Decoding the Baltic Sea's Past and Present: A simple Molecular Index for Ecosystem Assessment DOI Creative Commons
A. H. SCHMIDT,

Juliane Roman,

Elinor Andrén

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: March 3, 2024

Marginal sea ecosystems, such as the Baltic Sea, are severely affected by anthropogenic pressures, climate warming, pollution, and eutrophication, which increased in course of past century. Biodiversity monitoring data assessment environmental status systems have typically been carried out only for few decades, if at all, knowledge on pre-impact stability good ecological is limited. An extension time series can potentially be achieved through analyses paleoecological records, e.g. phytoplankton, form base food web highly susceptible to changes. Within phytoplankton community, dinoflagellates diatoms play a significant role primary producers, their relative dominance spring bloom, calculated Dia/Dino index, used an indicator Sea. To extend patterns include non-fossilized dinoflagellates, we here establish simple droplet digital PCR (ddPCR) reaction ancient DNA from sediment cores that decodes dynamics. We focus two common bloom species, diatom Skeletonema marinoi dinoflagellate Apocalathium malmogiense, evaluate based index. It performs very well comparison metabarcoding modern elucidate species across century three basins millennia these basins. For century, see shift already starting before mid-20th Sea basins, thus substantially predating current programs. Shifts partly coeval among index shows different degrees stability. This pattern confirmed millennia, where long-term stable relationship between observed Eastern Gotland Basin, while Gulf Finland bear testimony much more unstable relationship. confirms must established locally exemplifies how core employed data.

Language: Английский

Advancing Pathogen Identification: The Role of Digital PCR in Enhancing Diagnostic Power in Different Settings DOI Creative Commons

Alessia Mirabile,

Giuseppe Sangiorgio, Paolo Giuseppe Bonacci

et al.

Diagnostics, Journal Year: 2024, Volume and Issue: 14(15), P. 1598 - 1598

Published: July 25, 2024

Digital polymerase chain reaction (dPCR) has emerged as a groundbreaking technology in molecular biology and diagnostics, offering exceptional precision sensitivity nucleic acid detection quantification. This review highlights the core principles transformative potential of dPCR, particularly infectious disease diagnostics environmental surveillance. Emphasizing its evolution from traditional PCR, dPCR provides accurate absolute quantification target acids through advanced partitioning techniques. The addresses significant impact sepsis diagnosis management, showcasing superior specificity early pathogen identification drug-resistant genes. Despite advantages, challenges such optimization experimental conditions, standardization data analysis workflows, high costs are discussed. Furthermore, we compare various commercially available platforms, detailing their features applications clinical research settings. Additionally, explores dPCR's role water microbiology, wastewater surveillance monitoring waterborne pathogens, underscoring importance public health protection. In conclusion, future prospects including methodological optimization, integration with innovative technologies, expansion into new sectors like metagenomics, explored.

Language: Английский

Citations

10
Ultra-rapid droplet digital PCR enables intraoperative tumor quantification DOI
Zachary R. Murphy,

Emilia C. Bianchini,

Andrew Smith

et al.

Med, Journal Year: 2025, Volume and Issue: unknown, P. 100604 - 100604

Published: Feb. 1, 2025

Language: Английский

Citations

1
Application of Digital Polymerase Chain Reaction (dPCR) in Non-Invasive Prenatal Testing (NIPT) DOI Creative Commons
Ying Guo, Pimlak Charoenkwan, Kuntharee Traisrisilp

et al.

Biomolecules, Journal Year: 2025, Volume and Issue: 15(3), P. 360 - 360

Published: March 1, 2025

This article reviews the current applications of digital polymerase chain reaction (dPCR) in non-invasive prenatal testing (NIPT) and explores its potential to complement or surpass capabilities Next-Generation Sequencing (NGS) testing. The growing incidence genetic disorders maternal–fetal medicine has intensified demand for precise accessible NIPT options, which aim minimize need invasive diagnostic procedures. Cell-free fetal DNA (cffDNA), core analyte NIPT, is influenced by numerous factors such as maternal contamination, placental health, fragment degradation. dPCR, with inherent precision ability detect low-abundance targets, demonstrates robustness against these interferences. Although NGS remains gold standard due comprehensive capabilities, high costs limit widespread use, particularly resource-limited settings. In contrast, dPCR provides comparable accuracy lower complexity expense, making it a promising alternative

Language: Английский

Citations

1
The Potential of cfDNA as Biomarker: Opportunities and Challenges for Neurodegenerative Diseases DOI Creative Commons
Şeyma Aydın, Selçuk Özdemir, Ahmet Adıgüzel

et al.

