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Denis AA, Toledo D, Hakim QA, Quintana AA, Escobar CR, Oluwole SA, Costa A, Garcia EG, Hill AR, Agatemor C. Ligand-Independent Activation of Aryl Hydrocarbon Receptor and Attenuation of Glutamine Levels by Natural Deep Eutectic Solvent. Chembiochem 2023; 24:e202300540. [PMID: 37615422 DOI: 10.1002/cbic.202300540] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 08/24/2023] [Accepted: 08/24/2023] [Indexed: 08/25/2023]
Abstract
Natural deep eutectic solvents (NADESs) are emerging sustainable alternatives to conventional organic solvents. Beyond their role as laboratory solvents, NADESs are increasingly explored in drug delivery and as therapeutics. Their increasing applications notwithstanding, our understanding of how they interact with biomolecules at multiple levels - metabolome, proteome, and transcriptome - within human cell remain poor. Here, we deploy integrated metabolomics, proteomics, and transcriptomics to probe how NADESs perturb the molecular landscape of human cells. In a human cell line model, we found that an archetypal NADES derived from choline and geranic acid (CAGE) significantly altered the metabolome, proteome, and transcriptome. CAGE upregulated indole-3-lactic acid and 4-hydroxyphenyllactic acid levels, resulting in ligand-independent activation of aryl hydrocarbon receptor to signal the transcription of genes with implications for inflammation, immunomodulation, cell development, and chemical detoxification. Further, treating the cell line with CAGE downregulated glutamine biosynthesis, a nutrient rapidly proliferating cancer cells require. CAGE's ability to attenuate glutamine levels is potentially relevant for cancer treatment. These findings suggest that NADESs, even when derived from natural components like choline, can indirectly modulate cell biology at multiple levels, expanding their applications beyond chemistry to biomedicine and biotechnology.
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Affiliation(s)
| | - Daniela Toledo
- Department of Chemistry, University of Miami, Miami, FL-33146, USA
| | | | | | | | | | - Arthur Costa
- Department of Chemistry, University of Miami, Miami, FL-33146, USA
| | | | - Anaya Rose Hill
- Department of Biology, University of Miami, Miami, FL-33146, USA
| | - Christian Agatemor
- Department of Chemistry, University of Miami, Miami, FL-33146, USA
- Department of Biology, University of Miami, Miami, FL-33146, USA
- Sylvester Comprehensive Cancer Center, University of Miami Health System, University of Miami, Miami, FL-33136, USA
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2
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Liu X, Zhang Z, Tomczak N, Yang C, Li C, Liu R, Yan B. A bioinspired silica nanocomposite for enhanced multidrug-resistant bacteria treatment and wash-free imaging. NANOSCALE ADVANCES 2023; 5:1631-1635. [PMID: 36926559 PMCID: PMC10012876 DOI: 10.1039/d2na00951j] [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: 12/27/2022] [Accepted: 02/20/2023] [Indexed: 06/18/2023]
Abstract
Bacterial infections have posed significant threats to public health due to the emergence of antibiotic resistance. In this work, a novel antibacterial composite nanomaterial based on spiky mesoporous silica spheres loaded with poly(ionic liquid)s and aggregation-induced emission luminogens (AIEgens) was designed for efficient multidrug-resistant (MDR) bacteria treatment and imaging. The nanocomposite exhibited excellent and long-term antibacterial activity towards both Gram-negative and Gram-positive bacteria. Meanwhile, fluorescent AIEgens facilitate real-time bacterial imaging. Our study provides a multifunctional platform and a promising alternative to antibiotics for combating pathogenic MDR bacteria.
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Affiliation(s)
- Xiaokun Liu
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University Guangzhou 510006 China
- Southern Marine Science and Engineering Guangdong Laboratory Zhuhai 519000 China
| | - Zhiying Zhang
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University Guangzhou 510006 China
| | - Nikodem Tomczak
- Institute of Materials Research and Engineering, Agency for Science, Technology and Research (ASTAR) 2 Fusionopolis Way, Innovis #08-03 Singapore 138634 Republic of Singapore
| | - Cong Yang
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University Guangzhou 510006 China
| | - Chengjun Li
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University Guangzhou 510006 China
| | - Rongrong Liu
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University Guangzhou 510006 China
| | - Bing Yan
- Institute of Environmental Research at Greater Bay Area, Key Laboratory for Water Quality and Conservation of the Pearl River Delta, Ministry of Education, Guangzhou University Guangzhou 510006 China
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3
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Yang H, Ma L, Fu M, Li K, Li Y, Li Q. Mechanism analysis of humification coupling metabolic pathways based on cow dung composting with ionic liquids. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 325:116426. [PMID: 36240639 DOI: 10.1016/j.jenvman.2022.116426] [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: 08/11/2022] [Revised: 09/22/2022] [Accepted: 10/01/2022] [Indexed: 06/16/2023]
Abstract
This study focused on how adding ionic liquids (IL) affects composting humification. During the warming and thermophilic phases, addition of IL increased precursors content, and increased the polymerization of humus (HS) at later stages. Furthermore, the final HS and humic acid (HA) content of experimental groups (T) groups 129.79 mg/g and 79.91 mg/g were higher than in control group (CK) 118.57 mg/g and 74.53 mg/g, respectively (p < 0.05). IL up-regulated the gene abundance of metabolism for carbohydrate and amino acid (AA), and promoted the contributions of Actinobacteria and Proteobacteria, which affected humification. The redundancy analysis (RDA) results showed that the citrate-cycle (TCA cycle)(ko0020), pentose phosphate pathway (ko00030), pyruvate metabolism (ko00620), glyoxylate and dicarboxylate metabolism (ko00630), propanoate metabolism (ko00640), butanoate metabolism (ko00650) positively correlated with HA and HI. HA and humification index (HI) positively correlated with AA metabolic pathways, and fulvic acid (FA) was negatively correlated with these pathways. Overall, metabolism for carbohydrate and AA metabolism favored compost humification. ILs improved metabolism for carbohydrate and amino acid metabolism, thus enhancing humification.
