African Collaborative Center for Microbiome and Genomics Research (ACCME)

Principal Investigator: Clement Adebamowo
 
Institute: Institute of Human Virology, Nigeria

Lay Description: The African Collaborative Center for Microbiome and Genomics Research (ACCME) leverages advanced research methods, technologies and international partnerships to engage African scientists and institutions led by the Institute of Human Virology, Nigeria (IHVN) and the Center for Infectious Diseases Research, Zambia (CIDRZ) to build capacity, conduct training and implement integrative epidemiology research initially focused on the associations between high risk HPV infection, vaginal microenvironment, HPV genomics, germline and somatic mutations in the etiology of cervical cancer.

This program serves as a paradigm for Translational Research in Biomarker Discovery that addresses high impact public health challenges that affects women’s health in Africa and the rest of the world. The technology and capacity developed through this initiative will be extended to other diseases in future.

 

  1. Characterize the prevalence of persistent hrHPV infection, multiple hrHPV infections, differential duration of persistence of specific hrHPV types in individuals with multiple hrHPV and their association with CIN2+ in African women
  2. Evaluate the epidemiological risk factors for persistent hrHPV infections by comprehensive and detailed assessment in a cohort of African women
  3. Determine the pattern of epigenetic changes in hrHPV and cervical cells, and its association with persistence of infection and CIN2+
  4. Epidemiological determinants and secular trend of epigenetic changes in hrHPV and cervical cells in each category of hrHPV status and CIN2+
  5. Characterize the epidemiological determinants of patterns of cervical cytokines in African women
  6. Evaluate the association between cervical cytokines and persistent hrHPV infection in African women
  7. Characterize the microbial species composition of abundance in the vaginal microbiota of healthy African women
  8. Determine the epidemiological and behavioral predictors of types and stability of vaginal microbiota of African women and their association with persistent hrHPV infection
  9. Conduct replication studies of the top scoring 1,500 SNPs identified in GWAS of 11,700 African women, to further evaluate the genetic determinants of persistent hrHPV infection and CIN2+
  10. Conduct targeted re-sequencing of genes/loci identified in replication study (9) and from studies in other populations to test their association with risk of (a) persistent hrHPV infection, (b) pattern of cervical cytokines secretions, (c) pattern and stability of vaginal microbiome and (d) CIN2+ in African women
  11. Evaluate new genomic pathways identified in the primary cervical cancer genome atlas in the human germline DNA and assess their association with (a) persistent hrHPV infection and (b) CIN2+
  12. Investigate the association between cervical cytokines and clearance of incident HPV infection, and CIN2+ in African women
  13. Conduct a genetic epidemiology study to identify variants and factors associated with cervical cytokines and T-cell response in women with prevalent, incident and persistent cervical hrHPV infections, and CIN2+
  14. Evaluate the association between cervical cytokines and community state types in the vaginal microbiota, among women with persistent high-risk HPV infections and CIN2+
  15. Evaluate the association between cervical HPV incidence and clearance, and CIN2+ with cervicovaginal immunity and the vaginal microbiota in African women

Analysis Objectives in Cardio-Metabolic Research 

  1. Conduct GWAS and replication study* of hypertension in African women
  2. Conduct GWAS and replication study* of diabetes in African women
  3. Conduct GWAS and replication study* of metabolic syndrome in African women
  4. Conduct GWAS and replication study* of obesity and body mass index in African women
  5. Conduct GWAS and replication study* of dyslipidemia in African women
  6. Conduct GWAS and replication study* of impaired kidney function and chronic kidney disease in African women
  7. Evaluate the predictors and factors associated with cardio-metabolic profile in African women
  8. Examine and describe the burden of metabolic syndrome and its components in African women
  9. Examine the factors and describe the current status of obesity and physical inactivity in African women
  10. Conduct an epidemiology study of impaired kidney function and chronic kidney disease in African women

Analysis Objectives in Population genetics 

  1. A Population Genetics Study of the Berom ethnic group of central Nigeria
  2. Population Genetics of Nigeria#

Other topics

  1. Characterize the associations between persistent hrHPV infections and vaginal community composition and structure.
  2. Characterize the metabolic signatures of the vaginal microbiota and its association with persistent hrHPV infection in HIV negative women
  3. Evaluate the associations between specific bacterial, viral and fungal components of the vaginal microbiota and risk of persistent hrHPV infection
  4. The association between vaginal hygiene practices and risk of cervical HPV infection among Nigerian women
  5. Correlates of multiple HPV infection and cervical lesions in a longitudinal cohort study of Nigerian women
  6. Age-related association between vagina pH and persistent high-risk HPV infection in Nigerian women
  7. Contraceptive use and risk of cervical HPV infection among Nigerian women
  8. Anxiety and psychological distress in Nigerian women referred for Colposcopy
  9. Genetic and epidemiologic relation between persistent high-risk HPV (hrHPV) infection, Cervical Cancer and diabetes (hyperglycemia) in African women
  10. Relationships between microRNA and anthropometric variables including BMI, waist, hip and WH ration.
  11. Genetic epidemiology of lipids in African women.
  12. Investigate pleiotropic associations between components of the metabolic syndrome in African women.