Biotechnology and Bioprocess Engineering最新文献_第3页

Recycle of sugarcane molasses by Aurantiochytrium sp. for high-value docosahexaenoic acid 通过 Aurantiochytrium sp.回收甘蔗糖蜜以获得高价值的二十二碳六烯酸

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-07-07 DOI: 10.1007/s12257-024-00119-0

Qing Wang, Wenbiao Jin, Yujia Qin, Xu Zhou, Yidi Chen, Jing Sun, Sabah Ansar, Guangming Jiang

{"title":"Recycle of sugarcane molasses by Aurantiochytrium sp. for high-value docosahexaenoic acid","authors":"Qing Wang, Wenbiao Jin, Yujia Qin, Xu Zhou, Yidi Chen, Jing Sun, Sabah Ansar, Guangming Jiang","doi":"10.1007/s12257-024-00119-0","DOIUrl":"https://doi.org/10.1007/s12257-024-00119-0","url":null,"abstract":"Sugarcane molasses is one of the by-products from the sugar industry, which is a candidate carbon source for microbes to produce high-value docosahexaenoic acid (DHA) that is beneficial to human health. The aim of this study was to optimize the sugarcane molasses medium for DHA production by Aurantiochytrium sp. and investigate the treatment and disposal of sugarcane molasses fermentation wastewater. Firstly, the sugarcane molasses volume ratio, carbon–nitrogen ratio and citric acid concentration were optimized for the sugarcane molasses medium, and the DHA production in Aurantiochytrium sp. R2A35 was increased from 2.63 to 7.48 g/L. Then, the two-staged oxygen supply strategy was adopted in the expanded culture, and the DHA production reached to 10.04 g/L. And the DHA proportion in total lipid was significantly improved from 41.08 to 60.46% (w/w), which promoted the total DHA production. The data showed that high oxygen supply promoted biomass accumulation and low oxygen supply promoted DHA accumulation in Aurantiochytrium sp. R2A35. It was also found that Aurantiochytrium sp. R2A35 preferred to use the reducing sugar in sugarcane molasses and then used sucrose. The final utilization rate of reducing sugar was 100% and the utilization rate of sucrose was 94.37%. Finally, the concentrated fermentation wastewater, sugarcane leaves and bagasse were mixed as a ratio of 2:5:12 for composting, and the compost product could meet the commercial organic fertilizer standard. This study accelerated the resource utilization of sugarcane waste and provided an alternative solution for DHA industry.","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":"40 1","pages":""},"PeriodicalIF":3.2,"publicationDate":"2024-07-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141570590","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}

引用次数: 0

Automatic cancer nuclei segmentation on histological images: comparison study of deep learning methods 组织学图像上的自动癌核分割：深度学习方法的比较研究

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-07-04 DOI: 10.1007/s12257-024-00130-5

Maratbek T. Gabdullin, Assel Mukasheva, Dina Koishiyeva, Timur Umarov, Alibek Bissembayev, Ki-Sub Kim, Jeong Won Kang

{"title":"Automatic cancer nuclei segmentation on histological images: comparison study of deep learning methods","authors":"Maratbek T. Gabdullin, Assel Mukasheva, Dina Koishiyeva, Timur Umarov, Alibek Bissembayev, Ki-Sub Kim, Jeong Won Kang","doi":"10.1007/s12257-024-00130-5","DOIUrl":"https://doi.org/10.1007/s12257-024-00130-5","url":null,"abstract":"Cancer is one of the most common health problems affecting individuals worldwide. In the field of biomedical engineering, one of the main methods for cancer diagnosis is the analysis of histological images of tissue structures and cell nuclei using artificial intelligence. Here, we compared the performance of 15 deep learning methods viz: UNet, Deep-UNet, UNet-CBAM, RA-UNet, SA-Unet and Nuclei-SegNet, UNet-VGG2016, UNet-Resnet-101, TransResUNet, Inception-UNet, Att-UNet++ , FF-UNet, Att-UNet, Res-UNet and a new model, DanNucNet, in pathological nuclei segmentation on tissue slices from different organs on five open datasets: MoNuSeg, CoNSeP, CryoNuSeg, Data Science Bowl, and NuInsSeg. Before training on the data, the pixel intensity and color distribution were analyzed, and different augmentation techniques were applied. The results showed that the UNet-based model with 34.57 million Deep-UNet parameters performed the best, outperforming all models in terms of the Dice coefficient from 3.13 to 22.91%. The implementation of Deep-UNet in this context provides a valuable tool for accurate extraction of cancer cell nuclei from histological images, which in turn will contribute to further developments in cancer pathology and digital histology.","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":"20 1","pages":""},"PeriodicalIF":3.2,"publicationDate":"2024-07-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141548793","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}

