Dr Michaël Bekaert

Senior Lecturer

Institute of Aquaculture Pathfoot Building, University of Stirling, Stirling, FK9 4LA

Dr Michaël Bekaert

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About me

About me

I am a computational biologist (Genome evolution & population genetics). My current research projects rely on the most up to date next generation sequencing technologies, their applications in aquaculture, and principles and methodologies for the analysis of genomic and transcriptomic large datasets using bioinformatic methods, algorithm, and databases.

Research (10)

I have a number of research interests including:
Seaweeds farming programmes; Evolution and conservation of sex chromosomes; Drug resistance mechanisms; Genome Sequencing and characterisation of highly virulent bacterial strain; Genetic diversity and connectivity of marine organisms; Gene and genome duplications.

Projects

AQUAculture Infrastructures For EXCELlence In European Fish Research 3
PI: Dr Sonia Rey Planellas
Funded by: European Commission (Horizon 2020)

Development of a rapid molecular tool for the identification of fouling epibionts in Blue Mussel farms
PI: Dr Michaël Bekaert
Funded by: Scottish Aquaculture Innovation Centre

AquaLeap: Innovation in Genetics and Breeding to Advance UK Aquaculture Production
PI: Dr Alejandro Gutierrez
Funded by: Biotechnology and Biological Sciences Research Council

Efficacy testing of immersion and oral vaccines for Aeromonas hydrophila in Tilapia an Vietnamese catfish
PI: Dr Andrew Desbois
Funded by: International Veterinary Vaccinology Network

AquaExcel2020
PI: Dr Sonia Rey Planellas
Funded by: European Commission (Horizon 2020)

Genomic breeding for gill health and lice resistance in salmon: Towards a step improvement in accuracy and affordability
PI: Professor James Bron
Funded by: Scottish Aquaculture Innovation Centre

ParaFishControl - Advanced Tools and Research Strategies for Parasite Control in European farmed fish
PI: Professor James Bron
Funded by: European Commission (Horizon 2020)

Optimsation and implementation of sterile triploid salmon in Scotland
PI: Professor Herve Migaud
Funded by: Biotechnology and Biological Sciences Research Council

Identifying molecular determinants of drug susceptibility in salmon lice (Lepeophtheirus salmonis)
PI:
Funded by: Biotechnology and Biological Sciences Research Council

Identifying molecular determinants of drug susceptibility in salmon lice (Lepeophtheirus salmonis)
PI: Dr Armin Sturm
Funded by: Salmon Scotland

Outputs (81)

Outputs

Article

Elmagzoub WA, Idris SM, Isameldin M, Arabi N, Abdo A, Ibrahim M, Khan MAA, Tanneberger F, Bakhiet SM, Okuni JB, Ojok L, Gameel AA, Abd El Wahed A, Bekaert M & Mukhtar ME (2022) Mycobacterium avium subsp. paratuberculosis and microbiome profile of patients in a referral gastrointestinal diseases centre in the Sudan. PLoS ONE, 17 (4), Art. No.: e0266533. https://doi.org/10.1371/journal.pone.0266533

Article

Tschesche C, Bekaert M, Bassett DI, Mitchell C, North B, Boyd S, Carmona‐Antoñanzas G, Bron JE & Sturm A (2021) Investigation of deltamethrin resistance in salmon lice (Lepeophtheirus salmonis) provides no evidence for roles of mutations in voltage-gated sodium channels. Pest Management Science, 77 (2), pp. 1052-1060. https://doi.org/10.1002/ps.6120

Article

AmbuAli A, Monaghan SJ, McLean K, Inglis NF, Bekaert M, Wehner S & Bron JE (2020) Identification of proteins from the secretory/excretory products (SEPs) of the branchiuran ectoparasite Argulus foliaceus (Linnaeus, 1758) reveals unique secreted proteins amongst haematophagous ecdysozoa. Parasites and Vectors, 13 (1), Art. No.: 88. https://doi.org/10.1186/s13071-020-3964-z

