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Cheng T, Ren C, Xu J, Wang H, Wen B, Zhao Q, Zhang W, Yu G, Zhang Y. Genome-wide analysis of the common bean (Phaseolus vulgaris) laccase gene family and its functions in response to abiotic stress. BMC PLANT BIOLOGY 2024; 24:688. [PMID: 39026161 PMCID: PMC11264805 DOI: 10.1186/s12870-024-05385-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2024] [Accepted: 07/05/2024] [Indexed: 07/20/2024]
Abstract
BACKGROUND Laccase (LAC) gene family plays a pivotal role in plant lignin biosynthesis and adaptation to various stresses. Limited research has been conducted on laccase genes in common beans. RESULTS 29 LAC gene family members were identified within the common bean genome, distributed unevenly in 9 chromosomes. These members were divided into 6 distinct subclades by phylogenetic analysis. Further phylogenetic analyses and synteny analyses indicated that considerable gene duplication and loss presented throughout the evolution of the laccase gene family. Purified selection was shown to be the major evolutionary force through Ka / Ks. Transcriptional changes of PvLAC genes under low temperature and salt stress were observed, emphasizing the regulatory function of these genes in such conditions. Regulation by abscisic acid and gibberellins appears to be the case for PvLAC3, PvLAC4, PvLAC7, PvLAC13, PvLAC14, PvLAC18, PvLAC23, and PvLAC26, as indicated by hormone induction experiments. Additionally, the regulation of PvLAC3, PvLAC4, PvLAC7, and PvLAC14 in response to nicosulfuron and low-temperature stress were identified by virus-induced gene silence, which demonstrated inhibition on growth and development in common beans. CONCLUSIONS The research provides valuable genetic resources for improving the resistance of common beans to abiotic stresses and enhance the understanding of the functional roles of the LAC gene family.
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Affiliation(s)
- Tong Cheng
- College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
- National Coarse Cereals Engineering Research Center, Daqing, Heilongjiang, China
| | - Chunyuan Ren
- College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Jinghan Xu
- College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Huamei Wang
- College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
- National Coarse Cereals Engineering Research Center, Daqing, Heilongjiang, China
| | - Bowen Wen
- College of Horticulture and Landscape Architecture, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Qiang Zhao
- College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
- National Coarse Cereals Engineering Research Center, Daqing, Heilongjiang, China
| | - Wenjie Zhang
- College of Life Science and Biotechnology, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China
| | - Gaobo Yu
- College of Horticulture and Landscape Architecture, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China.
| | - Yuxian Zhang
- College of Agriculture, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang, China.
- National Coarse Cereals Engineering Research Center, Daqing, Heilongjiang, China.
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Phamonpon W, Hinestroza JP, Puthongkham P, Rodthongkum N. Surface-engineered natural fibers: Emerging alternative substrates for chemical sensor applications: A review. Int J Biol Macromol 2024; 269:132185. [PMID: 38723830 DOI: 10.1016/j.ijbiomac.2024.132185] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2024] [Revised: 04/26/2024] [Accepted: 05/06/2024] [Indexed: 05/14/2024]
Abstract
Natural fiber has become one of the most widely used alternative materials for chemical sensor fabrication due to its advantages, such as biocompatibility, flexibility, and self-microfluidic properties. Enhanced natural fiber surface has been used as a substrate in colorimetric and electrochemical sensors. This review focuses on improving the natural fiber properties for preparation as a substrate for chemical sensors. Various methods for natural fiber extraction are discussed and compared. Bleaching and decolorization is important for preparation of colorimetric sensors, while carbonization and nanoparticle doping are favorable for increasing their electrical conductivity for electrochemical sensor fabrication. Also, example fabrications and applications of natural fiber-based chemical sensors for chemical and biomarker detection are discussed. The selectivity of the sensors can be introduced and improved by surface modification of natural fiber, such as enzyme immobilization and biorecognition element functionalization, illustrating the adaptability of natural fiber as a smart sensing device, e.g., wearable and portable sensors. Ultimately, the high performances of natural fiber-based chemical sensors indicate the potential uses of natural fiber as a renewable and eco-friendly substrate material in the field of chemical sensors and biosensors for clinical diagnosis and environmental monitoring.
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Affiliation(s)
- Wisarttra Phamonpon
- Nanoscience and Technology Program, Graduate School, Chulalongkorn University, Phayathai Road, Pathumwan, Bangkok 10330, Thailand
| | - Juan P Hinestroza
- Department of Fiber Science, College of Human Ecology, Cornell University, Ithaca, NY 14850, United States
| | - Pumidech Puthongkham
- Department of Chemistry, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand; Center of Excellence in Responsive Wearable Materials, Chulalongkorn University, Soi Chula 12, Phayathai Road, Pathumwan, Bangkok 10330, Thailand.
| | - Nadnudda Rodthongkum
- Metallurgy and Materials Science Research Institute, Chulalongkorn University, Soi Chula 12, Phayathai Road, Pathumwan, Bangkok 10330, Thailand; Center of Excellence in Responsive Wearable Materials, Chulalongkorn University, Soi Chula 12, Phayathai Road, Pathumwan, Bangkok 10330, Thailand.
