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Sala D, Grossi V, Agogué H, Leboulanger C, Jézéquel D, Sarazin G, Antheaume I, Bernard C, Ader M, Hugoni M. Influence of aphotic haloclines and euxinia on organic biomarkers and microbial communities in a thalassohaline and alkaline volcanic crater lake. Geobiology 2022; 20:292-309. [PMID: 34687126 DOI: 10.1111/gbi.12477] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/23/2020] [Revised: 09/29/2021] [Accepted: 10/06/2021] [Indexed: 06/13/2023]
Abstract
Studies on microbial communities, and their associated organic biomarkers, that are found thriving in the aphotic euxinic waters in modern stratified ecosystems are scarce compared to those undertaken in euxinic photic zones. The Dziani Dzaha (Mayotte, Indian Ocean) is a tropical, saline, alkaline crater lake that has recently been presented as a modern analog of Proterozoic Oceans due to its thalassohaline classification (having water of marine origin) and specific biogeochemical characteristics. Continuous intense photosynthetic production and microbial mineralization keep most of the water column permanently aphotic and anoxic preventing the development of a euxinic (sulfidic and anoxic) photic zone despite a high sulfide/sulfate ratio and the presence of permanent or seasonal haloclines. In this study, the molecular composition of the organic matter in Lake Dziani Dzaha was investigated and compared to the microbial diversity evaluated through 16S rRNA gene amplicon sequencing, over two contrasting seasons (rainy vs. dry) that influence water column stratification. Depth profiles of organic biomarker concentrations (chlorophyll-a and lipid biomarkers) and bacterial and archaeal OTU abundances appeared to be strongly dependent on the presence of aphotic haloclines and euxinia. OTU abundances revealed the importance of specific haloalkaliphilic bacterial and archaeal assemblages in phytoplanktonic biomass recycling and the biogeochemical functioning of the lake, suggesting new haloalkaline non-phototrophic anaerobic microbial precursors for some of the lipid biomarkers. Uncultured Firmicutes from the family Syntrophomonadaceae (Clostridiales), and Bacteroidetes from the ML635J-40 aquatic group, emerged as abundant chemotrophic bacterial members in the anoxic or euxinic waters and were probably responsible for the production of short-chain n-alkenes, wax esters, diplopterol, and tetrahymanol. Halocline-dependent euxinia also had a strong impact on the archaeal community which was dominated by Woesearchaeota in the sulfide-free waters. In the euxinic waters, methanogenic Euryarchaeota from the Methanomicrobia, Thermoplasmata, and WSA2 classes dominated and were likely at the origin of common hydrocarbon biomarkers of methanogens (phytane, pentamethyl-eicosenes, and partially hydrogenated squalene).
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Affiliation(s)
- David Sala
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENSL, UJM, LGL-TPE, Villeurbanne, France
| | - Vincent Grossi
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENSL, UJM, LGL-TPE, Villeurbanne, France
| | - Hélène Agogué
- LIENSs, UMR 7266, La Rochelle Université - CNRS, La Rochelle, France
| | | | - Didier Jézéquel
- Université de Paris, Institut de Physique du Globe de Paris, Paris, France
- INRAE & Université Savoie Mont Blanc, UMR CARRTEL, Thonon-les-Bains, France
| | - Gérard Sarazin
- Université de Paris, Institut de Physique du Globe de Paris, Paris, France
| | - Ingrid Antheaume
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENSL, UJM, LGL-TPE, Villeurbanne, France
| | - Cécile Bernard
- UMR 7245 Molécules de Communication et Adaptations des Microorganismes (MCAM) MNHN-CNRS, Muséum National d'Histoire Naturelle, Paris, France
| | - Magali Ader
- Université de Paris, Institut de Physique du Globe de Paris, Paris, France
| | - Mylène Hugoni
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, INRAE, VetAgro Sup, UMR Ecologie Microbienne, Villeurbanne, France
- Univ Lyon, INSA Lyon, CNRS, UMR 5240 Microbiologie Adaptation et Pathogénie, Villeurbanne, France
- Institut Universitaire de France, Paris, France
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Linglin M, Amiot R, Richardin P, Porcier S, Antheaume I, Berthet D, Grossi V, Fourel F, Flandrois JP, Louchart A, Martin JE, Lécuyer C. Isotopic systematics point to wild origin of mummified birds in Ancient Egypt. Sci Rep 2020; 10:15463. [PMID: 32963281 PMCID: PMC7508811 DOI: 10.1038/s41598-020-72326-7] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2020] [Accepted: 07/24/2020] [Indexed: 11/10/2022] Open
Abstract
Millions of mummified birds serving for religious purpose have been discovered from archeological sites along the Nile Valley of Egypt, in majority ibises. Whether these birds were industrially raised or massively hunted is a matter of heavy debate as it would have a significant impact on the economy related to their supply and cult, and if hunted it would have represented an ecological burden on the birds populations. Here we have measured and analysed the stable oxygen, carbon and radiogenic strontium isotope compositions as well as calcium and barium content of bones along with the stable carbon, nitrogen and sulfur isotope composition of feathers from 20 mummified ibises and birds of prey recovered from various archeological sites of Ancient Egypt. If these migratory birds were locally bred, their stable oxygen, radiogenic strontium and stable sulfur isotopic compositions would be similar to that of coexisting Egyptians, and their stable carbon, nitrogen and oxygen isotope variance would be close, or lower than that of Egyptians. On one hand, isotopic values show that ibises ingested food from the Nile valley but with a higher isotopic scattering than observed for the diet of ancient Egyptians. On the other hand, birds of prey have exotic isotopic values compatible with their migratory behaviour. We therefore propose that most mummified ibises and all the birds of prey analysed here were wild animals hunted for religious practice.
