The Guideline for Additional Application for 2023NIG-JOINT(Joint Research(A))
National Institute of Genetics,
Research Organization of Information and Systems

1. The Guidelines for Application(1) NIG-JOINT
National Institute of Genetics solicits joint research to be conducted between researchers
from other universities or institutes and NIG faculties using NIG facilities and equipmenton the proposed project. We are accepting additional applications for 2023 NIG-JOINT (A).
As a general rule, travel expenses are provided to the researchers visiting NIG.
NIG-JOINT projects should be conducted during the period of time from October 1st,
2023to March 31st, 2024. Please note that for those who have already accepted as aresearch representative for other NIG-JOINT (A), (B) or (I) in FY2023, are not eligible toapply for this additional application.

NIG-JOINT (A)・Eligible applicants are researchers affiliated with domestic or overseas universities or
research institutes. Travel expenses required for the researchers to visit NIG conducting
joint research are provided.
・Up to100,000 JPY can be requested by an applicant.
2. Applicants
The applicants should be, as a general rule, researchers affiliated with universities,inter-university collaborative research institutes and independent administrativeorganizations in Japan or researchers affiliated with overseas universities or research
institutes. Please note that graduate students are not eligible to apply, but they can be amember of joint researchers.
3. Application
The application must be completed via the online application system called “Joint
Research On-line Integrated System (JROIS)”.
JROIS: https://jrois2.rois.ac.jp/(Instructions for operating the application system can be downloaded from the above
URL.) For more details regarding the online application system, please refer to thefollowing NIG webpage (NIG-JOINT page).
https://www.nig.ac.jp/nig/research-infrastructure-collaboration/nig-collaboration-grant(1) Before submitting the application, the applicant must consult closely with theprospective NIG representative regarding project subject, members, budget and othernecessary matters. Research outlines of NIG researchers are described at the end of thisapplication guideline.
(2) When applying for this program, please be sure to obtain approval from the head ofyour organization (or department). Submission of written approval is not required.

(3) Application form must be uploaded and submitted in PDF・DOCX・ZIP format toJROIS. The application form can be downloaded from the link below.
https://www.nig.ac.jp/nig/research-infrastructure-collaboration/nig-collaboration-grant
4. Online Application Deadline
Applications must be submitted no later than noon (12 PM JST) on Monday, July 31st,2023.
*Your application will not be accepted under any circumstances if you don’t submit it by
the above deadline.
5. Selection
The outcome of selection and amount of budget allocation are determined after screening
by NIG committee and notified to the research representatives via e-mail by the end ofaround October 2023. Applications from those who have been adopted as research
representatives in the past, regardless of whether it is a new or a continuous project, will
be reviewed with an emphasis on the status of the past budget implementation.
Please also note that the allocation amounts may be reduced due to limited budget.
6. Change of the Research Group(1) If there is a change in research representative’s organization or position, the said
researcher must change the registered information on the “Edit User” screen of JROIS
website. If research representative’s affiliation is changed, a written approval (fixedformat) from new organization should be submitted. (No official seal or signature isrequired.)(2) If there is a change in research representative, addition or removal of joint researchmembers, or change in joint research member’s organization or positon, please submit anaddition/change form (only in Japanese) through the NIG representative immediately.
(3) The NIG representative must submit the cancelation form in the event that the joint
research is unable to be conducted due to unavoidable circumstances.
7. Expenses Provided(1) The travel expenses are to be provided by NIG based on the rules of Research
Organization of Information and Systems (ROIS). Because the expenses are allocatedonly to NIG, not to other organizations, they should be claimed through NIG
representative. Accommodation fee for those who stay at our guest house will be
2,500JPY/night, and for those who stay at a hotel in the city will be 8,000JPY/night.
(Outside researchers visiting NIG for attending meeting or conducting research are tostay at our guest house, whenever possible.) Please note that the travel expenses could
not be fully provided if other business or private site visits are included in the entire trip.
(2) Research representatives are expected to spend the budget at an earlier stage. If you
are unable to spend the full amount of the budget due to unavoidable reasons, pleasesubmit a statement of reasons (free format) and repay the unspent portion of the budget
by the end of December. When it becomes obvious that the expenses are not usedanymore, please contact the Research Promotion Team at that time.

