Advanced biotechnology最新文献

{"title":"Canonical pathways and selective mechanisms of autophagy in inflammatory bowel disease.","authors":"Rui Lin, Zhaoyuan Xu, Min Zhi","doi":"10.1007/s44307-026-00094-y","DOIUrl":"10.1007/s44307-026-00094-y","url":null,"abstract":"<p><p>Inflammatory bowel disease (IBD), encompassing Crohn's disease (CD) and ulcerative colitis (UC), is a chronic inflammatory disorder of the gastrointestinal tract. Autophagy, an essential intracellular homeostatic process, plays a pivotal role in the pathogenesis and progression of IBD. This review systematically examines recent advances in understanding the involvement of autophagy in IBD, with a particular focus on the regulatory mechanisms governing its sequential phases-initiation, elongation, and termination-and their respective contributions to intestinal inflammation. We highlight how dysregulation of core autophagy components, including the ULK1 complex, Beclin 1 complex, and ATG16L1, influences inflammatory responses. Furthermore, this article delves into the context-dependent roles of selective autophagy pathways such as mitophagy, ER-phagy, and xenophagy in IBD, as well as the emerging significance of non-autophagic functions exerted by autophagy-related genes. By integrating these multifaceted aspects, this review aims to provide a theoretical foundation and identify potential targets for future precision therapeutics targeting autophagy in IBD.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"4 1","pages":"4"},"PeriodicalIF":0.0,"publicationDate":"2026-02-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12905036/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146196239","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Systemic stomatal immunity: the beacon of fire and smoke in plant disease resistance.","authors":"Changzhen Liu, Qiangsheng Yu, Susheng Song, Tiancong Qi","doi":"10.1007/s44307-026-00098-8","DOIUrl":"10.1007/s44307-026-00098-8","url":null,"abstract":"","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"4 1","pages":"3"},"PeriodicalIF":0.0,"publicationDate":"2026-02-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12901790/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146168873","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A modular synthetic biology toolkit unlocks metabolic engineering of the industrially relevant alga Nannochloropsis.","authors":"Yutan Guo, Zhixiong Li, Hao Wang, Jie Zheng, Zhiwei Liang, Han Sun, Wenguang Zhou, Jin Liu","doi":"10.1007/s44307-026-00096-w","DOIUrl":"10.1007/s44307-026-00096-w","url":null,"abstract":"<p><p>Nannochloropsis is an industrially relevant marine microalga with exceptional potential as a chassis for sunlight-driven CO₂ valorization. However, its broad application in synthetic biology has been constrained by the lack of a standardized and modular genetic toolbox. Here, we report the development of a comprehensive Modular Cloning (MoClo) toolkit for Nannochloropsis, based on Golden Gate assembly and a standard syntax. The toolkit comprises 91 domesticated genetic parts spanning promoters, signal peptides, selectable markers, reporter genes, tags and terminators. A large subset of these parts, including several not previously evaluated in Nannochloropsis, was functionally validated, enabling convenient and reliable transformant selection, immunodetection, and subcellular localization. To demonstrate the utility of the toolkit for multi-gene pathway engineering, modularly assembled keto-carotenoid biosynthetic pathways were introduced into Nannochloropsis, leading to substantial accumulation of canthaxanthin (4.5 mg g^-1) or astaxanthin (2.8 mg g^-1). Collectively, this flexible and expandable MoClo toolkit establishes a standardized foundation for synthetic biology in Nannochloropsis, enables rapid design-build-test cycles for multi-gene constructs, and advances the use of industrial microalga for sustainable, CO₂-based production of value-added biochemicals.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"4 1","pages":"2"},"PeriodicalIF":0.0,"publicationDate":"2026-02-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12868398/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146115374","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Responses of gut microbial community and metabolic function to disposable face mask of Zophobas atratus larvae.","authors":"Chunlan Mao, Kunyue Zhang, Mamtimin Tursunay, Jing Ji, Xiangkai Li","doi":"10.1007/s44307-025-00092-6","DOIUrl":"10.1007/s44307-025-00092-6","url":null,"abstract":"<p><p>With the prevalence of epidemics, disposable face masks have been used in large quantities and has caused global environmental pollution concern. The gut microbiome of Zophobas atratus larvae showed great potential for plastic degradation. In a preliminary study, the larval gut microbiome could degrade masks, which has not been previously reported. This study validated the ability of the gut microbiome to degrade masks. Functional microbiomes and metabolic pathways associated with the degradation of masks were also analyzed. Our findings confirmed that the larvae have high masks-degrading ability with a consumption of 60 ± 0.04 mg/d (dry mass by per 50 larvae), which is gut microbiome-dependent. At the genus level, Hafnia and Corynebaterium were highly abundant and contributed to masks degradation. The degrading metabolites were then identified, of which 46 were significantly upregulated. Steroid hormone biosynthesis and the cytochrome P450 pathway may be linked to DFM (PP) oxidation and degradation. Finally, Stenotrophomonas sp. strain M212 with a masks-degrading ability was screened from these functional microorganisms, further establishing the role of the gut microbiome.