Biotechnology and Bioprocess Engineering最新文献

筛选
英文 中文
Promiscuous acylase as a green catalyst: to directly catalyze the conjugate addition reaction for the synthesis of brivaracetam intermediates 作为绿色催化剂的杂合酰化酶:直接催化共轭加成反应以合成双呋喃乙酰胺中间体
IF 3.2 4区 生物学
Biotechnology and Bioprocess Engineering Pub Date : 2024-08-13 DOI: 10.1007/s12257-024-00135-0
Taimur Khan, Daixi Wang, Muhammad Shahab, Qaim Ali, Guojun Zheng
{"title":"Promiscuous acylase as a green catalyst: to directly catalyze the conjugate addition reaction for the synthesis of brivaracetam intermediates","authors":"Taimur Khan, Daixi Wang, Muhammad Shahab, Qaim Ali, Guojun Zheng","doi":"10.1007/s12257-024-00135-0","DOIUrl":"https://doi.org/10.1007/s12257-024-00135-0","url":null,"abstract":"<p>Epilepsy, a predominant neurological disorder affecting about 1% of the worldwide population, demands effective treatment options. An antiepileptic drug called brivaracetam has proven amazing efficacy in preventing epilepsy progression, garnering attention for novel synthesis methods. Despite recent progress in conventional synthesis routes, challenges such as expensive catalysts, inconvenient substrates, and hazardous solvents persist. In this context, we share the first finding that immobilized penicillin G acylase (IPGA) can catalyze the polarity reversal conjugate addition reaction. This synthesis is straightforward and does not require any purification. Yield up to 92.41% was achieved at 55 °C using dimethyl sulfoxide as a solvent. The catalytic specificity of IPGA was demonstrated through control experiments. Nonetheless, this research demonstrates the potential of IPGA and other biocatalysts to enable sustainable and effective organic synthesis processes and showcase the promiscuity of existing enzymes.</p><h3 data-test=\"abstract-sub-heading\">Graphical abstract</h3>","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2024-08-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142188955","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
Event-specific loop-mediated isothermal amplification for living modified cotton MON88701, MON531, MON15985, MON88913, and COT102 针对活体改良棉花 MON88701、MON531、MON15985、MON88913 和 COT102 的事件特异性环介导等温扩增技术
IF 3.2 4区 生物学
Biotechnology and Bioprocess Engineering Pub Date : 2024-08-12 DOI: 10.1007/s12257-024-00137-y
Wonkyun Choi, A-Mi Yoon, Jun-Woo Lee, Hye Song Lim, Young Jun Jung, Jung Ro Lee
{"title":"Event-specific loop-mediated isothermal amplification for living modified cotton MON88701, MON531, MON15985, MON88913, and COT102","authors":"Wonkyun Choi, A-Mi Yoon, Jun-Woo Lee, Hye Song Lim, Young Jun Jung, Jung Ro Lee","doi":"10.1007/s12257-024-00137-y","DOIUrl":"https://doi.org/10.1007/s12257-024-00137-y","url":null,"abstract":"<p><i>Gossypium hirsutum</i> L., commonly known as upland cotton, is cultivated globally for natural fiber, feed, and seed oil. To enhance agricultural productivity and quality, living modified (LM) cotton has been developed and utilized since the late 1990s. Due to environmental concerns, such as biodiversity risks associated with living modified organisms (LMOs), the Korean government, including the Ministry of Environment, has been conducting LMO natural environment monitoring and post-management projects. In this study, we developed a loop-mediated isothermal amplification (LAMP) assay to detect five specific LM cotton events (MON88701, MON531, MON15985, MON88913, and COT102), which were the most abundant volunteers observed from 2019 to 2021 in South Korea. The event-specific LAMP assays for the five LM cotton events were established with a 40-min reaction time using LAMP reaction buffer, <i>Bst</i> DNA polymerase, and event-specific primers. The limit of detection ranged from 0.01 to 1 ng/μL. The assays' specificity and sensitivity were validated through colorimetric changes, fluorescence intensity measurements, and conventional PCR. To demonstrate the practical application of the LAMP assays, we tested 22 LM cotton volunteers collected from the natural environment in 2021. Each LAMP assay event-specifically amplified the respective LM cotton volunteers. These results indicate that the developed LAMP assays are effective tools for the efficient management and detection of LM cotton in field surveys, supporting regulatory compliance and environmental monitoring efforts.</p>","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2024-08-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141946152","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
