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Mu L, Dong R, Wang J, Yue J, Pan L, Song C, Wei Z. The positive effect of the enzyme inducer (MnSO 4) on the formation of humic substance in rice straw composting by stimulating key microorganisms. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 923:171460. [PMID: 38442764 DOI: 10.1016/j.scitotenv.2024.171460] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Revised: 03/01/2024] [Accepted: 03/01/2024] [Indexed: 03/07/2024]
Abstract
This study investigated the impact of adding enzyme inducer (MnSO4) on humic substance (HS) formation during straw composting. The results demonstrated that both enzyme inducer treatment group (Mn) and functional microorganism treatment group (F) led to an increase in the content of HS compared to the treatment group without enzyme inducer and functional microorganism (CK). Interestingly, the enzyme inducer exhibited a higher promoting effect on HS (57.80 % ~ 58.58 %) than functional microbial (46.54 %). This was because enzyme inducer stimulated the growth of key microorganisms and changed the interaction relationship between microorganisms. The structural equation model suggested that the enzyme inducer promoted the utilization of amino acids by the fungus and facilitated the conversion of precursors to humic substance components. These findings provided a direction for improving the quality of composting products from agricultural straw waste. It also provided theoretical support for adding MnSO4 to compost.
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Affiliation(s)
- Linying Mu
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Runshi Dong
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Jiaqi Wang
- College of Life Science, Northeast Agricultural University, Harbin 150030, China
| | - Jieyu Yue
- College of Life Sciences, Tianjin Normal University, Tianjin 300387, China
| | - Lina Pan
- College of Life Sciences, Tianjin Normal University, Tianjin 300387, China
| | - Caihong Song
- School of Life Science, Liaocheng University, Liaocheng 252000, China
| | - Zimin Wei
- College of Life Science, Northeast Agricultural University, Harbin 150030, China; College of Life Sciences, Tianjin Normal University, Tianjin 300387, China.
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Ley Y, Cheng XY, Ying ZY, Zhou NY, Xu Y. Characterization of Two Marine Lignin-Degrading Consortia and the Potential Microbial Lignin Degradation Network in Nearshore Regions. Microbiol Spectr 2023; 11:e0442422. [PMID: 37042774 PMCID: PMC10269927 DOI: 10.1128/spectrum.04424-22] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Accepted: 03/27/2023] [Indexed: 04/13/2023] Open
Abstract
Terrestrial organic carbon such as lignin is an important component of the global marine carbon. However, the structural complexity and recalcitrant nature of lignin are deemed challenging for biodegradation. It has been speculated that bacteria play important roles in lignin degradation in the marine system. However, the extent of the involvement of marine microorganisms in lignin degradation and their contribution to the oceanic carbon cycle remains elusive. In this study, two bacterial consortia capable of degrading alkali lignin (a model compound of lignin), designated LIG-B and LIG-S, were enriched from the nearshore sediments of the East and South China Seas. Consortia LIG-B and LIG-S mainly comprised of the Proteobacteria phylum with Nitratireductor sp. (71.6%) and Halomonas sp. (91.6%), respectively. Lignin degradation was found more favorable in consortium LIG-B (max 57%) than in LIG-S (max 18%). Ligninolytic enzymes laccase (Lac), manganese peroxidase (MnP), and lignin peroxidase (LiP) capable of decomposing lignin into smaller fragments were all active in both consortia. The newly emerged low-molecular-weight aromatics, organic acids, and other lignin-derived compounds in biotreated alkali lignin also evidently showed the depolymerization of lignin by both consortia. The lignin degradation pathways reconstructed from consortium LIG-S were found to be more comprehensive compared to consortium LIG-B. It was further revealed that catabolic genes, involved in the degradation of lignin and its derivatives through multiple pathways via protocatechuate and catechol, are present not only in lignin-degrading consortia LIG-B and LIG-S but also in 783 publicly available metagenomic-assembled genomes from nine nearshore regions. IMPORTANCE Numerous terrigenous lignin-containing plant materials are constantly discharged from rivers and estuaries into the marine system. However, only low levels of terrigenous organic carbon, especially lignin, are detected in the global marine system due to the abundance of active heterotrophic microorganisms driving the carbon cycle. Simultaneously, the lack of knowledge on lignin biodegradation has hindered our understanding of the oceanic carbon cycle. Moreover, bacteria have been speculated to play important roles in the marine lignin biodegradation. Here, we enriched two bacterial consortia from nearshore sediments capable of utilizing alkali lignin for cell growth while degrading it into smaller molecules and reconstructed the lignin degradation network. In particular, this study highlights that marine microorganisms in nearshore regions mostly undergo similar pathways using protocatechuate and catechol as ring-cleavage substrates to drive lignin degradation as part of the oceanic carbon cycle, regardless of whether they are in sediments or water column.
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Affiliation(s)
- Yvette Ley
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Xiao-Yu Cheng
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Zhi-Yue Ying
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Ning-Yi Zhou
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Ying Xu
- State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
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Sharma A, Balda S, Capalash N, Sharma P. Engineering multifunctional enzymes for agro-biomass utilization. BIORESOURCE TECHNOLOGY 2022; 347:126706. [PMID: 35033642 DOI: 10.1016/j.biortech.2022.126706] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 01/07/2022] [Accepted: 01/08/2022] [Indexed: 06/14/2023]
Abstract
Lignocellulosic biomass is a plentiful renewable resource that can be converted into a wide range of high-value-added industrial products. However, the complexity of its structural integrity is one of the major constraints and requires combinations of different fibrolytic enzymes for the cost-effective, industrially and environmentally feasible transformation. An interesting approach is constructing multifunctional enzymes, either in a single polypeptide or by joining multiple domains with linkers and performing diverse reactions simultaneously, in a single host. The production of such chimera proteins multiplies the advantages of different enzymatic reactions in a single setup, in lesser time, at lower production cost and with desirable and improved catalytic activities. This review embodies the various domain-tailoring and extracellular secretion strategies, possible solutions to their challenges, and efforts to experimentally connect different catalytic activities in a single host, as well as their applications.
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Affiliation(s)
- Aarjoo Sharma
- Department of Microbiology, Panjab University, Chandigarh, India
| | - Sanjeev Balda
- Department of Microbiology, Panjab University, Chandigarh, India
| | - Neena Capalash
- Department of Biotechnology, Panjab University, Chandigarh, India
| | - Prince Sharma
- Department of Microbiology, Panjab University, Chandigarh, India.
