Contamination in Low Microbial Biomass Microbiome Studies: Issues and Recommendations

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Items 301–400 of 1,000

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2. An exploratory study investigating the impact of the bladder tumor microbiome on Bacillus Calmette Guerin (BCG) response in non-muscle invasive bladder cancer
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5. A Calcium-Rich Multimineral Intervention to Modulate Colonic Microbial Communities and Metabolomic Profiles in Humans: Results from a 90-Day Trial
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6. A Review of the Molluscan Microbiome: Ecology, Methodology and Future
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7. Investigation into the presence and transfer of microbiomes within a forensic laboratory setting
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8. Characterization of the consensus mucosal microbiome of colorectal cancer
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9. Human milk microbiota: what did we learn in the last 20 years?
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10. Characteristics of nitrogen deposition research within grassland ecosystems globally and its insight from grassland microbial community changes in China
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12. Contamination detection and microbiome exploration with GRIMER
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13. Dissecting Microbiome-Derived SCFAs in Prostate Cancer: Analyzing Gut Microbiota, Racial Disparities, and Epigenetic Mechanisms
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14. Benchmarking MicrobIEM – a user-friendly tool for decontamination of microbiome sequencing data
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15. Best practices for collecting and preserving marine mammal biological samples in the ‘omics era
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16. The Southern Bluefin Tuna Mucosal Microbiome Is Influenced by Husbandry Method, Net Pen Location, and Anti-parasite Treatment
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17. Bile Acid Signal Molecules Associate Temporally with Respiratory Inflammation and Microbiome Signatures in Clinically Stable Cystic Fibrosis Patients
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18. Microbiota and Autism: A Review on Oral and Gut Microbiome Analysis Through 16S rRNA Sequencing
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19. Challenges, Strategies, and Perspectives for Reference-Independent Longitudinal Multi-Omic Microbiome Studies
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20. Glaciers as microbial habitats: current knowledge and implication
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21. Heritage-specific oral microbiota in Indigenous Australian dental calculus
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22. Advances in experimental and computational methodologies for the study of microbial-surface interactions at different omics levels
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23. Gut Bacterial Diversity of Field and Laboratory-Reared Aedes albopictus Populations of Rio de Janeiro, Brazil
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24. Detection of bile acids in bronchoalveolar lavage fluid defines the inflammatory and microbial landscape of the lower airways in infants with cystic fibrosis
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25. Analysis of microbial composition and sharing in low-biomass human milk samples: a comparison of DNA isolation and sequencing techniques
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26. Contributions of the Microbiome-Derived Metabolome for Risk Assessment and Prognostication of Pancreatic Cancer
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27. The impact of kit, environment, and sampling contamination on the observed microbiome of bovine milk
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28. An effective culturomics approach to study the gut microbiota of mammals
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29. Social environment and genetics underlie body site‐specific microbiomes of Yellowstone National Park gray wolves ( Canis lupus )
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30. Microbiome in Eosinophilic Esophagitis—Metagenomic, Metatranscriptomic, and Metabolomic Changes: A Systematic Review
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31. Integrated Microbiome and Host Transcriptome Profiles Link Parkinson’s Disease to Blautia Genus: Evidence From Feces, Blood, and Brain
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32. Planning and Analyzing a Low-Biomass Microbiome Study: A Data Analysis Perspective
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33. Tissue-resident microbiota impacts colorectal cancer progression and prognosis
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34. Changes in the gut microbial community of the eastern newt (Notophthalmus viridescens) across its three distinct life stages
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35. Taxonomic classification of the bacterial endosymbiont Wolbachia based on next-generation sequencing: is there molecular evidence for its presence in tardigrades?
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36. Bacterial DNA involvement in carcinogenesis
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37. Fragment Ends of Circulating Microbial DNA as Signatures for Pathogen Detection in Sepsis
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38. Exploring gut microbiota in adult Atlantic salmon (Salmo salar L.): Associations with gut health and dietary prebiotics
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39. Gastric Cancer: The Microbiome Beyond Helicobacter pylori
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40. Cefazolin shifts the kidney microbiota to promote a lithogenic environment
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41. Microbial Diversity in Deep-Subsurface Hot Brines of Northwest Poland: from Community Structure to Isolate Characteristics
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42. A bug’s life: Delving into the challenges of helminth microbiome studies
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43. Performance evaluation of high-volume electret filter air samplers in aerosol microbiome research
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44. De-biasing microbiome sequencing data: bacterial morphology-based correction of extraction bias and correlates of chimera formation
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45. Blanking on blanks: few insect microbiota studies control for contaminants
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46. Dysbiotic microbes and how to find them: a review of microbiome profiling in prostate cancer
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47. New Developments and Opportunities of Microbiota in Treating Breast Cancers
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48. The lower airways microbiota and antimicrobial peptides indicate dysbiosis in sarcoidosis
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49. Multi-factorial examination of amplicon sequencing workflows from sample preparation to bioinformatic analysis
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50. The human microbiome links to prostate cancer risk and treatment (Review)
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51. Survey of the infant male urobiome and genomic analysis of Actinotignum spp.