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Liao B, Wang C, Li X, Man Y, Ruan H, Zhao Y. Genome-wide analysis of the Populus trichocarpa laccase gene family and functional identification of PtrLAC23. FRONTIERS IN PLANT SCIENCE 2023; 13:1063813. [PMID: 36733583 PMCID: PMC9887407 DOI: 10.3389/fpls.2022.1063813] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/07/2022] [Accepted: 12/21/2022] [Indexed: 06/18/2023]
Abstract
INTRODUCTION Biofuel is a kind of sustainable, renewable and environment friendly energy. Lignocellulose from the stems of woody plants is the main raw material for "second generation biofuels". Lignin content limits fermentation yield and is therefore a major obstacle in biofuel production. Plant laccase plays an important role in the final step of lignin formation, which provides a new strategy for us to obtain ideal biofuels by regulating the expression of laccase genes to directly gain the desired lignin content or change the composition of lignin. METHODS Multiple sequence alignment and phylogenetic analysis were used to classify PtrLAC genes; sequence features of PtrLACs were revealed by gene structure and motif composition analysis; gene duplication, interspecific collinearity and Ka/Ks analysis were conducted to identify ancient PtrLACs; expression levels of PtrLAC genes were measured by RNA-Seq data and qRT-PCR; domain analysis combine with cis-acting elements prediction together showed the potential function of PtrLACs. Furthermore, Alphafold2 was used to simulate laccase 3D structures, proLAC23::LAC23-eGFP transgenic Populus stem transects were applied to fluorescence observation. RESULTS A comprehensive analysis of the P. trichocarpa laccase gene (PtLAC) family was performed. Some ancient PtrLAC genes such as PtrLAC25, PtrLAC19 and PtrLAC41 were identified. Gene structure and distribution of conserved motifs clearly showed sequence characteristics of each PtrLAC. Combining published RNA-Seq data and qRT-PCR analysis, we revealed the expression pattern of PtrLAC gene family. Prediction results of cis-acting elements show that PtrLAC gene regulation was closely related to light. Through above analyses, we selected 5 laccases and used Alphafold2 to simulate protein 3D structures, results showed that PtrLAC23 may be closely related to the lignification. Fluorescence observation of proLAC23::LAC23-eGFP transgenic Populus stem transects and qRT-PCR results confirmed our hypothesis again. DISCUSSION In this study, we fully analyzed the Populus trichocarpa laccase gene family and identified key laccase genes related to lignification. These findings not only provide new insights into the characteristics and functions of Populus laccase, but also give a new understanding of the broad prospects of plant laccase in lignocellulosic biofuel production.
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Affiliation(s)
- Boyang Liao
- College of Biological Science and Technology, Beijing Forestry University, Beijing, China
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Beijing Forestry University, Beijing, China
- Institute of Environmental Biology and Life Support Technology, School of Biological Science and Medical Engineering, Beihang University, Beijing, China
| | - Chencan Wang
- College of Biological Science and Technology, Beijing Forestry University, Beijing, China
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Beijing Forestry University, Beijing, China
| | - Xiaoxu Li
- College of Biological Science and Technology, Beijing Forestry University, Beijing, China
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Beijing Forestry University, Beijing, China
| | - Yi Man
- College of Biological Science and Technology, Beijing Forestry University, Beijing, China
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Beijing Forestry University, Beijing, China
| | - Hang Ruan
- School of Cyber Science and Technology, Beihang University, Beijing, China
| | - Yuanyuan Zhao
- College of Biological Science and Technology, Beijing Forestry University, Beijing, China
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Beijing Forestry University, Beijing, China
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Ding Z, Kumar V, Sar T, Harirchi S, Dregulo AM, Sirohi R, Sindhu R, Binod P, Liu X, Zhang Z, Taherzadeh MJ, Awasthi MK. Agro waste as a potential carbon feedstock for poly-3-hydroxy alkanoates production: Commercialization potential and technical hurdles. BIORESOURCE TECHNOLOGY 2022; 364:128058. [PMID: 36191751 DOI: 10.1016/j.biortech.2022.128058] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Revised: 09/24/2022] [Accepted: 09/27/2022] [Indexed: 06/16/2023]
Abstract
The enormous production and widespread applications of non -biodegradable plastics lead to their accumulation and toxicity to animals and humans. The issue can be addressed by the development of eco-friendly strategies for the production of biopolymers by utilization of waste residues like agro residues. This will address two societal issues - waste management and the development of an eco-friendly biopolymer, poly-3-hydroxy alkanoates (PHAs). Strategies adopted for utilization of agro-residues, challenges and future perspectives are discussed in detail in this comprehensive review. The possibility of PHA properties improvements can be increased by preparation of blends.
