With the rapid development of sequencing technologies
molecular data are accumulated with unprecedented pace which enable biologists to reconstruct the tree of life of all the organisms in the world.Moreover
the use of evolutionary trees is a fundamental step in many biological problems
such as multiple sequence alignments
protein structure and function prediction
and drug design.In this paper
we review the development and studying status of phylogeny reconstruction technology.The major limitations in phylogeny reconstruction technologies are analyzed.Then some vital aspects that may be conducted in the future investigations are discussed.