{"title":"Human intestinal organoids as a valuable tool to investigate human intestinal biology.","authors":"Yu Takahashi","doi":"10.1093/bbb/zbaf099","DOIUrl":"10.1093/bbb/zbaf099","url":null,"abstract":"<p><p>Intestinal organoids have been regarded as valuable tools for investigating the physiological functions of the human intestinal epithelium, including nutrient absorption and xenobiotic metabolism. However, owing to the high culture cost and handling complexity, their use is not as widespread as expected in both academia and industry. To overcome this issue, we developed multiple fundamental methodologies for the routine use of human organoids with minimal differences among users. Based on these results, human intestinal organoids can now be cultured on a large scale at a significantly lower cost, which enables compound screening, including screening of drug candidates that exhibit cytotoxicity, which may lead to intestinal toxicity. We also demonstrated that human intestinal organoids can reproduce physiological functions and phenomena in the human intestinal epithelium, which are difficult to evaluate in some experimental animals and cancer-derived human cell lines and are expected to provide impetus to accelerate organoid research.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":"1418-1424"},"PeriodicalIF":1.3,"publicationDate":"2025-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144583156","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Comparative analysis of quorum-sensing systems that control pathogenicity in three phylogenetic groups of Pseudomonas isolated from tomato pith necrosis in Japan.","authors":"Tomohiro Morohoshi, Xiaonan Xie, Tomohiro Suzuki, Nobutaka Someya","doi":"10.1093/bbb/zbaf100","DOIUrl":"10.1093/bbb/zbaf100","url":null,"abstract":"<p><p>Tomato pith necrosis (TPN) is a common disease worldwide. In this study, we investigated the relationship between acylhomoserine lactone (AHL)-mediated quorum sensing and pathogenicity in 21 TPN isolates, which were classified into three groups: group 1 (Pseudomonas corrugata), group 2 (Pseudomonas mediterranea), and group 3 (novel taxonomic group). All strains produced N-hexanoyl-l-homoserine lactone as the dominant AHL molecule. Phylogenetic analyses revealed high conservation of quorum-sensing genes among the three groups, with nearly identical sequences and arrangements. Whole-genome sequencing of the group 3 strain MAFF 730105 revealed the presence of a type III secretion system gene cluster, similar to well-known plant pathogens. Although quorum sensing influences virulence, its impact is limited, and some virulence factors may be constitutive or regulated independently. These results suggest that quorum sensing contributes to TPN symptoms; however, additional factors and regulatory mechanisms are involved in the pathogenicity of TPN isolates.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":"1509-1516"},"PeriodicalIF":1.3,"publicationDate":"2025-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144599405","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Taisuke Watanabe, Shinkuro Kimura, Takafumi Kasumi, Jun Ogihara
{"title":"Development of an electroporation-based transformation system for Moniliella megachiliensis.","authors":"Taisuke Watanabe, Shinkuro Kimura, Takafumi Kasumi, Jun Ogihara","doi":"10.1093/bbb/zbaf107","DOIUrl":"10.1093/bbb/zbaf107","url":null,"abstract":"<p><p>We developed an electroporation-based transformation system for Moniliella megachiliensis, a basidiomycetous yeast producing erythritol. Using a green fluorescence protein expression vector, successful gene transfer and expression were confirmed. This is the first report of genetic transformation in this genus, providing a foundation for future genetic engineering and biotechnological applications in food and fermentation industries.