That biological features may change their function during evolution has lon
g been recognized. Particularly, the acquisition of new functions by molecu
les involved in developmental pathways is suspected to cause important morp
hologic novelties. However, the current terminology describing functional c
hanges during evolution (co-option or recruitment) fails to recognize impor
tant biologic distinctions between diverse evolutionary routes involving fu
nctional shifts. The main goal of our work is to stress the importance of a
n apparently trivial distinction: Whether or not the element that adopts a
new function (anything from a morphologic structure to a protein domain) is
a single or a duplicated element. We propose that natural selection must a
ct in a radically different way, depending on the historic succession of cc
-option and duplication events; that is, co-option may provide the selectiv
e pressure for a subsequent gene duplication or could be a stabilizing fact
or that helps maintain redundancy after gene duplication, We review the evi
dence available on functional changes, focusing whenever possible on develo
pmental molecules, and we propose a conceptual framework for the study of f
unctional shifts during evolution with a level of resolution appropriate to
the power of our current methodologies. (C) 1999 John Wiley & Sons, Inc.