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Mendonca C, Zhang L, Waldbauer JR, Aristilde L. Disproportionate Carbon Dioxide Efflux in Bacterial Metabolic Pathways for Different Organic Substrates Leads to Variable Contribution to Carbon-Use Efficiency. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:11041-11052. [PMID: 38860668 PMCID: PMC11210201 DOI: 10.1021/acs.est.4c01328] [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: 02/04/2024] [Revised: 05/18/2024] [Accepted: 05/22/2024] [Indexed: 06/12/2024]
Abstract
Microbial organic matter turnover is an important contributor to the terrestrial carbon dioxide (CO2) budget. Partitioning of organic carbons into biomass relative to CO2 efflux, termed carbon-use efficiency (CUE), is widely used to characterize organic carbon cycling by soil microorganisms. Recent studies challenge proposals of CUE dependence on the oxidation state of the substrate carbon and implicate instead metabolic strategies. Still unknown are the metabolic mechanisms underlying variability in CUE. We performed a multiomics investigation of these mechanisms in Pseudomonas putida, a versatile soil bacterium of the Gammaproteobacteria, processing a mixture of plant matter derivatives. Our 13C-metabolomics data captured substrate carbons into different metabolic pathways: cellulose-derived sugar carbons in glycolytic and pentose-phosphate pathways; lignin-related aromatic carbons in the tricarboxylic acid cycle. Subsequent 13C-metabolic flux analysis revealed a 3-fold lower investment of sugar carbons in CO2 efflux compared to aromatic carbons, in agreement with reported substrate-dependent CUE. Proteomics analysis revealed enzyme-level regulation only for substrate uptake and initial catabolism, which dictated downstream fluxes through CO2-producing versus biomass-synthesizing reactions. Metabolic partitioning as shown here explained the substrate-dependent CUE calculated from reported metabolic flux analyses of other bacteria, further supporting a metabolism-guided perspective for predicting the microbial conversion of accessible organic matter to CO2 efflux.
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Affiliation(s)
- Caroll
M. Mendonca
- Department
of Biological and Environmental Engineering, College of Agriculture
and Life Sciences, Cornell University, Ithaca, New York 14853, United States
- Department
of Civil and Environmental Engineering, McCormick School of Engineering
and Applied Science, Northwestern University, Evanston, Illinois 60208, United States
| | - Lichun Zhang
- Department
of the Geophysical Sciences, University
of Chicago, Chicago, Illinois 60637, United States
| | - Jacob R. Waldbauer
- Department
of the Geophysical Sciences, University
of Chicago, Chicago, Illinois 60637, United States
| | - Ludmilla Aristilde
- Department
of Biological and Environmental Engineering, College of Agriculture
and Life Sciences, Cornell University, Ithaca, New York 14853, United States
- Department
of Civil and Environmental Engineering, McCormick School of Engineering
and Applied Science, Northwestern University, Evanston, Illinois 60208, United States
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2
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Argüelles-Moyao A, Ángeles-Argáiz R, Garibay-Orijel R, Pacheco-Aguilar JR. Isolation and Enzymatic Characterization of Fungal Strains from Grapevines with Grapevine Trunk Diseases Symptoms in Central Mexico. Curr Microbiol 2024; 81:200. [PMID: 38822158 DOI: 10.1007/s00284-024-03709-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2023] [Accepted: 04/21/2024] [Indexed: 06/02/2024]
Abstract
Grapevine production is economically indispensable for the global wine industry. Currently, Mexico cultivates grapevines across approximately 28 500 hectares, ranking as the 26th largest producer worldwide. Given its significance, early detection of plant diseases' causal agents is crucial for preventing outbreaks. Consequently, our study aimed to identify fungal strains in grapevines exhibiting trunk disease symptoms and assess their enzymatic capabilities as indicators of their phytopathogenic potential. We collected plant cultivars, including Malbec, Shiraz, and Tempranillo, from Querétaro, Mexico. In the laboratory, we superficially removed the plant bark to prevent external contamination. Subsequently, the sample was superficially disinfected, and sawdust was generated from the symptomatic tissue. Cultivable fungal strains were isolated using aseptic techniques from the recovered sawdust. Colonies were grown on PDA and identified through a combination of microscopy and DNA-sequencing of the ITS and LSU nrDNA regions, coupled with a BLASTn search in the GenBank database. We evaluated the strains' qualitative ability to degrade cellulose, starch, and lignin using specific media and stains. Using culture morphology and DNA-sequencing, 13 species in seven genera were determined: Acremonium, Aspergillus, Cladosporium, Dydimella, Fusarium, Sarocladium, and Quambalaria. Some isolated strains were able to degrade cellulose or lignin, or starch. These results constitute the first report of these species community in the Americas. Using culture-dependent and DNA-sequencing tools allows the detection of fungal strains to continue monitoring for early prevention of the GTD.