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Affiliation(s)
- Hongxiang Yang
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Liangcai Ma
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Mengxin Fu
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Kecheng Li
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Yinzhong Li
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China
| | - Qunliang Li
- School of Chemistry and Chemical Engineering, Guangxi University, Nanning, 530004, China.
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4
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Li G, Jian T, Liu X, Lv Q, Zhang G, Ling J. Application of Metabolomics in Fungal Research. Molecules 2022; 27:7365. [PMID: 36364192 PMCID: PMC9654507 DOI: 10.3390/molecules27217365] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2022] [Revised: 10/23/2022] [Accepted: 10/25/2022] [Indexed: 08/27/2023] Open
Abstract
Metabolomics is an essential method to study the dynamic changes of metabolic networks and products using modern analytical techniques, as well as reveal the life phenomena and their inherent laws. Currently, more and more attention has been paid to the development of metabolic histochemistry in the fungus field. This paper reviews the application of metabolomics in fungal research from five aspects: identification, response to stress, metabolite discovery, metabolism engineering, and fungal interactions with plants.
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Affiliation(s)
- Guangyao Li
- School of Pharmacy, Shandong University of Traditional Chinese Medicine, Jinan 250355, China
| | - Tongtong Jian
- Hospital of Shandong University of Traditional Chinese Medicine, Jinan 250355, China
| | - Xiaojin Liu
- School of Pharmacy, Shandong University of Traditional Chinese Medicine, Jinan 250355, China
| | - Qingtao Lv
- School of Pharmacy, Shandong University of Traditional Chinese Medicine, Jinan 250355, China
| | - Guoying Zhang
- School of Pharmacy, Shandong University of Traditional Chinese Medicine, Jinan 250355, China
| | - Jianya Ling
- School of Pharmacy, Shandong University of Traditional Chinese Medicine, Jinan 250355, China
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
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Quintana AA, Sztapka AM, Santos Ebinuma VDC, Agatemor C. Enabling Sustainable Chemistry with Ionic Liquids and Deep Eutectic Solvents: A Fad or the Future? Angew Chem Int Ed Engl 2022; 61:e202205609. [PMID: 35789078 DOI: 10.1002/anie.202205609] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2022] [Indexed: 12/17/2022]
Abstract
Ionic liquids (ILs) and deep eutectic solvents (DESs) debuted with a promise of a superior sustainability footprint due to their low vapor pressure. However, their toxicity and high cost compromise this footprint, impeding their real-world applications. Fortunately, their property tunability through a rational selection of precursors, including bioderived ones, provides a strategy to ameliorate toxicity, lower cost, and endow new functions. This Review discusses whether ILs and DESs are sustainable solvents and how they contribute to sustainable chemical processes.
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Affiliation(s)
| | | | - Valéria de Carvalho Santos Ebinuma
- Department of Engineering of Bioprocesses and Biotechnology, School of Pharmaceutical Sciences, São Paulo State University (UNESP), Araraquara, São Paulo, Brazil
| | - Christian Agatemor
- Department of Chemistry, University of Miami, Coral Gables, FL 33124, USA.,Sylvester Comprehensive Cancer Center, University of Miami, Miami, FL 33136, USA
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Sequeira P, Rothkegel M, Domingos P, Martins I, Leclercq CC, Renaut J, Goldman GH, Silva Pereira C. Untargeted Metabolomics Sheds Light on the Secondary Metabolism of Fungi Triggered by Choline-Based Ionic Liquids. Front Microbiol 2022; 13:946286. [PMID: 35958129 PMCID: PMC9361774 DOI: 10.3389/fmicb.2022.946286] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Accepted: 06/20/2022] [Indexed: 11/13/2022] Open
Abstract
Fungal secondary metabolites constitute a rich source of yet undiscovered bioactive compounds. Their production is often silent under standard laboratory conditions, but the production of some compounds can be triggered simply by altering the cultivation conditions. The usage of an organic salt – ionic liquid – as growth medium supplement can greatly impact the biosynthesis of secondary metabolites, leading to higher diversity of compounds accumulating extracellularly. This study examines if such supplements, specifically cholinium-based ionic liquids, can support the discovery of bioactive secondary metabolites across three model species: Neurospora crassa, Aspergillus nidulans, and Aspergillus fumigatus. Enriched organic extracts obtained from medium supernatant revealed high diversity in metabolites. The supplementation led apparently to increased levels of either 1-aminocyclopropane-1-carboxylate or α-aminoisobutyric acid. The extracts where bioactive against two major foodborne bacterial strains: Staphylococcus aureus and Escherichia coli. In particular, those retrieved from N. crassa cultures showed greater bactericidal potential compared to control extracts derived from non-supplemented cultures. An untargeted mass spectrometry analysis using the Global Natural Product Social Molecular Networking tool enabled to capture the chemical diversity driven by the ionic liquid stimuli. Diverse macrolides, among other compounds, were putatively associated with A. fumigatus; whereas an unexpected richness of cyclic (depsi)peptides with N. crassa. Further studies are required to understand if the identified peptides are the major players of the bioactivity of N. crassa extracts, and to decode their biosynthesis pathways as well.
