The organic geochemistry of glycerol dialkyl glycerol tetraether lipids: A review

doi:10.1016/J.ORGGEOCHEM.2012.09.006

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The organic geochemistry of glycerol dialkyl glycerol tetraether lipids: A review

Journal Article•DOI•

The organic geochemistry of glycerol dialkyl glycerol tetraether lipids: A review

Stefan Schouten, Ellen C. Hopmans, Jaap S. Sinninghe Damsté

01 Jan 2013-Organic Geochemistry (Pergamon)-Vol. 54, pp 19-61

TL;DR: Progress made over the last decade in the analysis, occurrence and recognition of sources of GDGTs, their applications as biomarker lipids, and the development and application of proxies based on their distributions are reviewed.

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About: This article is published in Organic Geochemistry.The article was published on 2013-01-01. It has received 795 citations till now. The article focuses on the topics: Archaeol.

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Journal Article•DOI•

Microbial Surface Colonization and Biofilm Development in Marine Environments

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Hongyue Dang¹, Charles R. Lovell²•Institutions (2)

Xiamen University¹, University of South Carolina²

01 Mar 2016-Microbiology and Molecular Biology Reviews

TL;DR: Recent progress in the study of marine microbial surface colonization and biofilm development is synthesized and discussed and questions are posed for targeted investigation of surface-specific community-level microbial features to advance understanding ofsurface-associated microbial community ecology and the biogeochemical functions of these communities.

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Abstract: SUMMARY Biotic and abiotic surfaces in marine waters are rapidly colonized by microorganisms. Surface colonization and subsequent biofilm formation and development provide numerous advantages to these organisms and support critical ecological and biogeochemical functions in the changing marine environment. Microbial surface association also contributes to deleterious effects such as biofouling, biocorrosion, and the persistence and transmission of harmful or pathogenic microorganisms and their genetic determinants. The processes and mechanisms of colonization as well as key players among the surface-associated microbiota have been studied for several decades. Accumulating evidence indicates that specific cell-surface, cell-cell, and interpopulation interactions shape the composition, structure, spatiotemporal dynamics, and functions of surface-associated microbial communities. Several key microbial processes and mechanisms, including (i) surface, population, and community sensing and signaling, (ii) intraspecies and interspecies communication and interaction, and (iii) the regulatory balance between cooperation and competition, have been identified as critical for the microbial surface association lifestyle. In this review, recent progress in the study of marine microbial surface colonization and biofilm development is synthesized and discussed. Major gaps in our knowledge remain. We pose questions for targeted investigation of surface-specific community-level microbial features, answers to which would advance our understanding of surface-associated microbial community ecology and the biogeochemical functions of these communities at levels from molecular mechanistic details through systems biological integration.

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696 citations

Cites background from "The organic geochemistry of glycero..."

..., glycerol dialkyl glycerol tetraether membrane lipids) (222) and may facilitate long-term carbon sequestration in the deep ocean and sediments (208)....
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Journal Article•DOI•

Occurrence and abundance of 6-methyl branched glycerol dialkyl glycerol tetraethers in soils : Implications for palaeoclimate reconstruction

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Cindy De Jonge, Ellen C. Hopmans, Claudia Zell, Jung-Hyun Kim, Stefan Schouten, Jaap S. Sinninghe Damsté - Show less +2 more

15 Sep 2014-Geochimica et Cosmochimica Acta

TL;DR: In this article, the authors quantified the fractional abundance of 6-methyl brGDGTs in globally distributed soils and showed that they are abundant components, comprising on average 24% of the total amount of brDGTs.

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361 citations

Journal Article•DOI•

The effect of improved chromatography on GDGT-based palaeoproxies

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Ellen C. Hopmans¹, Stefan Schouten¹, Jaap S. Sinninghe Damsté¹•Institutions (1)

Utrecht University¹

01 Mar 2016-Organic Geochemistry

TL;DR: In this article, the authors presented a method based on two ultra-high performance liquid chromatography silica columns capable of separating a wide range of GDGTs with good resolution and which compares favorably with previously published methods.

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331 citations

Cites background or methods from "The organic geochemistry of glycero..."