Article

Coyle NM, Bartie KL, Bayliss SC, Bekaert M, Adams A, McMillan S, Verner-Jeffreys DW, Desbois AP & Feil EJ (2020) A Hopeful Sea-Monster: A Very Large Homologous Recombination Event Impacting the Core Genome of the Marine Pathogen Vibrio anguillarum. Frontiers in Microbiology, 11, Art. No.: 1430. https://doi.org/10.3389/fmicb.2020.01430

Book Chapter

Hansen S, Faye O, Sanabani SS, Faye M, Böhlken-Fascher S, Faye O, Sall AA, Bekaert M, Weidmann M, Czerny C & Abd El Wahed A (2020) Zika Virus Amplification Using Strand Displacement Isothermal Method and Sequencing Using Nanopore Technology. In: Kobinger G & Racin T (eds.) Zika Virus: Methods and Protocols. Methods in Molecular Biology, 2142. New York: Springer, pp. 123-136. https://doi.org/10.1007/978-1-0716-0581-3_11

Book Chapter

Lopez-Jimena B, Bakheit M, Bekaert M, Harold G, Frischmann S, Fall C, Diagne CT, Faye O, Faye O, Sall AA & Weidmann M (2020) Development and Validation of Real-Time RT-LAMP Assays for the Specific Detection of Zika Virus. In: Kobinger G & Racine T (eds.) Zika Virus: Methods and Protocols. Methods in Molecular Biology, 2142. New York: Springer, pp. 147-164. https://doi.org/10.1007/978-1-0716-0581-3_13

Article

Huyben D, Roehe BK, Bekaert M, Ruyter B & Glencross B (2020) Dietary Lipid:Protein Ratio and n-3 Long-Chain Polyunsaturated Fatty Acids Alters the Gut Microbiome of Atlantic Salmon Under Hypoxic and Normoxic Conditions. Frontiers in Microbiology, 11, Art. No.: 589898. https://doi.org/10.3389/fmicb.2020.589898

Article

Syaifudin M, Bekaert M, Taggart JB, Bartie KL, Wehner S, Palaiokostas C, Khan MGQ, Selly SC, Hulata G, D’Cotta H, Baroiller J, McAndrew BJ & Penman DJ (2019) Species-Specific Marker Discovery in Tilapia. Scientific Reports, 9, Art. No.: 13001. https://doi.org/10.1038/s41598-019-48339-2

Article

Razgour O, Forester B, Taggart JB, Bekaert M, Juste J, Ibáñez C, Puechmaille SJ, Novella-Fernandez R, Alberdi A & Manel S (2019) Considering adaptive genetic variation in climate change vulnerability assessment reduces species range loss projections. Proceedings of the National Academy of Sciences of the United States of America, 116 (21), pp. 10418-10423. https://doi.org/10.1073/pnas.1820663116

Article

Hansen S, Faye O, Sanabani SS, Faye M, Böhlken-Fascher S, Faye O, Sall AA, Bekaert M, Weidmann M, Czerny C & Abd El Wahed A (2018) Combination Random Isothermal Amplification and Nanopore Sequencing For Rapid Identification of the Causative Agent of an Outbreak. Journal of Clinical Virology, 106, pp. 23-27. https://doi.org/10.1016/j.jcv.2018.07.001

Article

Lopez-Jimena B, Bekaert M, Bakheit M, Frischmann S, Patel P, Simon-Loriere E, Lambrechts L, Duong V, Dussart P, Harold G, Fall C, Faye O, Sall AA & Weidmann M (2018) Development and validation of four one-step real-time RT-LAMP assays for specific detection of each dengue virus serotype [Detection of each DENV serotype by RT-LAMP]. PLOS Neglected Tropical Diseases, 12 (5), Art. No.: e0006381. https://doi.org/10.1371/journal.pntd.0006381

Article

Utsunomia R, Scacchetti PC, Hermida M, Fernandez-Cebrian R, Taboada X, Fernandez C, Bekaert M, Mendes NJ, Robledo D, Mank JE, Taggart J, Oliveira C, Foresti F & Martinez P (2017) Evolution and conservation of Characidium sex chromosomes. Heredity, 119 (4), pp. 237-244. https://doi.org/10.1038/hdy.2017.43

