Lignin deconstruction by anaerobic fungi

Lankiewicz, Thomas S.; Choudhary, Hemant; Gao, Yu; Amer, Bashar; Lillington, Stephen P.; Leggieri, Patrick A.; Brown, Jennifer; Swift, Candice L.; Lipzen, Anna; Na, Hyunsoo; Amirebrahimi, Mojgan; Theodorou, Michael K.; Baidoo, Edward E. K.; Barry, Kerrie; Grigoriev, Igor V.; Timokhin, Vitaliy I.; Gladden, John M.; Singh, Seema; Mortimer, Jenny C.; Ralph, John; Simmons, Blake A.; Singer, Steven W.; O’Malley, Michelle

doi:10.1038/s41564-023-01336-8

Cited by 30 publications

(18 citation statements)

References 88 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…[5] However, the stable and complex chemical structure of lignin makes it difficult to be depolymerized effectively to prepare monomeric aromatic chemicals. [6] As reported by previous work, the value utilization of lignin is very low, only about 2 % of lignin was used to produce commercial products. [7] Despite this, there is still a growing demand for products prepared from environmentally friendly and sustainable resources.…”

Section: Introductionmentioning

confidence: 84%

“…Additionally, the lignin valorization well reduce the dependence on fossil resources [5] . However, the stable and complex chemical structure of lignin makes it difficult to be depolymerized effectively to prepare monomeric aromatic chemicals [6] . As reported by previous work, the value utilization of lignin is very low, only about 2 % of lignin was used to produce commercial products [7] .…”

Section: Introductionmentioning

confidence: 97%

See 1 more Smart Citation

Catalytic Cleavage of the C−O Bonds in Lignin and Lignin Model Compounds by Metal Triflate Catalysts

Zhu,

Mao,

Gao

et al. 2024

ChemSusChem

View full text Add to dashboard Cite

The effective cleavage of C‐O bonds in linkages of lignin was one of the significant strategies promoting lignin valorization. Herein, the strategy of C‐O bonds cleavage of lignin using metal triflate as the catalyst was developed. The carboxylic acid or alcohol could be used as the nucleophile to stabilize the reactive intermediates formed during the depolymerization of lignin, and the corresponding ester/ether compounds could be obtained. This catalytic system was suitable for the C‐O bond cleavage in α‐O‐4 and β‐O‐4 linkages with excellent efficiency. Additionally, reaction conditions were optimized. The reaction mixture was detected by 1H NMR, and no other byproducts were found. As for treated lignin samples, the cleavage of C‐O bonds in linkages was determined by 2D HSQC NMR，the increased content of the phenol hydroxyl group was proved by FT‐IR, and the reduced molecular weight was investigated by GPC. Furthermore, multiple phenolic compounds were detected by GC‐MS in the reaction mixtures.

show abstract

Section: Introductionmentioning

confidence: 84%

Section: Introductionmentioning

confidence: 97%

Catalytic Cleavage of the C−O Bonds in Lignin and Lignin Model Compounds by Metal Triflate Catalysts

Zhu,

Mao,

Gao

et al. 2024

ChemSusChem

View full text Add to dashboard Cite

show abstract

“…The aryl ring cleavage, carboxylation, and demethylation happened during the anaerobic degradation of kraft lignin by strain WJDL-Y1 [24]. Thomas et al treated various natural lignocellulosic fibers with several anaerobic fungi, revealing the loss of both β-O-4 and β-5 linkages, the significant hemicellulose reshaping, and the removal of dangling units such as ferulic acid, p-coumaric acid, and phydroxybenzoic acid [25]. Apparently, TL3 treatment led to more kinds of linkage reduction (β-O-4, β-5, and β-β linkages), with the syringyl units being completely removed, and the presence of an electron acceptor promotes the linkage cleavage (Figure 3).…”

