| Project/Area Number |
22KF0418
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| Project/Area Number (Other) |
22F22379 (2022)
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| Research Category |
Grant-in-Aid for JSPS Fellows
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| Allocation Type | Multi-year Fund (2023)
Single-year Grants (2022) |
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| Section | 外国 |
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| Review Section |
Basic Section 45020:Evolutionary biology-related
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| Research Institution | Japan Agency for Marine-Earth Science and Technology (2023)
National Institute of Advanced Industrial Science and Technology (2022) |
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Principal Investigator |
延 優 (NOBUMASARU・KONISHI) 国立研究開発法人海洋研究開発機構, 超先鋭研究開発部門(超先鋭研究開発プログラム), 主任研究員 (40805644)
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| Co-Investigator(Kenkyū-buntansha) |
MEI RAN 国立研究開発法人海洋研究開発機構, 超先鋭研究開発部門(超先鋭研究開発プログラム), 外国人特別研究員
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| Project Period (FY) |
2023-03-08 – 2025-03-31
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| Project Status |
Granted (Fiscal Year 2023)
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| Budget Amount *help |
¥2,200,000 (Direct Cost: ¥2,200,000)
Fiscal Year 2024: ¥600,000 (Direct Cost: ¥600,000)
Fiscal Year 2023: ¥500,000 (Direct Cost: ¥500,000)
Fiscal Year 2022: ¥1,100,000 (Direct Cost: ¥1,100,000)
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| Keywords | Bioinformatics / Archaea / Genes |
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| Outline of Research at the Start |
We have massive amounts of genomic insight into life on Earth, yet the data remains challenging to explore due to the lack of organization - only a small fraction of genes have known biochemical function. However, we need not know genes’ functions to extract useful information. One approach to explore genetic space is combination of cutting-edge gene clustering algorithms and evolution reconstruction tools.
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| Outline of Annual Research Achievements |
We collected archaeal genomes public databases and, with the workstation purchased using this funding, performed computationally demanding analyses, such as gene function annotation, species pangenome construction, prediction of protein families/superfamilies, and homology analyses. We also performed iterative Markov-clustering-based approaches to cluster all archaeal gene sequences into homologous groups. Evaluating the functional consistency in each cluster showed that most clusters associated with known functions do not include homologs of other function, indicating success of the approach (to a certain degree).
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| Current Status of Research Progress |
Current Status of Research Progress
1: Research has progressed more than it was originally planned.
Reason
The project is proceeding as planned.
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| Strategy for Future Research Activity |
In the next steps we will further refine the clustering and further predict the evolutionary history of each gene/function (i.e., vertical inheritance, lateral gene transfer, and gene loss). We will look to compare ancient and recent evolution of function tied with the emergence of primordial and younger archaeal lineages. One target will be tying such evolution with acetogenesis, methanogenesis and eukaryogenesis.
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