Kaessmann Lab
ZMBH Heidelberg
The molecular and cellular origins and evolution of vertebrate organs
Our lab has been interested in a range of topics related to the origins and evolution of organs in mammals and other vertebrates as well as the various underlying genomic/molecular changes. In the framework of our research, we have generated and analyzed comprehensive genomics (e.g., RNA-seq) datasets based on samples from our large organ collections. We have thus illuminated the origins and functional evolution of protein-coding genes, alternative splicing, long noncoding RNAs, microRNAs, and sex chromosomes across organs and species, as well as associated phenotypic implications. More recently, we have begun to bring the work of our lab to the level of individual cells using state-of-the-art single-cell genomics technologies and bioinformatics procedures. In a major set of new projects, we seek to scrutinize the origins and evolution of the vertebrate brain and its constituent tissues and cell types based on samples from representatives of all major vertebrate lineages, ranging from jawless vertebrates (e.g., the sea lamprey) to mammals (e.g., platypus and human). In other current projects, we investigate the evolution and development of gonads, liver and intestine (dietary adaptations), and the placenta across representative mammals.
Selected publications
Original papers
Developmental origins and evolution of pallial cell types and structures in birds
Zaremba, B., Fallahshahroudi, A., Schneider, C. et al. (2024)
bioRXiv
A male-essential microRNA is key for avian sex chromosome dosage compensation
Fallahshahroudi, A., Rodriguez-Montes, L., Yousefi Taemeh, S. et al. (2024)
bioRxiv [Preprint]
Cellular development and evolution of the mammalian cerebellum
Sepp, M., Leiss, K., Murat, F. et al. (2023)
Nature 625: 788-796 URL
Sex-biased gene expression across mammalian organ development and evolution
Rodríguez-Montes, L., Ovchinnikova, S., Yuan, X. et al. (2023)
Science 382: URL
A lamprey neural cell type atlas illuminates the origins of the vertebrate brain
Lamanna, F., Hervas-Sotomayor, F., Oel, A.P. et al. (2023)
Nat Ecol Evol 7: 1714-1728 URL
The molecular evolution of spermatogenesis across mammals
Murat, F., Mbengue, N., Winge, S.B. et al. (2022)
Nature 613: 308-316 URL
Developmental and evolutionary dynamics of cis-regulatory elements in mouse cerebellar cells
Sarropoulos, I., Sepp, M., Frömel, R. et al. (2021)
Science 373: eabg4696 URL
Alternative splicing during mammalian organ development
Mazin, P.V., Khaitovich, P., Cardoso-Moreira, M. et al. (2021)
Nat Genet 53: 925-934 URL
Transcriptome and translatome co-evolution in mammals
Wang, Z., Leushkin, E., Liechti, A. et al. (2020)
Nature 588: 642-647 URL
Gene expression across mammalian organ development
Cardoso-Moreira, M., Halbert, J., Valloton, D. et al. (2019)
Nature 571: 505-509 URL
Developmental dynamics of lncRNAs across mammalian organs and species
Sarropoulos, I., Marin, R., Cardoso-Moreira, M. et al. (2019)
Nature 571: 510-514 URL
Origins and functional evolution of Y chromosomes across mammals
Cortez, D., Marin, R., Toledo-Flores, D. et al. (2014)
Nature 508: 488-493 URL
The evolution of lncRNA repertoires and expression patterns in tetrapods
Necsulea, A., Soumillon, M., Warnefors, M. et al. (2014)
Nature 505: 635-640 URL
The evolution of gene expression levels in mammalian organs
Brawand, D., Soumillon, M., Necsulea, A. et al. (2011)
Nature 478: 343-348 URL
Reviews
Evolutionary dynamics of coding and non-coding transcriptomes
Necsulea, A., Kaessmann, H. (2014)
Nat Rev Genet 15: 734-748 URL
Origins, evolution, and phenotypic impact of new genes
Kaessmann, H. (2010)
Genome Res. 20: 1313-1326 URL
RNA-based gene duplication: mechanistic and evolutionary insights
Kaessmann, H., Vinckenbosch, N., Long, M. (2008)
Nat Rev Genet 10: 19-31 URL
Current and previous funding
NOMIS Foundation
European Molecular Biology Organization
European Research Council
The Federation of European Biochemical Societies (FEBS)
Human Frontier Science Program
Roche Research Foundation
Swiss National Science Foundation
Lausanne University
Heidelberg University
Deutsche Forschungsgemeinschaft (DFG)
CellNetworks
Come and work with us!
We are always interested in applications from highly qualified and motivated
- bioinformatics postdocs,
- experimental (genomics/molecular/developmental biology) postdocs,
- and bioinformatics PhD students.
Please send applications and other requests to Henrik Kaessmann.
Contact
Administration: office-kaessmann@zmbh.uni-heidelberg.de
Lab Email: kaessmannlab@zmbh.uni-heidelberg.de