...…in the lower range this typically does not exceed 0.01 unit, representing a 0.8 ˚C 189 deviation, which is well within the reported calibration error of 2.5 ˚C reported by Kim et al. (2010) 190 as well as interlaboratory differences which range between 1.3 to 3.0 ˚C (Schouten et al., 2013b)....
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...38 Currently, the most commonly used analytical methodology (Schouten et al., 2013b) is a 39 normal phase separation on a cyano (CN) column using mixtures of hexane and isopropanol as 40 mobile phase followed by positive ion atmospheric pressure chemical ionization (APCI)-MS detection 41 in…...
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...Proxies based on GDGTs are now increasingly used in palaeoclimatology, 36 palaeoceanography and palaeolimnology to reconstruct palaeoenvironmental parameters (e.g. 37 Schouten et al., 2013a; Pearson and Ingalls, 2013)....
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Journal Article•DOI•

Cretaceous sea-surface temperature evolution: Constraints from TEX86 and planktonic foraminiferal oxygen isotopes

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Charlotte L O'Brien¹, Stuart A. Robinson¹, Richard D. Pancost², Jaap S. Sinninghe Damsté³, Stefan Schouten³, Daniel J. Lunt², Heiko Alsenz⁴, André Bornemann⁵, André Bornemann⁶, Cinzia Bottini⁷, Simon C. Brassell⁸, Alexander Farnsworth², Astrid Forster³, Brian T. Huber⁹, Gordon N. Inglis, Hugh C. Jenkyns¹, Christian Linnert¹⁰, Kate Littler¹⁰, Paul J. Markwick, Alison McAnena¹¹, Jörg Mutterlose¹², B. David A. Naafs, Wilhelm Püttmann⁴, Appy Sluijs³, Niels A. G. M. van Helmond³, Johan Vellekoop³, Thomas Wagner¹¹, Neil Wrobel - Show less +24 more•Institutions (12)

University of Oxford¹, University of Bristol², Utrecht University³, Goethe University Frankfurt⁴, University of California, San Diego⁵, Leipzig University⁶, University of Milan⁷, Indiana University⁸, National Museum of Natural History⁹, University College London¹⁰, Newcastle University¹¹, Ruhr University Bochum¹²

01 Sep 2017-Earth-Science Reviews

TL;DR: In this article, a compilation and synthesis of available planktonic foraminiferal δ18O and TEX86-SST proxy data for almost the entire Cretaceous Period is presented.

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331 citations

Cites background from "The organic geochemistry of glycero..."

...…that these inferred cool tropical temperatures reflect biased δ18Opl values derived from diagenetically altered, cool-biased planktonic foraminifera (Schrag et al., 1995; Pearson et al., 2001), indicating the importance of selecting only well-preserved foraminifera, i.e. “glassy” foraminifera…...
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...…equating to lower palaeotemperatures (Pearson et al., 2001; Sexton et al., 2006), a result of the precipitation of diagenetic calcite from relatively cold bottom waters or pore waters below the sea floor and the fast rate of carbonate recrystallization (Rudnicki et al., 2001; Schrag et al., 1995)....
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...For example, δ18Opl values can be compromised by preservation and/or diagenetic alteration (e.g., Schrag et al., 1995; Pearson et al., 2001), the carbonate ion effect (e.g., Spero et al., 1997; Zeebe, 2001), and uncertainties related to the δ18O of seawater in which the foraminifer calcified (e.g.,…...
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..., 2006), a result of the precipitation of diagenetic calcite from relatively cold bottom waters or pore waters below the sea floor and the fast rate of carbonate recrystallization (Rudnicki et al., 2001; Schrag et al., 1995)....
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...It has since been demonstrated that these inferred cool tropical temperatures reflect biased δ(18)Opl values derived from diagenetically altered, cool-biased planktonic foraminifera (Schrag et al., 1995; Pearson et al., 2001), indicating the importance of selecting only well-preserved foraminifera, i....
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Journal Article•DOI•

Innovative methods in soil phosphorus research: A review

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Jens Kruse¹, Jens Kruse², Marion Abraham³, Wulf Amelung⁴, Wulf Amelung², Christel Baum¹, Roland Bol⁴, Oliver Kühn¹, Hans Lewandowski⁴, Jörg Niederberger⁵, Yvonne Oelmann⁶, Christopher P. Rüger¹, Jakob Santner⁷, Meike Siebers², Nina Siebers⁴, Marie Spohn⁸, Johan Vestergren⁹, Angela Vogts³, Peter Leinweber¹ - Show less +15 more•Institutions (9)

University of Rostock¹, University of Bonn², Leibniz Institute for Baltic Sea Research³, Forschungszentrum Jülich⁴, University of Freiburg⁵, University of Tübingen⁶, University of Natural Resources and Life Sciences, Vienna⁷, University of Bayreuth⁸, Umeå University⁹

01 Feb 2015-Journal of Plant Nutrition and Soil Science

TL;DR: This review provides an overview of advanced state-of-the-art methods currently used in soil P research that involve bulk and spatially resolved spectroscopic and spectrometric P speciation methods.