Article

Carmona-Antoñanzas G, Bekaert M, Humble JL, Boyd S, Roy W, Bassett DI, Houston RD, Gharbi K, Bron JE & Sturm A (2017) Maternal inheritance of deltamethrin resistance in the salmon louse Lepeophtheirus salmonis (Krøyer) is associated with unique mtDNA haplotypes. PLoS ONE, 12 (7), Art. No.: e0180625. http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0180625; https://doi.org/10.1371/journal.pone.0180625

Article

Ramirez-Paredes J, Larsson P, Wehner S, Bekaert M, Ohrman C, Metselaar M, Thompson KD, Richards R, Penman D & Adams A (2017) Draft Genome Sequence of Francisella noatunensis subsp. orientalis STIR-GUS-F2f7, a Highly Virulent Strain Recovered from Diseased Red Nile Tilapia Farmed in Europe. Genome Announcements, 5 (11), Art. No.: e01555-16. https://doi.org/10.1128/genomeA.01555-16

Book Chapter

McAndrew B, Penman D, Bekaert M & Wehner S (2016) Tilapia genomic studies. In: MacKenzie S & Jentoft S (eds.) Genomics in Aquaculture. London: Elsevier, pp. 105-130. http://store.elsevier.com/Genomics-in-Aquaculture/isbn-9780128014189/

Article

Sirimanapong W, Thompson KD, Ooi EL, Bekaert M, Collet B, Taggart J, Bron J, Green D, Shinn A, Adams A & Leaver M (2015) The effects of feeding β-glucan to Pangasianodon hypophthalmus on immune gene expression and resistance to Edwardsiella ictaluri. Fish and Shellfish Immunology, 47 (1), pp. 595-605. https://doi.org/10.1016/j.fsi.2015.09.042

Article

Edger PP, Heidel-Fischer HM, Bekaert M, Rota J, Glockner G, Platts AE, Pires JC, Heckel DG, Der JP, Wafula EK, Tang M, Hofberger JA, Smithson A, Hall JC & Blanchette M (2015) The butterfly plant arms-race escalated by gene and genome duplications. Proceedings of the National Academy of Sciences, 112 (27), pp. 8362-8366. https://doi.org/10.1073/pnas.1503926112

Article

Walsh P, Bekaert M, Carroll J, Manning T, Kelly B, O'Driscoll A, Lu X, Smith C, Dickinson P, Templeton K, Ghazal P & Sleator RD (2015) Draft Genome Sequences of Six Different Staphylococcus epidermidis Clones, Isolated Individually from Preterm Neonates Presenting with Sepsis at Edinburgh's Royal Infirmary. Genome Announcements, 3 (3), Art. No.: e00471-15. https://doi.org/10.1128/genomeA.00471-15

Article

Carmichael SN, Bron J, Taggart J, Ireland J, Bekaert M, Burgess S, Skuce P, Nisbet A, Gharbi K & Sturm A (2013) Salmon lice (Lepeophtheirus salmonis) showing varying emamectin benzoate susceptibilities differ in neuronal acetylcholine receptor and GABA-gated chloride channel mRNA expression. BMC Genomics, 14, Art. No.: 408. https://doi.org/10.1186/1471-2164-14-408

Book Chapter

Bekaert M (2010) Computational resources for studying recoding. In: Atkins, JF, Gesteland & RF (eds.) Recoding: expansion of decoding rules enriches gene expression. Nucleic acids and molecular biology, 24. Berlin: Springer, pp. 435-461. http://dx.doi.org/10.1007/978-0-387-89382-2_20

Article

Hayden S, Bekaert M, Crider TA, Mariani S, Murphy WJ & Teeling EC (2010) Ecological adaptation determines functional mammalian olfactory subgenomes [Sara Hayden1,3, Michaël Bekaert1,3, Tess A. Crider2, Stefano Mariani1, William J. Murphy2,4 and Emma C. Teeling1,4]. Genome Research, 20 (1), pp. 1-9. https://doi.org/10.1101/gr.099416.109