Coding Microbiological Data for Computers

ISBN-13: 9781461293866 / Angielski / Miękka / 2011 / 299 str.

Morrison Rogosa; Micah I. Krichevsky; Rita R. Colwell

Opis

As the title suggests, this book presents an open ended system in which computer techniques facilitate encoding, entry, management, and analysis of microbiological data derived from the study of bacteria, algae, fungi, and protozoa. The system is not constrained by any taxonomie point of view or proprietary computer technology and is freely and easily adaptable to the special needs of special problems. This enables investigators to deal efficiently with unforeseen areas of their investigation or with new data generated by old or new technology. We are sincerely grateful for the invaluable advice and encouragement of Professor V.B.D. Skerman. Many individuals contributed ideas and technical knowledge, and users of the system have contributed data and responsive criticism for more than a decade. Particularly, we acknowledge Lesley Jones for some editorial help; Keith E. McNeil for contributions to Section 7; Elwyn G. McIntyre for invaluable assistance with Section 8; Dr. B. Amdur for major contributions to Section 21; Dr. A.J. Wicken for assistance in expanding and updating Section 23; Dr. S. Feingold for some features of anaerobic bacteria in Section 24; Drs. J.

Spis treści

Directions for Coding Data.- Coding Numerical Data.- Recording Specimen and Associated Microbial Data.- Directions for Coding Reference System Data.- Example Set of Code Sheets.- Section.- 1: General Information Code Sheet.- 2: Specific Strain Information.- 3: Individual Cell Morphology.- 4: Individual Vegetative Cell Size.- Narrow Increment Range, Longest Axis.- Wide Increment Range, Longest Axis.- Wide Increment Range, Second Longest Axis.- Narrow Increment Range, Shortest Axis.- Wide Increment Range, Shortest Axis.- Miscellaneous Measurements.- 5: Insoluble Intracellular And Extracellular Depositions.- 6: Endospores And Cysts.- 7: Myxospores, Sporocysts, Fruiting Bodies, Spores, Sporozoites, Trophozoites, And Gametocytes.- 8: Branching, Hyphae, and Production of Asexual Spores.- Branching Hyphae and Septation.- Fragmentation and Spore Formation.- Hyphal Pigmentation.- Conidiophores.- Conidia.- Conidial Location and Arrangement.- Properties of Conidia and Chains of Conidia.- Sporangia and Sporangiospores.- Sporangial Location and Arrangement.- Properties of Sporangia.- Sporangiospores.- Zoospores.- Sexual Reproduction.- 9: Stalks.- 10: Sheaths.- 11: Capsules.- 12: Stain Reactions.- 13: Motility, Flagellation and External Organelles.- General Mode of Locomotion.- Characteristics of Flagella.- Protoplasmic Extrusions.- Cilia and Cirri 90 Membranellae and External or Paroral Membrane-like Structures.- External Architecture.- General.- Tentacles.- Shells and Lorica.- Pellicle, Mucous Envelope, Adhesive External Organelles, Attachments, etc..- 14: Mode Of Cell Division.- 15: Arrangement.- 16: Cultural Conditions, Inhibitors, Nutrition, Growth, Life Cycles.- Solid Media.- Liquid Media.- Growth Kinetics.- pH Limits of Growth.- Relationship to Oxygen and Carbon Dioxide.- Light Requirements for Photosynthesis.- Tolerance to Inhibitory Substances.- Nutritional Characteristics.- Growth in Complex Media.- Growth on Mineral Salts Media.- Ingestion of Biological Material.- Bioassociations Symbiosis or Parasitism.- Vectors.- Life Cycles.- Habitat.- Differential Media.- 17: Vegetative Cell Temperature Relations.- 18: Sodium Chloride & other Osmotic Agents - Tolerance and Requirements.- Sodium Chloride.- Other Osmotic Agents.- 19/40: Antibiotic Sensitivity.- Lists of Selected Concentrations.- Lists of Selected Disc Concentrations.- 20: Pigments and Odors.- Pigments.- Odors.- 21: Cell Contents.- Cell Bound Lipids, Fatty Acids and Sterols.- Cell Contents.- Inorganic.- Hydrocarbons.- Proteins, Peptides, Amino Acids.- 22: Lysis.- 23: Cell Surface (Wall or Membrane).- Cell Surface Appearance.- Cell Wall.- Surface Structure-Other Than Cell Walls.- 24: Metabolic Reactions.- Extracellular Polysaccharides.- Complex Organic Substances.- Complex Basal Medium Catabolism.- Fructose Catabolism.- Glucose Catabolisth.- Lactose Catabolism.- Lactic Acid Catabolism.- Pytuvic Acid Catabolism.- Threonine Catabolism.- Synthesis of Specific Organic Compounds 157.- Catabolism of Organic Compounds Acids.