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Affiliation(s)
- Zheli Ding
- Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan Province 571101, China
| | - Vinay Kumar
- Department of Community Medicine, Saveetha Medical College, Saveetha Institute of Medical and Technical Sciences (SIMATS), Thandalam 602105, India
| | - Taner Sar
- Swedish Centre for Resource Recovery, University of Borås, Borås 50190, Sweden
| | - Sharareh Harirchi
- Swedish Centre for Resource Recovery, University of Borås, Borås 50190, Sweden
| | - Andrei Mikhailovich Dregulo
- Institute for Regional Economy Problems of the Russian Academy of Sciences (IRES RAS), 38 Serpukhovskaya str, 190013 Saint-Petersburg, Russia
| | - Ranjna Sirohi
- Department of Food Technology, School of Health Sciences & Technology, University of Petroleum and Energy Studies, Dehradun 248 007, India
| | - Raveendran Sindhu
- Department of Food Technology, TKM Institute of Technology, Kollam 691505, Kerala, India
| | - Parameswaran Binod
- Microbial Processes and Technology Division, CSIR-National Institute for Interdisciplinary Science and Technology (CSIR-NIIST), Trivandrum 695019, Kerala, India
| | - Xiaodi Liu
- Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan Province 571101, China
| | - Zengqiang Zhang
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, China
| | | | - Mukesh Kumar Awasthi
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province 712100, China.
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Reyes C, Sajó Z, Lucas MS, Sinha A, Schwarze FWMR, Ribera J, Nyström G. Cocultivation of White-Rot Fungi and Microalgae in the Presence of Nanocellulose. Microbiol Spectr 2022; 10:e0304122. [PMID: 36154147 PMCID: PMC9604150 DOI: 10.1128/spectrum.03041-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2022] [Accepted: 09/07/2022] [Indexed: 01/04/2023] Open
Abstract
Cocultivation of fungi and algae can result in a mutualistic or antagonistic interaction depending on the species involved and the cultivation conditions. In this study, we investigated the growth behavior and enzymatic activity of two filamentous white-rot fungi (Trametes versicolor and Trametes pubescens) and two freshwater algae (Chlorella vulgaris and Scenedesmus vacuolatus) cocultured in the presence of TEMPO (2,2,6,6-tetramethylpiperidine-1-oxyl radical) oxidized cellulose nanofibrils (CNF) and cellulose nanocrystals (CNC). The growth of fungi and algae was studied in liquid, agar medium, and 3D-printed nanocellulose hydrogels. The results showed that cocultures grew faster under nutrient-rich conditions than in nutrient-depleted conditions. Key cellulose-degrading enzymes, including endoglucanase and laccase activities, were higher in liquid cocultures of T. versicolor and S. vacuolatus in the presence of cellulose compared to single cultures of fungi or algae. Although similar results were observed for cocultures of T. pubescens and C. vulgaris, laccase production diminished over time in these cultures. Fungi and algae were capable of growth in 3D-printed cellulose hydrogels. These results showed that cellulase enzyme production could be enhanced by cocultivating white-rot fungi with freshwater algae under nutrient-rich conditions with TEMPO-CNF and CNC. Additionally, the growth of white-rot fungi and freshwater algae in printed cellulose hydrogels demonstrates the potential use of fungi and algae in hydrogel systems for biotechnological applications, including biofuel production and bio-based fuel cell components. IMPORTANCE Depending on the conditions used to grow fungi and algae in the lab, they can interact in a mutually beneficial or negative way. These interactions could stimulate the organisms to produce enzymes in response to the interaction. We studied how wood decay fungi and freshwater algae grew in the presence and absence of cellulose, one of the basic building blocks of wood. How fungi and algae grew in 3D-printed cellulose hydrogels was also tested. Our results showed that fungi and algae partners produced significantly larger amounts of enzymes that degraded cellulose when grown with cellulose than when grown alone. In addition, fungi and algae were shown to grow in dense nanocellulose hydrogels and could survive the shear conditions during gel structuring while 3D-printing. These cultures could potentially be applied in the biotech industry for applications like energy production from cellulose, biofuel production, and bioremediation of cellulose material.
