HIV

Group

• Molly ([email protected])
• Joe ([email protected])
• Florencia,
• Katie ([email protected])
• Jim ([email protected])

Notes

Questions:

1. Which parts of the immune system are regulating pathogens populations? How many strains are there?

• 2 species HIV 1 and 2

• 4 groups M (major), N, O, and P

• M has at least 11 subtypes (A, B, C, D, E, F, G, H, I, J, K)

• HIV Evolutionary Dynamics Within and Among Hosts (Lemey 2006)

• Show viral load and CD4 counts first

• Show difference inter host and intra host phylogenetic tree

• Innate immunity

• Attacks CD4 T cells

• CD8 T cells

• NK cells

• Glycan shield masks HIV surface protein from immune antibody recognition

• Autoreactive B cells

• Founder virus more adapted to HLA type leads to higher viral loads (Carlson 2016)

2. What explains patterns of genetic diversity?

3. What explains population dynamics?

4. What's an outstanding question for your system? How would you conduct a study to address this and how would you analyze data from this study?

Outline - molly's notes

HIV life cycle

• Retrovirus

HIV phylogeny

• Tree of within host vs between hosts
• 2 groups, HIV-1 and HIV-2
  • 2 major groups with HIV-1 (M & N)
    • 8 subgroups
      • 60 different epidemic strains
        • A lot of intra-host diversity
          • Timing of intra-host diversity

HIV immunity

• Which parts of the immune system are regulating pathogens populations? How many strains are there?
• Break up into different parts of immune response

HIV within-host progression

• Timeline of clinical presentation (acute stage, peak viremia, establishing latent pool, long term consequences)
• Genetic diversity within host
  • during acute vs. chronic infection

Resources

Useful HIV pdf: https://www.stemcell.com/media/files/wallchart/WA10015-Immune_Response_HIV.pdf