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Vuković JP, Tišma M. The role of NMR spectroscopy in lignocellulosic biomass characterisation: A mini review. FOOD CHEMISTRY. MOLECULAR SCIENCES 2024; 9:100219. [PMID: 39263258 PMCID: PMC11388798 DOI: 10.1016/j.fochms.2024.100219] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2024] [Revised: 07/23/2024] [Accepted: 08/17/2024] [Indexed: 09/13/2024]
Abstract
Lignocellulosic biomass (LB) is promising feedstock for the production of various bio-based products. However, due to its heterogenous character, complex chemical structure and recalcitrance, it is necessary to know its structural composition in order to optimize pretreatment process and further (bio)conversion into bio-based products. Nuclear Magnetic Resonance (NMR) spectroscopy is a fast and reliable method that can provide advanced data on the molecular architecture and composition of lignocellulosic biomass. In this brief overview, characteristic examples of the use of high-resolution NMR spectroscopy for the investigation of various types of LB and their structural units are given and the main drawbacks and future perspectives are outlined.
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Affiliation(s)
| | - Marina Tišma
- Josip Juraj Strossmayer University of Osijek, Faculty of Food Technology Osijek, Franje Kuhača 18, HR-31000 Osijek, Croatia
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Du X, Yang L, Kong L, Sun Y, Shen K, Cai Y, Sun H, Zhang B, Guo S, Zhang A, Wang X. Metabolomics of various samples advancing biomarker discovery and pathogenesis elucidation for diabetic retinopathy. Front Endocrinol (Lausanne) 2022; 13:1037164. [PMID: 36387907 PMCID: PMC9646596 DOI: 10.3389/fendo.2022.1037164] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Accepted: 10/10/2022] [Indexed: 11/28/2022] Open
Abstract
Diabetic retinopathy (DR) is a universal microvascular complication of diabetes mellitus (DM), which is the main reason for global sight damage/loss in middle-aged and/or older people. Current clinical analyses, like hemoglobin A1c, possess some importance as prognostic indicators for DR severity, but no effective circulating biomarkers are used for DR in the clinic currently, and studies on the latent pathophysiology remain lacking. Recent developments in omics, especially metabolomics, continue to disclose novel potential biomarkers in several fields, including but not limited to DR. Therefore, based on the overview of metabolomics, we reviewed progress in analytical technology of metabolomics, the prominent roles and the current status of biomarkers in DR, and the update of potential biomarkers in various DR-related samples via metabolomics, including tear as well as vitreous humor, aqueous humor, retina, plasma, serum, cerebrospinal fluid, urine, and feces. In this review, we underscored the in-depth analysis and elucidation of the common biomarkers in different biological samples based on integrated results, namely, alanine, lactate, and glutamine. Alanine may participate in and regulate glucose metabolism through stimulating N-methyl-D-aspartate receptors and subsequently suppressing insulin secretion, which is the potential pathogenesis of DR. Abnormal lactate could cause extensive oxidative stress and neuroinflammation, eventually leading to retinal hypoxia and metabolic dysfunction; on the other hand, high-level lactate may damage the structure and function of the retinal endothelial cell barrier via the G protein-coupled receptor 81. Abnormal glutamine indicates a disturbance of glutamate recycling, which may affect the activation of Müller cells and proliferation via the PPP1CA-YAP-GS-Gln-mTORC1 pathway.