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Affiliation(s)
- Andrés Argüelles-Moyao
- Facultad de Química, Universidad Autónoma de Querétaro, Cerro de las campanas S/N, Col. Las campanas, C. P. 76010, Querétaro, Mexico.
| | - Rodolfo Ángeles-Argáiz
- Red Manejo Biotecnológico de Recursos, Instituto de Ecología, A.C., Carretera antigua a Coatepec 351, El Haya, C. P. 91073, Xalapa, Veracruz, Mexico
| | - Roberto Garibay-Orijel
- Laboratorio de Sistemática, Ecología y Aprovechamiento de Hongos Ectomicorrízicos, Departamento de Botánica, Instituto de Biología, Universidad Nacional Autónoma de Mexico, Circuito Exterior s/n, Ciudad Universitaria. Del., C.P. 04510, Coyoacán, CDMX, Mexico
| | - Juan-Ramiro Pacheco-Aguilar
- Facultad de Química, Universidad Autónoma de Querétaro, Cerro de las campanas S/N, Col. Las campanas, C. P. 76010, Querétaro, Mexico.
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3
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Guo C, Ahrens L, Bertilsson S, Coolen MJL, Tang J. Riverine microbial communities impacted by per- and polyfluoroalkyl substances (PFAS) emissions from a fluoropolymer-manufacturing plant. JOURNAL OF HAZARDOUS MATERIALS 2023; 457:131803. [PMID: 37307734 DOI: 10.1016/j.jhazmat.2023.131803] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2023] [Revised: 05/23/2023] [Accepted: 06/06/2023] [Indexed: 06/14/2023]
Abstract
Per- and polyfluoroalkyl substances (PFAS) are widespread pollutants that can influence microorganisms. To unveil the effects of PFAS in natural microecosystems, a study that focused on the bacterial, fungal, and microeukaryotic communities around the PFAS point source was conducted in China. A total of 255 specific taxa were significantly different between the upstream and downstream samples, 54 of which were directly correlated with PFAS concentration. Stenotrophomonas (99.2 %), Ralstonia (90.7 %), Phoma (21.9 %), and Alternaria (97.6 %) were the dominant genera in sediment samples from the downstream communities. In addition, most of the dominant taxa were significantly correlated with PFAS concentration. Furthermore, the type of microorganism (bacteria, fungi, and microeukaryotes) and habitat (sediment or pelagic) also influence the microbial community responses to PFAS exposure. Pelagic microorganisms featured more PFAS-correlated biomarker taxa (36 pelagic microeukaryotic biomarkers and 8 pelagic bacteria biomarkers) than the sediments (9 sediment fungi biomarkers and 5 sediment bacteria biomarker). In general, around the factory, the microbial community was more variable in pelagic, summer, and microeukaryotic conditions than in other types. Attention needs to be paid to these variables in the future effect of PFAS on microorganisms.