Exosome-immobilized porous microspheres for efficiently combined and prolonged cancer treatment 外泌体固定多孔微球用于高效联合和延长癌症治疗时间
IF 2.5 4区 生物学
Biotechnology and Bioprocess Engineering Pub Date : 2024-08-09 DOI: 10.1007/s12257-024-00139-w
Aejin Lee, Jun Hyuk Lee, Chaewon So, In Gyu Kim, Hyejung Mok
{"title":"Exosome-immobilized porous microspheres for efficiently combined and prolonged cancer treatment","authors":"Aejin Lee, Jun Hyuk Lee, Chaewon So, In Gyu Kim, Hyejung Mok","doi":"10.1007/s12257-024-00139-w","DOIUrl":"https://doi.org/10.1007/s12257-024-00139-w","url":null,"abstract":"","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"PeriodicalIF":2.5,"publicationDate":"2024-08-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141925429","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
Biodegradation of azo dye Reactive Black 5 by strict anaerobe Clostridium acetobutylicum and evaluation of its effects for hydrogen production 严格厌氧菌乙酰丁酸梭菌对偶氮染料活性黑 5 的生物降解及其制氢效果评估
IF 3.2 4区 生物学
Biotechnology and Bioprocess Engineering Pub Date : 2024-08-01 DOI: 10.1007/s12257-024-00131-4
Hyun-Joong Kim, Suwon Kim, Jeong Hyeon Hwang, Yeda Lee, Yuni Shin, Suhye Choi, Jinok Oh, Joonseok Koh, Sang Ho Lee, Yong-Keun Choi, Shashi Kant Bhatia, Yung-Hun Yang
{"title":"Biodegradation of azo dye Reactive Black 5 by strict anaerobe Clostridium acetobutylicum and evaluation of its effects for hydrogen production","authors":"Hyun-Joong Kim, Suwon Kim, Jeong Hyeon Hwang, Yeda Lee, Yuni Shin, Suhye Choi, Jinok Oh, Joonseok Koh, Sang Ho Lee, Yong-Keun Choi, Shashi Kant Bhatia, Yung-Hun Yang","doi":"10.1007/s12257-024-00131-4","DOIUrl":"https://doi.org/10.1007/s12257-024-00131-4","url":null,"abstract":"<p>As azo dyes are commercially used to treat textiles and leather articles, but they were toxic, allergenic, carcinogenic, and mutagenic to human and environment if they were not well treated, the content and degradation of azo dyes in wastewater were very important. So far, various methods such as physical, chemical, and biological methods have been applied to solve this. As a sequential work, we tried to remove a famous azo dye, Reactive Black 5 (RB5) by biological assay and found that <i>Clostridium acetobutylicum</i> showed the best decolorization of RB5 among the hydrogen producing <i>Clostridium</i> species examined. It was also found 100 ppm concentration of RB5 did not affect biohydrogen production of <i>C. acetobutylicum</i> suggesting simultaneous degradation of azo dye and biohydrogen production was possible. Optimal condition for simultaneous decolorization and biohydrogen production was selected as pH 6, 40 °C, and 200 rpm, and high concentration (200 ppm) of RB5 could be decolorized up to 97%. When <i>C. acetobutylicum</i> was examined for further decoloring activities, it was showed the decolorization of various dyes such as Bromophenol, Bromocresol, Methyl Red, and Reactive Red 120. This study showed potential application of <i>C. acetobutylicum</i> in wastewater treatment by simultaneous decolorizing and biohydrogen production.</p><h3 data-test=\"abstract-sub-heading\">Graphical abstract</h3>\u0000","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141881698","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
Carcinoembryonic antigen-positive circulating epithelial cells as a biomarker for the diagnosis and prognosis of colorectal cancer 癌胚抗原阳性循环上皮细胞作为结直肠癌诊断和预后的生物标记物
IF 3.2 4区 生物学
Biotechnology and Bioprocess Engineering Pub Date : 2024-08-01 DOI: 10.1007/s12257-024-00115-4
Hong Jae Jeon, Jin hyuk Seo, Euna Jeong, Chae Yeon Son, Piper A. Rawding, Yuri Hwang, Seha Bang, Tae min Jang, Luke J. Kubiatowicz, Sung Hee Hyun, Seungpyo Hong, Ik-Chan Song, Tae Hee Lee, Jiyoon Bu, Hyuk Soo Eun
