ViPS Invited Seminar March 2024

Stefania Giacomello, Royal Institute of Technology (KTH), Sweden

Date: 13th March2024

Time: 13:00

Title: Get n from 1: beyond the host's spatial transcriptome

Location: Seminar room K1088, Viikki Info Centre, Viikinkaari 11

Host: Anne Vaten

Abstract: I will present our latest technology developments to study host-pathogen interactions at the spatial level and give an overview of our efforts in mapping the spatiotemporal dynamics of the reproductive development of Norway spruce cones.

Stefania Giacomello is Associate Professor in Spatial Biology at KTH Royal Institute of Technology and Group Leader at SciLifeLab (Stockholm, Sweden). Her research group develops new approaches for different spatially resolved modalities to study how cell localization influences biological processes across kingdoms. 

Dr. Giacomello developed a multidisciplinary set of skills by studying Biotechnology at the University of Udine (Italy) and working in Plant Genomics at the National Institute of Agricultural Botany (NIAB, Cambridge, UK) before moving back to conduct her Ph.D in Plant Genomics. In 2013, she started a postdoc at SciLifeLab where she contributed to the development of Spatial Transcriptomics, a technology that allows to generate 2D gene expression maps of tissue sections, and extended it to plants. Between 2016 and 2018 she was a Senior Bioinformatician at the National Bioinformatics Infrastructure of Sweden and specialized in the analysis of single-cell and spatial transcriptomics data before starting her research group in 2019.

Among the projects of her lab, there are the development of spatial methods to study spatial host-pathogen interactions in plants and animal tissues, the spatiotemporal study of the reproductive development in Norway spruce cones and the spatial analysis of the impact of spaceflight on mouse brain.

Read more about Stefania's work

Related publications:

-  Spatial metatranscriptomics resolves host-bacteria-fungi interactomes.
Saarenpää S, Shalev O, Ashkenazy H, Carlos V, Lundberg DS, Weigel D, Giacomello S.Nat Biotechnol. 2023 Nov 20. doi: 10.1038/s41587-023-01979-2. Online ahead of print.
PMID: 37985875

-  Dual spatially resolved transcriptomics for human host-pathogen colocalization studies in FFPE tissue sections.
Sounart H, Lázár E, Masarapu Y, Wu J, Várkonyi T, Glasz T, Kiss A, Borgström E, Hill A, Rezene S, Gupta S, Jurek A, Niesnerová A, Druid H, Bergmann O, Giacomello S.Genome Biol. 2023 Oct 19;24(1):237. doi: 10.1186/s13059-023-03080-y. PMID: 37858234 

-  Miniature spatial transcriptomics for studying parasite-endosymbiont relationships at the micro scale.
Sounart H, Voronin D, Masarapu Y, Chung M, Saarenpää S, Ghedin E, Giacomello S.Nat Commun. 2023 Oct 14;14(1):6500. doi: 10.1038/s41467-023-42237-y. PMID: 37838705 

- A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart.
Asp M, Giacomello S, Larsson L, Wu C, Fürth D, Qian X, Wärdell E, Custodio J, Reimegård J, Salmén F, Österholm C, Ståhl PL, Sundström E, Åkesson E, Bergmann O, Bienko M, Månsson-Broberg A, Nilsson M, Sylvén C, Lundeberg J.Cell. 2019 Dec 12;179(7):1647-1660.e19. doi: 10.1016/j.cell.2019.11.025. PMID: 31835037 

- Spatially resolved transcriptome profiling in model plant species.
Giacomello S, Salmén F, Terebieniec BK, Vickovic S, Navarro JF, Alexeyenko A, Reimegård J, McKee LS, Mannapperuma C, Bulone V, Ståhl PL, Sundström JF, Street NR, Lundeberg J.Nat Plants. 2017 May 8;3:17061. doi: 10.1038/nplants.2017.61.PMID: 28481330