thermal cycles (detection limit of 10 6 copies/μL) while completing the entire workflow in less than 30 min (conventional qPCR, 20–30 cycles, 1–2 h). Beyond TCM verification, this PCR-SERS platform holds broad applicability for rapid nucleic acid detection in fields ranging from environmental eDNA monitoring to point-of-care diagnostics.
研究领域:
生物技术
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中药学
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分子诊断
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PubMed
高影响因子
Nature Communications
·
2025
·Vol. 16
·期 1
·1-15
·
IF 15.7
Wang Luyao,Zhou Wen,Chen Hang,Jia Xiangqian,Zheng Peiyuan,Jiang Haolin,Wu Mengling,Zhang Yaning,Ding Yanchao,Peng Yexi,Zhu Rui,Li Tiantian,Tian Boxue,Du Bujie,Du Juanjuan
Targeted protein delivery with nanocarriers holds significant potential to enhance therapeutic outcomes by precisely directing proteins to specific organs or tissues. However, the complex interactions between nanocarriers and the biological environment pose considerable challenges in designing effective targeted delivery vehicles. In this study, we address this challenge by leveraging DNA-barcoded high-throughput screening. We construct a nanocapsule library via in-situ polymerization, incorporating various monomers to create nanocapsules with unique surface properties. In vitro and in vivo screening, using female mice, identify nanocapsules with high cell association and different biodistribution. Our investigation into kidney-enriched nanocapsules highlights the crucial role of polymer composition in biodistribution, demonstrating the potential of surface engineering for precise control over nanoparticle distribution. The kidney-enriched nanocapsule successfully delivers catalase, showcasing its therapeutic potential in mitigating cisplatin-induced acute kidney injury. Overall, our study presents an approach for identifying protein delivery vehicles, with the capacity to broaden the application of proteins as therapeutic agents or research tools.
研究领域:
生物医学工程
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药理学
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分子生物学
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PubMed
高影响因子
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
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2025
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IF 3.1
Ye Shang,Suyi Liu,Chunxiao Liang,Tenukeguli Tuliebieke,Shujing Chen,Kunze Du,Xiaoxuan Tian,Jin Li,Jun He,Hua Jin,Yanxu Chang
Pheretima is an animal-derived traditional Chinese medicines (TCMs). The chemical quality markers of Pheretima used to distinguish different species are still ambiguous. Under this premise, a strategy integrated DNA barcoding with metabolomics is promoted for identifying Pheretima and screening distinguishable combinatorial chemical quality marker (DCQ-marker) between Pheretima aspergillum ( P. aspergillum ) and Pheretima vulgaris Chen ( P. vulgaris ). As a result, adenosine, adenine, L-phenylalanine and uridine are successfully selected as DCQ-markers between P. aspergillum and P. vulgaris . This study provides convenient strategy for quickly screening DCQ-marker between P. aspergillum and P. vulgaris . It will be meaningful for further promoting quality control on Pheretima and providing a reference for the quality evaluation of other animal-derived TCMs.
