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.