Kenshiro Oshima
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View article: Distinct neuroprotective and anti-inflammatory effects of Kampo formulas ninjinyoeito and juzentaihoto in depression-like SAMP8 mice
Distinct neuroprotective and anti-inflammatory effects of Kampo formulas ninjinyoeito and juzentaihoto in depression-like SAMP8 mice Open
Introduction In contemporary aging societies, preventing and ameliorating mental and physical frailty is essential. Kampo formulas, including ninjinyoeito (NYT) and juzentaihoto (JTT), have been used traditionally to treat frailty in the e…
View article: Intron retention, a novel method for evaluating the response to ketamine in patients with treatment-resistant depression
Intron retention, a novel method for evaluating the response to ketamine in patients with treatment-resistant depression Open
In response to a state of stress, the body attempts to maintain protein homeostasis through intron retention (IR). In other words, by examining which genes undergo IR under stress (i.e., IR genes), it is possible to analyze what type of st…
View article: Integrated Membrane Yeast Two-Hybrid System for the Analysis of Membrane Protein Complexes
Integrated Membrane Yeast Two-Hybrid System for the Analysis of Membrane Protein Complexes Open
Protein-protein interactions facilitate cellular functions through the creation of networks and multi-protein complexes. Mapping the interactions within and between protein networks and elucidating the composition of protein complexes prov…
View article: Intron retention as an excellent marker for diagnosing depression and for discovering new potential pathways for drug intervention
Intron retention as an excellent marker for diagnosing depression and for discovering new potential pathways for drug intervention Open
Background Peripheral inflammation is often associated with depressive disorders, and immunological biomarkers of depression remain a focus of investigation. Methods We performed RNA-seq analysis of RNA transcripts of human peripheral bloo…
View article: Intron retention as an excellent marker for diagnosing depression and for discovering new potential pathways for drug intervention
Intron retention as an excellent marker for diagnosing depression and for discovering new potential pathways for drug intervention Open
BACKGROUND Peripheral inflammation is often associated with depressive disorders, and immunological biomarkers of depression remain a focus of investigation. METHODS We performed RNA-seq analysis of RNA transcripts of human peripheral bloo…
View article: A potential pathway that links intron retention with the physiological recovery by a Japanese herbal medicine
A potential pathway that links intron retention with the physiological recovery by a Japanese herbal medicine Open
Our previous experiments with klotho mice (i.e., klotho knockout mice) showed that aberrant intron retention (IR) occurs in a pre-symptomatic state of aging and can be restored to the normal state by administration of Juzentaihoto (JTT), a…
View article: Corrigendum: Iron corrosion concomitant with nitrate reduction by Iodidimonas nitroreducens sp. nov. isolated from iodide-rich brine associated with natural gas
Corrigendum: Iron corrosion concomitant with nitrate reduction by Iodidimonas nitroreducens sp. nov. isolated from iodide-rich brine associated with natural gas Open
[This corrects the article DOI: 10.3389/fmicb.2023.1232866.].
View article: Iron corrosion concomitant with nitrate reduction by Iodidimonas nitroreducens sp. nov. isolated from iodide-rich brine associated with natural gas
Iron corrosion concomitant with nitrate reduction by Iodidimonas nitroreducens sp. nov. isolated from iodide-rich brine associated with natural gas Open
Microbially influenced corrosion (MIC) may contribute significantly to corrosion-related failures in injection wells and iron pipes of iodine production facilities. In this study, the iron (Fe 0 ) corroding activity of strain Q-1 isolated …
View article: Isolation and genomic analysis of a type IV pili-independent <i>Thermus thermophilus</i> phage, φMN1 from a Japanese hot spring
Isolation and genomic analysis of a type IV pili-independent <i>Thermus thermophilus</i> phage, φMN1 from a Japanese hot spring Open
A Thermus thermophilus lytic phage was isolated from a Japanese hot spring using a type IV pili-deficient strain as an indicator host, and designated as φMN1. Electron microscopic (EM) examination revealed that φMN1 had an icosahedral head…
View article: Draft Genome Sequence of Lentilactobacillus kosonis NBRC 111893, Isolated from a Japanese Sugar-Vegetable Fermented Beverage called Kôso
Draft Genome Sequence of Lentilactobacillus kosonis NBRC 111893, Isolated from a Japanese Sugar-Vegetable Fermented Beverage called Kôso Open
Lentilactobacillus kosonis NBRC 111893 is a species of heterolactic acid bacteria isolated from kôso, a Japanese sugar-vegetable fermented beverage. The draft genome sequence of L. kosonis NBRC 111893 is useful for understanding the featur…
View article: Complete Genomic Sequence of the Thermophilic Hydrogen-Oxidizing Methanogen Methanothermobacter tenebrarum Strain RMAS <sup>T</sup>
Complete Genomic Sequence of the Thermophilic Hydrogen-Oxidizing Methanogen Methanothermobacter tenebrarum Strain RMAS <sup>T</sup> Open
Methanothermobacter tenebrarum strain RMAS T has a complete genomic length of 1,472,762 bp, a GC content of 42.1%, 1,599 coding DNA sequences (CDSs), 1 CRISPR array, 3 rRNAs, and 38 tRNAs.