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Ma J, Li Q, Wu Y, Yue H, Zhang Y, Zhang J, Shi M, Wang S, Liu GQ. Elucidation of ligninolysis mechanism of a newly isolated white-rot basidiomycete Trametes hirsuta X-13. BIOTECHNOLOGY FOR BIOFUELS 2021; 14:189. [PMID: 34563244 PMCID: PMC8466896 DOI: 10.1186/s13068-021-02040-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Accepted: 09/11/2021] [Indexed: 05/24/2023]
Abstract
BACKGROUND Lignin is a complex aromatic heteropolymer comprising 15-30% dry weight of the lignocellulose. The complex structural characteristic of lignin renders it difficult for value-added utilization. Exploring efficient lignin-degrading microorganisms and investigating their lignin-degradation mechanisms would be beneficial for promoting lignin valorization. In this study, a newly isolated white-rot basidiomycete, Trametes hirsuta X-13, with capacity to utilize alkaline lignin as the sole substrate was investigated. RESULTS The analysis of the fermentation properties of T. hirsuta X-13 using alkaline lignin as the sole substrate, including the mycelial growth, activities of ligninolytic enzymes and the rates of lignin degradation and decolorization confirmed its great ligninolysis capacity. The maximum lignin degradation rate reached 39.8% after 11 days of T. hirsuta X-13 treatment, which was higher than that of reported fungi under the same condition. Fourier transform infrared spectrometry (FTIR), gas chromatography-mass spectrometry (GC-MS) scanning electron micrographs (SEM), two-dimensional heteronuclear single quantum coherence NMR analysis (2D-HSQC NMR) collaborated with pyrolysis gas chromatography-mass spectrometry (py-GC/MS) analyses proved that lignin structure was severely deconstructed along with amounts of monomer aromatics generated. Furthermore, according to those chemical analysis, in addition to canonical Cα-Cβ breakage, the cleavage of lignin interunit linkages of β-β might also occur by T. hirsuta X-13. CONCLUSIONS This study characterized a newly isolated white-rot basidiomycete T. hirsuta X-13 with impressive alkaline lignin degradation ability and provided mechanistic insight into its ligninolysis mechanism, which will be valuable for the development of lignin valorization strategies.
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Affiliation(s)
- Jiangshan Ma
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
| | - Qiang Li
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
| | - Yujie Wu
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
| | - Huimin Yue
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
| | - Yanghong Zhang
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
| | - Jiashun Zhang
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
| | - Muling Shi
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
| | - Sixian Wang
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
| | - Gao-Qiang Liu
- Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
- International Cooperation Base of Science and Technology Innovation On Forest Resource Biotechnology, Central South University of Forestry and Technology, Changsha, 410004 Hunan People’s Republic of China
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Wang X, Lin L, Zhou J. Links among extracellular enzymes, lignin degradation and cell growth establish the models to identify marine lignin-utilizing bacteria. Environ Microbiol 2020; 23:160-173. [PMID: 33107668 DOI: 10.1111/1462-2920.15289] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Accepted: 10/18/2020] [Indexed: 01/08/2023]
Abstract
A major conundrum in the isolation of prokaryotes from open environments is stochasticity. It is especially difficult to study low abundance groups where very little biological information exists, although single-cell genomics and metagenomics have alleviated some of this bottleneck. Here, we report an approach to capture lignin-utilizing bacteria by linking a physical model to actual organisms. Extracellular enzymes, lignin degradation and cell growth are crucial phenotypes of lignin-utilizing bacteria, but their interrelationships remain poorly understood. In this study, the phenotypes of bacteria isolated from in situ lignocellulose enrichment samples in coastal waters were traced and statistically analysed. It suggested cell growth, dye-decolorizing peroxidase (DyP) and reactive oxygen species (ROS) were significantly correlated with lignin degradation, exhibiting a genus-specific property. The established models enabled us to efficiently capture lignin-utilizing bacteria and rapidly evaluate lignin degradation for Bacillus and Vibrio strains. Through the model, we identified several previously unrecognized marine bacterial lignin degraders. Moreover, it demonstrated that the isolated marine lignin-utilizing bacteria employ a DyP-based system and ROS for lignin depolymerization, providing insights into the mechanism of marine bacterial lignin degradation. Our findings should have implications beyond the capture of lignin-utilizing bacteria, in the isolation of other microorganisms with as-yet-unknown molecular biomarkers.
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Affiliation(s)
- Xiaopeng Wang
- Institute of Marine Science and Technology, Shandong University, Qingdao, China.,Key Laboratory of Applied Marine Biotechnology, Ministry of Education, Ningbo University, Ningbo, China
| | - Lu Lin
- Institute of Marine Science and Technology, Shandong University, Qingdao, China
| | - Jizhong Zhou
- Institute for Environmental Genomics, Department of Microbiology and Plant Biology, and School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK, USA
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Stanzione I, Pezzella C, Giardina P, Sannia G, Piscitelli A. Beyond natural laccases: extension of their potential applications by protein engineering. Appl Microbiol Biotechnol 2019; 104:915-924. [DOI: 10.1007/s00253-019-10147-z] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2019] [Revised: 09/06/2019] [Accepted: 09/17/2019] [Indexed: 11/28/2022]
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Sato T, Suzuki Y, Naito M, Minami A, Suzuki N, Yaegashi K, Hirano T. Overexpression of the laccase gene, lcc1, in Lentinula edodes using the pChG vector. MYCOSCIENCE 2019. [DOI: 10.1016/j.myc.2019.02.004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Mateljak I, Rice A, Yang K, Tron T, Alcalde M. The Generation of Thermostable Fungal Laccase Chimeras by SCHEMA-RASPP Structure-Guided Recombination in Vivo. ACS Synth Biol 2019; 8:833-843. [PMID: 30897903 DOI: 10.1021/acssynbio.8b00509] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Fungal laccases are biotechnologically relevant enzymes that are capable of oxidizing a wide array of compounds, using oxygen from the air and releasing water as the only byproduct. The laccase structure is comprised of three cupredoxin domains sheltering two copper centers-the T1Cu site and the T2/T3 trinuclear Cu cluster-connected to each other through a highly conserved internal electron transfer pathway. As such, the generation of laccase chimeras with high sequence diversity from different orthologs is difficult to achieve without compromising protein functionality. Here, we have obtained a diverse family of functional chimeras showing increased thermostability from three fungal laccase orthologs with ∼70% protein sequence identity. Assisted by the high frequency of homologous DNA recombination in Saccharomyces cerevisiae, computationally selected SCHEMA-RASPP blocks were spliced and cloned in a one-pot transformation. As a result of this in vivo assembly, an enriched library of laccase chimeras was rapidly generated, with multiple recombination events simultaneously occurring between and within the SCHEMA blocks. The resulting library was screened at high temperature, identifying a collection of thermostable chimeras with considerable sequence diversity, which varied from their closest parent homologue by 46 amino acids on average. The most thermostable variant increased its half-life of thermal inactivation at 70 °C 5-fold (up to 108 min), whereas several chimeras also displayed improved stability at acidic pH. The two catalytic copper sites spanned different SCHEMA blocks, shedding light on the recognition of specific residues involved in substrate oxidation. In summary, this case-study, through comparison with previous laccase engineering studies, highlights the benefits of bringing together computationally guided recombination and in vivo shuffling as an invaluable strategy for laccase evolution, which can be translated to other enzyme systems.
