Spectrum of Protein Location in Proteomes Captures Evolutionary Relationship Between Species

• DOI: 10.1007/s00239-021-10022-4
• Publication Date: 2021-07-30T14:02:39Z
• Authors: Valérie Marot-Las...; Tatyana Goldberg; Jose Juan Almagro...; Henrik Nielsen; Burkhard Rost
• Keywords: Proteome; Homo sapiens; Gorilla; Coevolution

Abstract The native subcellular location (also referred to as localization or cellular compartment) of a protein is the one in which it acts most frequently; aspect function. Do ten eukaryotic model organisms differ their spectrum , i.e., fraction its proteome each seven major compartments? As experimental annotations locations remain biased and incomplete, we need prediction methods answer this question. After systematic bias corrections, complete but faulty appeared be more appropriate compare spectra between species than incomplete accurate data. This work compared for eukaryotes: Homo sapiens (human), Gorilla gorilla (gorilla), Pan troglodytes (chimpanzee), Mus musculus (mouse), Rattus norvegicus (rat), Drosophila melanogaster (fruit/vinegar fly), Anopheles gambiae (African malaria mosquito), Caenorhabitis elegans (nematode), Saccharomyces cerevisiae (baker’s yeast), Schizosaccharomyces pombe (fission yeast). two largest classes were predicted nucleus cytoplasm together accounting 47–62% all proteins, while 7–21% proteins plasma membrane 4–15% secreted. Overall, largely similar. However, detail, differences sufficed plot trees (UPGMA) 2D (PCA) maps relating using simple Euclidean distance states (location classes). relations based on captured aspects cross-species comparisons usually revealed only by much detailed evolutionary comparisons. Most interestingly, known phylogenetic reproduced better paralog-only ortholog-only trees.