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Affiliation(s)
- Chao Guo
- CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences(CAS); Shandong Key Laboratory of Coastal Environmental Processes, YICCAS, Yantai 264003, China; University of Chinese Academy of Sciences (UCAS), Beijing 100049, China; Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China
| | - Lutz Ahrens
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences (SLU), SE-75007 Uppsala, Sweden
| | - Stefan Bertilsson
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences (SLU), SE-75007 Uppsala, Sweden
| | - Marco J L Coolen
- WA-Organic Isotope Geochemistry Centre, The Institute for Geoscience Research, School of Earth and Planetary Sciences, Curtin University, Perth, WA 6102, Australia
| | - Jianhui Tang
- CAS Key Laboratory of Coastal Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research (YIC), Chinese Academy of Sciences(CAS); Shandong Key Laboratory of Coastal Environmental Processes, YICCAS, Yantai 264003, China; Center for Ocean Mega-Science, Chinese Academy of Sciences, Qingdao 266071, China.
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Isolation and Characterization of a Novel Laccase for Lignin Degradation, LacZ1. Appl Environ Microbiol 2021; 87:e0135521. [PMID: 34524901 DOI: 10.1128/aem.01355-21] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Lignin is a complex natural organic polymer and is one of the primary components of lignocellulose. The efficient utilization of lignocellulose is limited because it is difficult to degrade lignin. In this study, we screened a lacz1 gene fragment encoding laccase from the macrotranscriptome data of a microbial consortium WSC-6, which can efficiently degrade lignocellulose. The reverse transcription-quantitative PCR (RT-qPCR) results demonstrated that the expression level of the lacz1 gene during the peak period of lignocellulose degradation by WSC-6 increased by 30.63 times compared to the initial degradation period. Phylogenetic tree analysis demonstrated that the complete lacz1 gene is derived from a Bacillus sp. and encoded laccase. The corresponding protein, LacZ1, was expressed and purified by Ni-chelating affinity chromatography. The optimum temperature was 75°C, the optimum pH was 4.5, and the highest enzyme activity reached 16.39 U/mg. We found that Cu2+ was an important cofactor needed for LacZ1 to have enzyme activity. The molecular weight distribution of lignin was determined by gel permeation chromatography (GPC), and changes in the lignin structure were determined by 1H nuclear magnetic resonance (1H NMR) spectra. The degradation products of lignin by LacZ1 were determined by gas chromatography and mass spectrometry (GC-MS), and three lignin degradation pathways (the gentian acid pathway, benzoic acid pathway, and protocatechuic acid pathway) were proposed. This study provides insight into the degradation of lignin and new insights into high-temperature bacterial laccase. IMPORTANCE Lignin is a natural aromatic polymer that is not easily degraded, hindering the efficient use of lignocellulose-rich biomass resources, such as straw. Biodegradation is a method of decomposing lignin that has recently received increasing attention. In this study, we screened a gene encoding laccase from the lignocellulose-degrading microbial consortium WSC-6, purified the corresponding protein LacZ1, characterized the enzymatic properties of laccase LacZ1, and speculated that the degradation pathway of LacZ1 degrades lignin. This study identified a new, high-temperature bacterial laccase that can degrade lignin, providing insight into lignin degradation by this laccase.