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Affiliation(s)
- Marie Linglin
- ENSL, CNRS, LGL-TPE, Univ Lyon, Univ Lyon 1, 69622, Villeurbanne, France.,CNRS, Minist Culture, LAMPEA, Aix Marseille Univ, Aix-en-Provence, France
| | - Romain Amiot
- ENSL, CNRS, LGL-TPE, Univ Lyon, Univ Lyon 1, 69622, Villeurbanne, France.
| | - Pascale Richardin
- Centre de Recherche et de Restauration Des Musées de France (C2RMF), Palais du Louvre, Porte des Lions, 14 quai François Mitterrand, 75001, Paris, France.,UMR 7055, Préhistoire et Technologie (Pretech), Université Paris Nanterre / CNRS, 21 allée de l'Université, 92023, Nanterre Cedex, France
| | - Stéphanie Porcier
- Laboratoire CNRS "Histoire et Sources des Mondes Antiques" (HiSoMA-UMR 5189), Maison de l'Orient et de la Méditerranée, Lyon, France
| | - Ingrid Antheaume
- ENSL, CNRS, LGL-TPE, Univ Lyon, Univ Lyon 1, 69622, Villeurbanne, France
| | | | - Vincent Grossi
- ENSL, CNRS, LGL-TPE, Univ Lyon, Univ Lyon 1, 69622, Villeurbanne, France
| | - François Fourel
- CNRS, ENTPE, UMR5023 LEHNA, Univ Lyon, Université Claude Bernard Lyon 1, 69622, Villeurbanne, France
| | - Jean-Pierre Flandrois
- CNRS, UMR5558, Laboratoire de Biométrie et Biologie Évolutive, Univ Lyon, Université Lyon 1, 43 bd du 11 novembre 1918, 69622, Villeurbanne, France
| | - Antoine Louchart
- ENSL, CNRS, LGL-TPE, Univ Lyon, Univ Lyon 1, 69622, Villeurbanne, France
| | - Jeremy E Martin
- ENSL, CNRS, LGL-TPE, Univ Lyon, Univ Lyon 1, 69622, Villeurbanne, France
| | - Christophe Lécuyer
- ENSL, CNRS, LGL-TPE, Univ Lyon, Univ Lyon 1, 69622, Villeurbanne, France
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Mauve C, Giraud N, Boex-Fontvieille ERA, Antheaume I, Tea I, Tcherkez G. Kinetic commitment in the catalysis of glutamine synthesis by GS1 from Arabidopsis using 14N/ 15N and solvent isotope effects. Plant Physiol Biochem 2016; 108:203-211. [PMID: 27448794 DOI: 10.1016/j.plaphy.2016.07.015] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2016] [Accepted: 07/12/2016] [Indexed: 05/26/2023]
Abstract
Glutamine synthetase (GS, EC 6.3.1.2) catalyzes the production of glutamine from glutamate, ammonium and ATP. Although being essential in plants for N assimilation and recycling, kinetic commitments and transition states of the reaction have not been clearly established yet. Here, we examined 12C/13C, 14N/15N and H2O/D2O isotope effects in Arabidopsis GS1 catalysis and compared to the prokaryotic (Escherichia coli) enzyme. A14N/15N isotope effect (15V/K ≈ 1.015, with respect to substrate NH4+) was observed in the prokaryotic enzyme, indicating that ammonium utilization (deprotonation and/or amidation) was partially rate-limiting. In the plant enzyme, the isotope effect was inverse (15V/K = 0.965), suggesting that the reaction intermediate is involved in an amidation-deamidation equilibrium favoring 15N. There was no 12C/13C kinetic isotope effect (13V/K = 1.000), suggesting that the amidation step of the catalytic cycle involves a transition state with minimal alteration of overall force constants at the C-5 carbon. Surprisingly, the solvent isotope effect was found to be inverse, that is, with a higher turn-over rate in heavy water (DV ≈ 0.5), showing that restructuration of the active site due to displacement of H2O by D2O facilitates the processing of intermediates.
