Advanced biotechnology最新文献

{"title":"Metabolic engineering for single-cell protein production from renewable feedstocks and its applications.","authors":"Zhoukang Zhuang, Guangyu Wan, Xiaocong Lu, Linhai Xie, Tao Yu, Hongting Tang","doi":"10.1007/s44307-024-00042-8","DOIUrl":"10.1007/s44307-024-00042-8","url":null,"abstract":"<p><p>Proteins are indispensable for maintaining a healthy diet and performing crucial functions in a multitude of physiological processes. The growth of the global population and the emergence of environmental concerns have significantly increased the demand for protein-rich foods such as meat and dairy products, exerting considerable pressure on global food supplies. Single-cell proteins (SCP) have emerged as a promising alternative source, characterized by their high protein content and essential amino acids, lipids, carbohydrates, nucleic acids, inorganic salts, vitamins, and trace elements. SCP offers several advantages over the traditional animal and plant proteins. These include shorter production cycles, the use of diverse raw material sources, high energy efficiency, and minimal environmental impact. This review is primarily concerned with the microbial species employed in SCP production, utilization of non-food renewable materials as a source of feedstock, and application of rational and non-rational metabolic engineering strategies to increase SCP biomass and protein content. Moreover, the current applications, production shortages, and safety concerns associated with SCP are discussed.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 4","pages":"35"},"PeriodicalIF":0.0,"publicationDate":"2024-09-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11709146/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143070453","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":"Advancements in delivery strategies and non-tissue culture regeneration systems for plant genetic transformation.","authors":"Minyi Wu, Ao Chen, Xiaomeng Li, Xiaoyun Li, Xingliang Hou, Xu Liu","doi":"10.1007/s44307-024-00041-9","DOIUrl":"10.1007/s44307-024-00041-9","url":null,"abstract":"<p><p>Plant genetic transformation is a pivotal and essential step in modifying important agronomic traits using biotechnological tools, which primarily depend on the efficacy of transgene delivery and the plant regeneration system. Over the years, advancements in the development of delivery methods and regeneration systems have contributed to plant engineering and molecular breeding. Recent studies have demonstrated that the efficiency of plant transformation can be improved by simultaneously delivering meristem-developmental regulators, utilizing virus-mediated gene editing, and executing non-sterile in planta manipulations. Efficient genetic delivery and non-tissue culture regeneration systems are gradually being developed. This review summarizes diverse delivery strategies and in planta regeneration techniques aimed at improving the efficiency of plant genetic transformation. We also emphasize the integration and utilization of these emerging transgenic approaches for expediting future crop engineering.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 4","pages":"34"},"PeriodicalIF":0.0,"publicationDate":"2024-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11709142/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143070393","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":"Regulation of autophagy by protein lipidation.","authors":"Yuqian Shao, Junchao Hu, Huihui Li, Kefeng Lu","doi":"10.1007/s44307-024-00040-w","DOIUrl":"10.1007/s44307-024-00040-w","url":null,"abstract":"<p><p>Autophagy is a conserved catabolic recycling pathway that can eliminate cytosolic materials to maintain homeostasis and organelle functions. Many studies over the past few decades have demonstrated that abnormal autophagy is associated with a variety of diseases. Protein lipidation plays an important role in the regulation of autophagy by affecting protein trafficking, localization, stability, interactions and signal transduction. Here, we review recent advances in the understanding of the role of lipidation in autophagy, including S-palmitoylation, N-myristoylation, S-prenylation, glycosylphosphatidylinositol (GPI) anchor modification and cholesterylation. We comprehensively review the enzymes and catalytic mechanisms of lipidation and discuss the relationship between lipidation and autophagy, aiming to deepen the understanding of lipidation and promote the discovery of drug targets for the treatment of autophagy-related diseases.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 4","pages":"33"},"PeriodicalIF":0.0,"publicationDate":"2024-09-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11709147/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143070483","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":"Mechanism of microbial action of the inoculated nitrogen-fixing bacterium for growth promotion and yield enhancement in rice (Oryza sativa L.).","authors":"Peng Li, Yunhe Tian, Kun Yang, Meijie Tian, Yi Zhu, Xinyu Chen, Ruiwen Hu, Tian Qin, Yongjun Liu, Shuguang Peng, Zhenxie Yi, Zhixuan Liu, Hejun Ao, Juan Li","doi":"10.1007/s44307-024-00038-4","DOIUrl":"10.1007/s44307-024-00038-4","url":null,"abstract":"<p><p>The use of nitrogen-fixing bacteria in agriculture is increasingly recognized as a sustainable method to boost crop yields, reduce chemical fertilizer use, and improve soil health. However, the microbial mechanisms by which inoculation with nitrogen-fixing bacteria enhance rice production remain unclear. In this study, rice seedlings were inoculated with the nitrogen-fixing bacterium R3 (Herbaspirillum) at the rhizosphere during the seedling stage in a pot experiment using paddy soil. We investigated the effects of such inoculation on nutrient content in the rhizosphere soil, plant growth, and the nitrogen-fixing microbial communities within the rhizosphere and endorhizosphere. The findings showed that inoculation with the R3 strain considerably increased the amounts of nitrate nitrogen, ammonium nitrogen, and available phosphorus in the rhizosphere by 14.77%, 27.83%, and 22.67%, respectively, in comparison to the control (CK). Additionally, the theoretical yield of rice was enhanced by 8.81% due to this