引用次数: 0

Immobilization study of a monomeric oleate hydratase from Rhodococcus erythropolis 红球菌单体油酸水解酶的固定化研究

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-07-02 DOI: 10.1007/s12257-024-00129-y

Maria Bandookwala, Sophia A. Prem, Kathrin L. Kollmannsberger, Michael Zavrel, Daniel Garbe, Thomas Brück

{"title":"Immobilization study of a monomeric oleate hydratase from Rhodococcus erythropolis","authors":"Maria Bandookwala, Sophia A. Prem, Kathrin L. Kollmannsberger, Michael Zavrel, Daniel Garbe, Thomas Brück","doi":"10.1007/s12257-024-00129-y","DOIUrl":"https://doi.org/10.1007/s12257-024-00129-y","url":null,"abstract":"The chemical, pharmaceutical, and cosmetic industries are currently confronted with the challenge of transitioning from traditional chemical processes to more sustainable biocatalytic methods. To support that aim, we developed various heterogeneous biocatalysts for an industrially relevant enzyme called oleate hydratase that converts oleic acid to 10-hydroxystearic acid, a fatty emollient substance useful for various technical applications. We used cheap support matrices such as silica, chitosan, cellulose, and agarose for further scale-up and economic feasibility at the industrial level alongside more sophisticated supports like metal–organic frameworks. Different physical and chemical binding approaches were employed. Particularly, by immobilizing oleate hydrates on a 3-aminopropyltriethoxysilane surface-functionalized cellulose matrix, we developed an enzyme immobilizate with almost 80% activity of the free enzyme. The long-term goal of this work was to be able to use the developed heterogeneous biocatalyst for multiple reuse cycles enabling profitable biocatalysis. Despite high initial conversion rate by the developed cellulose-based immobilizate, a depletion in enzyme activity of immobilized oleate hydratase was observed over time. Therefore, further enzyme modification is required to impart stability, the optimization of operational conditions, and the development of carrier materials that enable economical and sustainable enzymatic conversion of oleic acid to meet the commercial demand.<h3 data-test=\"abstract-sub-heading\">Graphical abstract</h3>","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":"40 1","pages":""},"PeriodicalIF":3.2,"publicationDate":"2024-07-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141508447","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}

引用次数: 0

Chrysin stimulates UCP1-independent thermogenesis in 3T3-L1 adipocytes and mouse model 蛹虫草素刺激 3T3-L1 脂肪细胞和小鼠模型中不依赖 UCP1 的产热作用

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-07-02 DOI: 10.1007/s12257-024-00126-1

Jeong Uk Jang, Alfin Mohammad Abdillah, So Young Bu, Jong Won Yun

{"title":"Chrysin stimulates UCP1-independent thermogenesis in 3T3-L1 adipocytes and mouse model","authors":"Jeong Uk Jang, Alfin Mohammad Abdillah, So Young Bu, Jong Won Yun","doi":"10.1007/s12257-024-00126-1","DOIUrl":"https://doi.org/10.1007/s12257-024-00126-1","url":null,"abstract":"Emerging findings suggest that non-shivering thermogenesis in brown and beige adipocytes may effectively stimulate energy expenditure, thereby contributing to body weight reduction. Our previous report demonstrated that chrysin, a flavone found in honey and propolis, activates uncoupling protein 1 (UCP1)-dependent thermogenesis in brown fat and induces beige adipocytes. However, the effect of chrysin on UCP1-independent thermogenesis remains unexplored. In this study, we examined the effects of chrysin on UCP1-independent thermogenesis in the 3T3-L1 adipocytes and mouse model. This study showed that chrysin elevates the expression of calcium regulatory proteins, including sarcoendoplasmic reticulum Ca2+-ATPase, ryanodine receptor 2, voltage-dependent anion channel, mitochondrial calcium uniporter, and Ca2+/calmodulin-dependent protein kinase 2 in 3T3-L1 adipocytes as well as in inguinal and epididymal white adipose tissues of mice. Furthermore, our results also showed chrysin increased Ca2+ levels in 3T3-L1 adipocytes in a dose-dependent manner. In addition, our study showed chrysin upregulated creatine-mediated thermogenic markers (creatine kinase B and creatine kinase mitochondrial 2) in both in vitro and in vivo models. Mechanistically, we found that chrysin induces UCP1-independent thermogenesis by stimulating creatine- and calcium-mediated ATP-consuming futile cycle through the activation of the α1-adrenergic receptor. Combining the current and previous studies, it can be proposed that chrysin induces both UCP1-dependent and -independent thermogenesis in beige adipocytes, suggesting its possible use for effective intervention for obesity and metabolic disorders.","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":"41 1","pages":""},"PeriodicalIF":3.2,"publicationDate":"2024-07-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141508446","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}