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Affiliation(s)
- Patrícia Sequeira
- Applied and Environmental Mycology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Oeiras, Portugal
| | - Maika Rothkegel
- Applied and Environmental Mycology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Oeiras, Portugal
| | - Patrícia Domingos
- Applied and Environmental Mycology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Oeiras, Portugal
| | - Isabel Martins
- Applied and Environmental Mycology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Oeiras, Portugal
| | - Céline C. Leclercq
- Integrative Biology Platform, Environmental Research and Technology Platform, Luxembourg Institute of Science and Technology, Belvaux, Luxembourg
| | - Jenny Renaut
- Integrative Biology Platform, Environmental Research and Technology Platform, Luxembourg Institute of Science and Technology, Belvaux, Luxembourg
| | - Gustavo H. Goldman
- Applied and Environmental Mycology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Oeiras, Portugal
- Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo, Ribeirão Preto, Brazil
| | - Cristina Silva Pereira
- Applied and Environmental Mycology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Oeiras, Portugal
- *Correspondence: Cristina Silva Pereira,
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Belal MA, Ezzat M, Zhang Y, Xu Z, Cao Y, Han Y. Integrative Analysis of the DICER-like (DCL) Genes From Peach (Prunus persica): A Critical Role in Response to Drought Stress. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.923166] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
DICER-likes (DCLs) proteins are the core component for non-coding RNA (ncRNA) biogenesis, playing essential roles in some biological processes. The DCL family has been characterized in model plants, such as Arabidopsis, rice, and poplar. However, the evolutionary aspect and the expression mechanism under drought stress were scarce and have never been reported and characterized in one of the most important worldwide cultivated fruit trees, peach (Prunus persica). Eight DCLs genes in the Prunus persica genome were detected, in addition to 51 DCLs in the other seven Rosaceae genomes. The phylogenetic analysis with Arabidopsis thaliana and RTL1 gene as outgroups suggested that DCL members are divided into four clades: DCL1, DCL2, DCL3, and DCL4 with several gene gain/loss events of DCL gene copies through the evolutionary tract of the Rosacea family. The number of homologous DCL copies within each clade, along with the chromosomal location indicated gene duplication event of the DCL2 gene occurred once for the subfamily Amygdaloideae and twice for Pyrus communis and Prunus dulics and trice for the P. persica on Chromosome number 7 genes. Another duplication event was found for the DCL3 gene that occurred once for all the eight Rosaceae species with no match in A. thaliana. The DCL genetic similarity and activity was evaluated using BLASTp and previously published RNA-seq data among different tissues and over different time points of peach trees exposed to drought conditions. Finally, the expression pattern of PrupeDCLs in response to drought stress was identified, and two of these members, Prupe.7G047900 and Prupe.6G363600, were found as main candidate genes for response to drought stress. Our data presented here provide useful information for a better understanding of the molecular evolution of DCL genes in Rosaceae genomes, and the function of DCLs in P. persica.
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Agatemor C, Quintana AA, Sztapka LM, Ebinuma VDCS. Enabling Sustainable Chemistry with Ionic Liquids and Deep Eutectic Solvents: a Fad or the Future? Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202205609] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Christian Agatemor
- University of Miami - Coral Gables Campus: University of Miami Chemistry 1301 Memorial Dr 33146 Coral Gables UNITED STATES
| | - Aline Andrea Quintana
- University of Miami - Coral Gables Campus: University of Miami Chemistry UNITED STATES
| | - Lani Maria Sztapka
- University of Miami - Coral Gables Campus: University of Miami Chemistry UNITED STATES
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9
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Beil S, Markiewicz M, Pereira CS, Stepnowski P, Thöming J, Stolte S. Toward the Proactive Design of Sustainable Chemicals: Ionic Liquids as a Prime Example. Chem Rev 2021; 121:13132-13173. [PMID: 34523909 DOI: 10.1021/acs.chemrev.0c01265] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
The tailorable and often unique properties of ionic liquids (ILs) drive their implementation into a broad variety of seminal technologies. The modular design of ILs allows in this context a proactive selection of structures that favor environmental sustainability─ideally without compromising their technological performance. To achieve this objective, the whole life cycle must be taken into account and various aspects considered simultaneously. In this review, we discuss how the structural design of ILs affects their environmental impacts throughout all stages of their life cycles and scrutinize the available data in order to point out knowledge gaps that need further research activities. The design of more sustainable ILs starts with the selection of the most beneficial precursors and synthesis routes, takes their technical properties and application specific performance into due account, and considers its environmental fate particularly in terms of their (eco)toxicity, biotic and abiotic degradability, mobility, and bioaccumulation potential. Special emphasis is placed on reported structure-activity relationships and suggested mechanisms on a molecular level that might rationalize the empirically found design criteria.