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Daou M, Bisotto A, Haon M, Oliveira Correia L, Cottyn B, Drula E, Garajová S, Bertrand E, Record E, Navarro D, Raouche S, Baumberger S, Faulds CB. A Putative Lignin Copper Oxidase from Trichoderma reesei. J Fungi (Basel) 2021; 7:jof7080643. [PMID: 34436182 PMCID: PMC8400822 DOI: 10.3390/jof7080643] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Revised: 08/04/2021] [Accepted: 08/05/2021] [Indexed: 11/16/2022] Open
Abstract
The ability of Trichoderma reesei, a fungus widely used for the commercial production of hemicellulases and cellulases, to grow and modify technical soda lignin was investigated. By quantifying fungal genomic DNA, T. reesei showed growth and sporulation in solid and liquid cultures containing lignin alone. The analysis of released soluble lignin and residual insoluble lignin was indicative of enzymatic oxidative conversion of phenolic lignin side chains and the modification of lignin structure by cleaving the β-O-4 linkages. The results also showed that polymerization reactions were taking place. A proteomic analysis conducted to investigate secreted proteins at days 3, 7, and 14 of growth revealed the presence of five auxiliary activity (AA) enzymes in the secretome: AA6, AA9, two AA3 enzymes), and the only copper radical oxidase encoded in the genome of T. reesei. This enzyme was heterologously produced and characterized, and its activity on lignin-derived molecules was investigated. Phylogenetic characterization demonstrated that this enzyme belonged to the AA5_1 family, which includes characterized glyoxal oxidases. However, the enzyme displayed overlapping physicochemical and catalytic properties across the AA5 family. The enzyme was remarkably stable at high pH and oxidized both, alcohols and aldehydes with preference to the alcohol group. It was also active on lignin-derived phenolic molecules as well as simple carbohydrates. HPSEC and LC-MS analyses on the reactions of the produced protein on lignin dimers (SS ββ, SS βO4 and GG β5) uncovered the polymerizing activity of this enzyme, which was accordingly named lignin copper oxidase (TrLOx). Polymers of up 10 units were formed by hydroxy group oxidation and radical formation. The activations of lignin molecules by TrLOx along with the co-secretion of this enzyme with reductases and FAD flavoproteins oxidoreductases during growth on lignin suggest a synergistic mechanism for lignin breakdown.
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Affiliation(s)
- Mariane Daou
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
| | - Alexandra Bisotto
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
| | - Mireille Haon
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
| | - Lydie Oliveira Correia
- PAPPSO Platform, INRAE, AgroParisTech, Micalis Institute, Université Paris-Saclay, 78350 Jouy-en-Josas, France;
| | - Betty Cottyn
- Institut Jean-Pierre Bourgin, INRAE, AgroParisTech, Université Paris-Saclay, 78000 Versailles, France; (B.C.); (S.B.)
| | - Elodie Drula
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
| | - Soňa Garajová
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
| | - Emmanuel Bertrand
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
| | - Eric Record
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
| | - David Navarro
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
- CIRM-CF BBF, INRAE, Aix Marseille University, 13288 Marseille, France
| | - Sana Raouche
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
| | - Stéphanie Baumberger
- Institut Jean-Pierre Bourgin, INRAE, AgroParisTech, Université Paris-Saclay, 78000 Versailles, France; (B.C.); (S.B.)
| | - Craig B. Faulds
- BBF, INRAE, Aix Marseille University, 13288 Marseille, France; (M.D.); (A.B.); (M.H.); (E.D.); (S.G.); (E.B.); (E.R.); (D.N.); (S.R.)
- Correspondence:
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6
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Qin H, Li Y, Dong R, Yuan J, Zhou Y, Hu Y, Jia H, Bai J, Gong J, Jiang J, Zhou Q. An Efficient Catalyst Derived from Carboxylated Lignin-Anchored Iron Nanoparticle Compounds for Carbon Monoxide Hydrogenation Application. ACS OMEGA 2021; 6:16592-16599. [PMID: 34235331 PMCID: PMC8246691 DOI: 10.1021/acsomega.1c01935] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/11/2021] [Accepted: 06/04/2021] [Indexed: 06/13/2023]
Abstract
Catalytic activity and target product selectivity are strongly correlated to the size, crystallographic phase, and morphology of nanoparticles. In this study, waste lignin from paper pulp industry is employed as the carbon source, which is modified with carboxyl groups at the molecular level to facilitate anchoring of metals, and a new type of carbon-based catalyst was obtained after carbonization. As a result, the size of the metal particles is effectively controlled by the chelation between -COO- and Fe3+. Furthermore, Fe/CM-CL with a particle size of 1.5-2.5 nm shows excellent catalytic performance, the conversion of carbon monoxide reaches 82.3%, and the selectivity of methane reaches 73.2%.