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Affiliation(s)
- Xiaohui Du
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
| | - Le Yang
- State Key Laboratory of Dampness Syndrome, the Second Affiliated Hospital Guangzhou University of Chinese Medicine, Guangzhou, China
| | - Ling Kong
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
| | - Ye Sun
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
- State Key Laboratory of Dampness Syndrome, the Second Affiliated Hospital Guangzhou University of Chinese Medicine, Guangzhou, China
| | - Kunshuang Shen
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
| | - Ying Cai
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
| | - Hui Sun
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
- *Correspondence: Hui Sun, ; Xijun Wang,
| | - Bo Zhang
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
| | - Sifan Guo
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
| | - Aihua Zhang
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
| | - Xijun Wang
- National Chinmedomics Research Center, National TCM Key Laboratory of Serum Pharmacochemistry, Metabolomics Laboratory, Department of Pharmaceutical Analysis, Heilongjiang University of Chinese Medicine, Harbin, China
- State Key Laboratory of Dampness Syndrome, the Second Affiliated Hospital Guangzhou University of Chinese Medicine, Guangzhou, China
- State Key Laboratory of Quality Research in Chinese Medicine, Macau University of Science and Technology, Macau, Macau SAR, China
- *Correspondence: Hui Sun, ; Xijun Wang,
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Lázaro-González A, Gargallo-Garriga A, Hódar JA, Sardans J, Oravec M, Urban O, Peñuelas J, Zamora R. Implications of mistletoe parasitism for the host metabolome: A new plant identity in the forest canopy. PLANT, CELL & ENVIRONMENT 2021; 44:3655-3666. [PMID: 34486744 DOI: 10.1111/pce.14179] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2020] [Revised: 08/25/2021] [Accepted: 08/26/2021] [Indexed: 06/13/2023]
Abstract
Mistletoe-host systems exemplify an intimate and chronic relationship where mistletoes represent protracted stress for hosts, causing long-lasting impact. Although host changes in morphological and reproductive traits due to parasitism are well known, shifts in their physiological system, altering metabolite concentrations, are less known due to the difficulty of quantification. Here, we use ecometabolomic techniques in the plant-plant interaction, comparing the complete metabolome of the leaves from mistletoe (Viscum album) and needles from their host (Pinus nigra), both parasitized and unparasitized, to elucidate host responses to plant parasitism. Our results show that mistletoe acquires metabolites basically from the primary metabolism of its host and synthesizes its own defence compounds. In response to mistletoe parasitism, pines modify a quarter of their metabolome over the year, making the pine canopy metabolome more homogeneous by reducing the seasonal shifts in top-down stratification. Overall, host pines increase antioxidant metabolites, suggesting oxidative stress, and also increase part of the metabolites required by mistletoe, which act as a permanent sink of host resources. In conclusion, by exerting biotic stress and thereby causing permanent systemic change, mistletoe parasitism generates a new host-plant metabolic identity available in forest canopy, which could have notable ecological consequences in the forest ecosystem.
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Affiliation(s)
- Alba Lázaro-González
- Department of Ecology, Terrestrial Ecology Research Group, University of Granada, Granada, Spain
| | - Albert Gargallo-Garriga
- CSIC, Global Ecology Unit CREAF-CSIC-UAB, Bellaterra, Spain
- CREAF, Cerdanyola del Vallès, Spain
- Global Change Research Institute, Academy of Sciences of the Czech Republic, Brno, Czech Republic
| | - José Antonio Hódar
- Department of Ecology, Terrestrial Ecology Research Group, University of Granada, Granada, Spain
| | - Jordi Sardans
- CSIC, Global Ecology Unit CREAF-CSIC-UAB, Bellaterra, Spain
- CREAF, Cerdanyola del Vallès, Spain
| | - Michal Oravec
- Global Change Research Institute, Academy of Sciences of the Czech Republic, Brno, Czech Republic
| | - Otmar Urban
- Global Change Research Institute, Academy of Sciences of the Czech Republic, Brno, Czech Republic
| | - Josep Peñuelas
- CSIC, Global Ecology Unit CREAF-CSIC-UAB, Bellaterra, Spain
- CREAF, Cerdanyola del Vallès, Spain
| | - Regino Zamora
- Department of Ecology, Terrestrial Ecology Research Group, University of Granada, Granada, Spain
