Evolution of Gene Expression Levels in Mammalian Organs

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Genome analyses can uncover protein-coding changes that potentially underlie the differences between species, but many of the phenotypic differences between species are the result of regulatory mutations affecting gene expression. In this collaborative study headed by Prof. Henrik Kaessmann group (CIG, UNIL) we used high-throughput RNA sequencing to study the evolutionary dynamics of mammalian transcriptomes in six major tissues (cortex, cerebellum, heart, kidney, liver and testis) from ten species from all major mammalian lineages. Among the findings is the extent of transcriptome variation between organs and species, as well as the identification of potentially selectively driven expression switches that may have shaped specific organ biology. Notably for the first time we applied the Iterative Signature Algorithm (ISA) to RNAseq data identifying transcriptional units (modules) including subsets of orthologous genes that have conserved expression patterns across different sets of organs in certain species or lineages.

The article appeared online in Nature on 19 October 2011. A report on this study (in German) was published in Der Spiegel.

David Brawand, Magali Soumillon, Anamaria Necsulea, Philippe Julien, Gábor Csárdi, Patrick Harrigan, Manuela Weier, Angélica Liechti, Ayinuer Aximu-Petri, Martin Kircher, Frank W Albert, Ulrich Zeller, Philipp Khaitovich, Frank Grützner, Sven Bergmann, Rasmus Nielsen, Svante Pääbo, Henrik Kaessmann
The evolution of gene expression levels in mammalian organs.
Nature: 2011, 478(7369);343-8
[PubMed:22012392] [WorldCat.org] [DOI]