1. Bacteriophage lambda (l) Transcriptional switches can regulate cellular decisions

2. Lysis or Lysogeny Lysis: Infection by phage produces many progeny and breaks open (lyses) the host bacterium Lysogeny: After infection, the phage DNA integrates into the host genome and resides there passively –No progeny –No lysis of the host –Can subsequently lyse (lysogeny) Bacteriophage lambda can do either.

3. Lysis Lysogeny UV Induction

4. The phage genome integrated into the host bacterial genome is a prophage. Bacterium carrying the prophage is a lysogen. Lysogens are immune to further infection by similar phage because the phage functions are repressed in trans. Induction of the lysogen leads to excision of the prophage, replication of the phage DNA, and lysis of the host bacterium. Elements of lysogeny

5. Genes are clustered by function in the lambda genome RecombinationControl regionReplicationLysis Virus head &tail origin oRoR P int oLoL PLPL P RM PRPR P RE PR‘PR‘ t R3 t L1 t R1 t R2 t 6S att int xis red gam cIII NcIcrocIIOPQSRA…J promoter operator terminator Late control cos Not to scale!

6. Immediate early transcription Transcription by E. coli RNA polymerase initiates at strong promoters P R, P R ’, and P L, and terminates at t’s. 6S RNA oRoR P int oLoL PLPL P RM PRPR P RE PR‘PR‘ t R3 t L1 t R1 t R2 t 6S att int xis red gam cIII NcIcrocIIOPQSRA…J N Cro

7. Antitermination by N protein leads to early gene expression P int PLPL P RM PRPR P RE PR‘PR‘ t R3 t L1 t R1 t R2 t 6S att int xis red gam cIII NcIcrocIIOPQSRA…J NNN N proteinCro 6S RNA CIII Recombination proteins CII Replication proteins Q protein

8. Lytic cascade: Cro turns off cI, Q protein action leads to late gene expression oRoR P int oLoL PLPL P RM PRPR P RE PR‘PR‘ t R3 t L1 t R1 t R2 t 6S att int xis red gam cIII NcIcrocIIOPQSRA…J Cro Q Lytic functions Replication proteins Viral head & tail proteins

9. Late stage of lytic cascade High concentrations of Cro turn off P R and P L. Abundant expression from P R ’. oRoR P int oLoL PLPL P RM PRPR P RE PR‘PR‘ t R3 t L1 t R1 t R2 t 6S att int xis red gam cIII NcIcrocIIOPQSRA…J Cro Q Lytic functions Viral head & tail proteins

10. + Lysogeny: CII and CIII stimulate expression of cI to make repressor oRoR P int oLoL PLPL P RM PRPR P RE PR‘PR‘ t R3 t L1 t R1 t R2 t 6S att int xis red gam cIII NcIcrocIIOPQSRA…J CIII CII CI + Repressor P RE = promoter for repression establishment Int t int CII

11. Lysogeny: Repressor turns off transcription oRoR P int oLoL PLPL P RM PRPR P RE PR‘PR‘ t R3 t L1 t R1 t R2 t 6S att int xis red gam cIII NcIcrocIIOPQSRA…J CI Repressor P RM = promoter for repression maintenance CI Activated by Repressor binding to o R1 & o R2

12. Regulatory mutants of lambda Clear plaque mutants Virulent mutants (vir) Need wild type for lysogeny: EstablishmentMaintenance cIYes cIIYesNo cIIIYesNo Act in trans Act in cis : are double mutants in o R &/or o L

13.  operators overlap promoters oR1oR1oR2oR2 o R : TTGACTGATAAT -10-35 ATAGAT 5’TTAGAT 5’ -10-35 oR3oR3 cro N PRPR P RM

14. Repressor structure repressor is a dimer; monomer has 236 amino acids.  repressor can bind cooperatively to operator sub-sites.

15. Use hybrid genes to dissect regulatory schemes Place a convenient reporter gene under control of the regulatory elements being studied Use a known regulatory region to control the trans-acting regulatory element

16. -lac  hybrid genes lac p, o  cI  p R, O R lacZ Place cI gene under lac control. Use lacZ as a reporter. E. coli with lac repressor, no lacZ. Control amount of  repressor by [IPTG]. See effect of  repressor by  -galactosidase activity 321

17. repressor will turn off expression from P R & P L lac p, o  cI  p R, O R lacZ  -galactosidase [IPTG] repressor repressor acts cooperatively.

18. Repressor stimulates transcription from P RM lac p, o  cI  p RM, O R lacZ  -galactosidase [IPTG] repressor 123 repressor at o R 1 and o R 2 stimulates transcription from p RM.

19. Binding of repressor blocks transcription from p R but activates p RM oR1oR1oR2oR2 -10-35 -10-35 oR3oR3 cro N PRPR P RM 2 dimers of Repressor, bound cooperatively RNA Pol = operator -10-35 = promoter

20. Bacteriophage : Events leading to lysis lysis or lysogeny (cI or Cro?) ? Both lysis and lysogeny: –P R, P L, P R’ active : synthesize N, Cro –antitermination by N : synthesize cIII, cII, Q Lysis: –Low [Cro] : binds O R 3, shuts off P RM (cI) –High [Cro] : shuts off P R and P L –antitermination by Q + activation of P R’ by Cro

21. Bacteriophage : Events leading to lysogeny lysis or lysogeny (cI or Cro?) ? Lysis and lysogeny : –P R, P L, P R’ active : synthesize N, Cro –antitermination by N : synthesize cIII, cII, Q Lysogeny: –cII stimulate expression from P RE (cI repressor) and P INT (integrase) –cIII stabilizes cII –cI repressor shuts off P R, P L, P R’ (no lytic functions), stimulates P RM

22. Temperate and lytic phage have a different plaque morphology Lytic phage: clear plaques

23. Induction and immunity of lysogens