Sofia Kirke Forslund, PhD

2012-2018 SCB EMBL, Heidelberg 
 2018- ECRC MDC, Berlin 
Metagenomics, evolution, antibiotic resistance, cardiometabolic health, orthology
"Sofia Forslund"

Dr Sofia Kirke Forslund (published as Kristoffer Forslund prior to transition in 2018) trained as a molecular biotechnologist in Uppsala, then in 2011 aquired a PhD in computational biology in Stockholm. After post-doctoral research at the EMBL she founded in 2018 the Host-Microbiome Systems Medicine of Cardiometabolic Disease group at the ECRC (joint MDC/Charité venture) in Berlin. Her work to date has focused in three main areas.

1) Evolutionary and systems bioinformatics tool development, confounder analysis and big data integration. Analysis of gene and genome evolution, including gene function prediction, is necessary to make the most of high-throughput “-omics” datasets. Furthermore, as the work of the lab has shown, human systems biology very strongly reflects patient demographics, risk factors and treatment effects, making it essential to account for confounding factors in bioinformatics analysis. The Forslund lab develops and benchmarks such “covariate-aware” analysis tools as well as tools for data integration.

2) Metagenome analyses of pathogenicity of microbiomes including antibiotic resistance. Bridging evolutionary bioinformatics to human-associated and environmental microbiome sequencing, the Forslund lab explores the evolutionary, ecosystem and clinical distributions of opportunistic pathogens, virulence capacity, and antibiotic resistance, and explores the role of external risk factors. Notable results include effects of antibiotic exposure at the population and individual levels, including reporting evidence of a role of antibiotics in food production driving resistance of bacteria in the human gut.

3) Roles of microbiota in rise, treatment, diagnosis and management of systemic disease or health of the host. The Forslund lab, in various collaborations, have linked the microbiome to type 2 diabetes, insulin resistance and hypertension, and are assessing the role of diet or medication in affecting this system with the goal of developing personalized medicine and nutrition platforms for complex diseases of the host.

Twitter: @forslund_lab, @inanna_nalytica ; website:
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Erik Sonnhammer grad student 2006-2011 Stockholm University
Peer Bork post-doc (Neurotree)
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Kushugulova A, Löber U, Akpanova S, et al. (2021) Dynamic Changes in Microbiome Composition Following Mare's Milk Intake for Prevention of Collateral Antibiotic Effect. Frontiers in Cellular and Infection Microbiology. 11: 622735
Vieira-Silva S, Falony G, Belda E, et al. (2020) Statin therapy is associated with lower prevalence of gut microbiota dysbiosis. Nature. 581: 310-315
Bartolomaeus H, Avery EG, Bartolomaeus TUP, et al. (2020) Blood Pressure Changes Correlate with Short-Chain Fatty Acids Production Shifts Under a Synbiotic Intervention. Cardiovascular Research
Persson E, Kaduk M, Forslund SK, et al. (2019) Domainoid: domain-oriented orthology inference. Bmc Bioinformatics. 20: 523
Mende DR, Letunic I, Maistrenko OM, et al. (2019) proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes. Nucleic Acids Research
Forslund SK, Kaduk M, Sonnhammer ELL. (2019) Evolution of Protein Domain Architectures. Methods in Molecular Biology (Clifton, N.J.). 1910: 469-504
Glover N, Dessimoz C, Ebersberger I, et al. (2019) Advances and Applications in the Quest for Orthologs. Molecular Biology and Evolution
Hildebrand F, Moitinho-Silva L, Blasche S, et al. (2019) Antibiotics-induced monodominance of a novel gut bacterial order. Gut
Bartolomaeus H, Balogh A, Yakoub M, et al. (2018) The Short-Chain Fatty Acid Propionate Protects from Hypertensive Cardiovascular Damage. Circulation
Huerta-Cepas J, Szklarczyk D, Heller D, et al. (2018) eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses. Nucleic Acids Research
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