inoculation, primarily through a 10.24% increase in the effective number of rice panicles and a 4.14% increase in the seed setting rate. Further analysis revealed that the structure of the native nitrogen-fixing microbial communities within the rhizosphere and endorhizosphere were altered by inoculation with the R3 strain, significantly increasing the α-diversity of the communities. The relative abundance of key nitrogen-fixing genera such as Ralstonia, Azotobacter, Geobacter, Streptomyces, and Pseudomonas were increased, enhancing the quantity and community stability of the nitrogen-fixing community. Consequently, the nitrogen-fixing capacity and sustained activity of the microbial community in the rhizosphere soil were strengthened. Additionally, the expression levels of the nitrogen absorption and transport-related genes OsNRT1 and OsPTR9 in rice roots were upregulated by inoculation with the R3 strain, potentially contributing to the increased rice yield. Our study has revealed the potential microbial mechanisms through which inoculation with nitrogen-fixing bacteria enhances rice yield. This finding provides a scientific basis for subsequent agricultural practices and is of critical importance for increasing rice production and enhancing the ecosystem services of rice fields.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 4","pages":"32"},"PeriodicalIF":0.0,"publicationDate":"2024-09-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11709144/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143070450","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":"Decoding the genetic blueprint: regulation of key agricultural traits in sorghum.","authors":"Fangyuan Liu, Baye Wodajo, Peng Xie","doi":"10.1007/s44307-024-00039-3","DOIUrl":"10.1007/s44307-024-00039-3","url":null,"abstract":"<p><p>Sorghum, the fifth most important crop globally, thrives in challenging environments such as arid, saline-alkaline, and infertile regions. This remarkable crop, one of the earliest crops domesticated by humans, offers high biomass and stress-specific properties that render it suitable for a variety of uses including food, feed, bioenergy, and biomaterials. What's truly exciting is the extensive phenotypic variation in sorghum, particularly in traits related to growth, development, and stress resistance. This inherent adaptability makes sorghum a game-changer in agriculture. However, tapping into sorghum's full potential requires unraveling the complex genetic networks that govern its key agricultural traits. Understanding these genetic mechanisms is paramount for improving traits such as yield, quality, and tolerance to drought and saline-alkaline conditions. This review provides a comprehensive overview of functionally characterized genes and regulatory networks associated with plant and panicle architectures, as well as stress resistance in sorghum. Armed with this knowledge, we can develop more resilient and productive sorghum varieties through cutting-edge breeding techniques like genome-wide selection, gene editing, and synthetic biology. These approaches facilitate the identification and manipulation of specific genes responsible for desirable traits, ultimately enhancing agricultural performance and adaptability in sorghum.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 4","pages":"31"},"PeriodicalIF":0.0,"publicationDate":"2024-09-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11709141/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143070365","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":"Winter forage crops influence soil properties through establishing different arbuscular mycorrhizal fungi communities in paddy field.","authors":"Mengyan Cao, Yao Xiang, Lingyue Huang, Menghao Li, Cheng Jin, Chuntao He, Guorong Xin","doi":"10.1007/s44307-024-00037-5","DOIUrl":"10.1007/s44307-024-00037-5","url":null,"abstract":"<p><p>Winter planting is promising for improving the utilization rate of fallow paddy fields in southern China by establishing arbuscular mycorrhizal fungi (AMF) communities. However, the effects of different winter forage crops on AMF community construction remain unknown. The AMF community establishment of different winter planting forage crops were conducted in oat, rye, Chinese milk vetch, and ryegrass, with winter fallow as a control. The AMF colonization rate, soil AMF spore density, community structure and diversity, and soil physicochemical properties were determined. The results showed that the total nitrogen and available nitrogen in winter Chinese milk vetch were 11.11% and 16.92% higher than those in winter fallow (P < 0.05). After planting winter forage crops, the AMF spore density in winter oat, rye, Chinese milk vetch, and ryegrass soil were 127.90%, 64.37%, 59.91%, and 73.62% higher than that before planting, respectively (P < 0.05). Claroideoglomus was the dominant AMF genus in the soil of winter planting oat, rye, and ryegrass. The average membership function value of winter Chinese milk vetch was the highest, indicating that it had the best comprehensive effect on soil physicochemical properties, AMF community structure and diversity, and fresh forage yield. Winter forage crops could increase the spore pool of soil AMF and improve the soil AMF community structure and diversity. Winter Chinese milk vetch in paddy field had the best comprehensive effect on soil physicochemical properties and soil AMF community according to the comprehensive evaluation. These findings provide a theoretical basis for sustainable development and utilization of the southern rice paddy ecosystem.