Life is fifthdimension.
This site is biologist Akifumi S. Tanabe's official web site. I may be contacted at the following. 
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
Life is fifthdimension. by Akifumi S. Tanabe is licensed under a Creative Commons Attribution-ShareAlike 2.1 Japan License.