Types of biomarkers (molecular markers) to assess organic matter
DOI:
https://doi.org/10.5935/1809-2667.20120007Keywords:
Biomarkers, Organic matter, DiagenesisAbstract
Biomarkers are specific compounds characteristic of certain bodies, and their identification in natural environments allows inferences about the origin and evolution processes of organic matter. They are organic molecules which may be structurally related to a biological source, a biogeochemical process, or a specific geographical source. Geochemical markers provide information about sources, transport mechanisms, alterations, and sedimentation of organic matter. In addition, tracers must be stable during geochemical diagenesis, and easily detected in environmental samples. This review aims to show the use of different organic molecules used in the identification of organic matter.Downloads
References
BENNER, R.; WELIKY, K.; HEDGES, J.I. Early diagenesis of mangrove leaves in a tropical estuary: Molecular-level analyses of neutral sugars and lignin-derived phenols. Geochimica et Cosmochimica Acta, v. 51, p. 1991-2001, 1990.
BERGAMASCHI, B.A.; TSAMAKIS, E.; KEIL, R.G.; EGINTON, T.I.; MONTLUÇON, D.B.; HEDGES, J.I. The effect og grain size and surgace area on organic matter, lignin, carbohydrates concentration, and molecular composition in Peru margin sediments. Geochimica et Cosmochimica Acta, v. 61, p.1247-1260, 1997.
BIANCHI, T.S.; MITRA, S.; MCKEE, B.A. Sources of terrestialy-derived organic carbon in lower Mississipi River and Louisiana shelf sediments: implications for differential sedimentation and transport at the coastal margin. Marine Chemistry, v.77, p. 211-223. 2002.
CARREIRA, R.; WAGENER, A. L. R.; READMAN, J.W.; FILEMAN, T. Distribuição de coprostanol (5(H)-COLESTAN-3-OL) em sedimentos superficiais da Baia de Guanabara: indicador da poluição recente por esgotos domésticos. Química Nova, v.24, p. 37-42, 2001.
CARREIRA, R.S.; WAGENER, A.L.R.; READMAN, J.W. Sterols as markers of sewage contamination in a tropical urban estuary (Guanabara Bay, Brazil): space–time variations. Estuarine, coastal and Shelf Science, v.60, p. 587-598, 2004.
COSTA, T.L.F.; ARAÚJO, M.P.; CARREIRA, R.S. Lipídios como indicadores de fontes e distribuição de matéria orgânica particulada em um complexo estuarinolagunar tropical (Mundaú-Manguaba, AL). Química Nova, v.33, p. 1915 1922, 2010.
COWIE, G. L; HEDGES, J.I. Carbohydrate sources in a coastal marine environment. Geochimica ef Cosmochimica Acta, v.48, p. 2075-208, 1984.
COWIE, G.L.; HEDGES, J.I. Sources and reactivities of amino acids in a coastal marine environment. Limnology and Oceanography, v.37, p. 703-724, 1992.
DAUWE, B.; MIDDELBURG, J.J. Amino acids and hexosamines as indicators of organic matter degradation state in North Sea sediments. Limnology and Oceanography, v.43, p. 782-798, 1998.
DECHO, A.W. Microbial exopolymer secretions in open ocean environments: their role(s) in food webs and marine progresses. Oceanography and Marine Biology Annual Review, v. 28, p.73–153, 1990.
DITTMAR, T; LARA, R. Molecular evidence for lignin degradation in sulfate reducing mangrove sediments (Amazônia, Brazil). Geochimica et Cosmochimica Acta, v. 65, p. 1403-1414, 2001.
D’SOUZA, F.; GARGA, A.; BHOSLE, N. Seasonal variation in the chemical composition and carbohydrate signature compounds of biofilm. Aquatic Microbial Ecology, v. 41, p. 199–207, 2005.
GONEEA, M.E.; PAYTAN, A.; HERRERA-SILVEIRA, J.A. Tracing organic matter sources and carbon burial in mangrove sediments over the past 160 years. Estuarine, Coastal and Shelf Science, v.61, p. 211-227, 2004.
GORDON, E.; GOÑI, M.A. Sources and distribution of terrigenous organic matter delivery by the Atchalafaya River to sediments in the northern Gulf Mexico. Geochimica et Cosmochimica Acta, v. 67, p. 2359-2375, 2003.
GREEN, G.; NICHOLS, P.D. Hydrocarbons and sterols in marine sediments and soils at Davis Station, Antarctica: a survey for human-derived contaminants. Antartic Science, v. 7, p. 137-144, 1995.
GRIMALT, J.O.; FERNANDES, P., BAYONA, J.M.; ALBALGÉS, J. Assessment of Fecal Sterols and Ketones as Indicators of Urban Sewage Inputs to Coastal Waters. Environmental Science and Technology, v.24, p. 357-362, 1990.