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Affiliation(s)
- Stephan Beil
- Institute of Water Chemistry, TU Dresden, 01062 Dresden, Germany
| | - Marta Markiewicz
- Institute of Water Chemistry, TU Dresden, 01062 Dresden, Germany
| | - Cristina Silva Pereira
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB NOVA), Av. da República, 2780-157 Oeiras, Portugal
| | - Piotr Stepnowski
- Department of Environmental Analysis, Faculty of Chemistry, University of Gdańsk, ul. Wita Stwosza 63, 80-308 Gdańsk, Poland
| | - Jorg Thöming
- Chemical Process Engineering, University of Bremen, Leobener Straße 6, 28359 Bremen, Germany
| | - Stefan Stolte
- Institute of Water Chemistry, TU Dresden, 01062 Dresden, Germany
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Pu XJ, Hu QY, Li SS, Li GH, Zhao PJ. Sesquiterpenoids and their quaternary ammonium hybrids from the mycelium of mushroom Stereum hirsutum by medium optimization. PHYTOCHEMISTRY 2021; 189:112852. [PMID: 34175550 DOI: 10.1016/j.phytochem.2021.112852] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 06/17/2021] [Accepted: 06/18/2021] [Indexed: 06/13/2023]
Abstract
The fungal genus Stereum (Stereaceae) produces a broad variety of specialised metabolites, including a wide range of terpenes. This probably relates to the presence of an extensive biosynthetic machinery for this group of compounds: genomic analysis of Stereum hirsutum has identified 16 terpene synthase gene clusters, 6 polyketide synthase gene clusters, and 1 polyketide synthase non-ribosomal polypeptide heterodimer gene cluster in S. hirsutum FP-91666. In the present study, the One Strain Many Compounds (OSMAC) approach was employed to discover undescribed metabolites from this strain. Fermentation was carried out in five media and the products of the strain cultivated on different media were analyzed by LC-MS. From cultures grow in WGB medium (30.0 g wheat bran, 20.0 g glucose, 1.5 g KH2PO4, and 1.5 g MgSO4), four previously undescribed metabolites, a sesquiterpene sterostrein X and three mixed terpenes (stereumamides I-K) were isolated, together with seven known compounds (drimene-2,11-diol, stereumamide E, stereumamide D, stereumamide B, stereumamide A, stereumamide C, and sterostrein Q). The drimane-type sesquiterpene drimene-2,11-diol was found in S. hirsutum FP-91666 for the first time. All structures were elucidated by spectroscopic data analysis. The absolute configurations of stereumamides I, J and K were assigned by comparing their experimental and calculated electronic circular dichroism (ECD) spectra. An anti-Mycobacterium tuberculosis experiment showed that stereumamides I-K and sterostrein Q had weak antibacterial activity against this pathogen.
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Affiliation(s)
- Xue-Juan Pu
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, and Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, School of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Qian-Yi Hu
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, and Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, School of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Su-Su Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, and Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, School of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Guo-Hong Li
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, and Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, School of Life Sciences, Yunnan University, Kunming, 650091, China
| | - Pei-Ji Zhao
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, and Key Laboratory for Southwest Microbial Diversity of the Ministry of Education, School of Life Sciences, Yunnan University, Kunming, 650091, China.
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11
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Cuminaldehyde in cumin essential oils prevents the growth and aflatoxin B1 biosynthesis of Aspergillus flavus in peanuts. Food Control 2021. [DOI: 10.1016/j.foodcont.2021.107985] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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12
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Jeremias G, Jesus F, Ventura SPM, Gonçalves FJM, Asselman J, Pereira JL. New insights on the effects of ionic liquid structural changes at the gene expression level: Molecular mechanisms of toxicity in Daphnia magna. JOURNAL OF HAZARDOUS MATERIALS 2021; 409:124517. [PMID: 33199138 DOI: 10.1016/j.jhazmat.2020.124517] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2020] [Revised: 10/18/2020] [Accepted: 11/05/2020] [Indexed: 06/11/2023]
Abstract
Knowledge on the molecular basis of ionic liquids' (ILs) ecotoxicity is critical for the development of these designer solvents as their structure can be engineered to simultaneously meet functionality performance and environmental safety. The molecular effects of ILs were investigated by using RNA-sequencing following Daphnia magna exposure to imidazolium- and cholinium-based ILs: 1-ethyl-3-methylimidazolium chloride ([C2mim]Cl), 1-dodecyl-3-methylimidazolium chloride ([C12mim]Cl) and cholinium chloride ([Chol]Cl)-; the selection allowing to compare different families and cation alkyl chains. ILs shared mechanisms of toxicity focusing e.g. cellular membrane and cytoskeleton, oxidative stress, energy production, protein biosynthesis, DNA damage, disease initiation. [C2mim]Cl and [C12mim]Cl were the least and the most toxic ILs at the transcriptional level, denoting the role of the alkyl chain as a driver of ILs toxicity. Also, it was reinforced that [Chol]Cl is not devoid of environmental hazardous potential regardless of its argued biological compatibility. Unique gene expression signatures could also be identified for each IL, enlightening specific mechanisms of toxicity.
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Affiliation(s)
- Guilherme Jeremias
- Department of Biology & CESAM - Centre for Environmental and Marine Studies, University of Aveiro, Portugal
| | - Fátima Jesus
- Department of Biology & CESAM - Centre for Environmental and Marine Studies, University of Aveiro, Portugal
| | - Sónia P M Ventura
- Department of Chemistry & CICECO - Aveiro Institute of Materials, University of Aveiro, Portugal
| | - Fernando J M Gonçalves
- Department of Biology & CESAM - Centre for Environmental and Marine Studies, University of Aveiro, Portugal
| | - Jana Asselman
- Blue Growth Research Lab, Ghent University, Bluebridge Building, Ostend Science Park 1, 8400 Ostend, Belgium
| | - Joana L Pereira
- Department of Biology & CESAM - Centre for Environmental and Marine Studies, University of Aveiro, Portugal.