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":"1517-1520"},"PeriodicalIF":1.3,"publicationDate":"2025-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144658453","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Correction to: Liraglutide enhances myotube differentiation and muscle contractile activity upon electric pulse stimulation in mouse skeletal muscle cells.","authors":"","doi":"10.1093/bbb/zbaf116","DOIUrl":"10.1093/bbb/zbaf116","url":null,"abstract":"","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":"1529"},"PeriodicalIF":1.3,"publicationDate":"2025-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144871519","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Apple Sourness and Sweetness Intensities Standardized Using a General-purpose Standard Solution and a Taste Sensor System.","authors":"Tomomi Ujihara, Nobuyuki Hayashi, Hidekazu Ikezaki","doi":"10.1093/bbb/zbaf136","DOIUrl":"https://doi.org/10.1093/bbb/zbaf136","url":null,"abstract":"<p><p>The taste of agricultural products and foods is an important factor in quality evaluation; thus, comparable taste data are useful for their production, marketing, branding, and distribution regardless of when or where the data were obtained. To realize this concept, taste data need to be standardized. In this study, a method for standardizing the sourness and sweetness intensities of apple was established using a taste sensor system and a standard solution prepared from citric acid and sucrose. These taste substances are commonly used for standard solutions of other foods. Polyphenolic compounds that interfere with the sweetness sensor probe were removed from sample solutions using polyvinylpolypyrrolidone. The taste intensities estimated using this method showed good agreement with chemical analysis values highly correlated with human sensory evaluation data.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145091221","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Amino acid profile affecting the lactic acid bacterial community in kimoto seed mash at various brewing years.","authors":"Hayato Takeuchi, Kazunari Ito, Yuji Miyake, Yuka Tanino, Shuzo Watanabe, Kouzo Watanabe, Tsuyoshi Miyake","doi":"10.1093/bbb/zbaf134","DOIUrl":"https://doi.org/10.1093/bbb/zbaf134","url":null,"abstract":"<p><p>Kimoto seed mash is a traditional fermentation starter used in sake brewing that contains sufficient lactic acid produced by various lactic acid bacteria (LAB). To determine the factors influencing their community, we investigated the actively operating LAB species in addition to brewing and chemical components in the early and middle periods over different brewing years in the same sake brewery. The results showed that the composition and changes in the LAB species and amino acid profiles varied annually. Furthermore, reproduction of changes in the LAB community using a modified synthetic medium demonstrated the dependency of certain LAB strains on specific amino acids. Notably, we found that the behaviors of cocci such as Leuconostoc citreum, Lactococcus raffinolactis, Leuconostoc suionicum, and Pediococcus pentosaceus were affected by tryptophan or tyrosine requirements for each species. The metabolic activities of some LAB species were also reflected in the organic acid profile of kimoto seed mash.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145091180","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Co-administration of histidine and soy isoflavones induces beige adipogenesis in male rats: depot-specific responses in white adipose tissue.","authors":"Riku Asahi, Haruhide Udagawa, Remiko Oshiro, Shigeru Nakajima, Nobuyuki Kanzawa, Yukiko Shimizu, Tadashi Okamura, Takahiko J Fujimi","doi":"10.1093/bbb/zbaf135","DOIUrl":"https://doi.org/10.1093/bbb/zbaf135","url":null,"abstract":"<p><p>Co-administration of histidine and soy isoflavones induced beige adipogenesis in male rats, as demonstrated by the formation of multilocular lipid droplets and increased uncoupling protein 1 gene expression in white adipose tissue. This response was accompanied by fat depot-specific enhancement of mitochondrial activity and suppression of lipogenesis, suggesting the potential for dietary strategies to combat obesity via beige adipocytes activation.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145085041","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Miwako Deguchi, Akemi Hosoda, Tomoe Fukumura, Shigeru Saeki, DongHo Kim
