Wenjie Zhao, Xianbo Su, Weizhong Zhao, Peipei Yan, Yixuan Zhou
{"title":"Experimental study on the mechanism of biological hydrogen sulfide generation from organic sulfur-rich coal.","authors":"Wenjie Zhao, Xianbo Su, Weizhong Zhao, Peipei Yan, Yixuan Zhou","doi":"10.1016/j.jbiotec.2025.02.002","DOIUrl":"https://doi.org/10.1016/j.jbiotec.2025.02.002","url":null,"abstract":"<p><p>Whether of primary or secondary origin, the presence of hydrogen sulfide (H<sub>2</sub>S) in coalbed methane (CBM) is commonly attributed to sulfate reduction facilitated by sulfate-reducing bacteria (SRB). However, the sulfate content in high-sulfur coal is exceptionally low, insufficient to function as a substrate for sulfate-reducing bacteria (SRB). In this study, an anaerobic digestion experiment was conducted with high-organic-sulfur coal collected from the Late Permian Longtan Formation in Guangxi Province as both the carbon and sulfur sources. The formation mechanism of H<sub>2</sub>S is revealed from the evolution rules of gas components, liquid organic matter, and microbial communities during the anaerobic digestion process. The findings indicate three distinct mechanisms contributing to the biological formation of H<sub>2</sub>S in coal seams: firstly, the degradation of readily degradable organic sulfur in coal by microorganisms possessing denitrification capabilities, primarily attributed to the activity of the bacteria Wolinella; secondly, The symbiotic system between SRB and Pseudomonas and denitrifying bacteria(Thiobacillus) to metabolize SO<sub>4</sub><sup>2-</sup> and produce H<sub>2</sub>S; thirdly, Methylotrophic methanogens employ the methyl groups of organic sulfides to produce CH<sub>4</sub> and H<sub>2</sub>S simultaneously. Therefore, biological H<sub>2</sub>S can be generated under the presence of a sulfur source, appropriate temperature, and conducive environmental conditions. This comprehension will contribute valuable insights to the discourse on the generation and enrichment patterns of H<sub>2</sub>S in natural coalbed methane. Additionally, it can offer practical avenues for the prevention and control of H<sub>2</sub>S through technological approaches.</p>","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2025-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143374141","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Efficient production of spermidine from Bacillus amyloliquefaciens by enhancing synthesis pathway, blocking degradation pathway and increasing precursor supply","authors":"Ziyue Zhao, Ailing Guo, Dian Zou, Zhou Li, Xuetuan Wei","doi":"10.1016/j.jbiotec.2024.12.001","DOIUrl":"10.1016/j.jbiotec.2024.12.001","url":null,"abstract":"<div><div>Spermidine has broad application potential in food, medicine and other fields. In this study, a novel <em>Bacillus amyloliquefaciens</em> cell factory was constructed for production of spermidine from renewable<!--> <!-->biomass resources. Firstly, the <em>speB</em> gene was found to be optimal for synthesis of spermidine, and the function of SpeB was explained by amino acid sequence analysis and molecular docking. By replacing the native promoter of the <em>speEB</em> operon with the P43, the synthesis of spermidine was significantly enhanced in <em>B. amyloliquefaciens</em> HSPM1-P43<em>speEB</em>. After knockout of the genes <em>yobN</em> and <em>bltD</em> associated with spermidine degradation, the spermidine titer of the strain HSPM2 was further improved to 115.96 mg/L, increased by 108 % compared to HSPM1-P43<em>speEB</em>. Subsequently, the titer of spermidine was further increased to 277.47 mg/L through enhancing the supply of the precursor methionine by overexpression of <em>speD</em>. Finally, the renewable biomass resources, xylose and feather meal were optimized to produce spermidine, and the maximum titer is up to 588.10 mg/L after optimization. In conclusion, an efficient spermidine producing <em>B. amyloliquefaciens</em> was constructed through combinatorial metabolic engineering strategies, and the sustainable production of spermidine was achieved using the biomass resources of xylose and feather meal.