研究领域:
中药学
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动物学
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生物信息学
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PubMed
高影响因子
Plants-Basel
·
2021
·Vol. 10
·期 4
·717
·
IF 3.935
Auni Aqilah Ahmad Tarmizi,Alina Wagiran,Faezah Mohd Salleh,Lee Suan Chua,Farah Izana Abdullah,Rosnani Hasham,Suraiya Binte Mostafiz
Labisia pumilais a precious herb in Southeast Asia that is traditionally used as a health supplement and has been extensively commercialized due to its claimed therapeutic properties in boosting a healthy female reproductive system. Indigenous people used these plants by boiling the leaves; however, in recent years it has been marketed as powdered or capsuled products. Accordingly, accuracy in determination of the authenticity of these modern herbal products has faced great challenges. Lack of authenticity is a public health risk because incorrectly used herbal species can cause adverse effects. Hence, any measures that may aid product authentication would be beneficial. Given the widespread use ofLabisiaherbal products, the current study focuses on authenticity testing via an integral approach of DNA barcoding and qualitative analysis using HPLC. This study successfully generated DNA reference barcodes (ITS2andrbcL) forL. pumilavar.alataandpumila. The DNA barcode that was generated was then used to identify species ofLabisia pumilain herbal medicinal products, while HPLC was utilized to determine their quality. The findings through the synergistic approach (DNA barcode and HPLC) implemented in this study indicate the importance of both methods in providing the strong evidence required for the identification of true species and to examine the authenticity of such herbal medicinal products.Keywords:Labisia pumila;DNA barcoding;ITS2;rbcL;herbal medicinal products (HMPs);HPLC;authentication
研究领域:
植物学
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分子生物学
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药学
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PubMed
高影响因子
Advanced Science
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2024
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IF 14.3
Wenlong Ma,Jiawei Li,Xiaolin Qu,Shao‘e Sun,Yanan Zhou,Yitong Liu,Peng Wang,Zhongli Sha
DNA barcode detection method is widely applied for species identification, which is imperative to evaluate the effect of human economic activities on the biodiversity of ecosystem. However, the wide utilization of existing detection biosensors is limited by bulky and expensive instruments, such as Raman spectroscopy and electrochemical station. Herein, a liquid–solid triboelectric nanogenerator (TENG)-based DNA barcode detection biosensor is proposed, which consists of water flow, fluid channel, and PDMS film attached by specifically designed capture probe. Through sequentially combining capture probe, targeted DNA barcode, and signal probe with Au nanoparticles (NPs), the surface charge density of friction layer of TENG decreases under the effect of AuNPs, verified by the density functional theory (DFT) method. Consequently, the peak value of output current spike signal for targeted DNA is smaller than that for other DNA, which is the working mechanism of the present TENG-based biosensor. Such biosensor successfully recognizes Alvinocaris muricola among different types of Alvinocarididae shrimps, and its low limit detection can reach 1×10 −12 m . The present work provides a paradigm-shift way to develop an inexpensive and accurate technique to detect DNA barcode for species identification, and paves a novel way for the application of liquid–solid TENG.
研究领域:
生物传感技术
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分子生物学
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纳米技术
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PubMed
高影响因子
JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE
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2021
·Vol. 101
·期 11
·4490-4497
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IF 3.639
Ming Li,Xia Hong,Xuchun Qiu,Chuqin Yang,Yuhao Mao,Yan Li,Zhenjiang Liu,Daolin Du
BACKGROUND The ultrasensitive monitoring strategy of zearalenone (ZEN) is essential and desirable for food safety and human health. In the present study, a coupling of gold nanoparticles-DNA barcode and direct competitive immunoassay-based real-time polymerase chain reaction signal amplification (RT-IPCR) for ZEN close to the sensitivity of PCR-like levels is described and evaluated. RESULTS The RT-IPCR benefited from the use of a DNA barcode and RT-PCR detection strategy, thus resulting in ultrasensitive and simple detection for ZEN. Under the optimal RT-IPCR, the linear range of detection was from 0.5 to 1000 pg mL −1 and the limit of detection was 0.5 pg mL −1 , which was 400-fold lower than the enzyme-linked immunosorbent assay. The detection procedure was simplified and the detection time was shortened. The specificity, accuracy and precision of the RT-IPCR confirmed a high performance. ZEN-positive contamination levels were from 0.056 to 152.12 ng g −1 by the RT-IPCR, which was demonstrated to be highly reliable by liquid chromatography-tandem mass spectrometry. CONCLUSION The proposed RT-IPCR could be used as an alternative for detecting ZEN with satisfactory ultrasensitivity, simplicity, low cost and high-throughput. The present study could provide a strategy for the ultrasensitive detection of the small molecule with a simple and practical approach, which has significant appeal and application prospects.
