2018 Fiscal Year Annual Research Report
自然環境下でのマングローブのゲノム・エピゲノム解析
| Project/Area Number |
18F18386
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| Research Institution | Okinawa Institute of Science and Technology Graduate University |
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Principal Investigator |
佐瀬 英俊 沖縄科学技術大学院大学, 植物エピジェネティクスユニット, 准教授 (70510006)
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| Co-Investigator(Kenkyū-buntansha) |
MIRYEGANEH NODEHI MATIN 沖縄科学技術大学院大学, 植物エピジェネティクスユニット, 外国人特別研究員
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| Project Period (FY) |
2018-11-09 – 2021-03-31
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| Keywords | Epigenetics / Plants / Environment |
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| Outline of Annual Research Achievements |
We are planning to investigate how methylation variation is distributed among individuals from different habitats in different level of stress, and how this variation is correlated with their morphological differences and gene expression.
In order to do this we first sequenced the genomes and transcriptomes of representative mangrove species using the combination of long read sequencing technology (pacbio) supplemented by the more conventional platforms (Illumina Hiseq and matepair) to correct for the error of long read sequencing. To produce a high-quality reference genome, we started to generate a de novo assembly using these sequencing data.
We have also started a de novo RNA seq analysis and complementary detailed de novo annotation of genes based on RNA sequencing data.
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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 genome assembly and annotation process is ongoing. We are also doing a gene expression analysis to identify genomic characteristics that are conserved within each group of plants but differ among them and we are also building a complementary detailed annotation of genes and also trying to reveal differences in the transcriptome profiles among populations that are growing under different level of stress.
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| Strategy for Future Research Activity |
The final goal is to construct genome-wide DNA methylation maps comparing phenotypically different individuals that are growing in different distances from the coastal area and investigate how methylation variation is distributed among individuals from different habitats in different level of stress, and how this variation is correlated with their morphological differences and gene expression. In order to do this we will investigate the functional consequences of the quantified DNA methylation variation by comparing its effect on gene expression data from RNA-Seq analysis.
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