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Affiliation(s)
- Ivan Mateljak
- Department of Biocatalysis, Institute of Catalysis, CSIC, Cantoblanco, 28049 Madrid, Spain
| | - Austin Rice
- Division of Chemistry and Chemical Engineering, California Institute of Technology, CALTECH, Pasadena, California 91125-4100, United States
| | - Kevin Yang
- Division of Chemistry and Chemical Engineering, California Institute of Technology, CALTECH, Pasadena, California 91125-4100, United States
| | - Thierry Tron
- Aix Marseille Université, Centrale Marseille, CNRS, iSm2 UMR 7313, 13397 Marseille, France
| | - Miguel Alcalde
- Department of Biocatalysis, Institute of Catalysis, CSIC, Cantoblanco, 28049 Madrid, Spain
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Luo C, Li Y, Chen Y, Fu C, Nong X, Yang Y. Degradation of bamboo lignocellulose by bamboo snout beetle Cyrtotrachelus buqueti in vivo and vitro: efficiency and mechanism. BIOTECHNOLOGY FOR BIOFUELS 2019; 12:75. [PMID: 30976325 PMCID: PMC6442404 DOI: 10.1186/s13068-019-1406-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2018] [Accepted: 03/12/2019] [Indexed: 05/15/2023]
Abstract
BACKGROUND As an important biomass raw material, the lignocellulose in bamboo is of significant value in energy conversion. The conversion of bamboo lignocellulose into fermentable reducing sugar, i.e. the degradation of bamboo lignocellulose, is an important step in lignocellulose conversion. However, little research has focussed on excavating the enzymes and microbes that are related to the degradation of bamboo lignocellulose, which is important for its utilisation. This study used Cyrtotrachelus buqueti (bamboo snout beetle) to evaluate the efficiency of bamboo lignocellulose degradation. RESULTS RNA sequencing was conducted to sequence the transcriptome of the insect before and after feeding on bamboo shoots. The expression levels of genes encoding several carbohydrate-active enzymes, such as endoglucanase (evgtrinloc27093t1 and evgtrinloc16407t0) and laccase (evgtrinloc15173t0 and evgtrinloc11252t0), were found to be upregulated after feeding. Faecal component analysis showed that the degradation efficiencies of cellulose, hemicellulose and lignin were 61.82%, 87.65% and 69.05%, respectively. After 6 days of co-culture with crude enzymes in vitro, the degradation efficiencies of cellulose, hemicellulose and lignin in bamboo shoot particles (BSPs) were 24.98%, 37.52% and 26.67%, respectively. These results indicated that lignocellulosic enzymes and related enzymes within the insect itself co-degraded bamboo lignocellulose. These finding can potentially be used for the pre-treatment and enzymatic hydrolysis of bamboo lignocellulose. CONCLUSION Our results showed that intestinal digestive enzymes from C. buqueti degraded bamboo shoot lignocellulose both in vivo and in vitro. In addition, the expression levels of many carbohydrate-active enzyme (CAZyme) genes were upregulated in the transcriptome, including those for cellulase, xylanase and ligninase genes. Therefore, we proposed a scheme for applying the lignocellulolytic enzymes from C. buqueti to degrade bamboo lignocellulose using genetic, enzymatic and fermentation engineering techniques to overexpress the lignocellulolytic enzymes genes in vitro and obtain large quantities of enzymes that could efficiently degrade bamboo lignocellulose and be used for lignocellulose bioconversion.
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Affiliation(s)
- Chaobing Luo
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
| | - Yuanqiu Li
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
- College of Food and Biological Engineering, Xihua University, Chengdu, 610039 China
| | - Ying Chen
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
- College of Food and Biological Engineering, Xihua University, Chengdu, 610039 China
| | - Chun Fu
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
| | - Xiang Nong
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
| | - Yaojun Yang
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
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Luo C, Li Y, Liao H, Yang Y. De novo transcriptome assembly of the bamboo snout beetle Cyrtotrachelus buqueti reveals ability to degrade lignocellulose of bamboo feedstock. BIOTECHNOLOGY FOR BIOFUELS 2018; 11:292. [PMID: 30386429 PMCID: PMC6204003 DOI: 10.1186/s13068-018-1291-9] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2018] [Accepted: 10/15/2018] [Indexed: 05/27/2023]
Abstract
BACKGROUND The bamboo weevil Cyrtotrachelus buqueti, which is considered a pest species, damages bamboo shoots via its piercing-sucking mode of feeding. C. buqueti is well known for its ability to transform bamboo shoot biomass into nutrients and energy for growth, development and reproduction with high specificity and efficacy of bioconversion. Woody bamboo is a perennial grass that is a potential feedstock for lignocellulosic biomass because of its high growth rate and lignocellulose content. To verify our hypothesis that C. buqueti efficiently degrades bamboo lignocellulose, we assessed the bamboo lignocellulose-degrading ability of this insect through RNA sequencing for identifying a potential route for utilisation of bamboo biomass. RESULTS Analysis of carbohydrate-active enzyme (CAZyme) family genes in the developmental transcriptome of C. buqueti revealed 1082 unigenes, including 55 glycoside hydrolases (GH) families containing 309 GHs, 51 glycosyltransferases (GT) families containing 329 GTs, 8 carbohydrate esterases (CE) families containing 174 CEs, 6 polysaccharide lyases (PL) families containing 11 PLs, 8 auxiliary activities (AA) families containing 131 enzymes with AAs and 17 carbohydrate-binding modules (CBM) families containing 128 CBMs. We used weighted gene co-expression network analysis to analyse developmental RNA sequencing data, and 19 unique modules were identified in the analysis. Of these modules, the expression of MEyellow module genes was unique and the module included numerous CAZyme family genes. CAZyme genes in this module were divided into two groups depending on whether gene expression was higher in the adult/larval stages or in the egg/pupal stages. Enzyme assays revealed that cellulase activity was highest in the midgut whereas lignin-degrading enzyme activity was highest in the hindgut, consistent with findings from intestinal gene expression studies. We also analysed the expression of CAZyme genes in the transcriptome of C. buqueti from two cities and found that several genes were also assigned to CAZyme families. The insect had genes and enzymes associated with lignocellulose degradation, the expression of which differed with developmental stage and intestinal region. CONCLUSION Cyrtotrachelus buqueti exhibits lignocellulose degradation-related enzymes and genes, most notably CAZyme family genes. CAZyme family genes showed differences in expression at different developmental stages, with adults being more effective at cellulose degradation and larvae at lignin degradation, as well as at different regions of the intestine, with the midgut being more cellulolytic than the hindgut. This degradative system could be utilised for the bioconversion of bamboo lignocellulosic biomass.
