Davin Setiamarga

Profile Information

Affiliation: 准教授, 生物応用化学科, 和歌山工業高等専門学校
: Visiting Researcher, The University Museum, The University of Tokyo

Degree: Ph.D.(The University of Tokyo)

J-GLOBAL ID: 201601010280772509
researchmap Member ID: B000269401

External link: https://sites.google.com/site/dsetiamarga/home

I am an environmental biologist, conducting research on biodiversity, evolution, systematics of living organisms, as well as environmental conservation and marine biology. I mainly utilize methods of molecular biology and genetics, comparative genomics, and biotechnology. My target organisms vary, from metazoans to eubacteria.
Recently, I also started research collaborations on environmental / marine civil engineering and geochemistry.

Research Areas

Research History

Apr, 2017 - Present

Associate Professor, Department of Applied Chemistry and Biochemistry, National Institute of Technology, Wakayama College
Apr, 2015 - Present

Visiting Researcher, The University Museum, The University of Tokyo
Apr, 2015 - Apr, 2018

Visiting Researcher, Graduate School of Science, Department of Earth and Planetary Sciences, The University of Tokyo
Apr, 2015 - Mar, 2017

Junior Associate Professor, Department of Material Sciences, National Institute of Technology, Wakayama College
Oct, 2014 - Mar, 2015

Assistant Consultant, Indonesia Research Institute, Japan (Co. Ltd.)
Sep, 2014 - Mar, 2015

Project Researcher, Department of Earth and Planetary Sciences, The University of Tokyo
Sep, 2012 - Aug, 2014

JSPS Foreign Postdoctoral Researcher, Department of Earth and Planetary Sciences, The University of Tokyo
Aug, 2011 - Aug, 2012

Project Researcher, Graduate School of Science, The University of Tokyo
Apr, 2009 - Jul, 2011

Postdoctoral Research Associate, Cell and Developmental Biology, Scripps Institution of Oceanography, University of California, San Diego

Education

Apr, 2005 - Mar, 2009

Department of Biological Sciences, Graduate School of Science Doctorate Course, The University of Tokyo
Apr, 2003 - Mar, 2005

Department of Biological Sciences, Graduate School of Science Master Course, The University of Tokyo
Apr, 2002 - Mar, 2003

Department of Biology（Undergrad Research Student), Faculty of Science, The University of Tokyo
Apr, 1999 - Mar, 2003

Department of Biobusiness Information and Food Studies, Faculty of International Agriculture and Food Studies, Tokyo University of Agriculture
Aug, 1998 - Feb, 1999

Department of Community Nutrition and Family Resources Planning, Faculty of Agriculture, Bogor Agricultural University（Dropout）

Papers

Microstructural and Genetic Insights Into the Formation of the “Winter Diffusion Layer” in Japanese Pearl Oyster Pinctada fucata and Its Relation to Environmental Temperature Changes

Kei Sato, Davin H. E. Setiamarga, Hiroshi Yonemitsu, Keita Higuchi

Frontiers in Ecology and Evolution, 10, Mar 17, 2022
Molecular phylogeny of Nipponacmea (Patellogastropoda, Lottiidae) from Japan: a re-evaluation of species taxonomy and morphological diagnosis

Shinnosuke Teruya, Davin H. E. Setiamarga, Tomoyuki Nakano, Takenori Sasaki

ZooKeys, 1087 163-198, Feb 25, 2022
Gene recruitments and dismissals in argonaut octopus genome provide insights to pelagic lifestyle adaptation and shell-like eggcase reacquisition

Masa-aki Yoshida, Kazuki Hirota, Junichi Imoto, Miki Okuno, Hiroyuki Tanaka, Rei Kajitani, Atsushi Toyoda, Takehiko Itoh, Kazuho Ikeo, Takenori Sasaki, Davin H. E. Setiamarga

Nov 10, 2021
Independent adoptions of a set of proteins found in the matrix of the mineralized shell-like eggcase of Argonaut octopuses