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"4 1","pages":"1"},"PeriodicalIF":0.0,"publicationDate":"2026-01-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12765775/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145902130","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Integrated transcriptomic and microbiota analyses reveal growth-related intestinal responses to feeding strategies in Nibea coibor.","authors":"Zhaoqiu Qu, Jiayu Zhou, Ruojing Li, Qianwen Min, Xin Yi, Zhenjun Zhuang, Biao Yuan, Xubing Ba, Na Zhao, Bo Zhang","doi":"10.1007/s44307-025-00088-2","DOIUrl":"10.1007/s44307-025-00088-2","url":null,"abstract":"<p><p>Feeding strategies critically influence intestinal homeostasis in farmed fish, however, their underlying regulatory mechanisms remain poorly understood. Nibea coibor, a fish species with local characteristics in Zhanjiang (Guangdong Province, China), was chosen as the experimental model for studying feeding strategies. This study employed integrated multi-omics analyses to systematically dissect the multidimensional regulatory networks of four different feeding strategies on intestinal morphology, transcriptome, and microbiota in Nibea coibor. Feeding strategies reshaped gut microbiota composition and significantly altered gene expression. Compared with daytime feeding (DF), continuous fasting (CF) induced villus atrophy and goblet cell loss, disrupted microbial homeostasis (Vibrio, Actinomyces, Photobacterium, and Akkermansia upregulation), and triggered transcriptional reprogramming (pfkfb4, pla2g12b, rptor, and pecam1 downregulation; col1a upregulation). In contrast, intermittent fasting (IF, two-day fasting/one-day feeding) achieved optimal intestinal health with the highest goblet cell density, villus height, and microbial diversity, suggesting microbiota-mediated gut plasticity and adaptation. Nighttime feeding (NF) elicited minor downregulation of energy metabolism genes without causing significant morphological or microbial alterations, indicating limited short-term circadian effects. Finally, the PLS-PM model delineated the cascade regulatory relationships linking gut microbiota, transcriptome, and intestinal morphology. These findings highlight intermittent fasting as a promising strategy to sustain intestinal homeostasis through microbiota-host synergy, while underscoring the risks of prolonged fasting-induced metabolic and barrier dysfunction. This work provides valuable insights for refining feeding protocols in marine fish aquaculture, especially N. coibor.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"3 4","pages":"37"},"PeriodicalIF":0.0,"publicationDate":"2025-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12702818/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145758657","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Dietary macroalgae enhances amino acid metabolism via intestinal Shewanella in grass carp (Ctenopharyngodon idella).","authors":"Xingxing An, Shuhui Niu, Mamun Abdullah Al, Erxin Su, Lin Chen, Houxiong He, Yaohua Wang, Song Zhang, Yong Yang, Shen Wang, Zheyu Wen, Baohong Xu, Yuzhen Ming, Wengen Zhu, Zhenrui Zhao, Kun Wu, Yufeng Yang, Wei Xie, Zhili He, Qingyun Yan","doi":"10.1007/s44307-025-00090-8","DOIUrl":"10.1007/s44307-025-00090-8","url":null,"abstract":"<p><p>The gut microbiome plays pivotal roles in the host's metabolic response to dietary interventions. Dietary macroalgae supplementation represents a promising strategy for enhancing animal growth and health via microbiome modulation. However, the underlying mechanism of how macroalgae supplementation regulates microbiome-host interactions in aquatic species remains unclear. This study investigated the effects of three dietary macroalgae-Sargassum hemiphyllum (S), Asparagopsis taxiformis (A), and Gracilaria lemaneiformis (G)-each supplemented at 5% in feed, on the gut microbiome and metabolism of grass carp (Ctenopharyngodon idella), using integrated approaches of 16S rRNA sequencing, metagenomics, and metabolomics. While all three macroalgae influenced host growth, supplementation of S provided the most comprehensive benefits, with significant enhancement of body weight and hepatic superoxide dismutase activity. Integrated multi-omics analysis revealed that dietary macroalgae supplementation increased the relative abundance of the key gut bacterial genus Shewanella, with the most notable effect observed in the supplementation of S. Subsequent analysis of a metagenome-assembled genome (MAG) of Shewanella (MAG C3_bin52) demonstrated its considerable potential for amino acid biosynthesis and metabolism. This genomic potential was further supported by metabolomic profiling, which indicated significant upregulation of amino acid-related metabolites, particularly in the supplementation S. Pathway analysis confirmed enrichment in processes associated with protein digestion and absorption, amino acid biosynthesis, and related metabolic pathways. These findings highlight the modulation of a macroalgae-microbiome-metabolite axis in grass carp, primarily mediated by the enrichment of Shewanella in gut ecosystem for enhancing host amino acid metabolism. This study advances understanding of dietary modulation of the gut microbiome and provides insights for the sustainable development of aquaculture.