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Gargallo-Garriga A, Sardans J, Alrefaei AF, Klem K, Fuchslueger L, Ramírez-Rojas I, Donald J, Leroy C, Langenhove LV, Verbruggen E, Janssens IA, Urban O, Peñuelas J. Tree Species and Epiphyte Taxa Determine the " Metabolomic niche" of Canopy Suspended Soils in a Species-Rich Lowland Tropical Rainforest. Metabolites 2021; 11:718. [PMID: 34822376 PMCID: PMC8621298 DOI: 10.3390/metabo11110718] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Revised: 09/23/2021] [Accepted: 09/28/2021] [Indexed: 11/18/2022] Open
Abstract
Tropical forests are biodiversity hotspots, but it is not well understood how this diversity is structured and maintained. One hypothesis rests on the generation of a range of metabolic niches, with varied composition, supporting a high species diversity. Characterizing soil metabolomes can reveal fine-scale differences in composition and potentially help explain variation across these habitats. In particular, little is known about canopy soils, which are unique habitats that are likely to be sources of additional biodiversity and biogeochemical cycling in tropical forests. We studied the effects of diverse tree species and epiphytes on soil metabolomic profiles of forest floor and canopy suspended soils in a French Guianese rainforest. We found that the metabolomic profiles of canopy suspended soils were distinct from those of forest floor soils, differing between epiphyte-associated and non-epiphyte suspended soils, and the metabolomic profiles of suspended soils varied with host tree species, regardless of association with epiphyte. Thus, tree species is a key driver of rainforest suspended soil metabolomics. We found greater abundance of metabolites in suspended soils, particularly in groups associated with plants, such as phenolic compounds, and with metabolic pathways related to amino acids, nucleotides, and energy metabolism, due to the greater relative proportion of tree and epiphyte organic material derived from litter and root exudates, indicating a strong legacy of parent biological material. Our study provides evidence for the role of tree and epiphyte species in canopy soil metabolomic composition and in maintaining the high levels of soil metabolome diversity in this tropical rainforest. It is likely that a wide array of canopy microsite-level environmental conditions, which reflect interactions between trees and epiphytes, increase the microscale diversity in suspended soil metabolomes.
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Affiliation(s)
- Albert Gargallo-Garriga
- Global Change Research Institute of the Czech Academy of Sciences, The Czech Academy of Sciences, Bělidla 986/4a, CZ-60300 Brno, Czech Republic; (J.S.); (K.K.); (O.U.)
- Global Ecology Unit CREAF-CSIC-UAB, Consejo Superior de Investigaciones Científicas (CSIC), Bellaterra, 08193 Catalonia, Spain;
- CREAF, Cerdanyola del Vallès, 08193 Catalonia, Spain
| | - Jordi Sardans
- Global Change Research Institute of the Czech Academy of Sciences, The Czech Academy of Sciences, Bělidla 986/4a, CZ-60300 Brno, Czech Republic; (J.S.); (K.K.); (O.U.)
- Global Ecology Unit CREAF-CSIC-UAB, Consejo Superior de Investigaciones Científicas (CSIC), Bellaterra, 08193 Catalonia, Spain;
- CREAF, Cerdanyola del Vallès, 08193 Catalonia, Spain
| | - Abdulwahed Fahad Alrefaei
- Department of Zoology, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia;
| | - Karel Klem
- Global Change Research Institute of the Czech Academy of Sciences, The Czech Academy of Sciences, Bělidla 986/4a, CZ-60300 Brno, Czech Republic; (J.S.); (K.K.); (O.U.)
| | - Lucia Fuchslueger
- Centre of Microbiology and Environmental Systems Science, University of Vienna, Althanstrasse 14, 1090 Vienna, Austria;
- Department of Biology, University of Antwerp, BE-2610 Wilrijk, Belgium; (I.R.-R.); (L.V.L.); (E.V.); (I.A.J.)
| | - Irene Ramírez-Rojas
- Department of Biology, University of Antwerp, BE-2610 Wilrijk, Belgium; (I.R.-R.); (L.V.L.); (E.V.); (I.A.J.)
| | - Julian Donald
- Centre for Ecology and Conservation, University of Exeter, Penryn TR10 9FE, UK;
| | - Celine Leroy
- AMAP, University Montpellier, CIRAD, CNRS, INRAE, IRD, 34000 Montpellier, France;
- ECOFOG, CNRS, CIRAD, AgroParisTech, INRAE, Université des Antilles, Université de Guyane, 97310 Kourou, France
| | - Leandro Van Langenhove
- Department of Biology, University of Antwerp, BE-2610 Wilrijk, Belgium; (I.R.-R.); (L.V.L.); (E.V.); (I.A.J.)
| | - Erik Verbruggen
- Department of Biology, University of Antwerp, BE-2610 Wilrijk, Belgium; (I.R.-R.); (L.V.L.); (E.V.); (I.A.J.)
| | - Ivan A. Janssens
- Department of Biology, University of Antwerp, BE-2610 Wilrijk, Belgium; (I.R.-R.); (L.V.L.); (E.V.); (I.A.J.)
