Life is fifthdimension.
This site is biologist Akifumi S. Tanabe's official web site. I may be contacted at the following. ![add](ma.jpg)
Research interest
Evolutionary community ecology and the methods on this area such as phylogenetic inference, phylogenetic comparative methods, divergence time estimation, population genomics, DNA barcoding and metabarcoding.
Profile
- Position
- Assistant professor
- Affiliation
- Graduate School of Life Science, Tohoku University, Japan
Biography
- Nov. 26, 1980
- Born in Hisai city, Mie prefecture, Japan
- Apr., 1987
- Enrolled in Seishi city-run elementary school
- Mar., 1993
- Graduated from Seishi city-run elementary school
- Apr., 1993
- Enrolled in Takada junior high and senior high school
- Mar., 1999
- Graduated from Takada junior high and senior high school
- Apr., 1999
- Enrolled in Department of Biology, Geology and Environmental sciences, Faculty of Science, Shizuoka University
- Mar., 2003
- Graduated from Department of Biology, Geology and Environmental sciences, Faculty of Science, Shizuoka University
- Apr., 2003
- Enrolled in master's cource of Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University
- Mar., 2005
- Completed master's cource of Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University
- Apr., 2005
- Enrolled in doctoral cource of Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University
- Sep., 2008
- Completed doctoral cource of Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University
- Oct., 2008
- Accepted as postdoctoral research associate of Laboratory of Community and Ecosystem Ecology, Division of Ecology and Evolutionary Biology, Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University
- Mar., 2009
- Left postdoctoral research associate of Laboratory of Community and Ecosystem Ecology, Division of Ecology and Evolutionary Biology, Department of Environmental Life Sciences, Graduate School of Life Sciences, Tohoku University
- Apr., 2009
- Accepted as postdoctoral research associate of Institute of Biological Sciences, Graduate School of Life and Environmental Sciences, University of Tsukuba
- Mar., 2011
- Left postdoctoral research associate of Institute of Biological Sciences, Graduate School of Life and Environmental Sciences, University of Tsukuba
- Apr., 2011
- Accepted as junior assistant professor of Institute of Biological Sciences, Graduate School of Life and Environmental Sciences, University of Tsukuba
- Aug., 2011
- Left junior assistant professor of Institute of Biological Sciences, Graduate School of Life and Environmental Sciences, University of Tsukuba
- Sep., 2011
- Accepted as program-specific researcher of Graduate School of Science, Kyoto University
- Mar., 2012
- Left program-specific researcher of Graduate School of Science, Kyoto University
- Apr., 2012
- Accepted as program-specific researcher of Graduate School of Global Environmental Studies, Kyoto University
- Jan., 2013
- Left program-specific researcher of Graduate School of Global Environmental Studies, Kyoto University
- Feb., 2013
- Accepted as researcher of National Research Institute of Fisheries Science, Fisheries Research Agency
- Jan., 2017
- Left researcher of National Research Institute of Fisheries Science, Fisheries Research and Education Agency
- Feb., 2017
- Accepted as postdoctoral researcher of Graduate School of Science, Kobe University
- Jan., 2018
- Left postdoctoral researcher of Graduate School of Science, Kobe University
- Feb., 2018
- Accepted as postdoctoral researcher of Joint Research Center for Science and Technology, Ryukoku University
- Mar., 2019
- Left postdoctoral researcher of Joint Research Center for Science and Technology, Ryukoku University
- Apr., 2019
- Accepted as postdoctoral researcher of Center for Ecological Research, Kyoto University
- Oct., 2019
- Left postdoctoral researcher of Center for Ecological Research, Kyoto University
- Nov., 2019
- Accepted as assistant professor of Graduate School of Life Science, Tohoku University
Ph.D. dissertation
- Tanabe, A. S., 2008, "How to walk in the misty forest: new approaches to decode the tree of life", Ph.D. dissertation, Tohoku University, Sendai, Japan.
Publications
- in English
- in Japanese
- Tanabe, A. S., 2015, "Framework and algorithms in metabarcoding", Bulletin of Plankton Society of Japan, 62, 1-5.
- Tanabe, A. S. and Chiba, S., 2014, "Toward the science of disruption and recovery", Japanese Journal of Ecology, 64, 79-80.
- Tanabe, A. S., 2014, "What is derived from an encounter between ecology and planetary science?", Japanese Journal of Ecology, 64, 37-38.
- Tanabe, A. S. and Honda, M., 2010, "Methods of phylogenetic reconstruction based on DNA sequences and their applications to herpetological studies", Bulletin of the Herpetological Society of Japan, 2010, 144-156.
- Takeuchi, H. and Tanabe, A. S., 2001, "ATOK13/14/MS-IME98/2000 and Life Science Dictionary", Life Science Dictionary, revised edition (Kaneko, S., ed.), 82-92, Yodosha, Tokyo.
- Takeuchi, H. and Tanabe, A. S., 2001, "Personal Dictionary (PDIC) for Win32", Life Science Dictionary, revised edition (Kaneko, S., ed.), 112-125, Yodosha, Tokyo.
- Takeuchi, H. and Tanabe, A. S., 2001, "DDwin", Life Science Dictionary, revised edition (Kaneko, S., ed.), 126-134, Yodosha, Tokyo.
- Takeuchi, H. and Tanabe, A. S., 2001, "Usage of Life Science Dictionary on Zaurus", Life Science Dictionary, revised edition (Kaneko, S., ed.), 135-149, Yodosha, Tokyo.
Products
- Assams-assembler
- A high-throughput long-read assembler based on overlap/layout/consensus framework
- Claident
- A software package for rapid sequence classification and accurate taxonomic identification of host organisms of sequences for metagenomic and barcoding studies
- CombineTrees
- Combining same topology trees with averaging branch lengths
- DistCalc
- Geographic distance calculator from longitude and latitude
- Kakusan
- Nucleotide substitution model selection script written in Perl language for multi-partitioned data set
- Aminosan
- Amino-acid substitution model selection script written in Perl language for multi-partitioned data set
- MrBayes5D
- A modified version of MrBayes to apply more amino-acid models
- Phylogears
- Flexible tools package for parallel and high-throuput phylogenetic tree reconstruction
Documents