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  • 1
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    A multi-proxy study of anaerobic ammonium oxidation in marine sediments of the Gullmar Fjord, Sweden : Anammox in marine sediments of the Gullmar Fjord
    Wiley ; 2011
    In:  Environmental Microbiology Reports Vol. 3, No. 3 ( 2011-06), p. 360-366
    Details
    In: Environmental Microbiology Reports, Wiley, Vol. 3, No. 3 ( 2011-06), p. 360-366
    Type of Medium: Online Resource
    ISSN: 1758-2229
    URL: Article
    DOI: 10.1111/j.1758-2229.2010.00233.x
    Language: English
    Publisher: Wiley
    Publication Date: 2011
    detail.hit.zdb_id: 2485218-1
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  • 2
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    Aerobic and anaerobic methanotrophs in the Black Sea water column
    Wiley ; 2006
    In:  Environmental Microbiology Vol. 8, No. 10 ( 2006-10), p. 1844-1856
    Details
    In: Environmental Microbiology, Wiley, Vol. 8, No. 10 ( 2006-10), p. 1844-1856
    Abstract: Inputs of CH 4 from sediments, including methane seeps on the continental margin and methane‐rich mud volcanoes on the abyssal plain, make the Black Sea the world’s largest surface water reservoir of dissolved methane and drive a high rate of aerobic and anaerobic oxidation of methane in the water column. Here we present the first combined organic geochemical and molecular ecology data on a water column profile of the western Black Sea. We show that aerobic methanotrophs type I are responsible for methane oxidation in the oxic water column and ANME‐1‐ and ANME‐2‐related organisms for anaerobic methane oxidation. The occurrence of methanotrophs type I cells in the anoxic zone suggests that inactive cells settle to deeper waters. Molecular and biomarker results suggest that a clear distinction between the occurrence of ANME‐1‐ and ANME‐2‐related lineages exists, i.e. ANME‐1‐related organisms are responsible for anaerobic methane oxidation below 600 m water depth, whereas ANME‐2‐related organisms are responsible for this process in the anoxic water column above approximately 600 m water depth.
    Type of Medium: Online Resource
    ISSN: 1462-2912 , 1462-2920
    URL: Issue
    URL: Article
    DOI: 10.1111/emi.2006.8.issue-10
    DOI: 10.1111/j.1462-2920.2006.01079.x
    Language: English
    Publisher: Wiley
    Publication Date: 2006
    detail.hit.zdb_id: 2020213-1
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  • 3
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    Diversity and distribution of a key sulpholipid biosynthetic gene in marine microbial assemblages
    Wiley ; 2014
    In:  Environmental Microbiology Vol. 16, No. 3 ( 2014-03), p. 774-787
    Details
    In: Environmental Microbiology, Wiley, Vol. 16, No. 3 ( 2014-03), p. 774-787
    Abstract: Sulphoquinovosyldiacylglycerols ( SQDG ) are polar sulphur‐containing membrane lipids, whose presence has been related to a microbial strategy to adapt to phosphate deprivation. In this study, we have targeted the sqd B gene coding the uridine 5′‐diphosphate‐sulphoquinovose ( UDP‐SQ ) synthase involved in the SQDG biosynthetic pathway to assess potential microbial sources of SQDGs in the marine environment. The phylogeny of the sqd B ‐coding protein reveals two distinct clusters: one including green algae, higher plants and cyanobacteria, and another one comprising mainly non‐photosynthetic bacteria, as well as other cyanobacteria and algal groups. Evolutionary analysis suggests that the appearance of UDP‐SQ synthase occurred twice in cyanobacterial evolution, and one of those branches led to the diversification of the protein in members of the phylum P roteobacteria. A search of homologues of sqd B ‐proteins in marine metagenomes strongly suggested the presence of heterotrophic bacteria potential SQDG producers. Application of newly developed sqd B gene primers in the marine environment revealed a high diversity of sequences affiliated to cyanobacteria and P roteobacteria in microbial mats, while in N orth S ea surface water, most of the detected sqd B genes were attributed to the cyanobacterium S ynechococcus sp. Lipid analysis revealed that specific SQDGs were characteristic of microbial mat depth, suggesting that SQDG lipids are associated with specific producers.