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Affiliation(s)
- Chaobing Luo
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, College of Life Science, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
| | - Yuanqiu Li
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, College of Life Science, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
- College of Food and Biological Engineering, Xihua University, Chengdu, China
| | - Hong Liao
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, College of Life Science, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
| | - Yaojun Yang
- Bamboo Diseases and Pests Control and Resources Development Key Laboratory of Sichuan Province, College of Life Science, Leshan Normal University, No. 778, Riverside Road, Central District, Leshan, 614000 China
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Biodegradation of Lignin Monomers Vanillic, p-Coumaric, and Syringic Acid by the Bacterial Strain, Sphingobacterium sp. HY-H. Curr Microbiol 2018; 75:1156-1164. [PMID: 29750329 DOI: 10.1007/s00284-018-1504-2] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2018] [Accepted: 04/27/2018] [Indexed: 10/16/2022]
Abstract
Many bacterial strains have been demonstrated to biodegrade lignin for contaminant removal or resource regeneration. The goal of this study was to investigate the biodegradation amount and associated pathways of three lignin monomers, vanillic, p-coumaric, and syringic acid by strain Sphingobacterium sp. HY-H. Vanillic, p-coumaric, and syringic acid degradation with strain HY-H was estimated as 88.71, 76.67, and 72.78%, respectively, after 96 h. Correspondingly, the same three monomers were associated with a COD removal efficiency of 87.30, 55.17, and 67.23%, and a TOC removal efficiency of 82.14, 61.03, and 43.86%. The results of GC-MS, HPLC, FTIR, and enzyme activities show that guaiacol and o-dihydroxybenzene are key intermediate metabolites of the vanillic acid and syringic acid degradation. p-Hydroxybenzoic acid is an important intermediate metabolite for p-coumaric and syringic acid degradation. LiP and MnP play an important role in the degradation of lignin monomers and their intermediate metabolites. One possible pathway is that strain HY-H degrades lignin monomers into guaiacol (through decarboxylic and demethoxy reaction) or p-hydroxybenzoic acid (through side-chain oxidation); then guaiacol demethylates to o-dihydroxybenzene. The p-hydroxybenzoic acid and o-dihydroxybenzene are futher through ring cleavage reaction to form small molecule acids (butyric, valproic, oxalic acid, and propionic acid) and alcohols (ethanol and ethanediol), then these acids and alcohols are finally decomposed into CO2 and H2O through the tricarboxylic acid cycle. If properly optimized and controlled, the strain HY-H may play a role in breaking down lignin-related compounds for biofuel and chemical production.
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Yang CX, Wang T, Gao LN, Yin HJ, Lü X. Isolation, identification and characterization of lignin-degrading bacteria from Qinling, China. J Appl Microbiol 2017; 123:1447-1460. [PMID: 28801977 DOI: 10.1111/jam.13562] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2017] [Revised: 07/19/2017] [Accepted: 08/01/2017] [Indexed: 11/30/2022]
Abstract
AIMS Lignin is an aromatic heteropolymer forming a physical barrier and it is a big challenge in biomass utilization. This paper first investigated lignin-degradation bacteria from rotten wood in Qinling Mountain. METHODS AND RESULTS Nineteen potential strains were selected and ligninolytic enzyme activities were determined over 84 h. Strains that had higher enzyme activities were selected. Further, the biodegradation of wheat straw lignin and alkali lignin was evaluated indicating that Burkholderia sp. H1 had the highest capability. It was confirmed by gel permeation chromatography and field emission scanning electron microscope that alkali lignin was depolymerized into small fragments. The degraded products were analysed using gas chromatography-mass spectrometry. The total ion chromatograph of products treated for 7 days showed the formation of aromatic compounds, an important intermediate from lignin degradation. Interestingly, they disappeared in 15 days while the aldehyde and ester compounds increased. CONCLUSIONS The results suggest that the lignin-degrading bacteria are abundant in rotten wood and strain H1 has high potential to break down lignin. SIGNIFICANCE AND IMPACT OF THE STUDY The diversity of lignin-degrading bacteria in Qinling Mountain is revealed. The study of Burkholderia sp. H1 expands the range of bacteria for lignin degradation and provides novel bacteria for application to lignocellulosic biomass.
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Affiliation(s)
- C-X Yang
- College of Food Science and Engineering, Northwest A&F University, Yangling District, Shaanxi Province, China
| | - T Wang
- College of Food Science and Engineering, Northwest A&F University, Yangling District, Shaanxi Province, China
| | - L-N Gao
- College of Food Science and Engineering, Northwest A&F University, Yangling District, Shaanxi Province, China
| | - H-J Yin
- College of Food Science and Engineering, Northwest A&F University, Yangling District, Shaanxi Province, China
| | - X Lü
- College of Food Science and Engineering, Northwest A&F University, Yangling District, Shaanxi Province, China
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Cai Y, Gong Y, Liu W, Hu Y, Chen L, Yan L, Zhou Y, Bian Y. Comparative secretomic analysis of lignocellulose degradation by Lentinula edodes grown on microcrystalline cellulose, lignosulfonate and glucose. J Proteomics 2017; 163:92-101. [PMID: 28483534 DOI: 10.1016/j.jprot.2017.04.023] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2017] [Revised: 04/13/2017] [Accepted: 04/26/2017] [Indexed: 11/18/2022]
Abstract
Lentinula edodes has the potential to degrade woody and nonwoody lignocellulosic biomass. However, the mechanism of lignocellulose degradation by L. edodes is unclear. The aim of this work is to explore the profiling of soluble secreted proteins involved in lignocellulose degradation in L. edodes. For that, we compared the secretomes of L. edodes grown on microcrystalline cellulose, cellulose with lignosulfonate and glucose. Based on nanoliquid chromatography coupled with tandem mass spectrometry of whole-protein hydrolysate, 230 proteins were identified. Label-free proteomic analysis showed that the most abundant carbohydrate-active enzymes involved in polysaccharide hydrolysis were endo-β-1,4-glucanase, α-galactosidase, polygalacturonase and glucoamylase in both cellulosic secretomes. In contrast, enzymes involved in lignin degradation were most abundant in glucose culture, with laccase 1 being the predominant protein (13.13%). When the cellulose and cellulose with lignosulfonate secretomes were compared, the abundance of cellulases and hemicellulases was higher in cellulose with lignosulfonate cultures, which was confirmed by enzyme activity assays. In addition, qRT-PCR analysis demonstrated that the expression levels of genes encoding cellulases and hemicellulases were significantly increased (by 32.2- to 1166.7-fold) when L. edodes was grown in cellulose with lignosulfonate medium. BIOLOGICAL SIGNIFICANCE In this article, the secretomes of L. edodes grown on three different carbon sources were compared. The presented results revealed the profiling of extracellular enzymes involved in lignocellulose degradation, which is helpful to further explore the mechanism of biomass bioconversion by L. edodes.