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Affiliation(s)
- Hengfei Qin
- School
of Chemistry and Environmental Engineering, Jiangsu University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
- Jiangsu
Key Laboratory of E-Waste Recycling, Jiangsu
University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
| | - Yan Li
- School
of Chemistry and Environmental Engineering, Jiangsu University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
| | - Ruoyu Dong
- School
of Chemistry and Environmental Engineering, Jiangsu University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
| | - Jiafeng Yuan
- School
of Chemistry and Environmental Engineering, Jiangsu University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
| | - Yue Zhou
- School
of Chemistry and Environmental Engineering, Jiangsu University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
| | - Yaxin Hu
- School
of Chemistry and Environmental Engineering, Jiangsu University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
| | - Hailang Jia
- School
of Chemistry and Environmental Engineering, Jiangsu University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
| | - Jirong Bai
- Research
Center of secondary Resources and Environment, Changzhou Institute of Technology, No.666, Liaohe Road, Changzhou
City 213022, China
| | - Jie Gong
- School
of Chemistry and Environmental Engineering, Jiangsu University of Technology, No. 1801, Zhongwu Road, Changzhou City 213001, China
| | - Jinlong Jiang
- Faculty
of Chemical Engineering, Key Laboratory for Palygorskite Science and
Applied Technology of Jiangsu Province, National & Local Joint
Engineering Research Center for Deep Utilization Technology of Rock-salt
Resource, Huaiyin Institute of Technology, Huaian 223003, P. R. China
| | - Quanfa Zhou
- Research
Center of secondary Resources and Environment, Changzhou Institute of Technology, No.666, Liaohe Road, Changzhou
City 213022, China
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Fungal Treatment for the Valorization of Technical Soda Lignin. J Fungi (Basel) 2021; 7:jof7010039. [PMID: 33435491 PMCID: PMC7827817 DOI: 10.3390/jof7010039] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Revised: 01/04/2021] [Accepted: 01/05/2021] [Indexed: 11/21/2022] Open
Abstract
Technical lignins produced as a by-product in biorefinery processes represent a potential source of renewable carbon. In consideration of the possibilities of the industrial transformation of this substrate into various valuable bio-based molecules, the biological deconstruction of a technical soda lignin by filamentous fungi was investigated. The ability of three basidiomycetes (Polyporus brumalis, Pycnoporus sanguineus and Leiotrametes menziesii) to modify this material, the resultant structural and chemical changes, and the secreted proteins during growth on this substrate were investigated. The three fungi could grow on the technical lignin alone, and the growth rate increased when the media were supplemented with glucose or maltose. The proteomic analysis of the culture supernatants after three days of growth revealed the secretion of numerous Carbohydrate-Active Enzymes (CAZymes). The secretomic profiles varied widely between the strains and the presence of technical lignin alone triggered the early secretion of many lignin-acting oxidoreductases. The secretomes were notably rich in glycoside hydrolases and H2O2-producing auxiliary activity enzymes with copper radical oxidases being induced on lignin for all strains. The lignin treatment by fungi modified both the soluble and insoluble lignin fractions. A significant decrease in the amount of soluble higher molar mass compounds was observed in the case of P. sanguineus. This strain was also responsible for the modification of the lower molar mass compounds of the lignin insoluble fraction and a 40% decrease in the thioacidolysis yield. The similarity in the activities of P. sanguineus and P. brumalis in modifying the functional groups of the technical lignin were observed, the results suggest that the lignin has undergone structural changes, or at least changes in its composition, and pave the route for the utilization of filamentous fungi to functionalize technical lignins and produce the enzymes of interest for biorefinery applications.