8. Submission of Research Report
The research representatives are required to fill in the "FOR MEXT Report (at the end ofresearch)" on the Edit Application screen of JROIS by April 30th, 2024, and upload theresearch report in PDF・DOCX・ZIP format from the same screen for submission.
The research report form can be downloaded from the link below.
https://www.nig.ac.jp/nig/research-infrastructure-collaboration/nig-collaboration-grant
9. Publication of Research Result
You are requested to acknowledge NIG joint research as follows when results based on
this research project are published, and submit a copy of papers together with theresearch report via JROIS.
NIG-JOINT (reference number)*Reference number【serial number + category (A,B or I) + year】, will be issued in the“acceptance notification” which will be sent to the successful applicant.
Example:（Successful applicant：Taro Iden, reference number：1A2023）“This work was supported by NIG-JOINT (1A2023) to T. Iden.”
10. Others(1) NIG facilities and common equipment are available to be used for the joint research.
Please refer to the following URL for the available common equipment.
https://www.nig.ac.jp/nig/research-infrastructure-collaboration/common-equipment(2) If gene recombination and/or animal experiments are planned, NIG representatives
are requested to submit an ”experiment-on-gene recombination plan” and/or”experiment-on-animals plan” application form to the Research Promotion Team after
acceptance of the application. As for animal experiments, researchers directly handle
experimental animals are requested to apply for NIG qualification screening and undergo
a training regardless of their affiliation. We strongly hope that all researchers comply
with regulations and conduct the research properly.
(3) Researchers who handle radioisotope at NIG are requested to register as a radiation
worker before starting to handle it.
(4) Outside researchers visiting NIG for conducting research are to stay at our guest
house, whenever possible.
However, they can stay at a hotel in the city if the guest house is fully booked.
(5) Ownership of intellectual property rights created through joint research at NIG will
be considered based on the regulations of ROIS employee invention.
(6) NIG assures that private information for this application should be used only forscreening the proposal. Regarding the accepted proposal, the representative of theresearch, his/her institute and the research project title will be posted on NIG website
and annual reports.
(7) As a general rule, NIG would not prepare the form of “business-trip request” for thejoint research to simplify the procedures.
We sincerely ask outside researchers visiting NIG to follow appropriate business tripprocedures according to the rules of their affiliated institute.

【Contact】
Department of Administration
Research Promotion Team, General Affairs and Project Section
National Institute of Genetics, Research Organization of Information and Systems
Yata1111, Mishima, Shizuoka, 411-8540 JAPAN
Phone: +81-55-981-6728
E-mail: kyodo-mail@nig.ac.jp

Research Outline（Updated: May 19th, 2023）
Department/Center
Department ofInformatics