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Affiliation(s)
- Caroline Mauve
- Plateforme Métabolisme-Métabolome, Institute of Plant Science of Saclay (IPS2), Université Paris-Sud, 91405, Orsay Cedex, France
| | - Nicolas Giraud
- Institut de Chimie Moléculaire et des Matériaux d'Orsay, UMR 8182, Université Paris-Sud, 91405, Orsay Cedex, France
| | - Edouard R A Boex-Fontvieille
- Laboratoire de Biotechnologies végétales appliquées aux Plantes aromatiques et médicinales, Université Jean Monnet, 42023, Saint Etienne Cedex 2, France
| | - Ingrid Antheaume
- Laboratoire de Géologie de Lyon Terre, Planètes, Environnement. UMR 5276, Université de Lyon, 69361, Lyon Cedex 07, France
| | - Illa Tea
- Chimie Et Interdisciplinarité: Synthèse, Analyse, Modélisation, UMR 6230, Université de Nantes, Nantes Cedex 3, 44322, France; John Curtin School of Medical Research, ANU College of Medicine, Biology and Environment, Australian National University, Canberra ACT, 2601, Australia
| | - Guillaume Tcherkez
- Research School of Biology, ANU College of Medicine, Biology and Environment, Australian National University, Canberra ACT, 2601, Australia.
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Romek KM, Julien M, Frasquet-Darrieux M, Tea I, Antheaume I, Hankard R, Robins RJ. Human baby hair amino acid natural abundance 15N-isotope values are not related to the 15N-isotope values of amino acids in mother’s breast milk protein. Amino Acids 2013; 45:1365-72. [DOI: 10.1007/s00726-013-1597-7] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2013] [Accepted: 09/13/2013] [Indexed: 11/24/2022]
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Tea I, Le Guennec A, Frasquet-Darrieux M, Julien M, Romek K, Antheaume I, Hankard R, Robins RJ. Simultaneous determination of natural-abundance δ15N values and quantities of individual amino acids in proteins from milk of lactating women and from infant hair using gas chromatography/isotope ratio mass spectrometry. Rapid Commun Mass Spectrom 2013; 27:1345-1353. [PMID: 23681812 DOI: 10.1002/rcm.6582] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2013] [Revised: 03/15/2013] [Accepted: 03/27/2013] [Indexed: 06/02/2023]
Abstract
RATIONALE In isotope tracer experiments used in nutritional studies, it is frequently desirable both to determine the (15)N/(14)N ratios of target compounds and to quantify these compounds. This report shows how this can be achieved in a single chromatographic run for protein amino acids using an isotope ratio mass spectrometer. METHODS Protein hydrolysis by acidic digestion was used to release amino acids, which were then derivatized as their N-pivaloyl-O-isopropyl esters. Suitable conditions for sample preparation were established for both hair and milk proteins. The N-pivaloyl-O-isopropyl esters of amino acids were separated by gas chromatography (GC) on a 60 m ZB-WAX column linked via a combustion interface to an isotope ratio mass spectrometer. The (15)N/(14)N ratios were obtained from the m/z 28, 29 and 30 peak intensities and the quantities from the Area All (Vs) integrated peak areas. RESULTS It is shown from a five-point calibration curve that both parameters can be measured reliably within the range of 1.0 to 2.0 mg/mL for the major amino acids derived from the hydrolysis of human maternal milk or hair samples. The method was validated in terms of inter-day and inter-user repeatability for both parameters for 14 amino acids. The amino acid percentage composition showed a good correlation with literature values. The method was applied to determine the variability in a population of lactating mothers and their infants. CONCLUSIONS It has been established that δ(15)N values can be simultaneously determined for a complex mixture of amino acids at variable concentrations. It is shown that the percentage composition obtained correlates well with that obtained by calculation from the protein composition or from literature values. This procedure should provide a significant saving in analysis time, especially in those cases where the GC run-time is necessarily long. It allows the satisfactory determination of the variation within a sample population.
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Affiliation(s)
- Illa Tea
- Elucidation of Biosynthesis by Isotopic Spectrometry Group, CEISAM, LUNAM Université, University of Nantes-CNRS UMR6230, 2 rue de la Houssinière, BP 92208, F-44322 Nantes, France.