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Abstract: Phosphorus (P) is an indispensable element for all life on Earth and, during the past decade, concerns about the future of its global supply have stimulated much research on soil P and method development. This review provides an overview of advanced state-of-the-art methods currently used in soil P research. These involve bulk and spatially resolved spectroscopic and spectrometric P speciation methods (1 and 2D NMR, IR, Raman, Q-TOF MS/MS, high resolution-MS, NanoSIMS, XRF, XPS, (µ)XAS) as well as methods for assessing soil P reactions (sorption isotherms, quantum-chemical modeling, microbial biomass P, enzymes activity, DGT, 33P isotopic exchange, 18O isotope ratios). Required experimental set-ups and the potentials and limitations of individual methods present a guide for the selection of most suitable methods or combinations.

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254 citations

Cites background from "The organic geochemistry of glycero..."

...The distribution of intact polar branched tetraether lipids in peat and soil have been studied (e.g., Peterse et al., 2011), and their soil environmental importance reviewed by Schouten et al. (2013)....
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References

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Journal Article•DOI•

A rapid method of total lipid extraction and purification.

[...]

E. G. Bligh¹, W. J. Dyer¹•Institutions (1)

Halifax¹

01 Aug 1959-Biochemistry and Cell Biology

TL;DR: The lipid decomposition studies in frozen fish have led to the development of a simple and rapid method for the extraction and purification of lipids from biological materials that has been applied to fish muscle and may easily be adapted to use with other tissues.

...read moreread less

Abstract: Lipid decomposition studies in frozen fish have led to the development of a simple and rapid method for the extraction and purification of lipids from biological materials. The entire procedure can...

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46,099 citations

Rapid method of total lipid extraction and purification

[...]

E G Bligh, Dyer W.J.A.

01 Jan 1959

43,570 citations

Journal Article•DOI•

Trends, Rhythms, and Aberrations in Global Climate 65 Ma to Present

[...]

James C Zachos¹, Mark Pagani¹, Lisa C. Sloan¹, Ellen Thomas², Ellen Thomas³, Katharina Billups⁴ - Show less +2 more•Institutions (4)

University of California, Santa Cruz¹, Yale University², Wesleyan University³, University of Delaware⁴

27 Apr 2001-Science

TL;DR: This work focuses primarily on the periodic and anomalous components of variability over the early portion of this era, as constrained by the latest generation of deep-sea isotope records.

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Abstract: Since 65 million years ago (Ma), Earth's climate has undergone a significant and complex evolution, the finer details of which are now coming to light through investigations of deep-sea sediment cores. This evolution includes gradual trends of warming and cooling driven by tectonic processes on time scales of 10(5) to 10(7) years, rhythmic or periodic cycles driven by orbital processes with 10(4)- to 10(6)-year cyclicity, and rare rapid aberrant shifts and extreme climate transients with durations of 10(3) to 10(5) years. Here, recent progress in defining the evolution of global climate over the Cenozoic Era is reviewed. We focus primarily on the periodic and anomalous components of variability over the early portion of this era, as constrained by the latest generation of deep-sea isotope records. We also consider how this improved perspective has led to the recognition of previously unforeseen mechanisms for altering climate.

...read moreread less

8,903 citations

Journal Article•DOI•

Archaea in coastal marine environments.

[...]

Edward F. DeLong¹•Institutions (1)

Woods Hole Oceanographic Institution¹

15 Jun 1992-Proceedings of the National Academy of Sciences of the United States of America

TL;DR: Evidence for the widespread occurrence of unusual archaea in oxygenated coastal surface waters of North America is provided and it is suggested that these microorganisms represent undescribed physiological types of archaea, which reside and compete with aerobic, mesophilic eubacteria in marine coastal environments.