Laboratory

Gene- ExpressionAnalysis

Faculty

OKUBO, Kousaku / Professor

Genetic Informatics KAWAMOTO, Shoko /Associate Professor

Genome Evolution

Genome Diversity

Department ofGenomics andEvolutionary Biology

KUROKAWA, Ken / Professor
HIGASHI, Koichi / Assistant Professor

MORI, Hiroshi / Associate Professor

Biological
Networks

ARITA, Masanori / Professor

GenomeInformatics

NAKAMURA, Yasukazu / Professor

DNA Data Analysis

KOSHIMIZU, Shizuka / Assistant Professor

TANIZAWA, Yasuhiro / Assistant Professor

IKEO, Kazuho / Associate Professor

Research outline“How can we make use of data and information at ourfinger-tip in making smarter decisions in our owncontexts?” Without solving this question, all analytical anddescriptive efforts that digitalize the reality end up in vain.
Our tentative answer/goal for this is to develop method toenhance “fluidity” and “utility"of medical knowledge among
humans and machines.
We are working on research and development of databases
and information retrieval system for the national
bio-resource project (NBRP).
We are interested in understanding about microbial
genome evolution and microbial community dynamics, andwe are currently reaching out in the following two major
research directions; I. Facilitate the development of an
integrated database “MicrobeDB.jp”, II. Microbialcommunity dynamics.
Our main research goal is to understand the relationships
between the habitat of organisms and genome diversity. To
facilitate the studies using comparative genomics andmetagenomics, we arealso developing various
bioinformatics methodologies.
Network analysis of metabolic pathways based oncomprehensive identification and quantification of
metabolites (metabolomics); Bioinformatics related to plantsecondary metabolism and lipid metabolism
Intelligent information technology for structural andfunctional annotations of large-scale nucleotide sequences.
Evolutionary study of genomic structure and gene
expression pattern to elucidate the evolutionary
mechanism of central nervous system and sensory organs.
Evolutionary genomics analysis of various species.
Metagenome analysis.Developing databases and computer
software for biological research.

SATO, Yutaka / Professor
Plant Genetics

EvolutionaryGenetics

Ecological Genetics
ComparativeGenomics
Molecular LifeHistory
Symbiosis and CellEvolution
Department of Gene
Function andPhenomics

Model FishGenetics
SystemsNeuroscience

NOSAKA (TAKAHASHI), Misuzu / AssistantProfessor

AKASHI, Hiroshi / Professor

KITANO, Jun / Professor
YAMASAKI, Yo / Assistant Professor
TOYODA, Atsushi / Project Professor
KURAKU, Shigehiro / Professor
KAWAGUCHI, Akane / Assistant Professor
MIYAGISHIMA, Shin-ya / Professor
FUJIWARA, Takayuki / Assistant Professor

SAKAI, Noriyoshi / Associate Professor

KUBO, Fumi / Associate Professor

The goal of our research is to understand molecularmechanisms governing early processes of plantdevelopment using a series of rice embryogenesis defective
mutants. Currently we are focusing on the mechanism of
regulating the cell division pattern and plasticity incellular differentiation in rice embryo.
We infer mechanisms of genome evolution using population
genetic andcomparative genomic approaches. Current interests
include global
forces such as biosynthetic constraints that underlie weakselection.
We use threespine stickleback fishes to investigate thegenetic and molecular mechanisms underlying adaptationand speciation.
We have been conducting advanced genomics research onthe plasticity of genome structure and functions using mostadvanced genome technology such as New-Generation
Sequencers.
We focus on vertebrates and bridge molecular-level
laboratory approaches and genome informatics, in order todocument genome evolution and elucidate its mechanism.
In order to understand endosymbiotic evolution of
eukaryotes, we are studying coordinating mechanisms ofeukaryotic cell and organelle/endosymbiont proliferation
using algae, plants, and protists.
We establish reliable protocols for genetically modificationof zebrafish using sperm, and analyze the molecularmechanisms of spermatogenesis and early development inzebrafish.
We study how visual information generates goal-directedbehavior. We aim to understand the neural circuitmechanisms underlying this process using a combination ofgenetic, optic and behavioral approaches in zebrafish.

Plant Cytogenetics

NONOMURA, Ken-ichi / Associate Professor
TSUDA, Katsutoshi / Assistant Professor

Mammalian Neural IWASATO, Takuji / Professor
Circuits
NAKAGAWA, Naoki / Assistant Professor
Multiscale SensoryStructure
MulticellularOrganization
Brain Function

YONEHARA, Keisuke / Professor
MATSUMOTO, Akihiro / Assistant Professor
SAWA, Hitoshi / Professor
NEGISHI, Takefumi / Assistant Professor
HIRATA, Tatsumi / Professor
KAWASAKI, Takahiko / Assistant Professor
ZHU, Yan / Assistant Professor

Molecular andDevelopmentalBiology
Microbial
Physiology
Mouse Genomics
Resource
Department ofChromosome Science
Genome Dynamics

