Pub Date : 2025-12-25DOI: 10.1186/s12896-025-01092-z
Aras Fahrettin Korkmaz, Fatih Ekinci, Eda Kumru, Abdullah Aydoğan, Hasna Sena Kaymak, Mustafa Sevindik, Mehmet Serdar Güzel, Ilgaz Akata
{"title":"Explainable deep learning ensemble framework for accurate classification of wild poisonous mushroom species.","authors":"Aras Fahrettin Korkmaz, Fatih Ekinci, Eda Kumru, Abdullah Aydoğan, Hasna Sena Kaymak, Mustafa Sevindik, Mehmet Serdar Güzel, Ilgaz Akata","doi":"10.1186/s12896-025-01092-z","DOIUrl":"https://doi.org/10.1186/s12896-025-01092-z","url":null,"abstract":"","PeriodicalId":8905,"journal":{"name":"BMC Biotechnology","volume":" ","pages":""},"PeriodicalIF":3.4,"publicationDate":"2025-12-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145832842","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-25DOI: 10.1186/s12896-025-01091-0
Sumera Zaki, Hammad Afzal Kayani, Uroosa Ejaz, Mohammed Alorabi, Abdullah K Alanazi, Sheeba Naz, Muhammad Sohail, Zainul Abideen
Halophytic plants have been recognized as a promising source of lignocellulosic biomass for bioconversion into value added products. In this study, cellulosic content of wild biomass from Typha domingensis was saccharified by cellulase from a thermophilic bacterium, Neobacillus sedimentimangrovi UE25. Indeed, this is the first report describing the use of enzymatic saccharification of T. domingensis biomass. Initially, the N. sedimentimangrovi UE25 cellulase was produced in the medium containing wild biomass from the halophyte plant. The data revealed that 159.84 IU mL- 1 endoglucanase was obtained when T. domingensis biomass was used as a substrate. The result of saccharification showed that 172 mg g- 1 reducing sugars were obtained when cellulosic content of T. domingensis biomass was saccharified by cellulase. The effect of temperature, cellulase units and incubation time on saccharification was determined by using a statistical tool, Central Composite design. Under optimized conditions of 14.6 endoglucanase units per g of substrate, temperature 60 °C and reaction time 13.4 h, 610.65 mg g- 1 reducing sugars were obtained after the saccharification of cellulose from T. domingensis biomass. Moreover, Fourier Transform Infrared spectroscopy and Scanning Electron microscopy affirmed structural changes in the substrate. These findings demonstrate that biomass from halophyte such as T. domingensis can serve as an efficient substrate for thermostable cellulase production and saccharification, contributing to sustainable bioresource utilization in saline environments.
{"title":"Enzymatic saccharification of Typha domingensis biomass: optimization and structural analysis.","authors":"Sumera Zaki, Hammad Afzal Kayani, Uroosa Ejaz, Mohammed Alorabi, Abdullah K Alanazi, Sheeba Naz, Muhammad Sohail, Zainul Abideen","doi":"10.1186/s12896-025-01091-0","DOIUrl":"https://doi.org/10.1186/s12896-025-01091-0","url":null,"abstract":"<p><p>Halophytic plants have been recognized as a promising source of lignocellulosic biomass for bioconversion into value added products. In this study, cellulosic content of wild biomass from Typha domingensis was saccharified by cellulase from a thermophilic bacterium, Neobacillus sedimentimangrovi UE25. Indeed, this is the first report describing the use of enzymatic saccharification of T. domingensis biomass. Initially, the N. sedimentimangrovi UE25 cellulase was produced in the medium containing wild biomass from the halophyte plant. The data revealed that 159.84 IU mL<sup>- 1</sup> endoglucanase was obtained when T. domingensis biomass was used as a substrate. The result of saccharification showed that 172 mg g<sup>- 1</sup> reducing sugars were obtained when cellulosic content of T. domingensis biomass was saccharified by cellulase. The effect of