scholarly journals Next Generation Sequencing Reveals the Expression of a Unique miRNA Profile in Response to a Gram-Positive Bacterial Infection

PLoS ONE ◽  
2013 ◽  
Vol 8 (3) ◽  
pp. e57543 ◽  
Author(s):  
Nathan Lawless ◽  
Amir B. K. Foroushani ◽  
Matthew S. McCabe ◽  
Cliona O’Farrelly ◽  
David J. Lynn
Keyword(s):  
Next Generation Sequencing ◽  
Bacterial Infection ◽  
Mirna Profile ◽  
Next Generation ◽  
Gram Positive ◽  
Generation Sequencing

scholarly journals miRNA profile obtained by next‑generation sequencing in metastatic breast cancer patients is able to predict the response to systemic treatments

2019 ◽  
Author(s):  
Antonio Martinez‑Gutierrez ◽  
Oliver Catalan ◽  
Rafael V�zquez‑Romo ◽  
Fany Porras Reyes ◽  
Alberto Alvarado‑Miranda ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Metastatic Breast Cancer ◽  
Next Generation Sequencing ◽  
Cancer Patients ◽  
Metastatic Breast ◽  
Mirna Profile ◽  
Next Generation ◽  
Breast Cancer Patients ◽  
Systemic Treatments ◽  
Generation Sequencing

scholarly journals Microbial Translocation in the Context of Hepatitis B Infection and Hepatitis D Infection

2020 ◽  
Author(s):  
Elizabeth C Townsend ◽  
Grace Y Zhang ◽  
Rabab Ali ◽  
Pallavi Surana ◽  
Marian Firke ◽  
...  
Keyword(s):  
Chronic Hepatitis ◽  
Next Generation Sequencing ◽  
Hepatitis B ◽  
Disease Progression ◽  
Microbial Translocation ◽  
Next Generation ◽  
Beta Glucan ◽  
Gram Positive ◽  
Hepatitis D ◽  
Generation Sequencing

Abstract Background Increased microbial translocation (MT) into the systemic circulation is associated with liver disease progression. MT has yet to be completely defined in chronic hepatitis B (HBV) and chronic hepatitis D (HDV). Aim To characterize MT and associated immune response in chronic HBV and HDV at various stages of disease. Methods Serum from 53 HBV, 43 HDV, and 36 healthy control (HC) subjects was obtained. Subjects were categorized by aspartate aminotransferase to platelet ratio index into mild (<0.5), moderate, and severe (>1.0) disease. Cytokines, microbial products, and microbial DNA levels were assessed in a single treatment-naïve time point for each patient. Next-generation sequencing identified bacterial species present within patient sera. Results HBV and HDV subjects display higher serum concentrations of gram-negative (G-) bacterial lipopolysaccharide and fungal beta-glucan compared to HC (all p<0.01). Gram-positive (G+) bacterial peptidoglycan is higher in HBV compared to HDV and HC (both p<0.0001). Within both disease cohorts, peptidoglycan correlates with IL-1b, IL-8, IL-12p70, and IL-13 (all spearman-r>0.45, p<0.05). Next-generation sequencing from seven subjects with detectable serum bacterial DNA revealed changes in abundance of bacterial taxa and a higher proportion of gram-positive genera in severe disease. Greater G+/G- taxa ratio is associated with higher cytokine levels and disease markers. Conclusions HBV and HDV patients display increased translocation of bacterial and fungal products into serum. Increased proportion of gram-positive genera is associated with disease progression. Correlations of peptidoglycan with anti-microbial cytokines suggests particular microbial classes may contribute to systemic inflammation and possibly disease progression.

Rapid Inactivation of Non-Endospore-Forming Bacterial Pathogens by Heat Stabilization is Compatible with Downstream Next-Generation Sequencing

2019 ◽  
Vol 24 (3) ◽  
pp. 129-133
Author(s):  
Max R. Schroeder ◽  
Vladimir Loparev
Keyword(s):  
Next Generation Sequencing ◽  
Gel Electrophoresis ◽  
Pulsed Field Gel Electrophoresis ◽  
High Density ◽  
Next Generation ◽  
Gram Positive ◽  
Gram Negative ◽  
Pulsed Field ◽  
Stabilization Treatment ◽  
Generation Sequencing