Journal of Molecular Neuroscience, Journal Year: 2025, Volume and Issue: 75(1)

Published: March 13, 2025

Abstract Neurodegenerative disorders, including Alzheimer’s disease (AD), Parkinson’s (PD), multiple sclerosis (MS), and amyotrophic lateral (ALS), are characterized by the progressive gradual degeneration of neurons. The prevalence rates these disorders rise significantly with age. As life spans continue to increase in many countries, number cases is expected grow foreseeable future. Early precise diagnosis, along appropriate surveillance, continues pose a challenge. high heterogeneity neurodegenerative diseases calls for more accurate definitive biomarkers improve clinical therapy. Cell-free DNA (cfDNA), fragmented released into bodily fluids via apoptosis, necrosis, or active secretion, has emerged as promising non-invasive diagnostic tool various diseases. cfDNA can serve an indicator ongoing cellular damage mortality, neuronal loss, may provide valuable insights processes, progression, therapeutic responses. This review will first cover key aspects then examine recent advances its potential use biomarker disorders.

Language: Английский

Citations

1
A diagnostic host-specific transcriptome response for Mycoplasma pneumoniae pneumonia to guide pediatric patient treatment DOI Creative Commons
Sandra Viz-Lasheras, Alberto Gómez‐Carballa, Xabier Bello

et al.

Nature Communications, Journal Year: 2025, Volume and Issue: 16(1)

Published: Jan. 15, 2025

Language: Английский

Citations

0
FlexPCR: A Streamlined Multiplexed Digital mRNA Quantification Platform with Universal Primers and Limited Fluorescence Channels DOI
Joon Soo Park, Jiumei Hu, Liben Chen

et al.

Biosensors and Bioelectronics, Journal Year: 2025, Volume and Issue: 277, P. 117277 - 117277

Published: Feb. 17, 2025

Language: Английский

Citations

0
Recent advances in diagnostic technologies for postoperative central nervous system infections: a review DOI Creative Commons
Jerry C. Hu, Wei Yu,

Jiating Cui

et al.

Neurological Sciences, Journal Year: 2025, Volume and Issue: unknown

Published: June 2, 2025

Language: Английский

Citations

0
Decoding the Baltic Sea’s past and present: A simple molecular index for ecosystem assessment DOI Creative Commons
A. H. SCHMIDT,

Juliane Romahn,

Elinor Andrén

et al.

Ecological Indicators, Journal Year: 2024, Volume and Issue: 166, P. 112494 - 112494

Published: Aug. 23, 2024

Marginal sea ecosystems, such as the Baltic Sea, are severely affected by anthropogenic pressures, climate warming, pollution, and eutrophication, which increased in course of past century. Biodiversity monitoring data assessment environmental status systems have typically been carried out only for few decades, if at all, knowledge on pre-impact stability good ecological is limited. An extension time series can potentially be achieved through analyses paleoecological records, e.g. phytoplankton, form base food web highly susceptible to changes. Within phytoplankton community, dinoflagellates diatoms play a significant role primary producers, their relative dominance spring bloom, calculated Dia/Dino index, used an indicator Sea. To extend patterns include non-fossilized dinoflagellates, we here establish simple droplet digital PCR (ddPCR) reaction ancient DNA from sediment cores that decodes dynamics. We focus two common bloom species, diatom Skeletonema marinoi dinoflagellate Apocalathium malmogiense, evaluate based index. It performs very well comparison metabarcoding modern elucidate species across century millennia different basins Baltic. For century, see shift already starting before mid-20th Sea basins, thus substantially predating current programs. Shifts partly coeval among index shows degrees stability. This pattern confirmed millennia, where long-term stable relationship between observed Eastern Gotland Basin, while Gulf Finland bear testimony much more unstable relationship. confirms must established locally exemplifies how core employed data.

Language: Английский

Citations

3
Evaluation of PCR-enhancing approaches to reduce inhibition in wastewater samples and enhance viral load measurements DOI

Anastasia Zafeiriadou,

Konstantina Nano,

Νikolaos S. Τhomaidis

et al.

The Science of The Total Environment, Journal Year: 2024, Volume and Issue: 955, P. 176768 - 176768

Published: Oct. 10, 2024

Language: Английский

Citations

2
Ultra-Rapid Droplet Digital PCR Enables Intraoperative Tumor Quantification DOI Creative Commons
Zachary R. Murphy,

Emilia C. Bianchini,

Andrew Smith

et al.

medRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: May 31, 2024

The diagnosis and treatment of tumors often depends on molecular-genetic data. However, rapid iterative access to molecular data is not currently feasible during surgery, complicating intraoperative precluding measurement tumor cell burdens at surgical margins guide resections. To address this gap, we developed Ultra-Rapid droplet digital PCR (UR-ddPCR), which can be completed in 15 minutes from tissue result with an accuracy comparable standard ddPCR. We demonstrate UR-ddPCR assays for the IDH1 R132H BRAF V600E clonal mutations that are present many low-grade gliomas melanomas, respectively. illustrate clinical feasibility by performing it intraoperatively 13 glioma cases. further combine measurements UR-stimulated Raman histology estimate densities addition percentages. anticipate UR-ddPCR, along future refinements assay instrumentation, will enable novel point-of-care diagnostics development molecularly-guided surgeries improve outcomes.

Language: Английский

Citations

1