Section: Discussionmentioning

confidence: 99%

Lignin Degradation by Klebsiella aerogenes TL3 under Anaerobic Conditions

Tu,

Geng,

Xiang

et al. 2024

Molecules

View full text Add to dashboard Cite

Lignin, the largest non-carbohydrate component of lignocellulosic biomass, is also a recalcitrant component of the plant cell wall. While the aerobic degradation mechanism of lignin has been well-documented, the anaerobic degradation mechanism is still largely elusive. In this work, a versatile facultative anaerobic lignin-degrading bacterium, Klebsiella aerogenes TL3, was isolated from a termite gut, and was found to metabolize a variety of carbon sources and produce a single kind or multiple kinds of acids. The percent degradation of alkali lignin reached 14.8% under anaerobic conditions, and could reach 17.4% in the presence of glucose within 72 h. Based on the results of infrared spectroscopy and 2D nuclear magnetic resonance analysis, it can be inferred that the anaerobic degradation of lignin may undergo the cleavage of the C-O bond (β-O-4), as well as the C-C bond (β-5 and β-β), and involve the oxidation of the side chain, demethylation, and the destruction of the aromatic ring skeleton. Although the anaerobic degradation of lignin by TL3 was slightly weaker than that under aerobic conditions, it could be further enhanced by adding glucose as an electron donor. These results may shed new light on the mechanisms of anaerobic lignin degradation.

show abstract

“…1), and now become the most widely used automated CAZyme annotation tool. Its popularity is reflected by the high citation number (>3,200) of our web server papers 9,11,12 by the microbiome, gastroenterology, biotechnology, marine science, environment, agriculture, nutrition, and bioenergy research communities 7,[13][14][15][16][17][18][19][20][21][22][23] . The web server processes over 40,000 user submitted jobs in the year 2023 from over 150 countries (https://clustrmaps.com/site/19yt1).…”

Section: Dbcan Web Servermentioning

confidence: 99%

Carbohydrate-active enzyme annotation in microbiomes using dbCAN

Zheng,

Huang,

et al. 2024

Preprint

View full text Add to dashboard Cite

CAZymes or carbohydrate-active enzymes are critically important for human gut health, lignocellulose degradation, global carbon recycling, soil health, and plant disease. We developed dbCAN as a web server in 2012 and actively maintain it for automated CAZyme annotation. Considering data privacy and scalability, we provide run_dbcan as a standalone software package since 2018 to allow users perform more secure and scalable CAZyme annotation on their local servers. Here, we offer a comprehensive computational protocol on automated CAZyme annotation of microbiome sequencing data, covering everything from short read pre-processing to data visualization of CAZyme and glycan substrate occurrence and abundance in multiple samples. Using a real-world metagenomic sequencing dataset, this protocol describes commands for dataset and software preparation, metagenome assembly, gene prediction, CAZyme prediction, CAZyme gene cluster (CGC) prediction, glycan substrate prediction, and data visualization. The expected results include publication-quality plots for the abundance of CAZymes, CGCs, and substrates from multiple CAZyme annotation routes (individual sample assembly, co-assembly, and assembly-free). For the individual sample assembly route, this protocol takes ∼33h on a Linux computer with 40 CPUs, while other routes will be faster. This protocol does not require programming experience from users, but it does assume a familiarity with the Linux command-line interface and the ability to run Python scripts in the terminal. The target audience includes the tens of thousands of microbiome researchers who routinely use our web server. This protocol will encourage them to perform more secure, rapid, and scalable CAZyme annotation on their local computer servers.

show abstract

Lignin deconstruction by anaerobic fungi

Cited by 30 publications

References 88 publications

Catalytic Cleavage of the C−O Bonds in Lignin and Lignin Model Compounds by Metal Triflate Catalysts

Catalytic Cleavage of the C−O Bonds in Lignin and Lignin Model Compounds by Metal Triflate Catalysts

Lignin Degradation by Klebsiella aerogenes TL3 under Anaerobic Conditions

Carbohydrate-active enzyme annotation in microbiomes using dbCAN

Contact Info

Product

Resources

About