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Affiliation(s)
- Yingli Cai
- Institute of Applied Mycology, Plant Science and Technology College, Huazhong Agricultural University,Wuhan, Hubei, China; Key Laboratory of Agro-Microbial Resource Comprehensive Utilization, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China
| | - Yuhua Gong
- Institute of Applied Mycology, Plant Science and Technology College, Huazhong Agricultural University,Wuhan, Hubei, China; Key Laboratory of Agro-Microbial Resource Comprehensive Utilization, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China
| | - Wei Liu
- Institute of Applied Mycology, Plant Science and Technology College, Huazhong Agricultural University,Wuhan, Hubei, China; Key Laboratory of Agro-Microbial Resource Comprehensive Utilization, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China
| | - Yue Hu
- Institute of Applied Mycology, Plant Science and Technology College, Huazhong Agricultural University,Wuhan, Hubei, China; Key Laboratory of Agro-Microbial Resource Comprehensive Utilization, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China
| | - Lianfu Chen
- Institute of Applied Mycology, Plant Science and Technology College, Huazhong Agricultural University,Wuhan, Hubei, China; Key Laboratory of Agro-Microbial Resource Comprehensive Utilization, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China
| | - Lianlian Yan
- Institute of Applied Mycology, Plant Science and Technology College, Huazhong Agricultural University,Wuhan, Hubei, China; Key Laboratory of Agro-Microbial Resource Comprehensive Utilization, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China
| | - Yan Zhou
- Institute of Applied Mycology, Plant Science and Technology College, Huazhong Agricultural University,Wuhan, Hubei, China; Key Laboratory of Agro-Microbial Resource Comprehensive Utilization, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China
| | - Yinbing Bian
- Institute of Applied Mycology, Plant Science and Technology College, Huazhong Agricultural University,Wuhan, Hubei, China; Key Laboratory of Agro-Microbial Resource Comprehensive Utilization, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China.
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14
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Abstract
Laccases are multi-copper oxidoreductases which catalyze the oxidation of a wide range of substrates during the simultaneous reduction of oxygen to water. These enzymes, originally found in fungi, plants, and other natural sources, have many industrial and biotechnological applications. They are used in the food, textile, pulp, and paper industries, as well as for bioremediation purposes. Although natural hosts can provide relatively high levels of active laccases after production optimization, heterologous expression can bring, moreover, engineered enzymes with desired properties, such as different substrate specificity or improved stability. Hence, diverse hosts suitable for laccase production are reviewed here, while the greatest emphasis is placed on yeasts which are commonly used for industrial production of various proteins. Different approaches to optimize the laccase expression and activity are also discussed in detail here.
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Affiliation(s)
- Zuzana Antošová
- Department of Membrane Transport, Institute of Physiology, Czech Academy of Sciences (CAS), Vídeňská 1083, 142 20, Prague 4, Czech Republic.
| | - Hana Sychrová
- Department of Membrane Transport, Institute of Physiology, Czech Academy of Sciences (CAS), Vídeňská 1083, 142 20, Prague 4, Czech Republic.
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15
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Ma J, Zhang K, Huang M, Hector SB, Liu B, Tong C, Liu Q, Zeng J, Gao Y, Xu T, Liu Y, Liu X, Zhu Y. Involvement of Fenton chemistry in rice straw degradation by the lignocellulolytic bacterium Pantoea ananatis Sd-1. BIOTECHNOLOGY FOR BIOFUELS 2016; 9:211. [PMID: 27761153 PMCID: PMC5054592 DOI: 10.1186/s13068-016-0623-x] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2016] [Accepted: 09/24/2016] [Indexed: 05/24/2023]
Abstract
BACKGROUND Lignocellulolytic bacteria have revealed to be a promising source for biofuel production, yet the underlying mechanisms are still worth exploring. Our previous study inferred that the highly efficient lignocellulose degradation by bacterium Pantoea ananatis Sd-1 might involve Fenton chemistry (Fe2+ + H2O2 + H+ → Fe3+ + OH· + H2O), similar to that of white-rot and brown-rot fungi. The aim of this work is to investigate the existence of this Fenton-based oxidation mechanism in the rice straw degradation process of P. ananatis Sd-1. RESULTS After 3 days incubation of unpretreated rice straw with P. ananatis Sd-1, the percentage in weight reduction of rice straw as well as its cellulose, hemicellulose, and lignin components reached 46.7, 43.1, 42.9, and 37.9 %, respectively. The addition of different hydroxyl radical scavengers resulted in a significant decline (P < 0.001) in rice straw degradation. Pyrolysis gas chromatography-mass spectrometry and Fourier transform infrared spectroscopy analysis revealed the consistency of chemical changes of rice straw components that exists between P. ananatis Sd-1 and Fenton reagent treatment. In addition to the increased total iron ion concentration throughout the rice straw decomposition process, the Fe3+-reducing capacity of P. ananatis Sd-1 was induced by rice straw and predominantly contributed by aromatic compounds metabolites. The transcript levels of the glucose-methanol-choline oxidoreductase gene related to hydrogen peroxide production were significantly up-regulated (at least P < 0.01) in rice straw cultures. Higher activities of GMC oxidoreductase and less hydrogen peroxide concentration in rice straw cultures relative to glucose cultures may be responsible for increasing rice straw degradation, which includes Fenton-like reactions. CONCLUSIONS Our results confirmed the Fenton chemistry-assisted degradation model in P. ananatis Sd-1. We are among the first to show that a Fenton-based oxidation mechanism exists in a bacteria degradation system, which provides a new perspective for how natural plant biomass is decomposed by bacteria. This degradative system may offer an alternative approach to the fungi system for lignocellulosic biofuels production.