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13
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Shinkawa S, Mitsuzawa S. Feasibility study of on-site solid-state enzyme production by Aspergillus oryzae. BIOTECHNOLOGY FOR BIOFUELS 2020; 13:31. [PMID: 32127918 PMCID: PMC7045521 DOI: 10.1186/s13068-020-1669-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2019] [Accepted: 01/28/2020] [Indexed: 05/08/2023]
Abstract
BACKGROUND The development of biorefinery systems that use lignocellulosic biomass as a renewable carbon source to produce fuels and chemicals is attracting increasing attention. The process cost of enzymatic saccharification of biomass is a major challenge for commercialization. To decrease this cost, researchers have proposed on-site solid-state fermentation (SSF). This study investigated the feasibility of using Aspergillus oryzae as a host microorganism for SSF recombinant enzyme production with ammonia-treated rice straw as model biomass. Eight A. oryzae strains were tested, all of which are used in the food industry. We evaluated the effects of acetic acid, a fermentation inhibitor. We also developed a platform strain for targeted recombinant enzyme production by gene engineering technologies. RESULTS The SSF validation test showed variation in the visibility of mycelium growth and secreted protein in all eight A. oryzae strains. The strains used to produce shoyu and miso grew better under test conditions. The ammonia-treated rice straw contained noticeable amounts of acetic acid. This acetic acid enhanced the protein production by A. oryzae in a liquid-state fermentation test. The newly developed platform strain successfully secreted three foreign saccharifying enzymes. CONCLUSIONS A. oryzae is a promising candidate as a host microorganism for on-site SSF recombinant enzyme production, which bodes well for the future development of a more cost-efficient saccharifying enzyme production system.
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Affiliation(s)
- Satoru Shinkawa
- Fundamental Technology Center, Honda R&D Co., Ltd., 1-4-1 Chuo, Wako-shi, Saitama, 351-0113 Japan
- Present Address: Honda Research Institute Japan Co., Ltd., 8-1 Honcho, Wako-shi, Saitama, 351-0188 Japan
| | - Shigenobu Mitsuzawa
- Fundamental Technology Center, Honda R&D Co., Ltd., 1-4-1 Chuo, Wako-shi, Saitama, 351-0113 Japan
- Present Address: Honda Research Institute Japan Co., Ltd., 8-1 Honcho, Wako-shi, Saitama, 351-0188 Japan
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14
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Kjærbølling I, Mortensen UH, Vesth T, Andersen MR. Strategies to establish the link between biosynthetic gene clusters and secondary metabolites. Fungal Genet Biol 2019; 130:107-121. [DOI: 10.1016/j.fgb.2019.06.001] [Citation(s) in RCA: 41] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Revised: 05/26/2019] [Accepted: 06/02/2019] [Indexed: 01/01/2023]
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Genome-wide analysis of the NF-Y gene family in peach (Prunus persica L.). BMC Genomics 2019; 20:612. [PMID: 31349783 PMCID: PMC6660701 DOI: 10.1186/s12864-019-5968-7] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2019] [Accepted: 07/11/2019] [Indexed: 12/22/2022] Open
Abstract
Background Nuclear Factor Y (NF-Y) is a heterotrimeric complex composed of three unique subunits: NF-YA, NF-YB, and NF-YC. The NF-Y transcription factor complex binds to the CCAAT box of eukaryotic promoters, playing a vital role in various biological processes in plants. However, the NF-Y gene family has not yet been reported from the peach genome. The current study identified and classified candidate peach NF-Y genes for further functional analysis of this family. Results The current study identified 24 Nuclear Factor Y (NF-Y) transcription factor subunits (6 NF-YA, 12 NF-YB, and 6 NF-YC subunits) in peach. These NF-Y subunits were described with respect to basic physicochemical characteristics, chromosome locations, gene structures, and conserved domains. Based on an analysis of the phylogenetic relationships among peach NF-Ys, six pairs of paralogous NF-Ys were detected. The expansion of the peach NF-Y family occurred by segmental and tandem duplication. Phylogenetic gene synteny of NF-Y proteins was observed between peach and Arabidopsis, and five pairs of paralogous NF-Y proteins from peach and Arabidopsis were identified. Twenty-four peach NF-Ys displayed a diversity of tissue expression patterns. In addition, drought-responsive cis-elements were observed in peach NF-Y promoters, and 9 peach NF-Y genes were shown to distinctly increase their transcript abundances under drought stress. Conclusions This study identified 24 NF-Y genes in the peach genome and analysed their properties at different levels, providing a foundation for researchers to understand this gene family in peach. The up-regulation of 9 NF-Y genes under drought stress indicates that they can serve as candidate functional genes to further study drought resistance in peach. Electronic supplementary material The online version of this article (10.1186/s12864-019-5968-7) contains supplementary material, which is available to authorized users.