| | - Otmar Urban
- Global Change Research Institute of the Czech Academy of Sciences, The Czech Academy of Sciences, Bělidla 986/4a, CZ-60300 Brno, Czech Republic; (J.S.); (K.K.); (O.U.)
| | - Josep Peñuelas
- Global Ecology Unit CREAF-CSIC-UAB, Consejo Superior de Investigaciones Científicas (CSIC), Bellaterra, 08193 Catalonia, Spain;
- CREAF, Cerdanyola del Vallès, 08193 Catalonia, Spain
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Li X, Cai S, He Z, Reilly J, Zeng Z, Strang N, Shu X. Metabolomics in Retinal Diseases: An Update. BIOLOGY 2021; 10:944. [PMID: 34681043 PMCID: PMC8533136 DOI: 10.3390/biology10100944] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/20/2021] [Revised: 09/16/2021] [Accepted: 09/18/2021] [Indexed: 12/17/2022]
Abstract
Retinal diseases are a leading cause of visual loss and blindness, affecting a significant proportion of the population worldwide and having a detrimental impact on quality of life, with consequent economic burden. The retina is highly metabolically active, and a number of retinal diseases are associated with metabolic dysfunction. To better understand the pathogenesis underlying such retinopathies, new technology has been developed to elucidate the mechanism behind retinal diseases. Metabolomics is a relatively new "omics" technology, which has developed subsequent to genomics, transcriptomics, and proteomics. This new technology can provide qualitative and quantitative information about low-molecular-weight metabolites (M.W. < 1500 Da) in a given biological system, which shed light on the physiological or pathological state of a cell or tissue sample at a particular time point. In this article we provide an extensive review of the application of metabolomics to retinal diseases, with focus on age-related macular degeneration (AMD), diabetic retinopathy (DR), retinopathy of prematurity (ROP), glaucoma, and retinitis pigmentosa (RP).
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Affiliation(s)
- Xing Li
- School of Basic Medical Sciences, Shaoyang University, Shaoyang 422000, China; (X.L.); (Z.H.)
| | - Shichang Cai
- Department of Human Anatomy, School of Medicine, Hunan University of Medicine, Huaihua 418000, China;
| | - Zhiming He
- School of Basic Medical Sciences, Shaoyang University, Shaoyang 422000, China; (X.L.); (Z.H.)
| | - James Reilly
- Department of Biological and Biomedical Sciences, Glasgow Caledonian University, Glasgow G4 0BA, UK;
| | - Zhihong Zeng
- College of Biological and Environmental Engineering, Changsha University, Changsha 410022, China;
| | - Niall Strang
- Department of Vision Science, Glasgow Caledonian University, Glasgow G4 0BA, UK;
| | - Xinhua Shu
- School of Basic Medical Sciences, Shaoyang University, Shaoyang 422000, China; (X.L.); (Z.H.)
- Department of Biological and Biomedical Sciences, Glasgow Caledonian University, Glasgow G4 0BA, UK;
- Department of Vision Science, Glasgow Caledonian University, Glasgow G4 0BA, UK;
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Pérez-Trujillo M, Athersuch TJ. Special Issue: NMR-Based Metabolomics. Molecules 2021; 26:molecules26113283. [PMID: 34072383 PMCID: PMC8198342 DOI: 10.3390/molecules26113283] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Accepted: 05/24/2021] [Indexed: 11/16/2022] Open
Abstract
Nuclear magnetic resonance (NMR) spectroscopy remains one of the core analytical platforms for metabolomics, providing complementary chemical information to others, such as mass spectrometry, and offering particular advantages in some areas of research on account of its inherent robustness, reproducibility, and phenomenal dynamic range [...].
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Affiliation(s)
- Miriam Pérez-Trujillo
- Nuclear Magnetic Resonance Facility, Universitat Autònoma de Barcelona, 08193 Barcelona, Spain
- Correspondence: (M.P.-T.); (T.J.A.)
| | - Toby J. Athersuch
- Department of Metabolism, Digestion and Reproduction, Faculty of Medicine, Imperial College London, London SW7 2AZ, UK
- Correspondence: (M.P.-T.); (T.J.A.)
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