研究领域:
食品安全
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分子生物学
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免疫学
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PubMed
高影响因子
DEVELOPMENTAL CELL
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2024
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IF 10.7
Xinyue Lu,Qiyan Zhang,Zejia Wang,Xuanzhi Cheng,Huiru Yan,Shuyi Cai,Huawei Zhang,Qikun Liu
Plants demonstrate a high degree of developmental plasticity, capable of regenerating entire individuals from detached somatic tissues—a regenerative phenomenon rarely observed in metazoa. Consequently, elucidating the lineage relationship between somatic founder cells and descendant cells in regenerated plant organs has long been a pursuit. In this study, we developed and optimized both DNA barcode- and multi-fluorescence-based cell-lineage tracing toolsets, employing an inducible method to mark individual cells in Arabidopsis donor somatic tissues at the onset of regeneration. Utilizing these complementary methods, we scrutinized cell identities at the single-cell level and presented compelling evidence that all cells in the regenerated Arabidopsis plants, irrespective of their organ types, originated from a single progenitor cell in the donor somatic tissue. Our discovery suggests a single-cell passage directing the transition from multicellular donor tissue to regenerated plants, thereby creating opportunities for cell-cell competition during plant regeneration—a strategy for maximizing survival.
研究领域:
植物生物学
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发育生物学
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分子遗传学
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高影响因子
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
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2020
·Vol. 412
·期 8
·1807-1816
·
IF 3.637
Hu Xin,Liu Man,Liu Yifei,Zhang Jingjing,Tang Yuwen,Pei Hong,Liu Hegang,Chen Shilin,Song Chengwu,Hu Zhigang
Herbal materials have both medicinal and commercial values. As such, accurate species and content identification and verification are necessary to ensure the safe and effective use for medical and commodity purposes. Herein, we introduce a two-step approach for systematic identification and quality evaluation of wild and introduced Anemone flaccida Fr. Schmidt (aka Di Wu) using DNA barcode and ultra-performance liquid chromatography quadrupole time-of-flight mass spectrometry (UPLC-QTOF-MS/MS). To begin, a precise and rapid identification method based on internal transcribed spacer 2 (ITS2) sequence was developed to ensure the authenticity of ‘Di Wu’ species. Next, the major active components were fully characterized utilizing a targeted profile of oleanane-type triterpenoid saponins, which was established via UPLC-QTOF-MS/MS. As a result, 34 oleanane-type triterpenoid saponins were identified or characterized in ‘Di Wu.’ The qualitative and relative quantitative analysis showed obvious differences between wild and introduced ‘Di Wu.’ Furthermore, dynamic changes in the contents of triterpenoid saponins throughout various harvesting periods were clearly explained and mid-April was identified as the appropriate harvest time. Moreover, results indicate that the contents of five main saponins (anhuienoside E, glycosideSt-I4a, hemsgiganoside B, flaccidoside II, and hederasaponin B) are more appropriate as a quality evaluation indicator than the current quality standard. The two-step approach provides a suitable strategy to evaluate the genuine quality of wild and introduced ‘Di Wu,’ and can be applied to the targeted analysis of other triterpenoid saponin analogues for quality evaluation.
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研究领域:
生药学
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分析化学
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分子生物学
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PubMed
高影响因子
NATURE BIOTECHNOLOGY
·
2021
·Vol. 39
·期 12
·1548-1555
·
IF 54.908
Fan Chuyao,Deng Qiang,Zhu Ting F.
Natural DNA is exquisitely evolved to store genetic information. The chirally inverted l -DNA, possessing the same informational capacity but resistant to biodegradation, may serve as a robust, bioorthogonal information repository. Here we chemically synthesize a 90-kDa high-fidelity mirror-image Pfu DNA polymerase that enables accurate assembly of a kilobase-sized mirror-image gene. We use the polymerase to encode in l -DNA an 1860 paragraph by Louis Pasteur that first proposed a mirror-image world of biology. We realize chiral steganography by embedding a chimeric d -DNA/ l -DNA key molecule in a d -DNA storage library, which conveys a false or secret message depending on the chirality of reading. Furthermore, we show that a trace amount of an l -DNA barcode preserved in water from a local pond remains amplifiable and sequenceable for 1 year, whereas a d -DNA barcode under the same conditions could not be amplified after 1 day. These next-generation mirror-image molecular tools may transform the development of advanced mirror-image biology systems and pave the way for the realization of the mirror-image central dogma and exploration of their applications.