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Affiliation(s)
- Jiangshan Ma
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Keke Zhang
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Mei Huang
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Stanton B. Hector
- Department of Genetics, Institute for Plant Biotechnology, Stellenbosch University, Private Bag X1, Matieland, 7602 South Africa
- DNA Sequencing Unit, Central Analytical Facility, Stellenbosch University, Private Bag X1, Matieland, 7602 South Africa
| | - Bin Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Chunyi Tong
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Qian Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Jiarui Zeng
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Yan Gao
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Ting Xu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Ying Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Xuanming Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Yonghua Zhu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
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16
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Ma J, Zhang K, Liao H, Hector SB, Shi X, Li J, Liu B, Xu T, Tong C, Liu X, Zhu Y. Genomic and secretomic insight into lignocellulolytic system of an endophytic bacterium Pantoea ananatis Sd-1. BIOTECHNOLOGY FOR BIOFUELS 2016; 9:25. [PMID: 26839588 PMCID: PMC4736469 DOI: 10.1186/s13068-016-0439-8] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2015] [Accepted: 01/14/2016] [Indexed: 05/06/2023]
Abstract
BACKGROUND Exploring microorganisms especially bacteria associated with the degradation of lignocellulosic biomass shows great potentials in biofuels production. The rice endophytic bacterium Pantoea ananatis Sd-1 with strong lignocellulose degradation capacity has been reported in our previous study. However, a comprehensive analysis of its corresponding degradative system has not yet been conducted. The aim of this work is to identify and characterize the lignocellulolytic enzymes of the bacterium to understand its mechanism of lignocellulose degradation and facilitate its application in sustainable energy production. RESULTS The genomic analysis revealed that there are 154 genes encoding putative carbohydrate-active enzymes (CAZy) in P. ananatis Sd-1. This number is higher than that of compared cellulolytic and ligninolytic bacteria as well as other eight P. ananatis strains. The CAZy in P. ananatis Sd-1 contains a complete repertoire of enzymes required for cellulose and hemicellulose degradation. In addition, P. ananatis Sd-1 also possesses plenty of genes encoding potential ligninolytic relevant enzymes, such as multicopper oxidase, catalase/hydroperoxidase, glutathione S-transferase, and quinone oxidoreductase. Quantitative real-time PCR analysis of parts of genes encoding lignocellulolytic enzymes revealed that they were significantly up-regulated (at least P < 0.05) in presence of rice straw. Further identification of secretome of P. ananatis Sd-1 by nano liquid chromatography-tandem mass spectrometry confirmed that considerable amounts of proteins involved in lignocellulose degradation were only detected in rice straw cultures. Rice straw saccharification levels by the secretome of P. ananatis Sd-1 reached 129.11 ± 2.7 mg/gds. Correspondingly, the assay of several lignocellulolytic enzymes including endoglucanase, exoglucanase, β-glucosidase, xylanase-like, lignin peroxidase-like, and laccase-like activities showed that these enzymes were more active in rice straw relative to glucose substrates. The high enzymes activities were not attributed to bacterial cell densities but to the difference of secreted protein contents. CONCLUSION Our results indicate that P. ananatis Sd-1 can produce considerable lignocellulolytic enzymes including cellulases, hemicellulases, and ligninolytic relevant enzymes. The high activities of those enzymes could be efficiently induced by lignocellulosic biomass. This identified degradative system is valuable for the lignocellulosic bioenergy industry.
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Affiliation(s)
- Jiangshan Ma
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Keke Zhang
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Hongdong Liao
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Stanton B. Hector
- />Department of Genetics, Institute for Plant Biotechnology, Stellenbosch University, Private Bag X1, Matieland, Stellenbosch, 7602 South Africa
- />DNA Sequencing Unit, Central Analytical Facility, Stellenbosch University, Private Bag X1, Matieland, Stellenbosch, 7602 South Africa
| | - Xiaowei Shi
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Jianglin Li
- />State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Bin Liu
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Ting Xu
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Chunyi Tong
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Xuanming Liu
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
| | - Yonghua Zhu
- />Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410008 Hunan People’s Republic of China
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17
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Forootanfar H, Faramarzi MA. Insights into laccase producing organisms, fermentation states, purification strategies, and biotechnological applications. Biotechnol Prog 2015; 31:1443-63. [DOI: 10.1002/btpr.2173] [Citation(s) in RCA: 58] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2015] [Revised: 08/30/2015] [Indexed: 12/07/2022]
Affiliation(s)
- Hamid Forootanfar
- Dept. of Pharmaceutical Biotechnology, Faculty of Pharmacy; Kerman University of Medical Sciences; Kerman Iran
| | - Mohammad Ali Faramarzi
- Dept. of Pharmaceutical Biotechnology, Faculty of Pharmacy & Biotechnology Research Center; Tehran University of Medical Sciences; Tehran 1417614411 Iran
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18
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Laccase engineering by rational and evolutionary design. Cell Mol Life Sci 2015; 72:897-910. [PMID: 25586560 PMCID: PMC4323517 DOI: 10.1007/s00018-014-1824-8] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2014] [Accepted: 12/30/2014] [Indexed: 11/27/2022]
Abstract
Laccases are considered as green catalysts of great biotechnological potential. This has attracted a great interest in designing laccases a la carte with enhanced stabilities or activities tailored to specific conditions for different fields of application. Over 20 years, numerous efforts have been taken to engineer these multicopper oxidases and to understand their reaction mechanisms by site-directed mutagenesis, and more recently, using computational calculations and directed evolution tools. In this work, we review the most relevant contributions made in the field of laccase engineering, from the comprehensive study of their structure–function relationships to the tailoring of outstanding biocatalysts.
