A Survey on Evolutionary Analysis in PPI Networks

Intra-Protein Coevolution Is Increasingly Functional with Greater Proximity to Fertilization

“…Additionally, higher phyletic age and broader or early onset of expression associate with higher sequence conservation [Zhang and Li, 2004;Good and Nachman, 2005;Toll-Riera et al, 2012;Schumacher and Herlyn, 2018]. Moreover, longer 5′ and 3′ untranslated regions [Worth et al, 2009;Schumacher and Herlyn, 2018] as well as more posttranslational modifications and higher pleiotropy levels [Macek et al, 2008;Jancura and Marchiori, 2012;Schumacher et al, 2013] associate with lowered substitution rates. But these examples also demonstrate that the various untested variables should ultimately be represented in tested variable, in this case dN.…”

“…Thereby, the detailed impact of a protein-protein interaction (PPI) on sequence evolution might be modulated by various biophysical and expressive factors [Bloom and Adami, 2003;Jordan et al, 2003;Drummond et al, 2005;Franzosa and Xia, 2009;Wilke and Drummond, 2010]. But in general, additional PPIs imply greater functional constraint and thus stron-ger evolutionary conservation [reviewed in Jancura and Marchiori, 2012]. Accordingly, the number of PPIs is a main constraining factor in the evolution of mammalian testicular and sperm proteins too [e.g., Schumacher et al, 2017;Schumacher and Herlyn, 2018].…”