GRUTTERS, M.; RAAPHORST, W.; HELDER, W. Total hydrolysable amino acid mineralisation in sediments across the northeastern Atlantic continental slope (Goban Spur). Deep-Sea Research, v.48, p. 811-832, 2001.
HEDGES, J.I. Tannin diagenesis in mangrove leaves from a tropical estuary: A novel molecular approach. Geochimica et Cosmochimica Acta, v.65, p.3109-3122, 2001.
HEDGES, J; KEIL, R.G.; BENNER, R. What happens to terrestrial organic matter in the ocean? Organic Geochemistry, v.27, p. 195-212, 1997.
HEDGES, J.I.; COWIE, G.L.; RICHEY, J.F. Origins and processing of organic matter in the Amazon River as indicated by carbohydrates and amino acids. Limnology and Oceanography, v.39, p. 743-761, 1994.
HEDGES, J.I.; PRAHL, F.G. Early diagenesis: consequences for applications of molecular biomarkers. In: ENGEL, M. H.; MACKO, S. A. (Eds.). Organic Geochemistry – Principles and Applications. New York: Plenum Press, 861. p. 1993.
HEDGES, J. I.; CLARK, W. A.; COWIE, G. L. Fluxes and reactivities of organic matter in a coastal marine bay. Limnology and Oceanography, v.33, p. 1137-1152, 1988.
HEDGES, J.I. & ERTEL, J.R. Caracterization of lignin by gas capillary chromatography of cupric oxide oxidation products. Analytical Chemistry, v.54, p. 174-178, 1982.
HEDGES, J.I., MANN, D.C. The characterization of plant tissues by their lignin oxdation products. Geochimica et Cosmochimica Acta, v. 43, p. 1803-1807, 1979.
HEDGES, J. I.; PARKER, P. L. Land-derived organic matter in surface sediments from the Gulf of Mexico. Geochimica et Cosmochimica Acta, v.40, p. 1019-1029, 1976.
HERNES, P.J.; HEDGES, J.I. Tannin signatures of barks, needles, leaves, cones, and wood at the molecular level. Geochimica et Cosmochimica Acta, v.68, p. 1293-1307, 2004.
HERNES, P.J.; BENNER, R.; COWIE, G.L.; GOÑI, M.A.; BERGAMASCHI, B.A.; HEDGES, J.I. Tannin diagenesis in mangrove leaves from a tropical estuary: A novel molecular approach. Geochimica et Cosmochimica Acta, v.65, p.3109-3122, 2001.
HERNES, P.J.; HEDGES, J.I. Determination of Condensed Tannin Monomers in Environmental Samples by Capillary Gas Chromatography of Acid Depolymerization Extracts. Analytical Chemistry, v.72, p.5115-5124, 2000.
HERNES, P.J.; HEDGES, J.I.; PETERSON, M.L.; WAKEHAM, S.G.; LEE, C. Neutral carbohydrate geochemistry of particulate material in the entral equatorial Pacific. Deep Sea Research II, v.43, p.1181-1204, 1996.
KEIL, R.G.; FOGEL, M.L. Reworking of amino acid in marine sediments: Stable carbon isotopic composition of amino acids in sediments along the Washington coast. Limnology and Oceanography, v.46, p. 14-23, 2001.
KHODSE, V.B.; BHOSLE, N.B.; MATONDKAN, S.G.P. Distribution of dissolved carbohydrates and uronic acids in a tropical estuary, India. Journal of Earth SystemScience, v.4, p. 519-530, 2010.
KULÍNSKI, K.; SWIETA-MUSZNICKA, J.; STANISZEWSKI, A.; PEMPKOWIAK, J.; LATALOWA, M. Lignin degradation products as palaeovironmental proxies in the sediments of small lakes. Journal Paleolimnology. v.38, p. 555-567, 2007.
LALLIER-VÉRGES, E.;MARCHAND, C.; DISNAR, J.R.; LOTTIER, N. Origin and diagenesis of lignin and carbohydrates in mangrove sediments of Gadaloupe (French West Indies): Evidence for a two-step evolution of organic deposits. Chemical Geology, v. 255, p. 388-398, 2008.
LAURCELLARD, J; SALIOT, A. Biomarkers in organic matter produced in estuaries: a case study of the Krka estuary (Adriatic Sea) using the sterol marker series. Marine Chemistry, v.43, p. 247-261, 1993.
LOH, P.S.; REEVES, A.D.; HARVEY, S.M.; OVERNELL, J.; MILLER, A.E.J. The fate of terrestrial organic matter in two Scottish sea lochas. Estuarine, Coastal and Shelf Science, v.76, p. 566-579, 2008.
LOUCHOUARN, P., LUCOTTE, M., CANUEL, R.,GAGNÉ, J.P & RICHARD, L.F. Sources and early diagenesis of lignin and bulk organic matter in the sediments of the Lower St. Lawrence Estuary and the Saguenay Fjord. Marine Chemistry, v.58, p. 3-26, 1997.