</div></div>","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":"398 ","pages":"Pages 87-96"},"PeriodicalIF":4.1,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142794715","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"A review towards sustainable analyte detection: Biomimetic inspiration in biosensor technology","authors":"Pratistha Bhagat , Lata Sheo Bachan Upadhyay","doi":"10.1016/j.jbiotec.2024.11.015","DOIUrl":"10.1016/j.jbiotec.2024.11.015","url":null,"abstract":"<div><div>The branch of biomimetics has witnessed a profound impact on the field of biosensor technology, reflected in sustainable analyte detection. A vast array of biosensor platforms with improved/upgraded performance have been developed and reported. No wonder the motivation from the field of biomimetics has a huge impact on generating detection systems with escalated degrees of manipulation and tunability at different levels. More recently, biomimetic biosensor technology has found potential in constructing bio-inspired materials such as aptamers, MIPs, nanozymes, DNAzymes, Synzymes, etc. to be integrated with biosensor fabrication. The establishment of a sensing setup is not limited to the bioreceptor fabrication; the construction of transducing element using biomimetic material have been reported too. Moreover, to serve a biosensing of target analyte from a fatal diseased sample different biomimetic architectures can be designed that mimic in-vivo microenvironmental surroundings to get an exact microenvironment equivalent to natural conditions leading towards designing of a precise treatment strategy. This research area is ever-evolving as there is a scope for upgradation and refinement due to advancing technologies including nanotechnology, biomimetic nanomaterials, microfluidics, optical sensors, etc. This review is an attempt to comprehend and juxtapose the very primary innovations in the field of biomimetic biosensor technology to realize its comprehensive and wide-range scope and possibilities.</div></div>","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":"398 ","pages":"Pages 51-65"},"PeriodicalIF":4.1,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142769258","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Bioinformatics-assisted mining and design of novel pullulanase suitable for starch cold hydrolysis","authors":"Xin Wang , Zixing Wang , Xueting Zhang , Yanli Zhang , Wenxia Zhang , Yu Zhang , Xuecheng Zhang , Yazhong Xiao , Yinliang Zhang , Wei Fang","doi":"10.1016/j.jbiotec.2024.12.005","DOIUrl":"10.1016/j.jbiotec.2024.12.005","url":null,"abstract":"<div><div>Cold-active pullulanases with good catalytic performance possess promising applications in cold hydrolysis of starch. Adopting bioinformatics-assisted mining strategies, 7 candidate cold-active pullulanases were initially screened out from IMG/MER database. Among the candidates, PulBs exhibited good thermostability and the highest specific activity of 147.4 U/mg. The half-life of PulBs was about 200 h at 35 °C. Employing PulBs as the initial enzyme, the active-site design of FuncLib was implemented to enhance the activity. The design PulBs-20 exhibited an enhanced specific activity of 209.9 U/mg, which was 1.4 times that of PulBs. Furthermore, the thermostability of PulBs-20 was augmented, with a half-life of 250 h at 35 °C. When applied in the cold hydrolysis of starch, PulBs-20 can effectively enhance the hydrolysis effect of raw starch. Supplemented with the raw starch-hydrolyzing α-amylase AmyZ1 and PulBs-20, the hydrolysis rate of raw corn starch increased to 53.5 %, which was 1.3 times that of using AmyZ1 alone. Due to its high hydrolysis activity and good thermostability, PulBs-20 can serve as an efficient accessory enzyme in starch cold hydrolysis.</div></div>","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":"398 ","pages":"Pages 106-116"},"PeriodicalIF":4.1,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142835780","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Supenya Chittapun , Kattiya Suwanmanee , Chatchol Kongsinkaew , Soisuda Pornpukdeewattana , Yusuf Chisti , Theppanya Charoenrat