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Dicko M, Ferrari R, Tangthirasunun N, Gautier V, Lalanne C, Lamari F, Silar P. Lignin Degradation and Its Use in Signaling Development by the Coprophilous Ascomycete Podospora anserina. J Fungi (Basel) 2020; 6:E278. [PMID: 33187140 PMCID: PMC7712204 DOI: 10.3390/jof6040278] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Revised: 11/06/2020] [Accepted: 11/10/2020] [Indexed: 01/06/2023] Open
Abstract
The filamentous fungus Podospora anserina is a good model to study the breakdown of lignocellulose, owing to its ease of culture and genetical analysis. Here, we show that the fungus is able to use a wide range of lignocellulosic materials as food sources. Using color assays, spectroscopy and pyrolysis-gas chromatography mass spectrometry, we confirm that this ascomycete is able to degrade lignin, primarily by hydrolyzing β-O-4 linkages, which facilitates its nutrient uptake. We show that the limited weight loss that is promoted when attacking Miscanthus giganteus is due to a developmental blockage rather than an inefficiency of its enzymes. Finally, we show that lignin, and, more generally, phenolics, including degradation products of lignin, greatly stimulate the growth and fertility of the fungus in liquid cultures. Analyses of the CATΔΔΔΔΔ mutant lacking all its catalases, pro-oxidants and antioxidants indicate that improved growth and fertility of the fungus is likely caused by augmented reactive oxygen species levels triggered by the presence of phenolics.
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Affiliation(s)
- Moussa Dicko
- Université Sorbonne Paris Nord, CNRS LSPM UPR 3407, 93430 Villetaneuse, France; (M.D.); (F.L.)
| | - Roselyne Ferrari
- Université de Paris, Laboratoire Interdisciplinaire des Energies de Demain (LIED), F-75006 Paris, France; (R.F.); (N.T.); (V.G.); (C.L.)
| | - Narumon Tangthirasunun
- Université de Paris, Laboratoire Interdisciplinaire des Energies de Demain (LIED), F-75006 Paris, France; (R.F.); (N.T.); (V.G.); (C.L.)
| | - Valérie Gautier
- Université de Paris, Laboratoire Interdisciplinaire des Energies de Demain (LIED), F-75006 Paris, France; (R.F.); (N.T.); (V.G.); (C.L.)
| | - Christophe Lalanne
- Université de Paris, Laboratoire Interdisciplinaire des Energies de Demain (LIED), F-75006 Paris, France; (R.F.); (N.T.); (V.G.); (C.L.)
| | - Farida Lamari
- Université Sorbonne Paris Nord, CNRS LSPM UPR 3407, 93430 Villetaneuse, France; (M.D.); (F.L.)
| | - Philippe Silar
- Université de Paris, Laboratoire Interdisciplinaire des Energies de Demain (LIED), F-75006 Paris, France; (R.F.); (N.T.); (V.G.); (C.L.)
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9
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Mnich E, Bjarnholt N, Eudes A, Harholt J, Holland C, Jørgensen B, Larsen FH, Liu M, Manat R, Meyer AS, Mikkelsen JD, Motawia MS, Muschiol J, Møller BL, Møller SR, Perzon A, Petersen BL, Ravn JL, Ulvskov P. Phenolic cross-links: building and de-constructing the plant cell wall. Nat Prod Rep 2020; 37:919-961. [PMID: 31971193 DOI: 10.1039/c9np00028c] [Citation(s) in RCA: 78] [Impact Index Per Article: 19.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Covering: Up to 2019Phenolic cross-links and phenolic inter-unit linkages result from the oxidative coupling of two hydroxycinnamates or two molecules of tyrosine. Free dimers of hydroxycinnamates, lignans, play important roles in plant defence. Cross-linking of bound phenolics in the plant cell wall affects cell expansion, wall strength, digestibility, degradability, and pathogen resistance. Cross-links mediated by phenolic substituents are particularly important as they confer strength to the wall via the formation of new covalent bonds, and by excluding water from it. Four biopolymer classes are known to be involved in the formation of phenolic cross-links: lignins, extensins, glucuronoarabinoxylans, and side-chains of rhamnogalacturonan-I. Lignins and extensins are ubiquitous in streptophytes whereas aromatic substituents on xylan and pectic side-chains are commonly assumed to be particular features of Poales sensu lato and core Caryophyllales, respectively. Cross-linking of phenolic moieties proceeds via radical formation, is catalyzed by peroxidases and laccases, and involves monolignols, tyrosine in extensins, and ferulate esters on xylan and pectin. Ferulate substituents, on xylan in particular, are thought to be nucleation points for lignin polymerization and are, therefore, of paramount importance to wall architecture in grasses and for the development of technology for wall disassembly, e.g. for the use of grass biomass for production of 2nd generation biofuels. This review summarizes current knowledge on the intra- and extracellular acylation of polysaccharides, and inter- and intra-molecular cross-linking of different constituents. Enzyme mediated lignan in vitro synthesis for pharmaceutical uses are covered as are industrial exploitation of mutant and transgenic approaches to control cell wall cross-linking.
