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Microbiology

Table of contents

  • About
  • Content Areas
  • Author
  • ASCP BOC
  • Reading List
  • Preanalytic
  • Collection & Transport
  • Patient ID & Labeling
  • Specimen Collection
  • Sterile Technique
  • Blood Culture
  • Sites with Flora
  • Transport Systems
  • Transport Devices
  • Atmosphere
  • Time & Temperature
  • Processing
  • Prioritization & Rejection
  • Biosafety Cabinet & PPE
  • Preparation Methods
  • Concentration
  • Digestion & Decontamination
  • Cross-Contamination
  • Sterile Technique
  • Tissue Homogenization
  • DNA/RNA extraction
  • Media
  • Types
  • Components
  • Application & Use
  • Selection
  • Fastidious Species
  • Mycobacteria & Fungi
  • Inoculation
  • Quantitative
  • Semiquantitative
  • Automated Plating
  • Incubation Conditions
  • Slide Preparation
  • Stains
  • Gram
  • Acid-fast
  • Modified Acid-fast
  • KOH & Calcofluor-White
  • Trichrome
  • Giemsa
  • Acridine Orange
  • Modified Trichrome
  • Bacteriology
  • Blood & Bone Marrow
  • Sample Sources
  • Continuous Monitoring
  • Rapid ID Methods
  • Skin Flora
  • Colony Morphology & ID
  • Agents of Endocarditis
  • Agents of Bone Marrow
  • Organism Pathogenicity
  • Cerebrospinal Fluid
  • Sample Sources
  • Colony Morphology & ID
  • Agents of Shunt
  • Laboratory Results
  • Antigens & Molecular
  • Organism Pathogenicity
  • Sterile Fluids
  • Sample Sources
  • Indeginous Surface Organisms
  • Colony Morphology & ID
  • Molecular Methods
  • Organism Pathogenicity
  • Lower Respiratory
  • Sample Sources
  • Quantitative Reporting
  • Oral Flora
  • Colony Morphology & ID
  • Community-Associated
  • Healthcare-Associated
  • Cystic fibrosis
  • Molecular Methods
  • Organism Pathogenicity
  • Upper Respiratory
  • Sample Sources
  • Indeginous Flora
  • Colony Morphology & ID
  • Pharyngitis
  • Otitis Media & Sinusitis
  • Molecular Methods
  • Organism Pathogenicity
  • Gastrointestinal
  • Colony Morphology & ID
  • Molecular Methods
  • Serotyping
  • Organism Pathogenicity
  • H. pylori Detection
  • Skin, Soft Tissue, & Bone
  • Specimen Sources
  • Indigenous Flora
  • Colony Morphology & ID
  • Skin
  • Soft Tissue
  • Bone
  • Bite Wound
  • Zoonotic
  • Organism Pathogenicity
  • Genital Tract
  • Specimen Sources
  • Indigenous Organisms
  • Vaginitis
  • Culture & Molecular
  • Organism Pathogenicity
  • Urine
  • Specimen Sources
  • Colony Morphology & ID
  • Correlation of Colony Counts
  • Correlation of Cultures
  • Identification Methods
  • Colony Morphology
  • Rapid Presumptive ID
  • Conventional Biochemical ID
  • Commercial Kits
  • Automated Methods
  • MALDI-TOF MS
  • Molecular Methods
  • Sequencing
  • Susceptibility Testing
  • Susceptibility Testing
  • Microbroth Dilution
  • Disk Diffusion
  • Gradient Diffusion
  • Phenotypic Resistance
  • Mechanisms of Action
  • Genetic Determinants
  • Intrinsic Resistance Patterns
  • Antimicrobials Reporting
  • MRSA/MSSA, VRE, ESBL/CRE
  • Specimen Sources
  • Culture Methods
  • Molecular Methods
  • BSL-3 Pathogens
  • Specimen sources
  • Colony Morphology & ID
  • Laboratory Response Network
  • Organism Pathogenicity
  • Mycobacteriology
  • Procedures
  • Specimen Sources
  • Pathogens & Diseases
  • Stain, Morph, Growth
  • Major Pathogens
  • Common Contaminant
  • Less Common Pathogens
  • Identification Methods
  • Molecular Methods
  • Antimicrobial Therapy
  • M. tuberculosis
  • MAI, M. kansasii, M. marinum
  • Rapid Growers
  • Susceptibility testing
  • Broth Microdilution
  • Critical Concentration
  • Resistance Markers
  • Organism pathogenicity
  • Virology
  • Procedures
  • Specimen Sources
  • Major pathogens
  • Respiratory
  • Vesicles & Lesions
  • Cervical Cancer
  • Meningitis
  • Gastroenteritis
  • Immunocompromised
  • Hepatitis
  • HIV
  • Other Viruses
  • Direct Detection
  • Antiviral Agents
  • Parasitology
  • Procedures
  • Specimen Sources
  • Major Pathogens
  • Blood & Tissue Protozoa
  • Intestinal & Urogenital Protozoa
  • Intestinal & Tissue Helminths
  • Brain
  • Insects & Arthropods
  • Additional Parasites
  • Micro & Macro ID
  • Direct Detection
  • Culture
  • Mycology
  • Procedures
  • Specimen Sources
  • Superficial
  • Deep & Systemic
  • Systemic
  • Major Pathogens
  • Yeast
  • Dimorphic Fungi
  • Dermatophytes
  • Mucorales
  • Hyaline Molds
  • Dematiaceous Molds
  • Pneumocystis Jirovecii
  • Microsporidium
  • Morphology & Growth
  • Microscopic ID
  • Direct Detection
  • Other ID Methods
  • Antifungal Susceptibility
  • Manual & Automated
  • Antifungal Classes
  • Intrinsic Resistance
  • Serology
  • Procedures
  • Immunoglobulin Response
  • Ag-Ab Interactions
  • Principles
  • Testing Methods
  • Viral Pathogens
  • Agents of Encephalitis
  • T. pallidum & B. burgdorferi
  • Tuberculosis

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Content Areas

Major content areas covered:

Preanalytic Procedures

  • Specimen Collection and Transport
  • Specimen Processing
  • Stains: Procedure, Principle, and Interpretation

Analytic Procedures for Bacteriology

  • Blood and Bone Marrow
  • Cerebrospinal Fluid
  • Body Fluids from Normally Sterile Sites
  • Lower Respiratory
  • Upper Respiratory
  • Gastrointestinal
  • Skin, Soft Tissue, and Bone
  • Genital Tract
  • Urine
  • Identification Methods (Theory, Interpretation, and Application)
  • Antimicrobial Susceptibility Testing and Antibiotic Resistance
  • MRSA/MSSA, VRE, ESBL/CRE Screening
  • BSL-3 Pathogens and Select Agents (Bioterrorism)

Analytic Procedures for Mycobacteriology, Virology, Parasitology, and Mycology

  • Mycobacteriology and Nocardia spp.
  • Virology
  • Parasitology
  • Mycology
  • Serology

Last Updated

Last edit pushed to this site was on 2025-03-30

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  • Preanalytic Procedures
  • Analytic Procedures for Bacteriology
  • Analytic Procedures for Mycobacteriology, Virology, Parasitology, and Mycology
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Written by Brett M. Rice | Updated 2025-03-30 | Built by the bookdown R package