{"title":"Carcinoembryonic antigen-positive circulating epithelial cells as a biomarker for the diagnosis and prognosis of colorectal cancer","authors":"Hong Jae Jeon, Jin hyuk Seo, Euna Jeong, Chae Yeon Son, Piper A. Rawding, Yuri Hwang, Seha Bang, Tae min Jang, Luke J. Kubiatowicz, Sung Hee Hyun, Seungpyo Hong, Ik-Chan Song, Tae Hee Lee, Jiyoon Bu, Hyuk Soo Eun","doi":"10.1007/s12257-024-00115-4","DOIUrl":"https://doi.org/10.1007/s12257-024-00115-4","url":null,"abstract":"<p>The serum carcinoembryonic antigen (CEA) level lacks the specificity required for precise colorectal cancer (CRC) diagnosis. To address this limitation, we investigated CEA-expressing circulating epithelial cells (CCECs) as a diagnostic biomarker for CRC. Human peripheral blood mononuclear cells, obtained from patient samples, were suspended in Matrigel and subjected to cyto-centrifugation for immunohistochemistry staining, enhancing cell immobilization on glass slides. Using this method, we successfully identified CCECs in 63% of CRC patients, whereas they were present in only 5% of non-cancer cohorts. Subsequently, receiver operating characteristic (ROC) analysis demonstrated the superior diagnostic capability of the CCEC count (area under the curve [AUC]-ROC: 0.817; <i>p</i> = 0.003) compared to serum CEA levels (AUC-ROC: 0.747; <i>p</i> = 0.021). Furthermore, a strong correlation emerged between tissue CEA expression and CCEC counts, with CCECs exclusively detectable in patients with CEA-positive tumors. The CCEC count also exhibited a high predictive value for estimating lymphovascular invasion and distant metastasis. To further enhance the clinical utility of CCECs, we established an integrated CEA score by combining serum CEA levels and CCEC counts. This scoring system exhibited superior AUC-ROCs for distinguishing malignancy and estimating tumor metastatic potential compared to individual biomarkers. Our study underscores the promise of CCECs as a biomarker for distinguishing and diagnosing CRC.</p>","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2024-08-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141881696","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
Bioconjugated zinc oxide–quercetin nanocomposite enhances the selectivity and anti-biofilm activity of ZnO nanoparticles against Staphylococcus species 生物共轭氧化锌-槲皮素纳米复合材料增强了氧化锌纳米粒子对葡萄球菌的选择性和抗生物膜活性
IF 3.2 4区 生物学
Biotechnology and Bioprocess Engineering Pub Date : 2024-07-30 DOI: 10.1007/s12257-024-00136-z
Hyemin Choi, Srimathi Raghavan, Joonho Shin, Jisung Kim, Kwang-sun Kim
{"title":"Bioconjugated zinc oxide–quercetin nanocomposite enhances the selectivity and anti-biofilm activity of ZnO nanoparticles against Staphylococcus species","authors":"Hyemin Choi, Srimathi Raghavan, Joonho Shin, Jisung Kim, Kwang-sun Kim","doi":"10.1007/s12257-024-00136-z","DOIUrl":"https://doi.org/10.1007/s12257-024-00136-z","url":null,"abstract":"<p>Quercetin (Q), a plant-derived flavonoid, has antibacterial properties against a wide range of bacterial types, and preferentially targets gram-positive bacteria. However, because of its lower activity than that of current antibiotics, Q has only been used as an antimicrobial adjuvant, particularly against antimicrobial-resistant strains, where it works synergistically with other agents to increase their antimicrobial activity and selectivity. Zinc oxide (ZnO) nanomaterials, which are among the most extensively researched and powerful antibacterial compounds, have limitations in terms of off-target effects and cytotoxicity at high concentrations and this necessitates the use of biocompatible chemicals for their modification. In this study, we bio-conjugated ZnO with Q using cell-free supernatant of <i>Staphylococcus</i> ATCC 25923. UV–visible spectroscopy, X-ray diffraction analysis, Fourier-transform infrared spectroscopy, dynamic light scattering, and transmission electron microscopy confirmed the formation of ZnO nanoparticles (NPs) with Q nanocomposite (ZnO@Q NC). The in vitro antibacterial activity of ZnO@Q NC against gram-negative and gram-positive bacterial species was evaluated as the minimum inhibitory concentration. The results demonstrated that ZnO@Q NC exhibited a 4–32-fold higher preferential activity toward <i>Staphylococcus</i> species than Q and ZnO NPs. Additional mechanistic studies revealed that ZnO@Q NC disrupted bacterial membranes and prevented biofilm formation. The biocompatibility of ZnO@Q NC with WI-38 cells was assessed, and the synergistic use of ZnO@Q NC with antibiotics was suggested to reduce its cytotoxicity. Overall, the results demonstrated that conjugating ZnO NPs with Q can significantly boost their bactericidal efficacy and selective pressure against <i>Staphylococcus</i> species.</p><h3 data-test=\"abstract-sub-heading\">Graphical abstract</h3>\u0000","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2024-07-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141866139","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
