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Survey of Biochemistry and Biotechnology

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Survey of Biochemistry and Biotechnology

This virtual book is a re-mix of a variety of OER chapters; the remix was created by Dr. A. Goodman as an alternative textbook for CHEM313 course. It is "work in progress" - please, let the instructor know if you spot problems and/or have suggestions.

Chemistry
Author
A. Goodman
Publisher
California Polytechnic State University San Luis Obispo
Source
LibreTexts
Language
EN
Category
Basic Sciences
Read online Download PDF (open licence)
Contents· 126 sections
  1. 01: Chemical and Biological Foundations
  2. 1.01: Biological Foundations
  3. 1.1.01: Properties of life
  4. 1.1.02: Prokaryotic Cells and Scale
  5. 1.1.03: Eukaryotic Cells
  6. 1.02: Atoms Ions Molecules
  7. 1.03: Intermolecular Forces
  8. 1.04: Carbon and Functional Groups
  9. 1.05: Water Equilibrium and Buffers
  10. 02: Structure and Function- Proteins
  11. 2.01: Structure and Function - Amino Acids
  12. 2.02: Structure and Function- Proteins I
  13. 2.03: Structure and Function- Proteins II
  14. 03: Catalysis
  15. 3.01: Basic Principles of Catalysis
  16. 3.02: Control of Enzymatic Activity
  17. 3.03: Mechanisms of Catalysis
  18. 04: Structure and Function- Nucleic Acids
  19. 4.01: Prelude to Information Processing
  20. 4.02: Structure and Function - Nucleic Acids
  21. 4.03: DNA Replication
  22. 4.04: DNA Repair
  23. 4.05: Genes and Genomes
  24. 4.06: Transcription
  25. 4.6.01: RNA Processing
  26. 4.07: RNA Processing
  27. 4.08: Translation
  28. 4.09: Gene Expression
  29. 05: Structure and Function- Carbohydrates and Lipids
  30. 5.01: Structure and Function- Carbohydrates
  31. 5.02: Structure and Function - Lipids and Their Transport
  32. 5.2.01: 5.2.1 Optional- other interesting lipids
  33. 5.2.1.01: Bonus- other interesting lipids
  34. 5.03: Basic Concepts in Membranes
  35. 5.04: Transport Across Membranes
  36. 5.4.01: Optional deep dive in to membrane transport
  37. 5.05: Other Considerations in Membranes
  38. 06: Energy and Metabolism
  39. 6.01: Basics of Energy
  40. 6.02: Metabolism - Sugars
  41. 6.03: Citric Acid Cycle and Related Pathways
  42. 6.04: Electron Transport and Oxidative Phosphorylation
  43. 6.05: Fats and Fatty Acids
  44. 6.06: Amino Acids and the Urea Cycle
  45. 6.07: Other Lipids
  46. 6.08: Energy - Photophosphorylation
  47. 07: Regulation of Metabolism and Homeostasis
  48. 7.01: Signaling
  49. 7.02: How Cells Obtain Energy
  50. 7.2.01: Energy and Metabolism
  51. 7.2.02: Glycolysis
  52. 7.2.03: Citric Acid Cycle and Oxidative Phosphorylation
  53. 7.2.04: Fermentation
  54. 7.2.05: Connections to Other Metabolic Pathways
  55. 7.2.E: How Cells Obtain Energy (Exercises)
  56. 7.03: Section - place holder
  57. 08: Biotechnology and Other Applications of Biochemistry
  58. 8.01: Section 1-
  59. 8.02: Section 2-
  60. 8.03: Section 3-
  61. 8.04: Section 4-
  62. 8.05: Section 5-
  63. 8.06: Section 6-
  64. 8.07: The Immune System and Disease
  65. 8.7.01: Viruses
  66. 8.7.02: Innate Immunity
  67. 8.7.03: Adaptive Immunity
  68. 8.7.04: Disruptions in the Immune System
  69. 8.7.E: The Immune System and Desease (Exercises)
  70. 8.08: Biotechnology
  71. 09: Basic Techniques
  72. 9.01: Cell Lysis
  73. 9.02: Fractionation and Chromatography Techniques
  74. 9.03: Electrophoresis
  75. 9.04: Detection identification and quantitation of specific nucleic acids and proteins
  76. 9.05: Transcriptomics
  77. 9.06: Isolating Genes
  78. 9.07: Polymerase Chain Reaction (PCR)
  79. 9.08: Reverse Transcription
  80. 9.09: Genome Editing (CRISPR)
  81. 9.10: Membrane Dynamics (FRAP)
  82. 10: Supplemental Modules (Biochemistry)
  83. 10.01: DNA
  84. 10.1.01: DNA as Genetic Material
  85. 10.1.02: Structure of DNA and RNA
  86. 10.1.03: Bacterial Restriction Modification system
  87. 10.1.04: DNA Modifying Enzymes
  88. 10.1.05: DNA Replication - Introduction to Prokaryotic replication
  89. 10.1.06: DNA Supercoiling and Topoisomerases
  90. 10.02: Bacteria
  91. 10.2.01: The Bacteria - An Introduction
  92. 10.2.02: Bacterial Growth and Reproduction
  93. 10.2.03: Extrachromosomal elements plasmids selectable markers
  94. 10.2.04: Central Dogma and the Genetic Code
  95. 10.2.05: Gene and Operon
  96. 10.2.06: The lac Operon CAP site DNA footprinting
  97. 10.2.07: Transcriptional Regulation- Transcription termination the trp operon
  98. 10.2.08: mRNA Translation
  99. 10.03: 3. Biotechnology 1
  100. 10.3.01: Gel Electrophoresis
  101. 10.3.02: DNA Sequence Analysis
  102. 10.3.03: Polymerase Chain Reaction (PCR) and Cloning of PCR Products
  103. 10.3.04: Prokaryotic Expression Vectors
  104. 10.3.05: Protein Sequencing Peptide Mapping Synthetic Genes
  105. 10.3.06: cDNA and Genomic Libraries
  106. 10.3.07: Protein Purification
  107. 10.04: 5. Lab Notes Part 1
  108. 10.4.01: Basic practices and techniques Laboratory notebooks Presentation of data Sections of a scientific report
  109. 10.4.02: Spectrophotometry
  110. 10.4.03: Quantification of Protein Concentration
  111. 10.4.04: Chromatography
  112. 10.4.05: Gel Electrophoresis of Proteins
  113. 10.4.06: Introduction to Protein Purification
  114. 10.05: 6. Lab Notes Part 2
  115. 10.5.01: Genetic Transformation (using bacteria and the pGLO plasmid)
  116. 10.5.02: Enzyme kinetics
  117. 10.5.03: Ligand binding
  118. 10.5.04: Restriction Mapping
  119. 10.5.05: Polymerase Chain Reaction (PCR)
  120. 10.5.06: Use of PC and internet for biochemical research
  121. 10.06: 4. Biotechnology 2
  122. 10.6.01: M13 Phage
  123. 10.6.02: M13 Phage Display Libraries
  124. 10.6.03: SELEX (Selective Evolution of Ligands by Exponential Enrichment)
  125. 10.6.04: Protein-Protein Recognition Probed Using a Yeast Transcriptional Activator System
  126. 10.6.05: Molecular Imprinting