temperature, cellulase units and incubation time on saccharification was determined by using a statistical tool, Central Composite design. Under optimized conditions of 14.6 endoglucanase units per g of substrate, temperature 60 °C and reaction time 13.4 h, 610.65 mg g<sup>- 1</sup> reducing sugars were obtained after the saccharification of cellulose from T. domingensis biomass. Moreover, Fourier Transform Infrared spectroscopy and Scanning Electron microscopy affirmed structural changes in the substrate. These findings demonstrate that biomass from halophyte such as T. domingensis can serve as an efficient substrate for thermostable cellulase production and saccharification, contributing to sustainable bioresource utilization in saline environments.</p>","PeriodicalId":8905,"journal":{"name":"BMC Biotechnology","volume":" ","pages":""},"PeriodicalIF":3.4,"publicationDate":"2025-12-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145832878","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-20DOI: 10.1186/s12896-025-01089-8
Görkem Çolak, Serdar Uzar, Meral Birbir
{"title":"Production of the Bakırköy strain of sheeppox vaccine virus in spinner flasks using an alternative method with Cytodex 1 microcarriers on Vero cells.","authors":"Görkem Çolak, Serdar Uzar, Meral Birbir","doi":"10.1186/s12896-025-01089-8","DOIUrl":"https://doi.org/10.1186/s12896-025-01089-8","url":null,"abstract":"","PeriodicalId":8905,"journal":{"name":"BMC Biotechnology","volume":" ","pages":""},"PeriodicalIF":3.4,"publicationDate":"2025-12-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145800155","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Unveiling the role of EGR1 and hub senescence-related genes in type II alveolar epithelial cells senescence for obstructive sleep apnea.","authors":"Cai-Li Li, Yu-Xiang Zhang, Xia Yang, Yubao Wang, Hai-Yan Zhao, Jing Feng","doi":"10.1186/s12896-025-01067-0","DOIUrl":"https://doi.org/10.1186/s12896-025-01067-0","url":null,"abstract":"","PeriodicalId":8905,"journal":{"name":"BMC Biotechnology","volume":" ","pages":""},"PeriodicalIF":3.4,"publicationDate":"2025-12-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145793176","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-17DOI: 10.1186/s12896-025-01082-1
Mohamed Farouk Ahmed, Ola Mohamed Fekry, Basma Salah Eldin Ahmed Salama
The current study aims to assess the efficiency of different irradiated potassium sources as alternatives to ethrel in enhancing the fruit quality and storability of Ruby grapevines. This investigation was conducted on seven- year- old Ruby Seedless grape cultivars that were sprayed as follows: control (water); ethrel at 150 ppm; potassium citrate at 2000 and 4000 ppm; irradiated potassium citrate at 750 and 1500 ppm; potassium silicate at 2000 and 4000 ppm and irradiated potassium silicate at 750 and 1500 ppm. The data revealed that all the potassium sprays used significantly increased cluster weight, berry weight, and berry firmness compared with those in the control and ethrel groups. Moreover, the total soluble solids, sugars and anthocyanin contents increased with decreasing acidity% compared with those of the control group. Storability data revealed that all potassium sprays decreased weight loss, decay, firmness loss, and shattering during the storage period compared with those of the control and ethrel groups. Additionally, the total soluble solids, sugars and anthocyanin contents increased with decreasing acidity compared with those of the control. In conclusion, potassium sprays, especially irradiated potassium silicate, can be a good alternative to ethrel for improving the physical and chemical properties of Ruby Seedless grapes and increasing their storability by improving firmness and reducing weight loss, decay, and shattering.
