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Sharaf A, Ndiribe CC, Omotoriogun TC, Abueg L, Badaoui B, Badiane Markey FJ, Beedessee G, Diouf D, Duru VC, Ebuzome C, Eziuzor SC, Jaufeerally Fakim Y, Formenti G, Ghanmi N, Guerfali FZ, Houaga I, Ideozu JE, Katee SM, Khayi S, Kuja JO, Kwon-Ndung EH, Marks RA, Moila AM, Mungloo-Dilmohamud Z, Muzemil S, Nigussie H, Osuji JO, Ras V, Tchiechoua YH, Zoclanclounon YAB, Tolley KA, Ziyomo C, Mapholi N, Muigai AWT, Djikeng A, Ebenezer TE. Bridging the gap in African biodiversity genomics and bioinformatics. Nat Biotechnol 2023; 41:1348-1354. [PMID: 37699986 DOI: 10.1038/s41587-023-01933-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/14/2023]
Affiliation(s)
- Abdoallah Sharaf
- SequAna Core Facility, Department of Biology, University of Konstanz, Konstanz, Germany
- Genetic Department, Faculty of Agriculture, Ain Shams University, Cairo, Egypt
| | - Charlotte C Ndiribe
- Department of Cell Biology and Genetics, University of Lagos, Lagos, Nigeria
| | - Taiwo Crossby Omotoriogun
- Biotechnology Unit, Department of Biological Sciences, Elizade University, Ilara-Mokin, Nigeria
- A.P. Leventis Ornithological Research Institute, University of Jos, Jos, Nigeria
| | - Linelle Abueg
- Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA
| | - Bouabid Badaoui
- Mohammed V University in Rabat, Rabat, Morocco
- African Sustainable Agriculture Research Institute, Mohammed VI Polytechnic University, Laâyoune, Morocco
| | | | - Girish Beedessee
- Department of Biochemistry, University of Cambridge, Cambridge, UK
| | - Diaga Diouf
- Laboratoire Campus de Biotechnologies Végétales, Département de Biologie Végétale, Faculté des Sciences et Techniques, Université Cheikh Anta Diop, Dakar, Sénégal
| | - Vincent C Duru
- Department of Parasitology and Entomology, Nnamdi Azikiwe University, Awka, Nigeria
| | | | - Samuel C Eziuzor
- Department of Isotope Biogeochemistry, Helmholtz Center for Environmental Research-UFZ, Leipzig, Germany
| | | | - Giulio Formenti
- Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA
| | - Nidhal Ghanmi
- Bioinformatics Lab, Pasteur Institute of Tunis, Tunis, Tunisia
| | - Fatma Zahra Guerfali
- Laboratory of Transmission, Control and Immunobiology of Infections, Pasteur Institute of Tunis, Tunis, Tunisia
- University of Tunis El Manar, University Campus Farhat Hached, Tunis, Tunisia
| | - Isidore Houaga
- Centre for Tropical Livestock Genetics and Health, Roslin Institute, University of Edinburgh, Edinburgh, UK
| | | | | | - Slimane Khayi
- Biotechnology Research Unit, CRRA-Rabat, National Institute of Agricultural Research, Rabat, Morocco
| | - Josiah O Kuja
- Bioinformatics Center, University of Copenhagen, Copenhagen, Denmark
| | | | - Rose A Marks
- Department of Horticulture, Michigan State University, East Lansing, MI, USA
- Department of Molecular and Cell Biology, University of Cape Town, Cape Town, South Africa
| | | | | | - Sadik Muzemil
- School of Life Science, University of Warwick, Coventry, UK
| | - Helen Nigussie
- Department of Microbial, Cellular and Molecular Biology, Addis Ababa University, Addis Ababa, Ethiopia
| | | | - Verena Ras
- Computational Biology Division, Department of Integrative Biomedical Sciences, IDM, CIDRI Africa Wellcome Trust Centre, University of Cape Town, Cape Town, South Africa
- Department of Biodiversity and Conservation Biology, University of the Western Cape, Bellville, South Africa
| | - Yves H Tchiechoua
- Pan African University Institute for Basic Sciences Technology and Innovation, Nairobi, Kenya
| | | | - Krystal A Tolley
- South African National Biodiversity Institute, Claremont, Cape Town, South Africa
- Centre for Ecological Genomics and Wildlife Conservation, University of Johannesburg, Johannesburg, South Africa
| | | | - Ntanganedzeni Mapholi
- Department of Agriculture and Animal Health, University of South Africa, Florida, South Africa
| | - Anne W T Muigai
- Jomo Kenyatta University of Agriculture and Technology, Nairobi, Kenya.
- National Defense University-Kenya, Nakuru, Kenya.
| | - Appolinaire Djikeng
- Centre for Tropical Livestock Genetics and Health, Roslin Institute, University of Edinburgh, Edinburgh, UK.
- International Livestock Research Institute, Nairobi, Kenya.
- Department of Agriculture and Animal Health, University of South Africa, Florida, South Africa.
| | - ThankGod Echezona Ebenezer
- European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Cambridge, UK.
- Early Cancer Institute, Department of Oncology, School of Clinical Medicine, University of Cambridge, Cambridge, UK.
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Chukwudozie OS, Duru VC, Ndiribe CC, Aborode AT, Oyebanji VO, Emikpe BO. The Relevance of Bioinformatics Applications in the Discovery of Vaccine Candidates and Potential Drugs for COVID-19 Treatment. Bioinform Biol Insights 2021; 15:11779322211002168. [PMID: 33795932 PMCID: PMC7968009 DOI: 10.1177/11779322211002168] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2020] [Accepted: 02/14/2021] [Indexed: 12/16/2022] Open
Abstract
The application of bioinformatics to vaccine research and drug discovery has never been so essential in the fight against infectious diseases. The greatest combat of the 21st century against a debilitating disease agent SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) virus discovered in Wuhan, China, December 2019, has piqued an unprecedented usage of bioinformatics tools in deciphering the molecular characterizations of infectious pathogens. With the viral genome data of SARS-COV-2 been made available barely weeks after the reported outbreak, bioinformatics platforms have become an all-time critical tool to gain time in the fight against the disease pandemic. Before the outbreak, different platforms have been developed to explore antigenic epitopes, predict peptide-protein docking and antibody structures, and simulate antigen-antibody reactions and lots more. However, the advent of the pandemic witnessed an upsurge in the application of these pipelines with the development of newer ones such as the Coronavirus Explorer in the development of efficacious vaccines, drug repurposing, and/or discovery. In this review, we have explored the various pipelines available for use, their relevance, and limitations in the timely development of useful therapeutic candidates from genomic data knowledge to clinical therapy.
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Affiliation(s)
| | - Vincent C Duru
- Molecular Genetics Unit, Institute of Child Health, College of Medicine, University of Ibadan, Ibadan, Nigeria
| | - Charlotte C Ndiribe
- Department of Cell Biology and Genetics, University of Lagos, Lagos, Nigeria
| | | | - Victor O Oyebanji
- Department of Veterinary Pathology, University of Ibadan, Ibadan, Nigeria
| | - Benjamin O Emikpe
- Department of Veterinary Pathology, University of Ibadan, Ibadan, Nigeria
- School of Veterinary Medicine, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana
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