研究领域:
分子生物学
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合成生物学
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生物技术
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信息存储
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PubMed
高影响因子
Nature Communications
·
2021
·Vol. 12
·期 1
·1-12
·
IF 14.919
Chen Feng,Bai Min,Cao Xiaowen,Xue Jing,Zhao Yue,Wu Na,Wang Lei,Zhang Dexin,Zhao Yongxi
Exploring spatial organization and relationship of diverse biomolecules within cellular nanoenvironments is important to elucidate the fundamental processes of life. However, it remains methodologically challenging. Herein, we report a molecular recognition mechanism cellular macromolecules-tethered DNA walking indexing (Cell-TALKING) to probe the nanoenvironments containing diverse chromatin modifications. As an example, we characterize the nanoenvironments of three DNA modifications around one histone posttranslational modification (PTM). These DNA modifications in fixed cells are labeled with respective DNA barcoding probes, and then the PTM site is tethered with a DNA walking probe. Cell-TALKING can continuously produce cleavage records of any barcoding probes nearby the walking probe. New 3’-OH ends are generated on the cleaved barcoding probes to induce DNA amplification for downstream detections. Combining fluorescence imaging, we identify various combinatorial chromatin modifications and investigate their dynamic changes during cell cycles. We also explore the nanoenvironments in different cancer cell lines and clinical specimens. In principle, using high-throughput sequencing instead of fluorescence imaging may allow the detection of complex cellular nanoenvironments containing tens of biomolecules such as transcription factors.
研究领域:
分子生物学
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细胞生物学
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表观遗传学
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生物技术
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癌症研究
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PubMed
高影响因子
Insects
·
2025
·Vol. 16
·期 11
·1147
·
IF 2.9
Feiyang Liang,Wei Zeng,Sheng Li,Xingyue Liu
Bark lice are common in terrestrial ecosystems, yet the poor taxonomic study of them renders species identification difficult. In this study, we investigated the species identification of the bark louse genus Neostenopsocus using DNA barcodes (675 bp fragment of the mitochondrial COI gene). We examined newly collected specimens and the type materials of some valid species of Neostenopsocus , redescribing 13 valid species and proposing 39 new synonyms. A total of 110 sequences of Neostenopsocus species were obtained from newly collected specimens and public data. The results show that the COI barcode is sufficient to distinguish most Neostenopsocus species, whereas more molecular marks and distribution data are necessary to identify the closely similar species. The family Stenopsocidae exhibits a rich biodiversity in China, yet species identification based on morphological characters remains problematic due to insufficient study and absent molecular data. DNA barcoding has been widely employed for rapid species identification in insects, particularly through standardized COI gene sequencing. In this study, we conducted species delimitation for Neostenopsocus in China based on the morphological characters and DNA barcodes, comprising 20 morphological species with 110 barcodes. We redescribed 13 species from China and proposed 39 new synonyms. This study supports the applicability of DNA barcoding for species identification in Neostenopsocus . The K2P distance between the morphological species of Neostenopsocus ranges from 0.0051 to 0.2040, with most exceeding 0.10. The maximum intraspecific divergence reaches 0.0778 in N. nepalensis . The external morphology of Neostenopsocus shows considerable structural uniformity, and the genitalia provide limited diagnostic value for species identification. Instead, the marking patterns of the head and forewing are considered to be useful for species identification. Therefore, delimiting closely related species demands an integrated taxonomy approach that combines extensive geographical sampling, detailed morphological analysis, and nuclear DNA data.
研究领域:
昆虫学
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分子系统学
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分类学
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生物多样性
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DNA条形码
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PubMed
高影响因子
危险品化学品经营许可证（带存储）