Chapter 19 Regulation of Gene Expression in Prokaryotes and Their Viruses

1. Chapter 19Regulation of Gene Expression in Prokaryotes and Their Viruses José A. Cardé Serrano, PhD Universidad Adventista de las Antillas Biol 223 Genética Agosto 2010

2. Chapter Outline • Constitutive, Inducible, and Repressible Gene Expression • Positive and Negative Control of Gene Expression • Operons: Coordinately Regulated Units of Gene Expression • The Lactose Operon in E. coli: Induction and Catabolite Repression • Translational Control of Gene Expression • Post-Translational Regulatory Mechanisms

3. Regulation of Gene Expression in Prokaryotes

4. Gene Regulatory Mechanisms in Prokaryotes • Mechanisms that involve the rapid turn-on and turn-off of gene expression in response to environmental changes. • Preprogrammed circuits or cascades of gene expression.

5. Genes that specify cellular components that perform housekeeping function—for example, the ribosomal RNAs and proteins involved in protein synthesis—are expressed constitutively. Other genes often are expressed only when their products are required for growth. Constitutive, Inducible, and Repressible Gene Expression

6. Constitutive Genes • Certain gene products (e.g., tRNAs, rRNAs, ribosomal proteins, RNA polymerase subunits, enzymes catalyzing housekeeping functions) are essential components of almost all living cells. • Genes that specify products of this type are continuously expressed in most cells.

7. Inducible and Repressible Genes • Other gene products are needed for cell growth only under certain environmental conditions. • Regulatory mechanisms allow the synthesis of these gene products only when they are needed.

8. Induction of Genes for Lactose Utilization • Gene expression is induced when glucose is absent and lactose is present. • Induction occurs at the level of transcription and alters the rate of enzyme synthesis. • Enzymes involved in catabolic pathways are often inducible.

9. Repression of Genes for Tryptophan Biosynthesis • Genes are expressed (depressed) in the absence of tryptophan and turned off (repressed) when tryptophan is available. • Repression occurs at the level of transcription. • Enzymes involved in anabolic pathways are often repressible.

10. Key Points • In prokaryotes, genes that specify housekeeping functions such as rRNAs, tRNAs, and ribosomal proteins are expressed constitutively. Other genes usually are expressed only when their products are needed. • Genes that encode enzymes involved in catabolic pathways often are expressed only in the presence of the substrates of the enzymes; their expression is inducible.

11. Key Points • Genes that encode enzymes involved in anabolic pathways usually are turned off in the presence of the end product of the pathway; their expression is repressible. • Although gene expression can be regulated at many levels, transcriptional regulation is the most common.

12. In some cases, the product of a regulatory gene is required to initiate the expression of one or more genes. In other cases, the product of a regulatory gene is required to turn off the expression of one or more genes. Positive and Negative Control of Gene Expression

13. Positive and Negative Control Mechanisms • Regulator genes encode products that regulate the expression of other genes. • In positive control mechanisms, the product of the regulator gene is required to turn on the expression of structural genes. • In negative control mechanisms, the product of the regulator gene is necessary to shut off the expression of structural genes.

14. The product of the regulator gene acts by binding to a site called the regulator protein binding site (RPBS) adjacent to the promoter of the structural gene(s). • In positive control systems, the regulator gene products are called activators because they activate transcription of the structural gene(s). • In negative control systems, the regulator gene products are called repressors because they repress transcription of the structural gene(s).

15. Effector Molecules • Whether or not a regulator protein can bind to the RPBS depends on the presence or absence of effector molecules in the cell. • Inducers are effector molecules involved in induction of gene expression. • Co-repressors are effector molecules involved in repression of gene expression.

16. Allosteric Transitions • Effector molecules bind to regulator gene products and cause conformational changes in protein structure called allosteric transitions. • Allosteric transitions caused by the binding of effector molecules to activators and repressors alter their ability to bind to the RPBS.

17. Regulation of Inducible Systems

18. Regulation of Repressible Systems

19. Regulatory Mechanisms • In a positive control mechanism, the activator is involved in turning on gene expression. • In a negative control mechanism, the repressor is involved in turning off gene expression. • With both positive and negative control mechanisms, whether gene expression is inducible or repressible depends on whether the free regulator protein or the regulator protein/effector molecule complex binds to the RPBS.

20. Key Points • Gene expression is controlled by both positive and negative regulatory mechanism. • In positive control mechanisms, the product of a regulator gene, an activator, is required to turn on the expression of the structural gene(s). • In negative control mechanisms, the product of a regulator gene, a repressor, is required to turn off the expression of the structural gene(s).

21. Key Points • Activators and repressors regulate gene expression by binding to sites adjacent to the promoters of structural genes. • Whether or not the regulator proteins can bind to their binding sites depends on the presence or absence of small effector molecules that form complexes with the regulator proteins. • The effector molecules are called inducers in inducible systems and co-repressors in repressible systems.