引用次数: 0

Advancing biofoundry development: strategies and challenges 推进生物产业发展：战略与挑战

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-07-02 DOI: 10.1007/s12257-024-00121-6

Aporva Gupta, Seung-Goo Lee, Bong-Hyun Sung, Dae-Hee Lee, Byung-Kwan Cho, Dong-Myung Kim, Haseong Kim

引用次数: 0

Production of chitosan from Aspergillus niger and quantitative evaluation of the process using adapted analytical tools 利用黑曲霉生产壳聚糖，并利用适用的分析工具对生产过程进行定量评估

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-07-02 DOI: 10.1007/s12257-024-00124-3

S. Krake, C. Conzelmann, S. Heuer, M. Dyballa, S. Zibek, T. Hahn

{"title":"Production of chitosan from Aspergillus niger and quantitative evaluation of the process using adapted analytical tools","authors":"S. Krake, C. Conzelmann, S. Heuer, M. Dyballa, S. Zibek, T. Hahn","doi":"10.1007/s12257-024-00124-3","DOIUrl":"https://doi.org/10.1007/s12257-024-00124-3","url":null,"abstract":"The chitosan production process from fishery waste is already established in industrial scale, whereby fungal chitosan is produced in lower amounts. Since fungal chitosan could be isolated from under-valorized vegan streams while exhibiting slightly different characteristics, it has also potential for other applications. Within this publication, we focus on the chitosan production from Aspergillus niger. This study provides a detailed determination of the biomass composition, adapting and comparing different analytical tools, with special focus on the chitin and chitosan content. The major content of the dried biomass is composed of glucans (48.6 ± 1.4%), followed by proteins with an amount of 22.2 ± 0.7%. Chitin and chitosan provide 16.0 ± 0.8% of the biomass. Within our chitosan production studies, we compared the effect of different process strategies including steps as deproteinization (DP), acid extraction (AE), deacetylation (DA), as well as purification. Initially, we obtained poor values (lower than 73.6%) for the chitosan purity. A direct DA step followed by purification resulted in a chitosan purity of up to 89.6%, a recovery of 30.5% and a yield with regard to the biomass of 5.5%. The DA degree of the resulting chitosan is similar to chitosan derived from fishery waste, whereas the molecular weight is lower. The results achieved so far are consistent with the literature, extending beyond, the data emphasized that a chitosan production from residual fungal biomass after fermentation is suitable by direct DA and purification. However, further adaption is necessary so that other matrix compounds could be also obtained.","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":"146 1","pages":""},"PeriodicalIF":3.2,"publicationDate":"2024-07-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141529697","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}

引用次数: 0

Metabolic modeling of microorganisms involved in anaerobic digestion 厌氧消化微生物的代谢模型

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-07-01 DOI: 10.1007/s12257-024-00128-z

Junkyu Lee, Byung Tae Lee, Mun Su Kwon, Hyun Uk Kim

引用次数: 0

Primer generation-rolling circle amplification method optimized for the detection of pathogenic bacteria 用于检测病原菌的引物生成-滚动圈扩增优化方法

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-06-28 DOI: 10.1007/s12257-024-00117-2