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Affiliation(s)
- Carolina Reyes
- Laboratory for Cellulose and Wood Materials, Empa, Dübendorf, Switzerland
| | - Zsófia Sajó
- Laboratory for Cellulose and Wood Materials, Empa, Dübendorf, Switzerland
| | - Miriam Susanna Lucas
- Scientific Center for Light and Electron Microscopy (ScopeM), ETH Zurich, Zürich, Switzerland
| | - Ashutosh Sinha
- Laboratory for Cellulose and Wood Materials, Empa, Dübendorf, Switzerland
- Department of Health Science and Technolgy, ETH Zürich, Zürich, Switzerland
| | | | - Javier Ribera
- Laboratory for Cellulose and Wood Materials, Empa, St. Gallen, Switzerland
| | - Gustav Nyström
- Laboratory for Cellulose and Wood Materials, Empa, Dübendorf, Switzerland
- Department of Health Science and Technolgy, ETH Zürich, Zürich, Switzerland
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Effect of Different Inducer Sources on Cellulase Enzyme Production by White-Rot Basidiomycetes Pleurotus ostreatus and Phanerochaete chrysosporium under Submerged Fermentation. FERMENTATION-BASEL 2022. [DOI: 10.3390/fermentation8100561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Cellulase enzymes attract a lot of research due to their industrial application. Diverse cellulase-producing organisms and substances that induce cellulase are highly sought after. This study aimed to evaluate the effect of different inducer sources on cellulase production by white rot fungi P. ostreatus CGMCC 3.7292 and P. chrysosporium CGMCC 3.7212 under submerged fermentation employing a completely randomized experimental design. The different inducer sources tested were nitrogen (yeast, potassium nitrate, sodium nitrate, ammonium sulphate, aqueous ammonia and urea), carbon (malt extract, glucose, fructose, carboxymethylcellulose, starch and xylose) and agro-biomass (stevia straw, wheat straw, oat straw, alfalfa straw, corn cobs and corn stover). These inducer sources strongly impacted enzyme activities by P. ostreatus CGMCC 3.7292 and P. chrysosporium CGMCC 3.7212. The suitable nitrogen and carbon inducer sources for cellulase activity by P. ostreatus and P. chrysosporium were yeast (1.354 U/mL and 1.154 U/mL) and carboxymethylcellulose (0.976 U/mL and 0.776 U/mL) while the suitable agro-biomass were wheat straw (6.880 U/mL) and corn stover (6.525 U/mL), respectively. The least inducer sources in terms of nitrogen, carbon and agro-biomass for cellulase activity by P. ostreatus and P. chrysosporium were urea (0.213 U/mL and 0.081 U/mL), glucose (0.042 U/mL and 0.035), xylose (0.042 U/mL and 0.035 U/mL) and stevia straw (1.555 U/mL and 0.960 U/mL). In submerged fermentation, the cellulase enzyme activity of P. ostreatus in response to various inducer sources was relatively higher than P. chrysosporium.
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Jinga LI, Tudose M, Ionita P. Laccase–TEMPO as an Efficient System for Doxorubicin Removal from Wastewaters. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2022; 19:ijerph19116645. [PMID: 35682229 PMCID: PMC9180534 DOI: 10.3390/ijerph19116645] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/03/2022] [Revised: 05/26/2022] [Accepted: 05/28/2022] [Indexed: 02/04/2023]
Abstract
A large number of drugs are used to treat different diseases, and thus to improve the quality of life for humans. These represent a real ecological threat, as they end up in soil or ground waters in amounts that can affect the environment. Among these drugs, doxorubicin is a highly cytotoxic compound used as anticancer medicine. Doxorubicin can be efficiently removed from wastewater or polluted water using a simple enzymatic (biocatalytic) system, employing the oxidoreductase enzyme laccase and a stable organic nitroxide-free radical, TEMPO. Results presented in this work (as percentage of removal) were obtained at pH 5 and 7, after 2, 4, 6, and 24 h, using different ratios between doxorubicin, laccase, and TEMPO. It was shown that longer time, as well as an increased amount of catalyst, led to a higher percentage of removal, up to 100%. The influence of all these parameters is also discussed. In this way it was shown that the laccase–TEMPO biocatalytic system is highly efficient in the removal of the anticancer drug doxorubicin from wastewaters.
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Affiliation(s)
- Luiza Izabela Jinga
- Department of Organic Chemistry, Biochemistry and Catalysis, Faculty of Chemistry, University of Bucharest, 90 Panduri, 050663 Bucharest, Romania;
- National Institute for Lasers, Plasma and Radiation Physics, Atomistilor 409, 077125 Magurele, Romania
| | - Madalina Tudose
- Institute of Physical Chemistry, 202 Spl. Independentei, 060021 Bucharest, Romania;
| | - Petre Ionita
- Department of Organic Chemistry, Biochemistry and Catalysis, Faculty of Chemistry, University of Bucharest, 90 Panduri, 050663 Bucharest, Romania;
- Correspondence:
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Liu Y, Yan Z, He Q, Deng W, Zhou M, Chen Y. Bacterial delignification promotes the pretreatment of rice straw by ionic liquid at high biomass loading. Process Biochem 2021. [DOI: 10.1016/j.procbio.2021.08.026] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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