Work

Automated simultaneous analysis phylogenetics (ASAP): an enabling tool for phlyogenomics

Year: 2008

Type: article

Abstract: BACKGROUND: The availability of sequences from whole genomes to reconstruct the tree of life has the potential to enable the development of phylogenomic hypotheses in ways that have not been before possible. A significant bottleneck in the analysis of genomic-scale views of the tree of life is the time required for manual curation of genomic data into multi-gene phylogenetic matrices. RESULTS: To keep pace with the exponentially growing volume of molecular data in the genomic era, we have developed an automated technique, ASAP (Automated Simultaneous Analysis Phylogenetics), to assemble these multigene/multi species matrices and to evaluate the significance of individual genes within the context of a given phylogenetic hypothesis. CONCLUSION: Applications of ASAP may enable scientists to re-evaluate species relationships and to develop new phylogenomic hypotheses based on genome-scale data.

Source: BMC Bioinformatics

DOI: 10.1186/1471-2105-9-103

Authors: Indra Neil Sarkar, Mary G Egan, Gloria Coruzzi, Ernest K Lee, Rob DeSalle

Institutions: Marine Biological Laboratory, Montclair State University, New York University, American Museum of Natural History

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: gold

Estimated APC paid: $2,990

Funders: National Science Foundation, Ellison Medical Foundation, Division of Biological Infrastructure