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52. Association between semen microbiome disorder and sperm DNA damage
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53. Dental calculus as a proxy for animal microbiomes
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54. Challenging the Hypothesis of in Utero Microbiota Acquisition in Healthy Canine and Feline Pregnancies at Term: Preliminary Data
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55. Emerging technologies and current challenges in intratumoral microbiota research
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56. Basic Microbiome Analysis: Analytical Steps from Sampling to Sequencing
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57. Dissimilarity of Airway and Lung Tissue Microbiota in Smokers Undergoing Surgery for Lung Cancer
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58. Urinary Microbiota—Are We Ready for Prime Time? A Literature Review of Study Methods’ Critical Steps in Avoiding Contamination and Minimizing Biased Results
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59. Comparison of the Genital Microbiomes of Pregnant Aboriginal and Non-aboriginal Women
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60. A Case Study for the Recovery of Authentic Microbial Ancient DNA from Soil Samples
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61. Background Filtering of Clinical Metagenomic Sequencing with a Library Concentration-Normalized Model
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62. Possibilities and limitations of using low biomass samples for urologic disease and microbiome research
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63. Methodologic Considerations for Studying the Ocular Surface Microbiome
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64. Clearing the plate: a strategic approach to mitigate well-to-well contamination in large-scale microbiome studies
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65. No bacteria found in healthy placentas
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66. Variation in the microbiome of the spider mite Tetranychus truncatus with sex, instar and endosymbiont infection
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67. Mainstreaming Microbes across Biomes
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68. A guide to minimize contamination issues in microbiome restoration studies
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69. Differences in the Establishment of Gut Microbiota and Metabolome Characteristics Between Balb/c and C57BL/6J Mice After Proton Irradiation
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70. Identifying Candidate Circulating RNA Markers for Coronary Artery Disease by Deep RNA-Sequencing in Human Plasma
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71. Enhancing the DNA yield intended for microbial sequencing from a low-biomass chlorinated drinking water
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72. The interplay between tissue‐resident microbiome and host proteins by integrated multi‐omics during progression of colorectal adenoma to carcinoma
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73. Reliable detection of Host-Microbe Signatures in cancer using PRISM
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74. Current ocular microbiome investigations limit reproducibility and reliability: Critical review and opportunities
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75. Changes in the Vaginal Microbiome and Associated Toxicities Following Radiation Therapy for Gynecologic Cancers
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76. Do‐it‐Yourself Mock Community Standard for Multi‐Step Assessment of Microbiome Protocols
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77. Bee breweries: The unusually fermentative, lactobacilli-dominated brood cell microbiomes of cellophane bees
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78. Absence of a pancreatic microbiome in intraductal papillary mucinous neoplasm
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79. Sampling efficiency and nucleic acid stability during long-term sampling with different bioaerosol samplers
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80. Prolonged hospitalization signature and early antibiotic effects on the nasopharyngeal resistome in preterm infants
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81. The human microbiome: redefining cancer pathogenesis and therapy
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82. A Lot on Your Plate? Well-to-Well Contamination as an Additional Confounder in Microbiome Sequence Analyses
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83. Shotgun-Metagenomics on Positive Blood Culture Bottles Inoculated With Prosthetic Joint Tissue: A Proof of Concept Study
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84. The uropygial gland microbiome of house sparrows with malaria infection
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85. Building up a clinical microbiota profiling: a quality framework proposal
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86. The lung microbiota in children with cystic fibrosis captured by induced sputum sampling
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87. The Microbiome and Urolithiasis: Current Advancements and Future Challenges
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88. Understanding atmospheric intercontinental dispersal of harmful microorganisms
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89. Characterization of the equine placental microbial population in healthy pregnancies
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90. End-to-end assessment of fecal bacteriome analysis: from sample processing to DNA sequencing and bioinformatics results
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91. Identification and Removal of Potential Contaminants in 16S rRNA Gene Sequence Data Sets from Low-Microbial-Biomass Samples: an Example from Mosquito Tissues
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92. Haemoprotozoan surveillance in peri-urban native and introduced wildlife from Australia
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93. Characterization of Vaginal Microbiota in Third Trimester Premature Rupture of Membranes Patients through 16S rDNA Sequencing
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94. Individuals with Inflammatory Bowel Disease Have an Altered Gut Microbiome Composition of Fungi and Protozoa
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95. Quantification and characterization of mouse and human tissue-resident microbiota by qPCR and 16S sequencing
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96. Circulating microbiota and metabolites: Insights into cardiovascular diseases
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97. The Microbiome in PDAC—Vantage Point for Future Therapies?
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98. Characterisation of the koala (Phascolarctos cinereus) pouch microbiota in a captive population reveals a dysbiotic compositional profile associated with neonatal mortality
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99. Dancing the Nanopore limbo – Nanopore metagenomics from small DNA quantities for bacterial genome reconstruction
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100. The microbial composition of pancreatic ductal adenocarcinoma: a systematic review of 16S rRNA gene sequencing
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