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Le Guennec A, Tea I, Antheaume I, Martineau E, Charrier B, Pathan M, Akoka S, Giraudeau P. Fast Determination of Absolute Metabolite Concentrations by Spatially Encoded 2D NMR: Application to Breast Cancer Cell Extracts. Anal Chem 2012; 84:10831-7. [DOI: 10.1021/ac3033504] [Citation(s) in RCA: 68] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Adrien Le Guennec
- Université de Nantes, CNRS, CEISAM UMR 6230,
B.P. 92208, 2 rue de la Houssinière, F-44322
Nantes Cedex 03, France
| | - Illa Tea
- Université de Nantes, CNRS, CEISAM UMR 6230,
B.P. 92208, 2 rue de la Houssinière, F-44322
Nantes Cedex 03, France
| | - Ingrid Antheaume
- Université de Nantes, CNRS, CEISAM UMR 6230,
B.P. 92208, 2 rue de la Houssinière, F-44322
Nantes Cedex 03, France
| | - Estelle Martineau
- Université de Nantes, CNRS, CEISAM UMR 6230,
B.P. 92208, 2 rue de la Houssinière, F-44322
Nantes Cedex 03, France
| | - Benoît Charrier
- Université de Nantes, CNRS, CEISAM UMR 6230,
B.P. 92208, 2 rue de la Houssinière, F-44322
Nantes Cedex 03, France
| | - Meerakhan Pathan
- Université de Nantes, CNRS, CEISAM UMR 6230,
B.P. 92208, 2 rue de la Houssinière, F-44322
Nantes Cedex 03, France
| | - Serge Akoka
- Université de Nantes, CNRS, CEISAM UMR 6230,
B.P. 92208, 2 rue de la Houssinière, F-44322
Nantes Cedex 03, France
| | - Patrick Giraudeau
- Université de Nantes, CNRS, CEISAM UMR 6230,
B.P. 92208, 2 rue de la Houssinière, F-44322
Nantes Cedex 03, France
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Tea I, Antheaume I, Zhang BL. A test to identify cyanide origin by isotope ratio mass spectrometry for forensic investigation. Forensic Sci Int 2012; 217:168-73. [DOI: 10.1016/j.forsciint.2011.10.046] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2011] [Revised: 10/10/2011] [Accepted: 10/25/2011] [Indexed: 11/17/2022]
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Tea I, Kosieradzka K, Antheaume I, Gentil E, Robins RJ. Determination of the concentration of nitrogenous bio-organic compounds using an isotope ratio mass spectrometer operating in continuous flow mode. Anal Bioanal Chem 2011; 401:1263-71. [DOI: 10.1007/s00216-011-5182-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2011] [Revised: 06/08/2011] [Accepted: 06/13/2011] [Indexed: 10/18/2022]
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Tea I, Antheaume I, Besnard J, Robins RJ. Determination of the natural abundance δ15N of taurine by gas chromatography-isotope ratio measurement mass spectrometry. Rapid Commun Mass Spectrom 2010; 24:3380-3386. [PMID: 21072793 DOI: 10.1002/rcm.4784] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
The measurement of the nitrogen isotope ratio of taurine (2-aminoethanesulphonic acid) in biological samples has a large number of potential applications. Taurine is a small water-soluble molecule which is notoriously difficult to analyze due to its polarity and functionality. A method is described which allows the determination of the natural abundance δ(15)N values of taurine and structural analogues, such as 3-amino-1-propanesulphonic acid (APSA), by isotope ratio mass spectrometry interfaced to gas chromatography (GC-irm-MS). The one-step protocol exploits the simultaneous derivatization of both functionalities of these aminosulphonic acids by reaction with triethylorthoacetate (TEOA). Conditions have been established which ensure quantitative reaction thus avoiding any nitrogen isotope fractionation during derivatization and workup. The differences in the δ(15)N values of derivatized and non-derivatized taurine and APSA all fall within the working range of 0.4‰ (-0.02 to 0.39‰). When applied to four sources of taurine with various δ(15)N values, the method achieved excellent reproducibility and accuracy. The optimized method enables the determination of the natural abundance δ(15)N values of taurine over the concentration range 1.5-7.84 µmol.mL(-1) in samples of biological origin.
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Affiliation(s)
- Illa Tea
- Elucidation of Biosynthesis by Isotopic Spectrometry Group, Unit for Interdisciplinary Chemistry: Synthesis-Analysis-Modelling (CEISAM), University of Nantes-CNRS UMR6230, 2 rue de la Houssinière, BP 92208, F-44322 Nantes, France.
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