Davin H. E. Setiamarga, Kazuki Hirota, Risa Ikai, Seiji Imoto, Noriyoshi Sato, Hiroki Ono, Yukinobu Isowa, Hiroshi Yonemitsu, Takenori Sasaki, Masa-aki Yoshida

Jul 12, 2021
Complete mitochondrial genome of the Pacific limpet Cellana nigrolineata (Gastropoda: Patellogastropoda) determined by shotgun sequencing using the Illumina NGS platform

Satoko Nakashima, Moe Shimizu, Kazuki Hirota, Shimpei F. Hiruta, Nakaji Nagisa, Toshihiko Fujita, Takenori Sasaki, Davin H. E. Setiamarga

Mitochondrial DNA Part B, 6(7) 1857-1859, Jul 3, 2021 Peer-reviewedLast authorCorresponding author
The Evolutionary Story of the Cephalopod Shell: A Molecular Paleontological Approach to the Evolutionary Saga of an Important Morphological Character

Setiamarga DHE

Aquabiology, (254), 2021 Peer-reviewedInvitedLead authorLast authorCorresponding author
The full mitochondrial genome sequence of the greater argonaut Argonauta argo (Cephalopoda, Argonautoidea) and its phylogenetic position in Octopodiformes

Hirota K, Yoshida MA, Itoh T, Toyoda A, Setiamarga DHE

Mitochondrial DNA B: Resources, 6(4) 1451-1453, 2021 Peer-reviewedLast authorCorresponding author
The first complete mitochondrial genome of the northern Pacific deep-sea goniasterid sea star Ceramaster japonicus (Sladen, 1889) determined using NGS-based shotgun sequencing

Yamamoto M, Hiruta SF, Arai M, Shimizu M, Mah CL, Fujita T, Setiamarga DHE

Mitochondrial DNA B: Resources, 6(4) 1406-1408, 2021 Peer-reviewedLast authorCorresponding author
Full genome sequence of a Bacillus safensis strain IDN1 isolated from commercially available natto in Indonesia

Yoshida MA, Uomi M, Ikai T, Ilado T, Waturangi D, Ekaputri JJ, Setiamarga DHE

Microbiology Resource Announcements, 10(15) e00180-21, 2021 Peer-reviewedLast authorCorresponding author
Hydrophilic Shell Matrix Proteins ofNautilus pompiliusand The Identification of a Core Set of Conchiferan Domains

Davin H. E. Setiamarga, Kazuki Hirota, Masa-aki Yoshida, Yusuke Takeda, Keiji Kito, Keisuke Shimizu, Yukinobu Isowa, Kazuho Ikeo, Takenori Sasaki, Kazuyoshi Endo

Nov 16, 2020
142

Museum conservation science of marine invertebrate immersion specimens : Biochemical composition changes of asari clam immersion specimens

Nishimoto M, Oohara T, Yamamoto M, Sasaki T, Setiamarga DHE

Proceedings of the The 28th Ocean Engineering Symposium 2020, OES28-0045 1-4, 2020 Last authorCorresponding author
445

Assessment of the mitochondrial gene 12S-rRNA for DNA Barcoding of shelled gastropods museum samples

Nakashima S, Nakaji N, Tu DV, Sasaki T, Setiamarga DHE

Proceedings of the The 28th Ocean Engineering Symposium 2020, OES28-0027 1-6, 2020 Last authorCorresponding author
Molecular characterizations of a Carbonic Anhydrase-producing bacterium isolated from a natto in Indonesia to be used in bioconcrete development

Ikai T, Uomi M, Waturangi D, Yonemitsu H, Yoshida M, Ekaputri JJ, Setiamarga DHE

Proceedings of The 6th International Conference on Science, Engineering and Environment (SEE) 2020, 346-352, 2020 Peer-reviewedLast authorCorresponding author
Review and analysis of current responses to COVID-19 in Indonesia: Period of January to March 2020

Djalante R, Lassa J, Setiamarga D, Sudjatma A, Indrawan M, Haryanto B, Mahfud C, Sinapoy MS, Djalante S, Rafliana I, Gunawan LA, Surtiari GAK, Warsilah H