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Affiliation(s)
- Ewelina Mnich
- Department of Plant and Environmental Sciences, University of Copenhagen, Denmark.
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Perczyk P, Wójcik A, Wydro P, Broniatowski M. The role of phospholipid composition and ergosterol presence in the adaptation of fungal membranes to harsh environmental conditions-membrane modeling study. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2019; 1862:183136. [PMID: 31751523 DOI: 10.1016/j.bbamem.2019.183136] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2019] [Revised: 09/30/2019] [Accepted: 10/28/2019] [Indexed: 01/18/2023]
Abstract
Soil fungi play an important role in the environment decomposing dead organic matter and degrading persistent organic pollutants (POP). The presence of hydrophobic POP in the soil and membrane-lytic substances excreted by competing microorganism to the soil solution is the constant threat to these organisms. To survive in the harsh environment and counteract these hazards the fungal cells have to strictly control the composition of the lipids in their cellular membranes. However, in the case of fungal membranes the correlation between their composition and physical properties is not fully understood. In our studies we applied Langmuir monolayers formed by phospholipids typical to fungal membranes and ergosterol as versatile model membranes. These membranes were characterized by the Langmuir technique, Brewster Angle Microscopy and Grazing Incidence X-ray Diffraction, as well as were exposed to the action of phospholipase A2 treated as a model membrane-lytic protein. We started our studies from the equimolar mixture of phosphatidylethanolamine with phosphatidylcholine and doped this matrix with phosphatidylserine (PS) or phosphatidylinositol (PI). It turned out that the membranes with PS were much more condensed at the mesoscale and periodically organized at the molecular level. Starting from these models we derived two families of model fungal membranes adding to these phospholipid matrices ergosterol. It turned out that the level of ergosterol content is of crucial importance for the model membrane structure and its durability. Changing the ergosterol mole ratio from 0 to 0.5 we defined and described in detail four different 2D crystalline phases.
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Affiliation(s)
- Paulina Perczyk
- Department of Environmental Chemistry, Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland
| | - Aneta Wójcik
- Department of Environmental Chemistry, Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland
| | - Paweł Wydro
- Department of Physical Chemistry and Electrochemistry, Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland
| | - Marcin Broniatowski
- Department of Environmental Chemistry, Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland.
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Malafatti-Picca L, de Barros Chaves MR, de Castro AM, Valoni É, de Oliveira VM, Marsaioli AJ, de Franceschi de Angelis D, Attili-Angelis D. Hydrocarbon-associated substrates reveal promising fungi for poly (ethylene terephthalate) (PET) depolymerization. Braz J Microbiol 2019; 50:633-648. [PMID: 31175657 PMCID: PMC6863199 DOI: 10.1007/s42770-019-00093-3] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2018] [Accepted: 04/03/2019] [Indexed: 12/11/2022] Open
Abstract
Recalcitrant characteristics and insolubility in water make the disposal of synthetic polymers a great environmental problem to be faced by modern society. Strategies towards the recycling of post-consumer polymers, like poly (ethylene terephthalate, PET) degradation/depolymerization have been studied but still need improvement. To contribute with this purpose, 100 fungal strains from hydrocarbon-associated environments were screened for lipase and esterase activities by plate assays and high-throughput screening (HTS), using short- and long-chain fluorogenic probes. Nine isolates were selected for their outstanding hydrolytic activity, comprising the genera Microsphaeropsis, Mucor, Trichoderma, Westerdykella, and Pycnidiophora. Two strains of Microsphaeropsis arundinis were able to convert 2-3% of PET nanoparticle into terephthalic acid, and when cultured with two kinds of commercial PET bottle fragments, they also promoted weight loss, surface and chemical changes, increased lipase and esterase activities, and led to PET depolymerization with release of terephthalic acid at concentrations above 20.0 ppm and other oligomers over 0.6 ppm. The results corroborate that hydrocarbon-associated areas are important source of microorganisms for application in environmental technologies, and the sources investigated revealed important strains with potential for PET depolymerization.