View article: Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Background Aggression is an evolutionarily conserved behavior critical for animal survival. In the fish Betta splendens , across different stages of fighting interactions, fighting opponents suffer from various stressors, especially from t…
View article: Intron retention is a stress response in sensor genes and is restored by Japanese herbal medicines: A basis for future clinical applications
Intron retention is a stress response in sensor genes and is restored by Japanese herbal medicines: A basis for future clinical applications Open
Intron retention (IR) is a regulatory mechanism that can retard protein production by acting at the level of mRNA processing. We recently demonstrated that IR occurs at the pre-symptomatic state during the aging process of a mouse model of…
View article: Kampo formulas alleviate aging-related emotional disturbances and neuroinflammation in male senescence-accelerated mouse prone 8 mice
Kampo formulas alleviate aging-related emotional disturbances and neuroinflammation in male senescence-accelerated mouse prone 8 mice Open
Aging-induced neuroinflammation, also known as neuroinflammaging, plays a pivotal role in emotional disturbances, including depression and anxiety, in older individuals, thereby leading to cognitive dysfunction. Although numerous studies h…
View article: Additional file 3 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Additional file 3 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Additional file 3. AS event profiles in brains under different fighting durations.
View article: Additional file 1 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Additional file 1 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Additional file 1. List of expected alternative splicing events in brains of Betta splendens.
View article: Additional file 2 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Additional file 2 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Additional file 2. List of alternative splicing genes and corresponding alternative splicing events.
View article: Additional file 8 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Additional file 8 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Additional file 8. An ethogram of aggressive behaviors performed by fighting opponents during an initial 60-min fight.
View article: Additional file 5 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Additional file 5 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Additional file 5. List of synchronized genes obtained from the B vs. D60 comparison (up-regulated genes), p-values were obtained by permutation test.
View article: Additional file 7 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Additional file 7 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Additional file 7. List of genes that frameshifts may have been introduced when introns were retained.
View article: Additional file 6 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Additional file 6 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Additional file 6. List of 19 significant differential IR genes between W0 and L0
View article: Additional file 4 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens
Additional file 4 of Alternative splicing plays key roles in response to stress across different stages of fighting in the fish Betta splendens Open
Additional file 4. DAS events generated from various comparisons by rMATS (p < 0.05).
View article: Intron retention as a new pre-symptomatic marker of aging and its recovery to the normal state by a traditional Japanese multi-herbal medicine
Intron retention as a new pre-symptomatic marker of aging and its recovery to the normal state by a traditional Japanese multi-herbal medicine Open
Intron retention (IR) is an important regulatory mechanism that affects gene expression and protein functions. Using klotho mice at the pre-symptomatic state, we discovered that retained-introns accumulated in several organs including the …
View article: A unique neurogenomic state emerges after aggressive confrontations in males of the fish Betta splendens
A unique neurogenomic state emerges after aggressive confrontations in males of the fish Betta splendens Open
Territorial defense involves frequent aggressive confrontations with competitors, but little is known about how brain-transcriptomic profiles change between individuals competing for territory establishment. Our previous study elucidated t…
View article: Genome Analysis of “ <i>Candidatus</i> Regiella insecticola” Strain TUt, Facultative Bacterial Symbiont of the Pea Aphid <i>Acyrthosiphon pisum</i>
Genome Analysis of “ <i>Candidatus</i> Regiella insecticola” Strain TUt, Facultative Bacterial Symbiont of the Pea Aphid <i>Acyrthosiphon pisum</i> Open
The genome of “ Candidatus Regiella insecticola” strain TUt, a facultative bacterial symbiont of the pea aphid Acyrthosiphon pisum , was analyzed. We determined a 2.5-Mb draft genome consisting of 14 contigs; this will contribute to the un…