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Laccase engineering: From rational design to directed evolution. Biotechnol Adv 2015; 33:25-40. [DOI: 10.1016/j.biotechadv.2014.12.007] [Citation(s) in RCA: 168] [Impact Index Per Article: 18.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2014] [Revised: 12/17/2014] [Accepted: 12/21/2014] [Indexed: 10/24/2022]
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Liu Y, Cusano AM, Wallace EC, Mekmouche Y, Ullah S, Robert V, Tron T. Characterization of C-terminally engineered laccases. Int J Biol Macromol 2014; 69:435-41. [DOI: 10.1016/j.ijbiomac.2014.05.053] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2014] [Revised: 05/16/2014] [Accepted: 05/20/2014] [Indexed: 10/25/2022]
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21
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Kurose T, Saito Y, Kimata K, Nakagawa Y, Yano A, Ito K, Kawarasaki Y. Secretory expression of Lentinula edodes intracellular laccase by yeast high-cell-density system: Sub-milligram production of difficult-to-express secretory protein. J Biosci Bioeng 2014; 117:659-63. [DOI: 10.1016/j.jbiosc.2013.11.014] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2013] [Revised: 11/18/2013] [Accepted: 11/19/2013] [Indexed: 11/29/2022]
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22
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Construction of a Laccase Chimerical Gene: Recombinant Protein Characterization and Gene Expression via Yeast Surface Display. Appl Biochem Biotechnol 2014; 172:2916-31. [DOI: 10.1007/s12010-014-0734-4] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2013] [Accepted: 01/09/2014] [Indexed: 10/25/2022]
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23
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Shi Y, Chai L, Tang C, Yang Z, Zheng Y, Chen Y, Jing Q. Biochemical investigation of kraft lignin degradation by Pandoraea sp. B-6 isolated from bamboo slips. Bioprocess Biosyst Eng 2013; 36:1957-65. [PMID: 23877715 PMCID: PMC3825317 DOI: 10.1007/s00449-013-0972-9] [Citation(s) in RCA: 84] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2013] [Accepted: 05/09/2013] [Indexed: 11/30/2022]
Abstract
Kraft lignin (KL) is the major pollutant in black liquor. The bacterial strain Pandoraea sp. B-6 was able to degrade KL without any co-substrate under high alkaline conditions. At least 38.2 % of chemical oxygen demand and 41.6 % of color were removed in 7 days at concentrations from 1 to 6 g L(-1). The optimum pH for KL degradation was 10 and the optimum temperature was 30 °C. The greatest activities of 2,249.2 U L(-1) for manganese peroxidase and 1,120.6 U L(-1) for laccase were detected on the third and fifth day at pH 10, respectively. Many small molecules, such as cinnamic acid, ferulic acid, 2-hydroxy benzyl alcohol, and vanillyl methyl ketone, were formed during the period of KL degradation based on GC-MS analysis. These results indicate that this strain has great potential for biotreatment of black liquor.
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Affiliation(s)
- Yan Shi
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017 Hunan People’s Republic of China
| | - Liyuan Chai
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017 Hunan People’s Republic of China
- Chinese National Engineering Research Center for Control and Treatment of Heavy Metal Pollution, Changsha, 410017 People’s Republic of China
| | - Chongjian Tang
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017 Hunan People’s Republic of China
- Chinese National Engineering Research Center for Control and Treatment of Heavy Metal Pollution, Changsha, 410017 People’s Republic of China
| | - Zhihui Yang
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017 Hunan People’s Republic of China
- Chinese National Engineering Research Center for Control and Treatment of Heavy Metal Pollution, Changsha, 410017 People’s Republic of China
| | - Yu Zheng
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017 Hunan People’s Republic of China
| | - Yuehui Chen
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017 Hunan People’s Republic of China
| | - Qingxiu Jing
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017 Hunan People’s Republic of China
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Zheng Y, Chai L, Yang Z, Chen Y, Shi Y, Wang Y. Environmentally safe treatment of black liquor withComamonassp. B-9 under high-alkaline conditions. J Basic Microbiol 2013; 54:152-61. [DOI: 10.1002/jobm.201200340] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2012] [Accepted: 11/03/2012] [Indexed: 11/10/2022]
Affiliation(s)
- Yu Zheng
- Institute of Environmental Science and Engineering, School of Metallurgical Science and Engineering, Central South University; Changsha P. R. China
| | - Liyuan Chai
- Institute of Environmental Science and Engineering, School of Metallurgical Science and Engineering, Central South University; Changsha P. R. China
- Chinese National Engineering Research, Center for Control and Treatment of Heavy Metal Pollution; Changsha P. R. China
| | - Zhihui Yang
- Institute of Environmental Science and Engineering, School of Metallurgical Science and Engineering, Central South University; Changsha P. R. China
- Chinese National Engineering Research, Center for Control and Treatment of Heavy Metal Pollution; Changsha P. R. China
| | - Yuehui Chen
- Institute of Environmental Science and Engineering, School of Metallurgical Science and Engineering, Central South University; Changsha P. R. China
| | - Yan Shi
- Institute of Environmental Science and Engineering, School of Metallurgical Science and Engineering, Central South University; Changsha P. R. China
| | - Yangyang Wang
- Institute of Environmental Science and Engineering, School of Metallurgical Science and Engineering, Central South University; Changsha P. R. China
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Shi Y, Chai L, Tang C, Yang Z, Zhang H, Chen R, Chen Y, Zheng Y. Characterization and genomic analysis of kraft lignin biodegradation by the beta-proteobacterium Cupriavidus basilensis B-8. BIOTECHNOLOGY FOR BIOFUELS 2013; 6:1. [PMID: 24225035 PMCID: PMC3560178 DOI: 10.1186/1754-6834-6-1] [Citation(s) in RCA: 231] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2012] [Accepted: 12/21/2012] [Indexed: 05/03/2023]
Abstract
BACKGROUND Lignin materials are abundant and among the most important potential sources for biofuel production. Development of an efficient lignin degradation process has considerable potential for the production of a variety of chemicals, including bioethanol. However, lignin degradation using current methods is inefficient. Given their immense environmental adaptability and biochemical versatility, bacterial could be used as a valuable tool for the rapid degradation of lignin. Kraft lignin (KL) is a polymer by-product of the pulp and paper industry resulting from alkaline sulfide treatment of lignocellulose, and it has been widely used for lignin-related studies. RESULTS Beta-proteobacterium Cupriavidus basilensis B-8 isolated from erosive bamboo slips displayed substantial KL degradation capability. With initial concentrations of 0.5-6 g L-1, at least 31.3% KL could be degraded in 7 days. The maximum degradation rate was 44.4% at the initial concentration of 2 g L-1. The optimum pH and temperature for KL degradation were 7.0 and 30°C, respectively. Manganese peroxidase (MnP) and laccase (Lac) demonstrated their greatest level of activity, 1685.3 U L-1 and 815.6 U L-1, at the third and fourth days, respectively. Many small molecule intermediates were formed during the process of KL degradation, as determined using GC-MS analysis. In order to perform metabolic reconstruction of lignin degradation in this bacterium, a draft genome sequence for C. basilensis B-8 was generated. Genomic analysis focused on the catabolic potential of this bacterium against several lignin-derived compounds. These analyses together with sequence comparisons predicted the existence of three major metabolic pathways: β-ketoadipate, phenol degradation, and gentisate pathways. CONCLUSION These results confirmed the capability of C. basilensis B-8 to promote KL degradation. Whole genomic sequencing and systematic analysis of the C. basilensis B-8 genome identified degradation steps and intermediates from this bacterial-mediated KL degradation method. Our findings provide a theoretical basis for research into the mechanisms of lignin degradation as well as a practical basis for biofuel production using lignin materials.