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16
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Hartmann DO, Piontkivska D, Moreira CJS, Silva Pereira C. Ionic Liquids Chemical Stress Triggers Sphingoid Base Accumulation in Aspergillus nidulans. Front Microbiol 2019; 10:864. [PMID: 31105664 PMCID: PMC6491925 DOI: 10.3389/fmicb.2019.00864] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2019] [Accepted: 04/04/2019] [Indexed: 11/30/2022] Open
Abstract
Understanding stress responses and signaling pathways in fungi became a fundamental need for the discovery of new specific antifungal targets for fighting emerging life-threatening pathogens and drug resistance. Ionic liquids constitute a unique class of chemicals, which structural diversity and tunable physical and chemical properties can provide a great diversity of stimuli. In this study, we propose the use of ionic liquids as tools to unravel signaling of stress responses in the filamentous fungus Aspergillus nidulans. We assessed how three ionic liquids with distinct effects over the cell wall and plasma membrane affect the biosynthesis of sphingolipids and accumulation of free sphingoid bases in this fungus. The stress imposed by each ionic liquid triggered the sphingolipid biosynthetic pathway and led to distinct profiles of sphingoid bases accumulation. Dodecyltributylphosphonium chloride and 1-decyl-3-methylimidazolium chloride induced the accumulation of sphingosine and of a yet unknown sphingoid base, respectively, while cholinium decanoate did not seem to accumulate any of these intermediates. This study brings further light to the roles of sphingoid bases in A. nidulans. In particular, sphingosine as a possible response mediator to cell wall damage induced by dodecyltributylphosphonium chloride, and involvement of an unknown sphingoid base in the response to plasma membrane permeabilization caused by 1-decyl-3-methylimidazolium chloride. In addition, we completed the genetic assignment of the glucosylceramide pathway in A. nidulans through the identification of the sphingolipid Δ4-desaturase gene (AN4405). The knowledge established reinforces the idea of targeting sphingolipids biosynthesis in the search of improved antifungal compounds.
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Affiliation(s)
- Diego O Hartmann
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB NOVA), Oeiras, Portugal
| | - Daryna Piontkivska
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB NOVA), Oeiras, Portugal
| | - Carlos J S Moreira
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB NOVA), Oeiras, Portugal
| | - Cristina Silva Pereira
- Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB NOVA), Oeiras, Portugal
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17
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A combined targeted/untargeted LC-MS/MS-based screening approach for mammalian cell lines treated with ionic liquids: Toxicity correlates with metabolic profile. Talanta 2019; 197:472-481. [PMID: 30771964 DOI: 10.1016/j.talanta.2019.01.054] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Revised: 01/10/2019] [Accepted: 01/14/2019] [Indexed: 01/08/2023]
Abstract
This work presents the development and validation of a quantitative HILIC UHPLC-ESI-QTOF-MS/MS method for amino acids combined with untargeted metabolic profiling of human corneal epithelial (HCE) cells after treatment with ionic liquids. The work included a preliminary metabotoxicity screening of 14 different ionic liquids, of which 9 carefully selected ionic liquids were chosen for a metabolomics study. This study is focused on the correlation between the toxicity of the ionic liquids and their metabolic profiles. The method development included the comparison of different MS/MS acquisition modes. A sequential window acquisition of all theoretical fragment ion mass spectra (SWATH) method with variable Q1 window widths and narrow Q1 target windows of 5 Da for most of the amino acids was selected as the optimal acquisition mode. Due to the absence of a true blank matrix, 13C,15N-isotopically labelled amino acids were utilized as surrogate calibrants, instead of proteinogenic amino acids. Partial least squares (PLS) analysis of the median effective concentrations (EC50) of 9 selected ionic liquids showed a correlation with their metabolic profile measured by the untargeted screening.
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18
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Egorova KS, Ananikov VP. Ionic liquids in whole-cell biocatalysis: a compromise between toxicity and efficiency. Biophys Rev 2018; 10:881-900. [PMID: 29313188 PMCID: PMC5988618 DOI: 10.1007/s12551-017-0389-9] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Accepted: 12/13/2017] [Indexed: 12/11/2022] Open
Abstract
Comparison of chemical catalysis by metal complexes, enzymatic catalysis and whole-cell biocatalysis shows well-addressed advantages of the latter approach. However, a critical limitation in the practical applications originates from the high sensitivity of microorganisms to the toxic effects of organic solvents. In the present review, we consider toxic solvent properties of ionic liquid/water systems towards the development of efficient applications in practical organic transformations.
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Affiliation(s)
- Ksenia S Egorova
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospekt 47, Moscow, 119991, Russia
| | - Valentine P Ananikov
- Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences, Leninsky Prospekt 47, Moscow, 119991, Russia.
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19
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Sevastos A, Kalampokis IF, Panagiotopoulou A, Pelecanou M, Aliferis KA. Implication of Fusarium graminearum primary metabolism in its resistance to benzimidazole fungicides as revealed by 1H NMR metabolomics. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2018; 148:50-61. [PMID: 29891377 DOI: 10.1016/j.pestbp.2018.03.015] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2017] [Revised: 03/24/2018] [Accepted: 03/25/2018] [Indexed: 06/08/2023]
Abstract
Fungal metabolomics is a field of high potential but yet largely unexploited. Focusing on plant-pathogenic fungi, no metabolomics studies exist on their resistance to fungicides, which represents a major issue that the agrochemical and agricultural sectors are facing. Fungal infections cause quantitative, but also qualitative yield losses, especially in the case of mycotoxin-producing species. The aim of the study was to correlate metabolic changes in Fusarium graminearum strains' metabolomes with their carbendazim-resistant level and discover corresponding metabolites-biomarkers, with primary focus on its primary metabolism. For this purpose, comparative 1H NMR metabolomics was applied to a wild-type and four carbendazim-resistant Fusarium graminearum strains following or not exposure to the fungicide. Results showed an excellent discrimination between the strains based on their carbendazim-resistance following exposure to low concentration of the fungicide (2 mg L-1). Both genotype and fungicide treatments had a major impact on fungal metabolism. Among the signatory metabolites, a positive correlation was discovered between the content of F. graminearum strains in amino acids of the aromatic and pyruvate families, l-glutamate, l-proline, l-serine, pyroglutamate, and succinate and their carbendazim-resistance level. In contrary, their content in l-glutamine and l-threonine, had a negative correlation. Many of these metabolites play important roles in fungal physiology and responses to stresses. This work represents a proof-of-concept of the applicability of 1H NMR metabolomics for high-throughput screening of fungal mutations leading to fungicide resistance, and the study of its biochemical basis, focusing on the involvement of primary metabolism. Results could be further exploited in programs of resistance monitoring, genetic engineering, and crop protection for combating fungal resistance to fungicides.