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Affiliation(s)
- Lusiane Malafatti-Picca
- Environmental Studies Center, UNESP, São Paulo State University, 24-A Av., 1515, Bela Vista, Rio Claro, SP, 13506-900, Brazil.
| | | | - Aline Machado de Castro
- Biotechnology Department, R&D Center, PETROBRAS, Av. Horácio Macedo, 950, Ilha do Fundão, Rio de Janeiro, RJ, 21941-915, Brazil
| | - Érika Valoni
- Biotechnology Department, R&D Center, PETROBRAS, Av. Horácio Macedo, 950, Ilha do Fundão, Rio de Janeiro, RJ, 21941-915, Brazil
| | - Valéria Maia de Oliveira
- Division of Microbial Resources, CPQBA - State University of Campinas, Alexandre Cazellato Str., 999, Paulínia, SP, 13148-218, Brazil
| | - Anita Jocelyne Marsaioli
- Institute of Chemistry, State University of Campinas, PO Box 6154, Campinas, SP, 13084-971, Brazil
| | - Dejanira de Franceschi de Angelis
- Department of Biochemistry and Microbiology, UNESP, São Paulo State University, 24-A Av., 1515, Bela Vista, Rio Claro, SP, 13506-900, Brazil
| | - Derlene Attili-Angelis
- Environmental Studies Center, UNESP, São Paulo State University, 24-A Av., 1515, Bela Vista, Rio Claro, SP, 13506-900, Brazil
- Division of Microbial Resources, CPQBA - State University of Campinas, Alexandre Cazellato Str., 999, Paulínia, SP, 13148-218, Brazil
- Department of Biochemistry and Microbiology, UNESP, São Paulo State University, 24-A Av., 1515, Bela Vista, Rio Claro, SP, 13506-900, Brazil
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Brink DP, Ravi K, Lidén G, Gorwa-Grauslund MF. Mapping the diversity of microbial lignin catabolism: experiences from the eLignin database. Appl Microbiol Biotechnol 2019; 103:3979-4002. [PMID: 30963208 PMCID: PMC6486533 DOI: 10.1007/s00253-019-09692-4] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2018] [Revised: 02/06/2019] [Accepted: 02/09/2019] [Indexed: 12/18/2022]
Abstract
Lignin is a heterogeneous aromatic biopolymer and a major constituent of lignocellulosic biomass, such as wood and agricultural residues. Despite the high amount of aromatic carbon present, the severe recalcitrance of the lignin macromolecule makes it difficult to convert into value-added products. In nature, lignin and lignin-derived aromatic compounds are catabolized by a consortia of microbes specialized at breaking down the natural lignin and its constituents. In an attempt to bridge the gap between the fundamental knowledge on microbial lignin catabolism, and the recently emerging field of applied biotechnology for lignin biovalorization, we have developed the eLignin Microbial Database ( www.elignindatabase.com ), an openly available database that indexes data from the lignin bibliome, such as microorganisms, aromatic substrates, and metabolic pathways. In the present contribution, we introduce the eLignin database, use its dataset to map the reported ecological and biochemical diversity of the lignin microbial niches, and discuss the findings.
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Affiliation(s)
- Daniel P Brink
- Applied Microbiology, Department of Chemistry, Lund University, P.O. Box 124, SE-221 00, Lund, Sweden.
| | - Krithika Ravi
- Department of Chemical Engineering, Lund University, Lund, Sweden
| | - Gunnar Lidén
- Department of Chemical Engineering, Lund University, Lund, Sweden
| | - Marie F Gorwa-Grauslund
- Applied Microbiology, Department of Chemistry, Lund University, P.O. Box 124, SE-221 00, Lund, Sweden
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