22. In prokaryotes, genes with related functions often are present in coordinately regulated genetic units called operons. Operons: Coordinately Regulated Units of Gene Expression

23. The Operon Model

24. Components of the Operon Model • The repressor gene encodes a repressor. • The repressor binds (under appropriate conditions) to the operator. Binding is regulated by the presence or absence of the effector molecule (inducer or co-repressor). • The promoter is the site of transcription initiation for the structural gene(s). • Transcription of the structural gene(s) is regulated by binding of the repressor to the operator.

25. An Inducible Operon

26. A Repressible Operon

27. The Structural Genes of an Operon • A single mRNA transcript carries the coding information of an entire operon. • Operons containing more than one structural gene are multigenic. • All structural genes in an operon are co-transcribed and therefore are coordinately expressed.

28. Key Points • In bacterial, genes with related functions frequently occur in coordinately regulated units called operons. • Each operon contains a set of contiguous structural genes, a promoter (the binding site for RNA polymerase), and an operator (the binding site for a regulatory protein called a repressor).

29. Key Points • When a repressor is bound to the operator, RNA polymerase cannot transcribe the structural genes in the operon. When the operator is free of repressor, RNA polymerase can transcribe the operon.

30. The structural genes in the lac operon are transcribed only when lactose is present and glucose is absent. The Lactose Operon in E. coli Induction and Catabolite Repression

31. The lac Operon of E. coli

32. Reactions Catalyzed by-Galactosidase

33. Induction of the lac Operon • The lac I gene encodes a repressor. • In the absence of inducer, the repressor binds to the lac operator and represses transcription of the structural genes. • The inducer, allolactose, is derived from lactose in a reaction catalyzed by -galactosidase. • When the repressor binds to allolactose, it is released from the operator, and transcription of the structural genes is turned on.

34. The Operon Model Proposed by Jacob and Monod (1961)

35. Catabolite Repression • The lac promoter has two components • The RNA polymerase binding site • A binding site for catabolite activator protein (CAP) • Binding of CAP to the promoter activates transcription of the lac operon from being induced when glucose is absent. • CAP binds to the promoter only when cyclic AMP (cAMP) is present at sufficient concentrations.

36. Cyclic AMP

37. Organization of the lac Operon Promoter-Operator Region

38. CAP Exerts Positive Control of the lac Operon; cAMP is the Effector • When glucose is present • Adenylcyclase is inactive. • cAMP levels are low. • CAP cannot bind to the lac operon. • The lac structural genes cannot be induced at high levels. • When glucose is absent • Adenylcyclase is active. • cAMP levels are high. • CAP/cAMP binds to the lac operon. • The lac structural genes can be induced.

39. Binding of CAP/cAMP to DNA

40. Locations of the Three Operators in the lacOperon

41. Key Points • The E. coli lac operon is a negative inducible and catabolite repressible system; the three structural genes in the lac operon are transcribed at high levels only in the presence of lactose and the absence of glucose.

42. Key Points • In the absence of lactose, the lac repressor binds to the lac operator and prevents RNA polymerase from initiating transcription of the operon. • Catabolite repression keeps operons such as lac encoding enzymes involved in carbohydrate catabolism from being induced in the presence of glucose, the preferred energy source.

43. The structural genes in the tryptophan operon are transcribed only when tryptophan is absent or present in low concentrations. The expression of the genes in the trp operon is regulated by repression of transcriptional initiation and by attenuation (premature termination) of transcription when tryptophan is prevalent in the environment. The TryptophanOperon in E. coli: Repression and Attenuation

44. Organization of the trp Operon

45. Repression of the trp OperonTryptophan is the Co-Repressor

46. Key Points • The E. coli trp operon is a negative repressible system; transcription of the five structural genes in the trp operon is repressed in the presence of significant concentrations of tryptophan. • Operons such as trp that encode enzymes involved in amino acid biosynthetic pathways often are controlled by a second regulatory mechanism called attenuation.

47. Key Points • Attenuation occurs by the premature termination of transcription at a site in the mRNA leader sequence (the sequence 5’ to the coding region) when tryptophan is prevalent in the environment in which the bacteria are growing.

48. The regulation of gene expression is often fine-tuned by modulating either the frequency of initiation of translation or the rate of polypeptide chain elongation. Translational Control of Gene Expression

49. Mechanisms to Regulation Differential Expression of Gene Products from the Same Transcript • Unequal efficiencies of translational initiation. • Altered efficiencies of ribosome movement through intergenic regions. • Differential rates of degradation of specific regions of mRNA molecules.

50. Key Points • Regulatory fine-tuning frequently occurs at the level of translation by modulation of the rate of polypeptide chain initiation or chain elongation. • Sometimes gene expression is regulated by the differential degradation of specific regions of polygenic mRNAs.