{"title":"Thermal degradation kinetics and purification of C-phycocyanin from thermophilic and mesophilic cyanobacteria","authors":"Supenya Chittapun , Kattiya Suwanmanee , Chatchol Kongsinkaew , Soisuda Pornpukdeewattana , Yusuf Chisti , Theppanya Charoenrat","doi":"10.1016/j.jbiotec.2024.11.018","DOIUrl":"10.1016/j.jbiotec.2024.11.018","url":null,"abstract":"<div><div>The natural blue colorant C-phycocyanin (C-PC) has many potential applications but its poor heat stability limits its commercial use. This study compares the production and thermal stability of C-PC from two cyanobacteria: the thermophilic <em>Thermosynechococcus</em> sp. TUBT-T01 and the mesophilic <em>Synechococcus cedrorum</em> TISTR8589. <em>Thermosynechococcus</em> sp. produced nearly 1.9-fold more C-PC than <em>S. cedrorum</em>. Batch adsorption using a chromatographic cationic ion exchange resin (Streamline Direct HST1) was used to effectively purify the C-PC. The equilibrium adsorption capacity (<em>Q</em><sub><em>eq</em></sub>) of the resin for C-PC was the highest at pH 5. At this pH, the <em>Q</em><sub><em>eq</em></sub> for the thermophilic C-PC was 5.5 ± 0.1 mg mL⁻¹ , whereas for the mesophilic C-PC it was 1.5 ± 0.2 mg mL⁻¹ . Purification increased the concentration of the thermophilic C-PC by 5.9-fold, and that of mesophilic C-PC by 4.2-fold. The purity ratios of the final products from the two cyanobacteria were similar at ∼2.2. At 60 °C and pH 7, the C-PC of <em>Thermosynechococcus</em> sp. had ∼12-times longer half-life than the mesophilic C-PC; however, the productivity of the thermophilic C-PC was comparatively low because of a low biomass productivity of <em>Thermosynechococcus</em> sp.</div></div>","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":"398 ","pages":"Pages 76-86"},"PeriodicalIF":4.1,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142769264","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Corrigendum to ‘Enhanced activation of signaling pathway by recombinant human adiponectin from genome-edited chickens’ [J. Biotechnol., Vol. 395 (2024) 95–99/0168–1656]","authors":"Eunhui Yoo, Hee Jung Choi, Jae Yong Han","doi":"10.1016/j.jbiotec.2024.11.019","DOIUrl":"10.1016/j.jbiotec.2024.11.019","url":null,"abstract":"","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":"398 ","pages":"Page 41"},"PeriodicalIF":4.1,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142785728","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Karishma Shah , Daniel Kracher , Peter Macheroux , Silvia Wallner , André Pick , Robert Kourist
{"title":"Discovery and characterization of NADH oxidases for selective sustainable synthesis of 5-hydroxymethylfuran carboxylic acid","authors":"Karishma Shah , Daniel Kracher , Peter Macheroux , Silvia Wallner , André Pick , Robert Kourist","doi":"10.1016/j.jbiotec.2024.11.009","DOIUrl":"10.1016/j.jbiotec.2024.11.009","url":null,"abstract":"<div><div>Efficient regeneration of NAD<sup>+</sup> remains a significant challenge for oxidative biotransformations. In order to identify enzymes with higher activity and stability, a panel of NADH oxidases (Nox) was investigated in the regeneration of nicotinamide cofactors for the oxidation of hydroxymethyl furfural (HMF) to 5-hydroxymethyl-2-furancarboxylic acid (HMFCA). We present novel Nox that exhibit remarkable catalytic activities, elevated thermal and pH stabilities, and higher intrinsic flavin loadings, thus eliminating the need for external flavin addition. The kinetic analysis of the NADH oxidases indicates that <em>Ad</em>Nox, <em>Gd</em>Nox, <em>Cm</em>Nox, and <em>Lv</em>Nox exhibit V<sub>max</sub> values of 86 U/mg, 50 U/mg, 4.3 U/mg, and 23 U/mg, respectively. When these NADH oxidases were applied in a HMF oxidation reaction, LvNox demonstrated the highest HMFCA yield of 97 % in the presence of 0.1 mM NAD and 10 mM HMF. In contrast to previously reported NADH oxidases from the same family, these NADH oxidases naturally accept NADPH as a substrate. Rapid kinetics experiments identified the oxidative reaction as the rate-limiting step of the reaction. NADH oxidases achieved high atom economy, a high reaction mass efficiency and a low process mass intensity. The findings contribute significantly to the field of biocatalysis and offer potential avenues for more environmentally friendly cofactor regeneration in chemical synthesis.</div></div>","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":"398 ","pages":"Pages 18-28"},"PeriodicalIF":4.1,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142739743","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Andreas Maccani , Robert Pachlinger , Peter Eisenhut, Sabine Unterthurner, Susanne Heider, Christoph Repik, Stefan Reuberger, Peter Andorfer, Johannes Lengler, Bernhard Kinastberger, Dieter Seczer, Petra Gruber, Alexander Apschner, Lucia Micutkova