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Abstract: Archaea (archaebacteria) are a phenotypically diverse group of microorganisms that share a common evolutionary history. There are four general phenotypic groups of archaea: the methanogens, the extreme halophiles, the sulfate-reducing archaea, and the extreme thermophiles. In the marine environment, archaeal habitats are generally limited to shallow or deep-sea anaerobic sediments (free-living and endosymbiotic methanogens), hot springs or deep-sea hydrothermal vents (methanogens, sulfate reducers, and extreme thermophiles), and highly saline land-locked seas (halophiles). This report provides evidence for the widespread occurrence of unusual archaea in oxygenated coastal surface waters of North America. Quantitative estimates indicated that up to 2% of the total ribosomal RNA extracted from coastal bacterioplankton assemblages was archaeal. Archaeal small-subunit ribosomal RNA-encoding DNAs (rDNAs) were cloned from mixed bacterioplankton populations collected at geographically distant sampling sites. Phylogenetic and nucleotide signature analyses of these cloned rDNAs revealed the presence of two lineages of archaea, each sharing the diagnostic signatures and structural features previously established for the domain Archaea. Both of these lineages were found in bacterioplankton populations collected off the east and west coasts of North America. The abundance and distribution of these archaea in oxic coastal surface waters suggests that these microorganisms represent undescribed physiological types of archaea, which reside and compete with aerobic, mesophilic eubacteria in marine coastal environments.

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2,687 citations

"The organic geochemistry of glycero..." refers background in this paper

...and linked for the first time the biphytanes to the newly discovered groups of marine mesophilic archaea (DeLong, 1992; Fuhrman et al., 1992)....
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...by way of the identification of archaeal 16s ribosomal RNA gene sequences in marine water, suggesting the presence of ‘nonextremophilic’ Archaea (DeLong, 1992; Fuhrman et al., 1992)....
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...DeLong (2006) suggested, on the basis of data reported by Ingalls et al....
[...]
...and linked for the first time the biphytanes to the newly discovered groups of marine mesophilic archaea (DeLong, 1992; Fuhrman et al., 1992). DeLong et al. (1998) provided further evidence for this hypothesis by releasing the same biphytanes from a sponge containing a single archaeal species, the Thaumarchaeote ‘‘Candidatus Cenarchaeum symbiosum’’ (note that Candidatus indicates that the nomenclature of the species is not officially accepted, e....
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Journal Article•DOI•

Isolation of an autotrophic ammonia-oxidizing marine archaeon

[...]

Martin Könneke¹, Anne E. Bernhard², Anne E. Bernhard¹, José R. de la Torre¹, Christopher B. Walker¹, John B. Waterbury³, David A. Stahl¹ - Show less +3 more•Institutions (3)

University of Washington¹, Connecticut College², Woods Hole Oceanographic Institution³

22 Sep 2005-Nature

TL;DR: The isolation of a marine crenarchaeote that grows chemolithoautotrophically by aerobically oxidizing ammonia to nitrite—the first observation of nitrification in the Archaea is reported, suggesting that nitrifying marine Cren archaeota may be important to global carbon and nitrogen cycles.

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Abstract: For years, microbiologists characterized the Archaea as obligate extremophiles that thrive in environments too harsh for other organisms. The limited physiological diversity among cultivated Archaea suggested that these organisms were metabolically constrained to a few environmental niches. For instance, all Crenarchaeota that are currently cultivated are sulphur-metabolizing thermophiles. However, landmark studies using cultivation-independent methods uncovered vast numbers of Crenarchaeota in cold oxic ocean waters. Subsequent molecular surveys demonstrated the ubiquity of these low-temperature Crenarchaeota in aquatic and terrestrial environments. The numerical dominance of marine Crenarchaeota--estimated at 10(28) cells in the world's oceans--suggests that they have a major role in global biogeochemical cycles. Indeed, isotopic analyses of marine crenarchaeal lipids suggest that these planktonic Archaea fix inorganic carbon. Here we report the isolation of a marine crenarchaeote that grows chemolithoautotrophically by aerobically oxidizing ammonia to nitrite--the first observation of nitrification in the Archaea. The autotrophic metabolism of this isolate, and its close phylogenetic relationship to environmental marine crenarchaeal sequences, suggests that nitrifying marine Crenarchaeota may be important to global carbon and nitrogen cycles.

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2,564 citations

"The organic geochemistry of glycero..." refers methods in this paper

...umarchaeota are chemoautotrophic, using ammonia oxidation as an energy source (Könneke et al., 2005; Francis et al., 2005; Hallam et al., 2006), as postulated earlier by Pearson (2006), and possess a novel pathway for fixing bicarbonate (Berg et al....
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