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 3","pages":"30"},"PeriodicalIF":0.0,"publicationDate":"2024-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11740874/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143070380","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":"DSCI: a database of synthetic biology components for innate immunity and cell engineering decision-making processes.","authors":"Chenqiu Zhang, Tianjian Chen, Zhiyu Li, Qing Lu, Xiaotong Luo, Sihui Cai, Jie Zhou, Jian Ren, Jun Cui","doi":"10.1007/s44307-024-00036-6","DOIUrl":"10.1007/s44307-024-00036-6","url":null,"abstract":"<p><p>Although significant progress of clinical strategy has been made in gene editing and cell engineering in immunotherapy, it is now apparent that design and modification in terms of complex signaling pathways and motifs on medical synthetic biology are still full of challenges. Innate immunity, the first line of host defense against pathogens, is critical for anti-pathogens immune response as well as regulating durable and protective T cell-mediated anti-tumor responses. Here, we introduce DSCI (Database of Synthetic Biology Components for Innate Immunity, https://dsci.renlab.cn/ ), a web-accessible and integrative database that provides better insights and strategies for innate immune signaling circuit design in biosynthesis. Users can interactively navigate comprehensive and carefully curated components resources that presented as visualized signaling motifs that participate in innate immunity. The current release of DSCI incorporates 1240 independent components and more than 4000 specific entries contextually annotated from public literature with experimental verification. The data integrated into DSCI includes the components of pathways, relationships between regulators, signal motifs based on regulatory cascades, and loop graphs, all of which have been comprehensively annotated to help guide modifications to gene circuits. With the support of DSCI, users can easily obtain guidance of gene circuits construction to make decision of cell engineering based on innate immunity. DSCI not only provides comprehensive and specialized resource on the biological components of innate immune synthesis, but also serves as a useful tool to offer modification or generation strategies for medical synthetic biology.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 3","pages":"29"},"PeriodicalIF":0.0,"publicationDate":"2024-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11740867/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143070150","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":"Advancing chromosomal-scale, haplotype-resolved genome assembly: beading with Hi-C data.","authors":"Kesen Zhu, Qingyun Li, Qianqian Kong, Junpeng Shi","doi":"10.1007/s44307-024-00035-7","DOIUrl":"10.1007/s44307-024-00035-7","url":null,"abstract":"","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 3","pages":"28"},"PeriodicalIF":0.0,"publicationDate":"2024-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11740862/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143069857","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":"Abscission in plants: from mechanism to applications.","authors":"Jiahuizi Li, Shihao Su","doi":"10.1007/s44307-024-00033-9","DOIUrl":"10.1007/s44307-024-00033-9","url":null,"abstract":"<p><p>Abscission refers to the natural separation of plant structures from their parent plants, regulated by external environmental signals or internal factors such as stress and aging. It is an advantageous process as it enables plants to shed unwanted organs, thereby regulating nutrient allocation and ensuring the dispersal of fruits and seeds from the parent. However, in agriculture and horticulture, abscission can severely reduce crop quality and yield. In this review, we summarize the recent advances in plant abscission from the perspectives of developmental and molecular biology, emphasizing the diverse regulatory networks across different plant lineages, from model plants to crops. The sophisticated process of plant abscission involves several overlapping steps, including the differentiation of the abscission zone, activation of abscission, tissue detachment, and formation of a protective layer. Finally, we discuss the potential applications of physiological modifications and genetic manipulations of plant abscission in sustainable agriculture in the future.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 3","pages":"27"},"PeriodicalIF":0.0,"publicationDate":"2024-08-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11740850/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143069578","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":"Mining microbial and metabolic dark matter in extreme environments: a roadmap for harnessing the power of multi-omics data.","authors":"Jia-Rui Han, Shuai Li, Wen-Jun Li, Lei Dong","doi":"10.1007/s44307-024-00034-8","DOIUrl":"10.1007/s44307-024-00034-8","url":null,"abstract":"<p><p>Extreme environments such as hyperarid, hypersaline, hyperthermal environments, and the deep sea harbor diverse microbial communities, which are specially adapted to extreme conditions and are known as extremophiles. These extremophilic organisms have developed unique survival strategies, making them ideal models for studying microbial diversity, evolution, and adaptation to adversity. They also play critical roles in biogeochemical cycles. Additionally, extremophiles often produce novel bioactive compounds in response to corresponding challenging environments. Recent advances in technologies, including genomic sequencing and untargeted metabolomic analysis, have significantly enhanced our understanding of microbial diversity, ecology, evolution, and the genetic and physiological characteristics in extremophiles. The integration of advanced multi-omics technologies into culture-dependent research has notably improved the efficiency, providing valuable insights into the physiological functions and biosynthetic capacities of extremophiles. The vast untapped microbial resources in extreme environments present substantial opportunities for discovering novel natural products and advancing our knowledge of microbial ecology and evolution. This review highlights the current research status on extremophilic microbiomes, focusing on microbial diversity, ecological roles, isolation and cultivation strategies, and the exploration of their biosynthetic potential. Moreover, we emphasize the importance and potential of discovering more strain resources and metabolites, which would be boosted greatly by harnessing the power of multi-omics data.</p>","PeriodicalId":519913,"journal":{"name":"Advanced biotechnology","volume":"2 3","pages":"26"},"PeriodicalIF":0.0,"publicationDate":"2024-08-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11740847/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143070357","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}