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"3 4","pages":"36"},"PeriodicalIF":0.0,"publicationDate":"2025-12-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12702836/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145758412","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pre-mRNA splicing and its regulation in microalgae and cyanobacteria.","authors":"Sally Do, Yue Liu, Henry Huynh, Yinggao Liu, Wujiao Li, Mo-Xian Chen, Zhi-Yan Du","doi":"10.1007/s44307-025-00087-3","DOIUrl":"10.1007/s44307-025-00087-3","url":null,"abstract":"<p><p>Among eukaryotes, alternative splicing (AS) plays a role in mechanisms involved in processes such as regulation, development, and stress response. In animals, AS mainly functions in tissue development, whereas in plant species, AS plays a major role in stress response, a function additionally mirrored in microalgae. The latter species are highly valued for their ability to produce a variety of useful compounds. Furthermore, their productivity is directly intertwined with stress response, placing the mechanisms behind it in the spotlight. As stress can spur an increased production of pigments, lipids, fatty acids, and carbohydrates utilized in the synthesis of products such as nutraceuticals, pharmaceuticals, and biofuels. Delving into microalgae, we assess AS processes and the regulation of various developmental stages and stress conditions. Additionally, cyanobacteria also have high economic value. As prokaryotes with the ability to undergo self-splicing, research focus has promoted the phylum's use in biotechnology to catalyze protein splicing. Although self-splicing and AS are two different types of splicing processes, there are some connections between them. For instance, the small nuclear RNA required for AS originates from group II introns. Therefore, this review focuses on elaborating on two distinct but related topics: the AS of microalgae and the three main forms of self-splicing intervening sequences (group I introns, group II introns, and inteins) in cyanobacteria.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"3 4","pages":"35"},"PeriodicalIF":0.0,"publicationDate":"2025-12-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12702839/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145758831","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Publisher Correction: Co-exposure to microplastics and bisphenol A increases viral susceptibility in largemouth bass (Micropterus salmoides) via oxidative stress.","authors":"Jie Gao, Junzhe Zhang, Rui Zheng, Jing Jiang, Siyou Huang, Qijin Miao, Bingya Wu, Wanting Tang, Jianguo He, Junfeng Xie","doi":"10.1007/s44307-025-00089-1","DOIUrl":"10.1007/s44307-025-00089-1","url":null,"abstract":"","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"3 4","pages":"34"},"PeriodicalIF":0.0,"publicationDate":"2025-12-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12698919/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145728129","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Pollution-driven viral susceptibility: mixed contaminants as hidden determinants of aquaculture disease.","authors":"Shaoping Weng, Liqing Wu, Changjun Guo","doi":"10.1007/s44307-025-00091-7","DOIUrl":"10.1007/s44307-025-00091-7","url":null,"abstract":"","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"3 4","pages":"33"},"PeriodicalIF":0.0,"publicationDate":"2025-12-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12690022/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145710703","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Microbacterium testaceum facilitates polysaccharide decomposition during post-harvest aging of tobacco leaves by recruiting keystone bacterial taxa.","authors":"Yichao Hu, Yuwen Wang, Tian Qin, Weihao Chen, Tingting Ma, Jia Lei, Qinlin Fu, Xingpeng Feng, Zhiwei Han, Juan Li","doi":"10.1007/s44307-025-00086-4","DOIUrl":"10.1007/s44307-025-00086-4","url":null,"abstract":"<p><p>The use of functional microorganisms is a widely adopted, green, and efficient industrial technique for enhancing tobacco leaf quality. These microorganisms accelerate the degradation of macromolecular organic substances. However, their impact on the chemical composition of tobacco leaves across different aging durations and the mechanisms of polysaccharide degradation remain unclear. This study analyzed the degradation patterns of starch, pectin, cellulose, and hemicellulose at different time points (3 h, 2 months, 6 months, 36 months) during the tobacco aging process after the addition of Microbacterium testaceum, and compared the differences in microbial community structure, diversity, and molecular ecological networks. The results showed that compared with sterile water treatment of the tobacco leaf aging process, the exogenous addition of Microbacterium testaceum accelerated the degradation of polysaccharide macromolecules, and the highest degradation rate of starch was 17.4% at the aging stage of 2-6 months, and the highest degradation rate of pectin was 45.46% at the aging stage of 6-36 months. At the same time, the exogenous addition of Microbacterium testaceum altered the microbial community structure during the tobacco aging process by increasing the number of core functional microorganisms, such as Delftia and Proteus, which promoted microorganisms that play a role in material degradation in the ecological environment of tobacco aging. This study provided a theoretical basis for the regulation of interspecific microbial interactions by exogenous functional strains over a broad timescale (from 3 h to 36 months) during tobacco aging, thereby promoting the degradation of polysaccharide macromolecules.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"3 4","pages":"32"},"PeriodicalIF":0.0,"publicationDate":"2025-11-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12627313/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145552631","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}