Progress in Disaster Science, 6 1-9, 2020 Peer-reviewedInvited
Keeping up with introduced marine species at a remote biodiversity hotspot: awareness, training and collaboration across different sectors is key

Huhn M, Madduppa HM, Khair M, Sabrian A, Irawati Y, Anggraini NP, Wilkinson SP, Simpson T, Iwasaki K, Setiamarga DHE, Dias PJ

Biological Invasions, 22(2) 749-771, 2020 Peer-reviewedCorresponding author
Biannual monthly changes of sea sludge composition from Hidaka Port, Wakayama, Japan

Hirano H, Setiamarga DHE

International Journal of GEOMATE, 19(76) 1-8, 2020 Peer-reviewedLast authorCorresponding author
Molecular phylogeny of protobranch bivalves and systematic implications of their shell microstructure

Sato K, Kano Y, Setiamarga DHE, Watanabe HK, Sasaki T

Zoologica Scripta, 49(4) 458-472, 2020 Peer-reviewed
The reproduction of natural sea sludge (hedoro) using preserved natural inorganic matters

Hirano H, Setiamarga DHE

International Journal of GEOMATE, 16(57) 49-55, 2019 Peer-reviewedLast authorCorresponding author
The influence of CO2 seeps to coastal environments of Shikine Island in Japan as indicated by geochemistry analyses of sea floor sediments

Hirano H, Kon K, Yoshida M, Harvey B, Setiamarga DHE

International Journal of GEOMATE, 16(58) 82-89, 2019 Peer-reviewedLast authorCorresponding author
Compositional changes in sea sludge samples from Hidaka Port in Wakayama, southwest Japan, collected monthly for a period of 16 months.

Hirano H, Setiamarga DHE

Proceedings of The 9th International Conference on Geotechnique, Construction Materials and Environment (GEOMATE) 2019, 831-836, 2019 Peer-reviewedLast authorCorresponding author

Misc.

Characterization of mutations affecting vertebral column formation in medaka, Oryzias latipes

Kyohei Horie, Keiji Inohaya, Sae Sakaguchi, Nobuaki Orihara, Satoshi Ohisa, Sayaka Konno, Kenta Hibiya, Akimitsu Miyake, Davin Setiamarga, Kimiko Tanaka, Akiko Taniguchi, Misato Fujita, Jun-ichi Yasutake, Hiroyuki Takeda, Yoshiyuki Imai, Akira Kudo

ZOOLOGICAL SCIENCE, 21(12) 1300-1300, Dec, 2004

Presentations

Genetic background of re-evolution of shells in Argonaut octopuses

Masa-aki Yoshida, Risa Ikai, Davin Setiamarga

Consortium of Biological Sciences Conference 2017 (ConBio2017), Dec 8, 2017
Changes-over-time of inorganic contents observed in sea sludge samples collected monthly from the Gobo/Hidaka coastal area in Wakayama, southwest Japan, for one year

Hirosuke Hirano, Takeshi Toyama, Davin H. E. Setiamarga

EMBRIO International Conference 2017, Nov 16, 2017, Bogor Agricultural University
The Utilization of Local Asian Fermented Food Powder as Potential Cultivation Media for Deep-sea Piezophile Photobacterium profundum SS9

Kohei Nakanishi, Masataka Kusube, Diana Lestari, Davin H.E. Setiamarga, Douglas H. Bartlett, Maggy T. Suhartono

EMBRIO International Conference 2017, Nov 16, 2017, Bogor Agricultural University
Phylogeography analysis of the Japanese turban snails Lunella coreensis from the intertidal coasts around Kyushu Island, Japan, using the mitochondrial COI gene sequences

Satoko Nakashima, Shinnosuke Teruya, Takenori Sasaki, Davin H. E. Setiamarga

International Conference of Marine Science 2017, Sep 6, 2017, Bogor Agricultural University
The potential utilization of local Indonesian (“oncom”) and Japanese (“natto”) fermented food as the main ingredient of the cultivation media for deep-sea piezophile Photobacterium profundum SS9

