TOPICS 2019
-
Yang-Chi-Chun and Hisao Masai (Genome Dynamics Project) published a paper entitled ”Cdc7 activates replication checkpoint by phosphorylating the Chk1 binding domain of Claspin in human cells.” in eLife
-
Hikaru Tsuchiya (Laboratory of Protein Metabolism) published a paper entitled “Structural insights into ubiquitin recognition and Ufd1 interaction of Npl4” in Nature Communications.
-
Miharu Nakanishi (Mental Health Promotion Project) published a paper entitled ”Midlife Psychological Well-Being and its Impact on Cognitive Functioning Later in Life: An Observational Study Using a Female British Cohort.” in Journal of Alzheimer’s Disease
-
Dr. Masato Hosokawa (Dementia Research Project) was awarded the Encouragement Award (Best Basic Research) at the Japan Society for Dementia Research Annual Meeting in 2019.
-
Tetsuya Hirabayashi (Laboratory of Biomembrane）published a paper entitled "SDR9C7 catalyzes critical dehydrogenation of acylceramides for skin barrier formation" in The Journal of Clinical Investigation
-
Yukio Nishimura (Neural Prosthesis Project) published a paper entitled ”Bypassing stroke-damaged neural pathways via a neural interface induces targeted cortical adaptation” in Nature Communications.
-
Takahiko Noro (Visual Research Project) published a paper on glaucoma-like degeneration of the visual system in aged marmosets in Scientific Reports.
-
Dr. Fumika Koyano (Ubiquitin Project) published a paper on “Parkin‐mediated ubiquitylation redistributes MITOL/March5 from mitochondria to peroxisomes” in EMBO Reports.
-
Keisuke Kamimura (Neural Network Project) published a paper entitled ”The HSPG Glypican Regulates Experience-Dependent Synaptic and Behavioral Plasticity by Modulating the Non-Canonical BMP Pathway” in Cell Reports
-
Takahiro Sanada (Viral Infectious Diseases Project) published a paper on “Construction of complete Tupaia belangeri transcriptome database by whole-genome and comprehensive RNA sequencing” in Scientific Reports
-
Yuki Nakayama (ALS Nursing Care Project) published a paper on “Body weight variation predicts disease progression after invasive ventilation in amyotrophic lateral sclerosis” in Scientific Reports
-
Kazuhiko Namekata (Visual Research Project) published a paper on the role of DOCK8 during neurodegeneration in Journal of Biological Chemistry.
-
Daisuke Yamane (Viral Infectious Diseases Project) published a paper on “Basal Expression of Interferon Regulatory Factor 1 Drives Intrinsic Hepatocyte Resistance to Multiple RNA Viruses” in Nature Microbiology
HOME ＞ Topics2019 ＞ 26 August 2019
26 August 2019
Takahiro Sanada (Viral Infectious Diseases Project) published a paper on “Construction of complete Tupaia belangeri transcriptome database by whole-genome and comprehensive RNA sequencing” in Scientific Reports
Construction of complete Tupaia belangeri transcriptome database by whole-genome and comprehensive RNA sequencing
- ＜Title of the paper＞
- Construction of complete Tupaia belangeri transcriptome database by whole-genome and comprehensive RNA sequencing
- ＜Journal＞
- Scientific Reports
https://www.nature.com/articles/s41598-019-48867-x
DOI: https://doi.org/10.1038/s41598-019-48867-x
Summary
The northern tree shrew (Tupaia belangeri ) possesses high potential as an animal model of human diseases and biology, given its genetic similarity to primates. Although genetic information on the tree shrew has already been published, some of the entire coding sequences (CDSs) of tree shrew genes remained incomplete, and the reliability of these CDSs remained difficult to determine. The improvement of the determination of tree shrew CDSs was required.
In collaboration with Kagoshima University, BITS Co., Ltd., National Institute of Biomedical Innovation, Health and Nutrition, National Institute of Genetics, and National Center for Global Health and Medicine, Dr. Takahiro Sanada (Viral infectious diseases project) and his colleagues in Tokyo Metropolitan Institute of Medical Science performed sequencing of the whole-genome, mRNA, and total RNA and integrated the resulting data. Additionally, the researchers established criteria for the selection of reliable CDSs and annotated these sequences by comparison to the human transcriptome, resulting in the identification of complete CDSs for 12,612 tree shrew genes and yielding a more accurate tree shrew genome database (TupaiaBase: http://tupaiabase.org). Transcriptome profiles in hepatitis B virus infected tree shrew livers were analyzed for validation. Gene ontology analysis showed enriched transcriptional regulation at 1 day post-infection, namely in the “type I interferon signaling pathway”. Moreover, a negative regulator of type I interferon, SOCS3, was induced.
This work, which provides a tree shrew CDS database based on genomic DNA and RNA sequencing, is expected to serve as a powerful tool for further development of the tree shrew model.
TupaiaBase : http://tupaiabase.org
Viral Infectious Diseases Project ▶