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Affiliation(s)
- A Sevastos
- Laboratory of Pesticide Science, Department of Crop Science, Agricultural University of Athens, Athens, Greece
| | - I F Kalampokis
- Laboratory of Pesticide Science, Department of Crop Science, Agricultural University of Athens, Athens, Greece
| | - A Panagiotopoulou
- Institute of Biosciences & Applications, National Centre for Scientific Research "Demokritos", Athens, Greece
| | - M Pelecanou
- Institute of Biosciences & Applications, National Centre for Scientific Research "Demokritos", Athens, Greece
| | - K A Aliferis
- Laboratory of Pesticide Science, Department of Crop Science, Agricultural University of Athens, Athens, Greece; Department of Plant Science, Macdonald Campus of McGill University, Sainte-Anne-de-Bellevue, Quebec, Canada.
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20
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Aspergillus flavus Secondary Metabolites: More than Just Aflatoxins. Food Saf (Tokyo) 2018; 6:7-32. [PMID: 32231944 DOI: 10.14252/foodsafetyfscj.2017024] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2017] [Accepted: 03/09/2018] [Indexed: 11/21/2022] Open
Abstract
Aspergillus flavus is best known for producing the family of potent carcinogenic secondary metabolites known as aflatoxins. However, this opportunistic plant and animal pathogen also produces numerous other secondary metabolites, many of which have also been shown to be toxic. While about forty of these secondary metabolites have been identified from A. flavus cultures, analysis of the genome has predicted the existence of at least 56 secondary metabolite gene clusters. Many of these gene clusters are not expressed during growth of the fungus on standard laboratory media. This presents researchers with a major challenge of devising novel strategies to manipulate the fungus and its genome so as to activate secondary metabolite gene expression and allow identification of associated cluster metabolites. In this review, we discuss the genetic, biochemical and bioinformatic methods that are being used to identify previously uncharacterized secondary metabolite gene clusters and their associated metabolites. It is important to identify as many of these compounds as possible to determine their bioactivity with respect to fungal development, survival, virulence and especially with respect to any potential synergistic toxic effects with aflatoxin.
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21
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Endogenously generated 2-aminoacrylate inhibits motility in Salmonella enterica. Sci Rep 2017; 7:12971. [PMID: 29021529 PMCID: PMC5636819 DOI: 10.1038/s41598-017-13030-x] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2017] [Accepted: 09/19/2017] [Indexed: 11/21/2022] Open
Abstract
Members of the broadly distributed Rid/YER057c/UK114 protein family have imine/enamine deaminase activity, notably on 2-aminoacrylate (2AA). Strains of Salmonella enterica, and other organisms lacking RidA, have diverse growth phenotypes, attributed to the accumulation of 2AA. In S. enterica, 2AA inactivates a number of pyridoxal 5’-phosephate(PLP)-dependent enzymes, some of which have been linked to the growth phenotypes of a ridA mutant. This study used transcriptional differences between S. enterica wild-type and ridA strains to explore the breadth of the cellular consequences that resulted from accumulation of 2AA. Accumulation of endogenously generated 2AA in a ridA mutant resulted in lower expression of genes encoding many flagellar assembly components, which led to a motility defect. qRT-PCR results were consistent with the motility phenotype of a ridA mutant resulting from a defect in FlhD4C2 activity. In total, the results of comparative transcriptomics correctly predicted a 2AA-dependent motility defect and identified additional areas of metabolism impacted by the metabolic stress of 2AA in Salmonella enterica. Further, the data emphasized the value of integrating global approaches with biochemical genetic approaches to understand the complex system of microbial metabolism.
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22
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Guerriero G, Silvestrini L, Legay S, Maixner F, Sulyok M, Hausman JF, Strauss J. Deletion of the celA gene in Aspergillus nidulans triggers overexpression of secondary metabolite biosynthetic genes. Sci Rep 2017; 7:5978. [PMID: 28729615 PMCID: PMC5519750 DOI: 10.1038/s41598-017-05920-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2017] [Accepted: 06/06/2017] [Indexed: 11/30/2022] Open
Abstract
Although much progress has been made in the study of cell wall biosynthetic genes in the model filamentous fungus Aspergillus nidulans, there are still targets awaiting characterization. An example is the gene celA (ANIA_08444) encoding a putative mixed linkage glucan synthase. To characterize the role of celA, we deleted it in A. nidulans, analyzed the phenotype of the mycelium and performed RNA-Seq. The strain shows a very strong phenotype, namely “balloons” along the hyphae and aberrant conidiophores, as well as an altered susceptibility to cell wall drugs. These data suggest a potential role of the gene in cell wall-related processes. The Gene Ontology term Enrichment analysis shows increased expression of secondary metabolite biosynthetic genes (sterigmatocystin in particular) in the deleted strain. Our results show that the deletion of celA triggers a strong phenotype reminiscent of cell wall-related aberrations and the upregulation of some secondary metabolite gene clusters in A. nidulans.