Kohei Nakanishi, Masataka Kusube, Diana Lestari, Davin H.E. Setiamarga, Douglas H. Bartlett, Maggy T. Suhartono

International Conference of Marine Science 2017, Sep 6, 2017, Bogor Agricultural University
Dynamic changes of organic content over time in the sea sludge collected from the Gobo/Hidaka coastal area in Wakayama, southwest Japan

Hirosuke Hirano, Daichi Semura, Kenta Sakamoto, Takeshi Toyama, Davin H.E. Setiamarga

International Conference of Marine Science 2017, Sep 6, 2017, Bogor Agricultural University
Partial sequences of the mitochondrial COI and 12s genes indicate that Ceramaster japonicus and Ceramaster patagonicus from the seas around Japan are of the same species

Yuki Kamito, Rena Shiba, Mikihito Arai, Toshihiko Fujita, Christopher L. Mah, Davin H. E. Setiamarga

International Conference of Marine Science 2017, Sep 6, 2017, Bogor Agricultural University
The effect of steam curing on chloride penetration in geopolymer concrete

Ekaputri JJ, Mutiara IS, Nurminarsih S, Nguyen VC, Maekawa K, Setiamarga DHE

The 6th International Conference of Euro Asia Civil Engineering Forum (EACEF 2017), Aug 22, 2017
DNA Barcoding and biodiversity analyses of shelled marine gastropods in Nada coastal area in Wakayama: A preliminary report

Nagisa Nakaji, Davin H. E. Setiamarga

CommTech IDEAS 2017, Jul, 2017, Sepuluh Nopember Institute of Technology, Indonesia
Mitochondrial phylogenomics of the Octopodiformes using mitochondrial genome sequences obtained from transcriptomics

Davin H. E. Setiamarga

The Annual Meeting of the Japanese Society of Systematic Zoology in Yokohama, 2017, Jun, 2017, Japanese Society of Systematic Zoology
Two partial sequences of the mitochondrial genes COI and 12s indicate that Ceramaster japonicus and Ceramaster patagonicus from the Japan Seas are of the same species

Rena Shiba, Davin H. E. Setiamarga, Yuki Kamito, Nazifa Naziha, t. Razali, Mikihito Arai, Toshihiko Fujita, Christopher L. Mah

The Annual Meeting of the Japanese Society of Systematic Zoology in Yokohama, 2017, Jun, 2017, Japanese Society of Systematic Zoology
Transcriptomic and proteomic analyses of Nautilus shell matrix proteins provide insights into shell evolution in conchiferan mollusks

Davin H. E. Setiamarga

The Annual Meeting of the Malacological Society of Japan in Shirahama, 2017, Apr, 2017
Unravelling the evolutionary history of the Octopodiforms through mitochondrial phylogenomics: a progress report

Davin H. E. Setiamarga

The Annual Meeting of the Malacological Society of Japan in Shirahama, 2017, Apr, 2017
Phylogeography analysis of Japeuthria ferrea (Caenogastropoda: Buccinidae) in Japan

Nazifa Naziha, t. Razali, Rena Shiba, Shinnosuke Teruya, Takenori Sasaki, Davin H. E. Setiamarga

The Annual Meeting of the Malacological Society of Japan in Shirahama, 2017, Apr, 2017, Malacological Society of Japan
A preliminary report on the results of DNA Barcoding analysis of shelled marine gastropods in Nada coastal area in Wakayama

Nagisa Nakaji, Shoma Iwamoto, Rena Shiba, Nazifa Naziha, t. Razali, Satoko Nakashima, Shunpei Ueyama, Yuuki Kamito, Naoto Tomobuchi, Hirosuke Hirano, Shinnosuke Teruya, Takenori Sasaki, Davin H. E. Setiamarga

The Annual Meeting of the Malacological Society of Japan in Shirahama, 2017, Apr, 2017
Molecular systematics of the Japanese buccinid snails, Japeuthria ferrea, Japeuthria cingulata and Sealesia modesta (Neogastropoda: Buccinoidea)