Eun-Jin Jang, Tai-Yong Kim, Jeong-A. Lim, Min-Ah Woo

{"title":"Primer generation-rolling circle amplification method optimized for the detection of pathogenic bacteria","authors":"Eun-Jin Jang, Tai-Yong Kim, Jeong-A. Lim, Min-Ah Woo","doi":"10.1007/s12257-024-00117-2","DOIUrl":"https://doi.org/10.1007/s12257-024-00117-2","url":null,"abstract":"With advancements in DNA amplification research, isothermal amplification technology has emerged as an attractive method for detecting target DNA. Here, we describe primer generation-rolling circle amplification (PG-RCA) as an isothermal amplification method for detecting Escherichia coli O157:H7, Salmonella Typhimurium, Bacillus cereus, and Listeria monocytogenes. To improve PG-RCA sensitivity, the concentrations of the reaction components, dNTPs, phi29 DNA polymerase, and circular probes were optimized; the optimized conditions were applied to detect each target bacterium. A pair of forward and reverse circular probes that hybridized to the sense and anti-sense target genes was used in PG-RCA, exhibiting target selectivity. PG-RCA, which generated additional primers simultaneously with linear RCA and comprised multiple reaction cycles, resulted in higher accumulation of amplified DNA products than did linear RCA within the same reaction period. The threshold time (Tt) for each target gene concentration was determined based on the threshold value set in the amplification plot for PG-RCA, and a linear correlation between the Tt value and genomic DNA concentration was proven for each of the four bacteria. The PG-RCA-based assay could be applied to gene-based detection of various microorganisms and may be a useful isothermal amplification method for replacing traditional PCR methods.","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":"91 1","pages":""},"PeriodicalIF":3.2,"publicationDate":"2024-06-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141508575","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}

引用次数: 0

C13-apocarotenoids biosynthesis with engineered microbes 利用工程微生物进行 C13 类胡萝卜素的生物合成

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-06-27 DOI: 10.1007/s12257-024-00030-8

Jiawei Huang, Jiaying Lou, Jing Cao, Da Wu, Jiale Wang

{"title":"C13-apocarotenoids biosynthesis with engineered microbes","authors":"Jiawei Huang, Jiaying Lou, Jing Cao, Da Wu, Jiale Wang","doi":"10.1007/s12257-024-00030-8","DOIUrl":"https://doi.org/10.1007/s12257-024-00030-8","url":null,"abstract":"C13-apocarotenoids are volatile organic compounds naturally derived from the oxidative cleavage of carotenoids. These small molecules form unique aromas in flowers, fruits, and plants. They are highly valued compounds in the flavor and fragrance industry. The microbial production of C13-apocarotenoids, such as β-ionone, α-ionone, and pseudoionone, is an emerging and promising approach with inherent advantageousness of scalable output to reach the goals as stated in the United Nations Sustainable Development Goals. Many engineering efforts have been implemented continuously but very few of them proved to be successful in achieving product titer at the grams-per-liter level with the least accumulated amount of precursor carotenoids and byproducts. The efficiency of oxidative cleavage of carotenoids conducted by carotenoid cleavage dioxygenases is suggested to be the critical metabolic node to reconstruct an economically viable C13-apocarotenoids biosynthetic pathway. In this regard, we review recent advances in improving microbial biosynthesis of C13-apocarotenoids by protein and metabolic engineering. The potential strategies that could be implemented further to achieve efficient C13-apocarotenoid production are also discussed.","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":"29 1","pages":""},"PeriodicalIF":3.2,"publicationDate":"2024-06-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141508576","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}

引用次数: 0

Recent advancements in flavonoid production through engineering microbial systems 通过工程微生物系统生产黄酮类化合物的最新进展

IF 3.2 4区生物学

Biotechnology and Bioprocess Engineering Pub Date : 2024-06-27 DOI: 10.1007/s12257-024-00125-2

Yunhee Hwang, Myung Hyun Noh, Gyoo Yeol Jung

{"title":"Recent advancements in flavonoid production through engineering microbial systems","authors":"Yunhee Hwang, Myung Hyun Noh, Gyoo Yeol Jung","doi":"10.1007/s12257-024-00125-2","DOIUrl":"https://doi.org/10.1007/s12257-024-00125-2","url":null,"abstract":"Flavonoids are a class of polyphenolic compounds found in plants that offer extensive health benefits and have applications in the pharmaceutical, cosmetic, and food industries. Currently, flavonoid production largely depends on plant extraction methods, which face limitations owing to low yields and seasonal and environmental impacts. To address these issues, the potential of microbial fermentation, which leverages advances in metabolic engineering and genetic tools, has been discussed as an innovative alternative to overcome these challenges, thus offering an environmentally friendly and sustainable approach to flavonoid production. However, the integration of complex biosynthesis pathways into microbial systems presents challenges such as the inefficient expression of plant-derived genes, metabolic conflicts, and toxicity or feedback inhibition by accumulated flavonoids within the microbial cells. This comprehensive review highlights recent advancements in engineering strategies to address these challenges, focusing on biotransformation, single-strain fermentation, and co-culture systems, each with its own unique characteristics and potential for optimizing flavonoid production in a cost-effective and scalable manner.","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":"12 1","pages":""},"PeriodicalIF":3.2,"publicationDate":"2024-06-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141529698","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}

引用次数: 0