- Alcohols.- Amino Acids and Peptones.- Carbohydrates.- Miscellaneous.- Inorganic Products or Substrates Ammonia, Nitrate, Nitrite, Nitrogen.- Sulfur Compounds.- Oxygen, Carbon Dioxide, Hydrogen, Miscellaneous.- Dye Reduction and Indicator Tests.- Toxin Production and Hemolysis.- 25: Carbohydrate Metabolism.- Utilized-Oxidized-Reduced-Acid.- Gas-Sole C Source-Hydrolyzed.- 26: Alcohol Metabolism.- Utilized-Oxidized-Reduced.- Acid-Gas-Sole C Source.- 27: Aldehyde Metabolism.- Utilized-Oxidized-Reduced.- Acid-Gas-Sole C Source.- 28: Carboxylic Acid or Ester Metabolism.- Utilized-Sole C Source-Oxidized.- Reduced-Gas-Decarboxylated.- 29: Amino Acid Metabolism.- Utilized-Required-C Source-N Source.- C & N Source-Deaminated-Decarboxylated.- Oxidized-Reduced-Gas.- 30: Amine, Amide, Lactam, Purine, Pyrimidine Metabolism.- Utilized-Required-C Source-N Source.- C & N Source-Dearhinated-Oxidized-Reduced.- 31: Hydrocarbon and Ketone Metabolism.- Sole C Source-Utilized-Oxidized.- Reduced-Acid-Gas.- 32: Fat and Oil Metabolism.- 33: Preservation of Strains.- 34: Metabolic Pathways and Enzymes.- Glycolysis (EMP Pathway).- Entner-Doudoroff Pathway.- Hexose Monophosphate or Warburg-Dickens.- System.- Phosphoketolase Pathways.- Citric Acid Cycle.- Glyoxylate Cycle.- Autotrophic Carbon Dioxide Fixation.- Heterotrophic Carbon Dioxide Fixation.- General Reactions Involving Pyruvate.- Pyruvate to Alcohol Pathway.- Pyruvate to Butanediol Pathway.- Pyruvate to Butyrate Pathway.- Pyruvate to Isopropanol Pathway.- Propionic Acid Fermentation.- Polyol Dehydrogenases.- Miscellaneous Enzymes.- Nucleosidases & Related Enzymes.- Hydrolysing N-Glycosyl Compounds.- Hydrolysing Thioether Compounds.- Pentosyl Transferases.- Transferring A Phosphorus - Kinases.- Phosphotransferases - Phosphate Acceptor.- Diphosphotransferases.- Nucleotidyltransferases.- Phosphoric Monoester Hydrolases.- Phosphoric Diester Hydrolases.- Triphosphoric Monoester Hydrolases.- Exodeoxyribonucleases Producing 5?-Phosphomonoesters.- Exoribonucleases Producing 5?-Phosphomonoesters.- Exoribonucleases Producing Other Than 5?-Phosphomonoesters.- Exonucleases (RNA or DNA) Producing 5?-Phosphomonoesters.- Exonucleases (RNA or DNA) Producing Other Than 5?-Phosphomonoesters.- Endodeoxyribonucleases Producing 5?-Phosphomonoesters.- Endodeoxyribonucleases Producing Other Than 5?-Phosphomonoesters.- Site-Specific Endodeoxyribonucleases (Sequence-Specific).- Site-Specific Endodeoxyribonucleases (Not Sequence-Specific).- Site-Specific Endodeoxyribonucleases For Altered Bases.- Endoribonucleases Producing 5?-Phosphomonoesters.- Endoribonucleases Producing Other Than 5?-Phosphomonoesters.- Endonucleases (RNA or DNA) Producing 5?-Phosphomonoesters.- Endonucleases (RNA or DNA) Producing Other Than 5(’-Phosphomonoesters.- Phosphatases.- Carbon-Carbon Lyases.- Phosphorus-Oxygen Lyases.- Ligases Forming Aminoacyl-tRNA.- Ligases Forming Phosphoric Ester Bonds 225.- Enzymes Acting on Peptide Bonds.- Peptide Hydrolases.- Alpha-Aminoacylpeptide Hydrolases.- Dipeptide Hydrolases.- Peptidyldipeptide Hydrolases.- Serine Carboxypeptidases.- Metallo-Carboxypeptidases.- Serine Proteinases.- Thiol Proteinases.- Microbial Carboxyl (Acid) Proteinases.- Metalloproteinases.- Proteinases of Unknown Catalytic Mechanism.- 35: Quantitative Antibiotic Sensitivity.- Disc Zone Diameters.- Minimal Inhibitory Concentrations.- Numerical Inhibitory Zone Diameters.- 36: Internal Organelles.- 37: Nucleus.- 38: Nucleic Acids.- Reference System.- 101: Salmonella.- 0 Antigens - Polyvalent Antisera - Bacto.- 0 Antigens - Polyvalent Antisera - CDC.- 0 Antigens - Polyvalent Antisera - Wellcome.- Spicer-Edwards Polyvalent H Antisera.- H Antigens - Wellcome.- List of Manufacturers1 Specific Antisera.- 0 Antigens.- H Antigens.- Pooled H Antigens.- 103: Streptococcus.- Neufeld Quellung Reaction.- Lancefield Groups.- 105: Staphylococcus.- Staphylococcal Toxin.- Immunodiffusion.- Phage Typing - Lytic Groups.- Phage Types.- 106: Escherichia.- 0 Antigens - Bacto.- H Antigens - Polyvalent Antisera - Bacto.- H Antigens - Single Factors - Bacto.- OK Antigens - Polyvalent Antisera - Bacto.- Specific OK Antigens - Bacto.- 107: Campylobacter.- Penner Method - Hemagglutination - CDC.- Lior Method - Polyvalent Antisera.- Lior Method - Single Factor Antisera.- Appendix - Synonyms of Compounds.- References.