Naoto Tomobuchi, Nazifa Naziha, t. Razali, Shinnosuke Teruya, Takenori Sasaki, Davin H. E. Setiamarga

The Annual Meeting of the Malacological Society of Japan in Shirahama, 2017, Apr, 2017
Unravelling the evolutionary history of the Cephalopods through mitochondrial phylogenomics: a progress report

Davin Setiamarga

The 22nd International Congress of Zoology and The 87th Meeting of the Zoological Society of Japan, Nov, 2016, International Society of Zoological Sciences and Zoological Society of Japan
The Importance of Fundamental Research and Basic Science - Another perspective on Biodiversity Research -

Davin Setiamarga

Wakayama Super Science Highschool Meeting, Dec, 2015 Invited
Transcriptome and Proteome Explorations of the Nautilus’ Shell : A Genomic Insight To Shell Evolution in Mollusks

Davin Setiamarga

Cephalopod International Advisory Council Meeting 2015, Nov, 2015, Cephalopod International Advisory Council
The “Jizake Project”: Advance science “Monozukuri” education and training through tripartite collaboration, product development, and participation in local area revitalization

Kusube M, Yamanaka K, Maruyama N, Okamoto T, Nate T, Nakagawa T, Setiamarga D

The 9th International Symposium on Advances in Technology Education, Sep, 2015

Teaching Experience

Professional Memberships

Research Projects

淡水・沿岸魚類の系統地理構造に基づくインドネシア島嶼域の生物地理区境界線の検証

科学研究費助成事業国際共同研究加速基金(国際共同研究強化(B)), 日本学術振興会, Oct, 2019 - Mar, 2024

熊澤慶伯, 武藤望生, 渋川浩一, スティアマルガデフィン
貝殻のミューゼオミクス：博物館の収蔵標本を活かすための実験的研究

科学研究費助成事業挑戦的研究(萌芽), 日本学術振興会, Jun, 2019 - Mar, 2022

佐々木猛智, スティアマルガデフィン, 川島武士, 藤田敏彦, 西秋良宏
Museomics-based Study of The Evolutionary Dynamics of Gastropods

Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (C), Japan Society for the Promotion of Science, Apr, 2019 - Mar, 2022

Davin H. E. Setiamarga, Takenori Sasaki
Genetic background of of re-evolution of shells in Argonaut octopuses

Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (C), Japan Society for the Promotion of Science, Apr, 2018 - Mar, 2021

Masa-aki Yoshida (PI), Davin H. E. Setiamarga (Co-PI)
The identification of the Survival Genes against ocean acidification in decapodiform cephalopods

The Asahi Glass Foundation, Apr, 2016 - Mar, 2019

Davin Setiamarga
The Museomics of Octopodiformes: Utilizing Museum Samples for Phylogenomics Research

The 25th Academic Research Grant (Zoology), Fujiwara Natural History Foundation, Apr, 2017 - Mar, 2018
Exploring the Shell Degeneration in Cephalopods: Genome Evolution and Environmental Changes

Support for Academic Research 2015 B1: Scientific Research, National Institute of Technology, Wakayama College

Davin Setiamarga
Linking Lower and Higher Education Through The Observation of Wakayama's Natural Bioresources

Support for Academic Research 2015 A: Education, National Institute of Technology, Wakayama College

Davin Setiamarga
Chemistry and Biology Experiments at NITW: Let's check biodiversity at the molecular level! (Part1 and Part2)

Funding to Support Open Lectures 2016, Cosmobio Co.

Davin Setiamarga

Awards

Apr, 2003

The University of Tokyo Special Scholarship for International Students, The University of Tokyo

Davin Setiamarga
Apr, 2002

Scholarship for Self-Supporting ASEAN Students, Sato International Scholarship Foundation

Davin Setiamarga
Apr, 2000

MEXT Honors Scholarships, Japan Student Services Organization

Davin Setiamarga
Apr, 1999

Special Scholarship for Invited Foreign Students, Tokyo University of Agriculture

Davin Setiamarga