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Affiliation(s)
- Gea Guerriero
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) Department, Esch/Alzette, L-4362, Luxembourg.
| | - Lucia Silvestrini
- University of Natural Resources and Life Sciences Vienna (BOKU), Department of Applied Genetics and Cell Biology, Fungal Genetics and Genomics Unit, BOKU Campus, Tulln/Donau, A-3430, Austria
| | - Sylvain Legay
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) Department, Esch/Alzette, L-4362, Luxembourg
| | - Frank Maixner
- European Academy of Bozen/Bolzano (EURAC), Institute for Mummies and the Iceman, Bolzano, 39100, Italy
| | - Michael Sulyok
- University of Natural Resources and Life Sciences Vienna (BOKU), Department for Agrobiotechnology (IFA-Tulln), A-3430, Tulln, Austria
| | - Jean-Francois Hausman
- Luxembourg Institute of Science and Technology (LIST), Environmental Research and Innovation (ERIN) Department, Esch/Alzette, L-4362, Luxembourg
| | - Joseph Strauss
- University of Natural Resources and Life Sciences Vienna (BOKU), Department of Applied Genetics and Cell Biology, Fungal Genetics and Genomics Unit, BOKU Campus, Tulln/Donau, A-3430, Austria.
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23
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Egorova KS, Gordeev EG, Ananikov VP. Biological Activity of Ionic Liquids and Their Application in Pharmaceutics and Medicine. Chem Rev 2017; 117:7132-7189. [PMID: 28125212 DOI: 10.1021/acs.chemrev.6b00562] [Citation(s) in RCA: 902] [Impact Index Per Article: 128.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Ionic liquids are remarkable chemical compounds, which find applications in many areas of modern science. Because of their highly tunable nature and exceptional properties, ionic liquids have become essential players in the fields of synthesis and catalysis, extraction, electrochemistry, analytics, biotechnology, etc. Apart from physical and chemical features of ionic liquids, their high biological activity has been attracting significant attention from biochemists, ecologists, and medical scientists. This Review is dedicated to biological activities of ionic liquids, with a special emphasis on their potential employment in pharmaceutics and medicine. The accumulated data on the biological activity of ionic liquids, including their antimicrobial and cytotoxic properties, are discussed in view of possible applications in drug synthesis and drug delivery systems. Dedicated attention is given to a novel active pharmaceutical ingredient-ionic liquid (API-IL) concept, which suggests using traditional drugs in the form of ionic liquid species. The main aim of this Review is to attract a broad audience of chemical, biological, and medical scientists to study advantages of ionic liquid pharmaceutics. Overall, the discussed data highlight the importance of the research direction defined as "Ioliomics", studies of ions in liquids in modern chemistry, biology, and medicine.
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Affiliation(s)
- Ksenia S Egorova
- N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences , Leninsky prospect 47, Moscow 119991, Russia
| | - Evgeniy G Gordeev
- N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences , Leninsky prospect 47, Moscow 119991, Russia
| | - Valentine P Ananikov
- N. D. Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences , Leninsky prospect 47, Moscow 119991, Russia.,Department of Chemistry, Saint Petersburg State University , Stary Petergof 198504, Russia
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24
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Yu C, Simmons BA, Singer SW, Thelen MP, VanderGheynst JS. Ionic liquid-tolerant microorganisms and microbial communities for lignocellulose conversion to bioproducts. Appl Microbiol Biotechnol 2016; 100:10237-10249. [PMID: 27838839 DOI: 10.1007/s00253-016-7955-0] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2016] [Revised: 10/19/2016] [Accepted: 10/21/2016] [Indexed: 11/26/2022]
Abstract
Chemical and physical pretreatment of biomass is a critical step in the conversion of lignocellulose to biofuels and bioproducts. Ionic liquid (IL) pretreatment has attracted significant attention due to the unique ability of certain ILs to solubilize some or all components of the plant cell wall. However, these ILs inhibit not only the enzyme activities but also the growth and productivity of microorganisms used in downstream hydrolysis and fermentation processes. While pretreated biomass can be washed to remove residual IL and reduce inhibition, extensive washing is costly and not feasible in large-scale processes. IL-tolerant microorganisms and microbial communities have been discovered from environmental samples and studies begun to elucidate mechanisms of IL tolerance. The discovery of IL tolerance in environmental microbial communities and individual microbes has lead to the proposal of molecular mechanisms of resistance. In this article, we review recent progress on discovering IL-tolerant microorganisms, identifying metabolic pathways and mechanisms of tolerance, and engineering microorganisms for IL tolerance. Research in these areas will yield new approaches to overcome inhibition in lignocellulosic biomass bioconversion processes and increase opportunities for the use of ILs in biomass pretreatment.
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Affiliation(s)
- Chaowei Yu
- Department of Biological and Agricultural Engineering, University of California, One Shields Ave., Davis, CA, 95616, USA
| | - Blake A Simmons
- Joint BioEnergy Institute, Emeryville, CA, 94608, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Steven W Singer
- Joint BioEnergy Institute, Emeryville, CA, 94608, USA
- Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA
| | - Michael P Thelen
- Joint BioEnergy Institute, Emeryville, CA, 94608, USA
- Biosciences Division, Lawrence Livermore National Laboratory, Livermore, CA, 94551, USA
| | - Jean S VanderGheynst
- Department of Biological and Agricultural Engineering, University of California, One Shields Ave., Davis, CA, 95616, USA.
- Joint BioEnergy Institute, Emeryville, CA, 94608, USA.
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