LOUCHOUARN, P.; AMON, R.M.W.; DUAN, S.; PONDELL, C.; SEWARD, S.M.; WHITE, N. Analysis of lignin-derived phenols in standard reference materials and ocean dissolved organic matter by gas chromatography/tandem mass spectrometry. Marine Chemistry, v.118, p.85-97, 2010.
MALDONADO, C.; VENKATESAN, M.I.; PHILLIPS, C.R.; BAYONA, J.M. Distribution of Trialkylamines and Coprostanol in San Pedro Shelf Sediments Adjacent to a Sewage Outfall. Marine Pollution Bulletin, v.40, p. 680-687, 2000.
MARCHAND, C.; DISNAR, J.R.; LALLIER-VÉRGES, E.; LOTTIER, N. Early diagenesis og carbohydrates and lignin in mangrove sediments subject to variable redox conditons (French Guiana). Geochimica et Cosmoschimica Acta, v. 69, p. 131-142, 2005.
MARTINS, C.C.; GOMES, F.B.A.; FERREIRA, J.A.; MONTONE, R.C. Marcadores orgânicos de contaminação por esgotos sanitários em sedimentos superficiais da baía de Santos, São Paulo. Química Nova, v.31, p. 1008-1014, 2008.
MEZIANE, T.; TSUCHYA, M. Fatty acids as tracers of organic matter in the sediment and food web of a mangrove intertidal flat ecosystem, Okinawa, Japan. Marine Ecology Progress Series, v. 200, p. 49-57, 2000.
MUDGE, S.M.; NORRIS, C. E. Lipid biomarkers in the Conwy Estuary (North Wales, U.K.): a comparison between fatty alcohols and sterols. Marine Chemistry, v.57, p. 61-84, 1997.
MUDGE, S.M.; SEGUEL, C.G. Organic Contamination of San Vicente Bay, Chile. Marine Pollution Bulletin, v.38, p. 1011-1021, 1999.
OAKES, J.M.; EYRE, B.D.; MIDDELBURG, J.J.; BOSCHKER, H.T.S. Composition, production, and loss of carbohydrates in subtropical shallow subtidal sandy sediments: Rapid processing and long-term retention revealed by 13C-labeling. Limnology and Oceanography, v.55, p. 2126-2138, 2010.
ONSTAD, G. D.; CANFIELD, D.E.; QUAY, P.D.; HEDGES, J.I. Sources of particulate organic matter in rivers from the continental USA: liginin phenol and stable carbon isotope compositions. Geochimica et Cosmochimica Acta, v. 64, p. 3539-3546, 2000.
OPSAHL, S.; BENNER, R. Early diagenesis of vascular plant tissues: Lignin and cutin decomposition and biogeochemicai implications. Geochimica et Cosmochimica Acta, v. 59, p. 4889-4904, 1995.
OPSAHL, S.; BENNER, R. Characterization of carbohydrates during early diagenesis of five vascular plant tissues. Organic Geochemistry, v.30, p. 83-94, 1999.
PAKULSKI, J. D.; BENNER, R. Abundance and distribution of carbohydrates in the ocean. Limnology and Oceanography, v.39, p. 930-940, 1994.
PENG, X.; ZHANG, G.; MAI, B.; HU, J.; LI, K.; WANG, Z. Tracing anthropogenic contamination in the Pearl River estuarine and marine environment of South China Sea using sterols and other organic molecular markers. Marine Pollution Bulletin, v.50, p.856–865, 2005.
THOUMELIN, G; BODINEAU, L.; WARTEL, M. Origin and transport of organic matter across the Seine estuary: fatty acid and sterol variations. Marine Chemistry, v.58, p. 59-71, 1997.
VOLKMAN, J.K.; BARRET, S.M.; BLACKBURN, S.I.; MONSOUR, M.P.; SIKES, E.L.; GELIN, F. Microalgal biomarkers: A review of recent research developments. Organic Geochemistry, v.929, p. 1163-1179, 1998.
VOLKMAN, J.K. Lipids markers for marine organic matter. The handbook of Environmental Chemistry, v.2, p. 25:50, 2006.
WAKEHAM, S.G.; HEDGES, J.I.; LEE, C.; PETERSON, M.L.; HERNES, P.J. Composition and transport of lipid biomarkers through the water column and surficial sediments of the equatorial Pacific Ocean. Deep-Sea Research, v.44, p. 2131-2162, 1997.
WAKEHAM, S.G.; LEE, C; HEDGES, J.I.;.HERNES, P.J.; PETERSON, M.L. Molecular indicators of diagenetic status in marine organic matter. Geochimica et Cosmochimica Acta, v.61, p. 5363-5369, 1997.
YOSHINAGA, M.Y.; SUMIDA, P.Y.G.; WAKEHAM, S.G. Lipid biomarkers in surface sediments from an unusual coastal upwelling area from the SW Atlantic Ocean. Organic Geochemistry, v.39, p. 1385-1399, 2008.
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