Introduction: Heat stabilization treatment preserves the in vivo state of biological samples by rapidly inactivating enzymes that cause degradation of proteins and nucleic acids. Historically, proteomics studies used this technique as an alternative to chemical fixation. More recently, microbiologists discovered that heat stabilization treatment rapidly inactivates pathogens present in tissue samples and preserves deoxyribonucleic acid (DNA) in the tissue. However, these recent studies did not investigate the inactivation of high-density bacterial suspensions and the quality of bacterial DNA. Methods and Results: High-density suspensions of Escherichia coli (>109 cfu/mL) were completely inactivated by heat stabilization treatment using the Denator Stabilizor T1 instrument at 72°C and 95°C for 45 seconds. Using the heat stabilization instrument, a panel of 30 species, 20 Gram-negative and 10 non-endospore-forming Gram-positive species, were fully inactivated by treatment (95°C for 45 seconds). DNA was isolated from bacterial suspensions of Gram-negative bacteria, including E. albertii, E. coli, Shigella dysenteriae, and S. flexneri, following inactivation via heat stabilization treatment and without treatment. DNA isolated following heat stabilization treatment was fully compatible with all downstream molecular applications tested, including next-generation sequencing, pulsed-field gel electrophoresis, multiplex polymerase chain reaction (PCR), and real-time PCR. Conclusions and Discussion: Heat stabilization treatment of Gram-negative and non-endospore-forming Gram-positive pathogens completely inactivates high-density bacterial suspensions. This treatment is compatible with downstream DNA molecular assays, including next-generation sequencing, pulsed-field gel electrophoresis, and PCR. Inactivation by heat stabilization is a rapid process that may increase safety by decreasing risks for laboratory-associated infections and risks associated with transportation of infectious materials.

scholarly journals Next generation sequencing for miRNA profile of spleen CD4+ T cells in the murine model of acute asthma

Epigenomics ◽  
2018 ◽  
Vol 10 (8) ◽  
pp. 1071-1083 ◽  
Author(s):  
Ye Liu ◽  
Zhongqi Chen ◽  
Kun Xu ◽  
Zhengxia Wang ◽  
Chaojie Wu ◽  
...  
Keyword(s):  
T Cells ◽  
Next Generation Sequencing ◽  
Murine Model ◽  
Cd4 T Cells ◽  
Acute Asthma ◽  
Mirna Profile ◽  
Next Generation ◽  
Generation Sequencing

Next-Generation Sequencing

2012 ◽  
Vol 42 (9) ◽  
pp. 8
Author(s):  
PETER HULICK
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Generation Sequencing

Labordiagnostik bei gastrointestinalen Tumoren

2020 ◽  
Vol 11 (05) ◽  
pp. 232-238
Author(s):  
Marcus Kleber
Keyword(s):  
Next Generation Sequencing ◽  
Kolorektales Karzinom ◽  
Next Generation ◽  
Generation Sequencing

ZUSAMMENFASSUNGDas kolorektale Karzinom (KRK) ist einer der häufigsten malignen Tumoren in Deutschland. Einer frühzeitigen Diagnostik kommt große Bedeutung zu. Goldstandard ist hier die Koloskopie. Die aktuelle S3-Leitlinie Kolorektales Karzinom empfiehlt zum KRK-Screening den fäkalen okkulten Bluttest. Für das Monitoring von Patienten vor und nach Tumorresektion werden die Messung des Carcinoembryonalen Antigens (CEA) und der Mikrosatellitenstabilität empfohlen. Für die Auswahl der korrekten Chemotherapie scheint derzeit eine Überprüfung des Mutationsstatus, mindestens des KRAS-Gens und des BRAF-Gens, sinnvoll zu sein. Eine Reihe an neuartigen Tumormarkern befindet sich momentan in der Entwicklung, hat jedoch noch nicht die Reife für eine mögliche Anwendung in der Routinediagnostik erreicht. Den schnellsten Weg in die breite Anwendung können Next-Generation-Sequencing-basierte genetische Tests finden.

Etablierung eines NGS-panels (Next Generation Sequencing) für PatientInnen mit Verdacht auf erblichen Brust- und Eierstockkrebs (HBOC)

2014 ◽  
Vol 11 (02) ◽  
Author(s):  
U Faust ◽  
K Bosse ◽  
T Benkert ◽  
M Heilig ◽  
S Hertler ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Generation Sequencing
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