KAWAKAMI, Koichi / Professor
ASAKAWA, Kazuhide / Specially Appointed
Associate Professor
NIKI, Hironori / Professor

KOIDE, Tsuyoshi / Associate Professor

MAESHIMA, Kazuhiro / Professor
IDE, Satoru / Assistant Professor
HIBINO, Kayo / Assistant Professor

We aim to elucidate the regulatory system of plant
germ-cell development and chromosome kinetics, mainly
using seed-sterile rice mutants.
We are studying molecular and cellular mechanisms ofneuronal circuit development in the mammals, using
mouse genetics and other related methods.
We use mice and marmosets to understand the structure,function, development, disease, and environmental
adaptation of visual neural circuits at multi-levels,
including genes, neural circuit physiology, and behavior.
We are studying the mechanisms that produce a variety ofcell types through asymmetric cell divisions using thenematode C.elegans.
Development of the vertebrate nervous system with special
focus on neuronal network formation.
Genetic studies on development, morphogenesis andbehaviors by using a model vertebrate zebrafish.
We investigate higher order structure of chromosomes andtheir dynamics in yeast and bacteria through genetic andcell biological analysis.
For understanding genetic basis of behavioral diversity,behavioral and genetic analyses are applied on a variety ofmouse resources including wild-derived strains. We aredeveloping genome editing methods in mice for analyzing
function of genes.
Our research interest lies in determining how a long stringof genomic DNA is three-dimensionally organized in living
cells, and how the organized genome functions duringcellular proliferation, differentiation, and development. We
are using a novel combination of molecular cell biology andbiophysics to elucidate 3D-organization and dynamics ofhuman genome chromatin.

Cell Architecture

Chromosome
Biochemistry
Physics and Cell
Biology

Center for Frontier
ResearchKIMURA, Akatsuki / Professor
TORISAWA, Takayuki / Assistant Professor

MURAYAMA, Yasuto / Associate Professor
KUROKAWA, Yumiko / Assistant Professor
SHIMAMOTO, Yuta / Associate Professor
SAITO, Kei / Assistant Professor

Molecular CellEngineering

KANEMAKI, Masato / Professor

InvertebrateGenetics

SAITO, Kuniaki / Professor

Gene Quantity
Biology

MIYOSHI, Keita / Assistant Professor

SASAKI, Mariko / Associate Professor

Theoretical Ecology
YAMAMICHI, Masato / Associate Professorand Evolution
Chemical andRadioisotope
Management Unit

ANDACHI, Yoshiki / Assistant Professor

To understand the three-dimensional architecture of thecell and its dynamics, quantitative imaging and modelingapproaches are employed. Specific targets of the research
are size and shape of organelles, the mechanics ofcytokinesis, and cytoplasmic streaming in the C. elegans
embryo.
We investigate molecular mechanism underling regulationof chromosome organization and dynamics byrecapitulating their biochemical reactions using purified
proteins. We now especially focus on SMC complexes.
Our laboratory uses a combination of biophysics,biochemistry, cell biology, and materials science to study
how the mitotic spindle properly assembles and segregateschromosomes in cell division.
To understand DNA transactions in human cells, wegenerate conditional cells using the auxin-inducible degron
technology for genetic and cytological analyses. We also
develop new technologies for construction of mutant humancells.
We investigate molecular mechanisms of Drosophila gene
expression and repression through biochemical and genetic
techniques. Especially, we are focusing on the small RNA
pathways and chromatin regulation during germ cell
development.
We study molecular mechanisms underlying genomicchanges in eukaryotic cells. We mainly use budding yeast
and human cell cultures and analyze genomic changes that
result in changes to DNA quantity, using genetic andmolecular biology tools. We specialize in isolatingMbp-sized DNA and separating it by Pulsed-Field Gel
Electrophoresis.

We combine mathematical models, microcosm experiments,and meta-analyses to investigate complex feedbacks
between rapid evolution and ecological processes.
We study microRNA-mediated post-transcriptional
regulation in C. elegans using our original methods for thedetection of microRNAs and target genes.