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Affiliation(s)
- Yan Shi
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017, PR China
| | - Liyuan Chai
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017, PR China
- Chinese National Engineering Research Center for Control & Treatment of Heavy Metal Pollution, Changsha, 410017, PR China
| | - Chongjian Tang
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017, PR China
- Chinese National Engineering Research Center for Control & Treatment of Heavy Metal Pollution, Changsha, 410017, PR China
| | - Zhihui Yang
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017, PR China
- Chinese National Engineering Research Center for Control & Treatment of Heavy Metal Pollution, Changsha, 410017, PR China
| | - Huan Zhang
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017, PR China
| | - Runhua Chen
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017, PR China
| | - Yuehui Chen
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017, PR China
| | - Yu Zheng
- School of Metallurgical Science and Engineering, Central South University, Changsha, 410017, PR China
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Zheng Y, Chai LY, Yang ZH, Tang CJ, Chen YH, Shi Y. Enhanced remediation of black liquor by activated sludge bioaugmented with a novel exogenous microorganism culture. Appl Microbiol Biotechnol 2012; 97:6525-35. [PMID: 23053102 DOI: 10.1007/s00253-012-4453-x] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2012] [Revised: 09/18/2012] [Accepted: 09/18/2012] [Indexed: 11/25/2022]
Abstract
Black liquor (BL) is a notoriously difficult wastewater to treat due to the economic and efficiency limitations of physiochemical methods and intrinsic difficulties with bioremediation strategies caused by the high pH (10-13) and lignin content. This study investigated the feasibility of a novel bioaugmentation strategy for BL treatment, which uses a mixed microorganism culture of lignocellulose-degrading microorganisms isolated from degraded bamboo slips. Black liquor treatment was assessed in terms of chemical oxygen demand (COD) and color removal with a sequencing batch reactor organic loading rate of 9 kg COD/L·day under highly alkaline conditions (pH 10). Results revealed that bioaugmented activated sludge treatment of BL with special mixed microorganisms significantly enhanced the removal efficiency of COD, color, and lignin from the wastewater up to 64.8, 50.5, and 53.2 %, respectively. Gel permeation chromatography profiles showed that the bioaugmentation system could successfully degrade high molecular lignin fragments in black liquor. This work confirms bioaugmentation as a feasible alternative strategy for enhanced biological treatment of wastewater with high lignin content and high organic load rate under strongly alkaline conditions.
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Affiliation(s)
- Yu Zheng
- Institute of Environmental Science and Engineering, School of Metallurgical Science and Engineering, Central South University, Changsha 410083, People's Republic of China
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27
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Pardo I, Vicente AI, Mate DM, Alcalde M, Camarero S. Development of chimeric laccases by directed evolution. Biotechnol Bioeng 2012; 109:2978-86. [PMID: 22729887 DOI: 10.1002/bit.24588] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2012] [Revised: 04/26/2012] [Accepted: 06/11/2012] [Indexed: 11/07/2022]
Abstract
DNA recombination methods are useful tools to generate diversity in directed evolution protein engineering studies. We have designed an array of chimeric laccases with high-redox potential by in vitro and in vivo DNA recombination of two fungal laccases (from Pycnoporus cinnabarinus and PM1 basidiomycete), which were previously tailored by laboratory evolution for functional expression in Saccharomyces cerevisiae. The laccase fusion genes (including the evolved α-factor prepro-leaders for secretion in yeast) were subjected to a round of family shuffling to construct chimeric libraries and the best laccase hybrids were identified in dual high-throughput screening (HTS) assays. Using this approach, we identified chimeras with up to six crossover events in the whole sequence, and we obtained active hybrid laccases with combined characteristics in terms of pH activity and thermostability.
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Affiliation(s)
- Isabel Pardo
- Centro de Investigaciones Biológicas, CSIC, Ramiro de Maeztu 9, 28040 Madrid, Spain
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28
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Kimata K, Yamaguchi M, Saito Y, Hata H, Miyake K, Yamane T, Nakagawa Y, Yano A, Ito K, Kawarasaki Y. High cell-density expression system: A novel method for extracellular production of difficult-to-express proteins. J Biosci Bioeng 2012; 113:154-9. [DOI: 10.1016/j.jbiosc.2011.10.007] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2011] [Revised: 09/04/2011] [Accepted: 10/12/2011] [Indexed: 11/15/2022]
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29
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Robert V, Mekmouche Y, Pailley PR, Tron T. Engineering laccases: in search for novel catalysts. Curr Genomics 2011; 12:123-9. [PMID: 21966250 PMCID: PMC3129046 DOI: 10.2174/138920211795564340] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2010] [Revised: 03/07/2011] [Accepted: 03/11/2011] [Indexed: 11/28/2022] Open
Abstract
Laccases (p-diphenol oxidase, EC 1.10.3.2) are blue multicopper oxidases that catalyze the reduction of dioxygen to water, with a concomitant oxidation of small organic substrates. Since the description at the end of the nineteenth century of a factor catalyzing the rapid hardening of the latex of the Japanese lacquer trees (Rhus sp.) exposed to air laccases from different origins (plants, fungi bacteria) have been continuously discovered and extensively studied. Nowadays, molecular evolution and other powerful protein modification techniques offer possibilities to develop tailored laccases for a wide array of applications including drug synthesis, biosensors or biofuel cells. Here, we give an overview on strategies and results of our laboratory in the design of new biocatalysts based on laccases.
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Affiliation(s)
- Viviane Robert
- Laboratoire Biosciences, Institut des Sciences Moléculaires de Marseille, Université Aix-Marseille, ISM2 CNRS UMR 6263, Marseille Cedex 20, France
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30
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Piscitelli A, Pezzella C, Giardina P, Faraco V, Giovanni S. Heterologous laccase production and its role in industrial applications. Bioeng Bugs 2011; 1:252-62. [PMID: 21327057 DOI: 10.4161/bbug.1.4.11438] [Citation(s) in RCA: 100] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2009] [Revised: 01/25/2010] [Accepted: 01/27/2010] [Indexed: 02/04/2023] Open
Abstract
Laccases are blue multicopper oxidases, catalyzing the oxidation of an array of aromatic substrates concomitantly with the reduction of molecular oxygen to water. These enzymes are implicated in a variety of biological activities. Most of the laccases studied thus far are of fungal origin. The large range of substrates oxidized by laccases has raised interest in using them within different industrial fields, such as pulp delignification, textile dye bleaching, and bioremediation. Laccases secreted from native sources are usually not suitable for large-scale purposes, mainly due to low production yields and high cost of preparation/purification procedures. Heterologous expression may provide higher enzyme yields and may permit to produce laccases with desired properties (such as different substrate specificities, or improved stabilities) for industrial applications. This review surveys researches on heterologous laccase expression focusing on the pivotal role played by recombinant systems towards the development of robust tools for greening modern industry.
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Affiliation(s)
- Alessandra Piscitelli
- Dipartimento di Chimica Organica e Biochimica, Complesso Universitario Monte S. Angelo, Napoli, Italy.
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