{"title":"Augmented glucagon-induced gluconeogenesis in primary hepatocytes from Otsuka Long-Evans Tokushima Fatty rats.","authors":"Miwako Deguchi, Akemi Hosoda, Tomoe Fukumura, Shigeru Saeki, DongHo Kim","doi":"10.1093/bbb/zbaf133","DOIUrl":"https://doi.org/10.1093/bbb/zbaf133","url":null,"abstract":"<p><p>Glucagon dysregulation is a hallmark of type 2 diabetes mellitus (T2DM), yet its early hepatic effects remain unclear. Here, we demonstrate that glucagon-induced gluconeogenesis is markedly enhanced in primary hepatocytes from prediabetic Otsuka Long-Evans Tokushima Fatty (OLETF) rats, a well-established model of human T2DM. Compared to control LETO rats, OLETF hepatocytes showed significantly higher glucagon-stimulated expression of gluconeogenic genes (Pepck, G6pase, Fbp1) at both mRNA and protein levels, along with elevated glucose production. Notably, mRNA decay analysis revealed prolonged half-lives of gluconeogenic transcripts in OLETF hepatocytes, indicating enhanced mRNA stability as a novel mechanism contributing to increased hepatic glucose output. These findings highlight aberrant glucagon responsiveness and post-transcriptional regulation as potential predisposing factors in genetically susceptible models prior to the onset of overt metabolic abnormality, suggesting may be of interest for preventive or therapeutic strategies for controlling fasting hyperglycemia.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145028975","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"IL-1β restrains its own apoptosis-promoting activity via NF-κB (RelA) Ser276/p62-mediated elimination of damaged mitochondria in Chondrocytes.","authors":"Junzheng Hu, Weituo Zhang, Zhe Zhao","doi":"10.1093/bbb/zbaf119","DOIUrl":"https://doi.org/10.1093/bbb/zbaf119","url":null,"abstract":"<p><p>Interleukin-1β (IL-1β) is a central proinflammatory cytokine implicated in osteoarthritis (OA), but its precise role in chondrocyte apoptosis remains to be fully elucidated. In this study, we demonstrate that IL-1β triggers mitophagy in chondrocytes by promoting Parkin translocation and p62 recruitment to damaged mitochondria, thereby reducing mitochondrial dysfunction and apoptosis. Loss of p62 resulted in impaired mitophagy, excessive mitochondrial superoxide accumulation, and increased cell death. Mechanistically, IL-1β enhanced NF-κB (RelA) phosphorylation at Ser276 and Ser536, accompanied by elevated MSK1 expression. Inhibition of MSK1 selectively suppressed Ser276 phosphorylation without affecting Ser536, leading to reduced p62 expression and disrupted mitophagy. These findings reveal a previously unrecognized intrinsic regulatory mechanism by which IL-1β limits its own apoptosis-promoting effect through activation of the NF-κB (RelA) Ser276-p62-mitophagy axis. This pathway facilitates the clearance of damaged mitochondria and preserves chondrocyte viability, offering potential therapeutic insight into inflammation-associated cartilage degeneration in OA.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145022894","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Mechanistic analysis of lignocellulosic biomass saccharification by the filamentous fungus Talaromyces cellulolyticus.","authors":"Tatsuya Fujii","doi":"10.1093/bbb/zbaf132","DOIUrl":"https://doi.org/10.1093/bbb/zbaf132","url":null,"abstract":"<p><p>Lignocellulosic biomass is a carbon-neutral resource crucial to advancing a bio-based economy. The filamentous fungus Talaromyces cellulolyticus demonstrates superior biomass saccharification efficiency compared to conventional enzyme-producing fungi, making it a promising host for enzymatic biomass conversion. To enable molecular studies, we developed a robust genetic transformation system for T. cellulolyticus and identified key transcription factors regulating saccharifying enzyme genes, classified into three functional groups. Manipulation of these regulators significantly enhanced enzyme production. Additionally, we purified individual enzymes and conducted biochemical and structural analyses, leading to the discovery of a novel xylanase with unique side-chain recognition. The integration of genetic and enzymatic insights advances both our understanding of fungal saccharification systems and the development of more efficient biomass-to-sugar conversion strategies for sustainable biotechnological applications.</p>","PeriodicalId":9175,"journal":{"name":"Bioscience, Biotechnology, and Biochemistry","volume":" ","pages":""},"PeriodicalIF":1.3,"publicationDate":"2025-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145022821","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}