{"title":"Potency by design: Novel insights in transfection and purification for manufacturing of rAAV gene therapy vectors","authors":"Andreas Maccani , Robert Pachlinger , Peter Eisenhut, Sabine Unterthurner, Susanne Heider, Christoph Repik, Stefan Reuberger, Peter Andorfer, Johannes Lengler, Bernhard Kinastberger, Dieter Seczer, Petra Gruber, Alexander Apschner, Lucia Micutkova","doi":"10.1016/j.jbiotec.2024.12.007","DOIUrl":"10.1016/j.jbiotec.2024.12.007","url":null,"abstract":"<div><div>This study investigates the crucial role of transfection methods in the manufacturability and potency of recombinant adeno-associated virus (rAAV) gene therapies. By employing a novel analytical approach, multiplex digital PCR (dPCR), we evaluated the impact of different transfection reagents and conditions on the scalability and quality of rAAV. Our research demonstrates that the selection of transfection approach significantly influences not only the yield and ease of scale-up but also the potency of the final product. Importantly, later changes to transfection parameters established in the early stages of development can be challenging, potentially compromising product quality and leading to comparability issues. Leveraging multiplex dPCR has proven instrumental in guiding these early-stage decisions, ensuring a reliable manufacturing process that consistently delivers high-quality therapeutic products. Our findings highlight the importance of optimizing transfection strategies early in development to guarantee the successful production of potent and cost-effective gene therapies, ultimately impacting patient accessibility.</div></div>","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":"398 ","pages":"Pages 127-132"},"PeriodicalIF":4.1,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142864376","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Ting Wei , Hong Li , Yuyao Wang , Ming Chi , Junkang Guo , Honglei Jia , Chao Zhang
{"title":"Alleviation of cadmium toxicity and minimizing its accumulation in rice plants by methyl jasmonate: Performance and mechanisms","authors":"Ting Wei , Hong Li , Yuyao Wang , Ming Chi , Junkang Guo , Honglei Jia , Chao Zhang","doi":"10.1016/j.jbiotec.2024.12.009","DOIUrl":"10.1016/j.jbiotec.2024.12.009","url":null,"abstract":"<div><div>Heavy metal pollution is a worldwide problem that threaten agricultural production and human health. Methyl jasmonate (MeJA) is a phytohormone that could enhance plant resistance against various stresses. However, the mechanism of MeJA in cadmium (Cd) uptake, distribution, and translocation in rice plants remains elusive. In this study, we found that the Cd induced-growth inhibition was ameliorated by MeJA. Upon MeJA application, Cd content in root and shoot was decreased by 10.15 % and 36.39 %, which paralleled with less Cd<sup>2 +</sup> influx of rice roots and depressed expression of the cation transporters (<em>OsNramp1</em> and <em>OsNramp5</em>). The subcellular distribution revealed that MeJA enriched Cd distribution in cell wall, which was accompanied by increased cell wall thickness and altered cell wall polysaccharide (pectin, cellulose, hemicellulose) content, meanwhile, the Cd content in pectin, cellulose, hemicellulose was increased, the FTIR analysis implied that functional groups (especially -OH and COO-) on cell wall were involved in Cd fixation. The root to shoot translocation of Cd was hindered by exogenous MeJA, this was validated by the decreased expression of <em>OsHMA2</em> in root and declined Cd level in xylem sap. Overall, our results revealed that MeJA could act as a foliar resistance control substance to reduce Cd accumulation in rice plants. The detailed molecular mechanisms of MeJA in Cd detoxification in plants still need further investigation.</div></div>","PeriodicalId":15153,"journal":{"name":"Journal of biotechnology","volume":"398 ","pages":"Pages 133-145"},"PeriodicalIF":4.1,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142894664","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}