Anti-inflammatory and skin barrier regulation of cyanin chloride in TNF-α/IL-17A/IFN-γ-induced HaCaT psoriasis model 氯化氰在 TNF-α/IL-17A/IFN-γ 诱导的 HaCaT 银屑病模型中的抗炎和皮肤屏障调节作用
IF 3.2 4区 生物学
Biotechnology and Bioprocess Engineering Pub Date : 2024-07-23 DOI: 10.1007/s12257-024-00134-1
Min Ji Kim, Hui Su Chung, Yea Ju Han, Jeong min Cho, Dong won Kim, Hyung Seo Hwang
{"title":"Anti-inflammatory and skin barrier regulation of cyanin chloride in TNF-α/IL-17A/IFN-γ-induced HaCaT psoriasis model","authors":"Min Ji Kim, Hui Su Chung, Yea Ju Han, Jeong min Cho, Dong won Kim, Hyung Seo Hwang","doi":"10.1007/s12257-024-00134-1","DOIUrl":"https://doi.org/10.1007/s12257-024-00134-1","url":null,"abstract":"<p>Cyanin chloride, one of the active ingredients in figs, is a glycoside made of two sugars linked to a cyanidin aglycone. Although many studies have reported on the skin efficacy of cyanidin aglycone, there have been few reports on human psoriasis to date. Therefore, we focused on excessive inflammation and loss of skin barrier function, which are the main characteristics of psoriasis, and verified the function of cyanin chloride on the psoriasis. Cyanine chloride removed DPPH and ABTS radicals in a concentration-dependent manner and significantly inhibited NO production in LPS-induced RAW264.7 cells as well as suppressed inflammatory cytokines such as iNOS, COX-2, IL-6, and IL-1<i>α</i>/<i>β</i>. Moreover, we used TNF-<i>α</i>/IL-17A/IFN-<i>γ</i>-induced HaCaT cells, a human skin cell model of psoriasis. Cyanin chloride significantly inhibited the mRNA expression of inflammatory cytokines, such as IL-1<i>α</i>, IL-1<i>β</i>, and IL-6, and chemokines CXCL8 and CCL20 in TNF-<i>α</i>/IL-17A/IFN-<i>γ</i>-induced HaCaT cells. Cyanin chloride significantly inhibited the phosphorylation of STAT3 transcription factor in a concentration-dependent manner, confirming the regulatory function of CCL20 chemokine. Finally, cyanin chloride significantly restored the TEER value in TNF-<i>α</i>/IL-17A/IFN-<i>γ</i>-induced HaCaT cells, confirming the effect of strengthening the skin barrier function. In addition, cyanin chloride increased the mRNA levels of filaggrin which is cornified envelope proteins of the epidermal layer, in a concentration-dependent manner in normal epidermal cells. Taken together, the above results suggest that cyanin chloride can be considered a natural candidate for improving psoriasis, an incurable skin disease, not only by lowering excessive skin inflammatory reactions but also by restoring the skin barrier.</p>","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"PeriodicalIF":3.2,"publicationDate":"2024-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141769516","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
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":"<p>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 <i>Aurantiochytrium</i> 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 <i>Aurantiochytrium</i> 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 <i>Aurantiochytrium</i> sp. R2A35. It was also found that <i>Aurantiochytrium</i> 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.</p>","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"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":"<p>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.</p>","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"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":"<p>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.</p><h3 data-test=\"abstract-sub-heading\">Graphical abstract</h3>","PeriodicalId":8936,"journal":{"name":"Biotechnology and Bioprocess Engineering","volume":null,"pages":null},"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
0
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
相关产品
×
本文献相关产品
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信