{"title":"Enhancing fruit quality attributes and storability of Ruby Seedless grape cultivar using different irradiated potassium sources as an alternative to ethrel.","authors":"Mohamed Farouk Ahmed, Ola Mohamed Fekry, Basma Salah Eldin Ahmed Salama","doi":"10.1186/s12896-025-01082-1","DOIUrl":"https://doi.org/10.1186/s12896-025-01082-1","url":null,"abstract":"<p><p>The current study aims to assess the efficiency of different irradiated potassium sources as alternatives to ethrel in enhancing the fruit quality and storability of Ruby grapevines. This investigation was conducted on seven- year- old Ruby Seedless grape cultivars that were sprayed as follows: control (water); ethrel at 150 ppm; potassium citrate at 2000 and 4000 ppm; irradiated potassium citrate at 750 and 1500 ppm; potassium silicate at 2000 and 4000 ppm and irradiated potassium silicate at 750 and 1500 ppm. The data revealed that all the potassium sprays used significantly increased cluster weight, berry weight, and berry firmness compared with those in the control and ethrel groups. Moreover, the total soluble solids, sugars and anthocyanin contents increased with decreasing acidity% compared with those of the control group. Storability data revealed that all potassium sprays decreased weight loss, decay, firmness loss, and shattering during the storage period compared with those of the control and ethrel groups. Additionally, the total soluble solids, sugars and anthocyanin contents increased with decreasing acidity compared with those of the control. In conclusion, potassium sprays, especially irradiated potassium silicate, can be a good alternative to ethrel for improving the physical and chemical properties of Ruby Seedless grapes and increasing their storability by improving firmness and reducing weight loss, decay, and shattering.</p>","PeriodicalId":8905,"journal":{"name":"BMC Biotechnology","volume":" ","pages":""},"PeriodicalIF":3.4,"publicationDate":"2025-12-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145773397","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-15DOI: 10.1186/s12896-025-01068-z
Muftaudeen Taoheed Kolawole, Moses Dele Adams, Adio Tayo Ibrahim, Frank Abimbola Ogundolie, Temidayo Emmanuel Olajugbagbe, Gbadamosi Idayat Titilayo
{"title":"Qualitative parameters and deterioration kinetics of palm oil, shea butter and their blend use for frying cheese.","authors":"Muftaudeen Taoheed Kolawole, Moses Dele Adams, Adio Tayo Ibrahim, Frank Abimbola Ogundolie, Temidayo Emmanuel Olajugbagbe, Gbadamosi Idayat Titilayo","doi":"10.1186/s12896-025-01068-z","DOIUrl":"10.1186/s12896-025-01068-z","url":null,"abstract":"","PeriodicalId":8905,"journal":{"name":"BMC Biotechnology","volume":"25 1","pages":"139"},"PeriodicalIF":3.4,"publicationDate":"2025-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12706930/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145761989","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-12DOI: 10.1186/s12896-025-01086-x
Liuyan Wang, Yingfan Xu, Xuemei Guan, Shanchun Yan
{"title":"CLAP-HMM: a biologically constrained deep learning framework for resistance gene prediction in long DNA sequences.","authors":"Liuyan Wang, Yingfan Xu, Xuemei Guan, Shanchun Yan","doi":"10.1186/s12896-025-01086-x","DOIUrl":"10.1186/s12896-025-01086-x","url":null,"abstract":"","PeriodicalId":8905,"journal":{"name":"BMC Biotechnology","volume":" ","pages":"6"},"PeriodicalIF":3.4,"publicationDate":"2025-12-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12809951/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145740824","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-12-11DOI: 10.1186/s12896-025-01084-z
Müjgan Kesik Oktay, Burcu Şahin, Hatice Güneş
{"title":"Determination of the cytotoxic effects of parasporal proteins in native Bacillus thuringiensis isolates on various cancer cell lines and investigation of the apoptotic, synergistic, and angiogenic potency of the isolate Bt 5.4.","authors":"Müjgan Kesik Oktay, Burcu Şahin, Hatice Güneş","doi":"10.1186/s12896-025-01084-z","DOIUrl":"10.1186/s12896-025-01084-z","url":null,"abstract":"","PeriodicalId":8905,"journal":{"name":"BMC Biotechnology","volume":" ","pages":"3"},"PeriodicalIF":3.4,"publicationDate":"2025-12-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12784619/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145740779","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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