    Type of Medium: Online Resource
    ISSN: 1462-2912 , 1462-2920
    URL: Issue
    URL: Article
    DOI: 10.1111/emi.2014.16.issue-3
    DOI: 10.1111/1462-2920.12202
    Language: English
    Publisher: Wiley
    Publication Date: 2014
    detail.hit.zdb_id: 2020213-1
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  • 4
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    Elucidation and identification of amino acid containing membrane lipids using liquid chromatography/high‐resolution mass spectrometry
    Wiley ; 2016
    In:  Rapid Communications in Mass Spectrometry Vol. 30, No. 6 ( 2016-03-30), p. 739-750
    Details
    In: Rapid Communications in Mass Spectrometry, Wiley, Vol. 30, No. 6 ( 2016-03-30), p. 739-750
    Abstract: Intact polar lipids (IPLs) are the building blocks of cell membranes, and amino acid containing IPLs have been observed to be involved in response to changing environmental conditions in various species of bacteria. High‐performance liquid chromatography/mass spectrometry (HPLC/MS) has become the primary method for analysis of IPLs. Many glycerol‐free amino acid containing membrane lipids (AA‐IPLs), which are structurally different than abundant aminophospholipids, have not been characterized using HPLC/MS. This results in many lipids remaining unrecognized in IPL analysis of microbial cultures and environmental samples, hampering the study of their occurrence and functionality. Methods We analyzed the amino acid containing IPLs of a number of bacteria (i.e. Gluconobacter cerinus , Cyclobacterium marinus , Rhodobacter sphaeroides , and Pedobacter heparinus ) in order to decipher fragmentation pathways, and explore potential novel lipid structures using HPLC/electrospray ionization ion trap MS (HPLC/ESI‐IT‐MS) and HPLC/high‐resolution MS (HPLC/HRMS). Results We report differentiation between glutamine and lysine lipids with the same nominal masses, novel MS fragmentation pathways of cytolipin, the lipopeptides cerilipin and flavolipin, head group hydroxylated ornithine lipids, and the novel identification of cerilipin with a hydroxylated fatty acid. Conclusions Non‐glycerol AA lipids can be readily recognized as their fragmentation follows a clear pattern with initial dehydration or other loss from the head group, followed by fatty acid losses resulting in a diagnostic fragment ion. Higher level MS n and HRMS are valuable tools in characterizing AA lipid head group structural components. Copyright © 2016 John Wiley & Sons, Ltd.
    Type of Medium: Online Resource
    ISSN: 0951-4198 , 1097-0231
    URL: Issue
    URL: Article
    DOI: 10.1002/rcm.v30.6
    DOI: 10.1002/rcm.7503
    Language: English
    Publisher: Wiley
    Publication Date: 2016
    detail.hit.zdb_id: 2002158-6
    detail.hit.zdb_id: 58731-X
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  • 5
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    Impact of trophic state on the distribution of intact polar lipids in surface waters of lakes
    Wiley ; 2016
    In:  Limnology and Oceanography Vol. 61, No. 3 ( 2016-05), p. 1065-1077
    Details
    In: Limnology and Oceanography, Wiley, Vol. 61, No. 3 ( 2016-05), p. 1065-1077
    Abstract: We characterized the intact polar lipid (IPL) composition in the surface waters of 22 lakes from Minnesota and Iowa, ranging in trophic state between eutrophic and oligo‐mesotrophic, to investigate the impact of trophic state on IPL composition. A high diversity of IPL classes was detected. Most IPL classes were detected in all lakes, but the eutrophic lakes contained a significantly higher relative abundance of lyso‐phosphatidylcholine (PC) than the oligo‐mesotrophic lakes, which in turn were characterized by significantly higher relative abundance of hydroxymethyltrimethyl‐alanine/trimethyl‐homoserine (DGTA/DGTS) betaines, ornithine lipids and the recently discovered trimethyl ornithine (TMO) lipids. The higher relative abundance of ornithines and TMOs may relate to a higher contribution of heterotrophic bacteria relative to phytoplankton while the higher abundance of the DGTA/DGTS betaines may relate to substitution by microorganisms of these non‐P lipids for PC under P‐stress, as has been observed in other environments. We also detected a variety of heterocyst glycolipids (HGs) derived from N 2 ‐fixing heterocystous Cyanobacteria in all lakes, suggesting the presence of these Cyanobacteria in the full range of trophic conditions. Correlation of HG abundance with environmental data showed that high productivity lakes have high HG abundances, while other distributional differences in HGs, which did not correlate with environmental parameters, are likely due to differences in species composition. We conclude that the significant differences in IPL composition between the eutrophic and oligo‐mesotrophic lakes are either due to adaptation of the membrane composition to nutrient conditions or due to general divergences in microbial composition under the different conditions.
    Type of Medium: Online Resource
    ISSN: 0024-3590 , 1939-5590
    URL: Issue
    URL: Article
    DOI: 10.1002/lno.v61.3
    DOI: 10.1002/lno.10274
    Language: English
    Publisher: Wiley
    Publication Date: 2016
    detail.hit.zdb_id: 2033191-5
    detail.hit.zdb_id: 412737-7
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  • 6
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    Fossilization and degradation of archaeal intact polar tetraether lipids in deeply buried marine sediments ( P eru M argin)
    Wiley ; 2014
    In:  Geobiology Vol. 12, No. 3 ( 2014-05), p. 212-220
    Details
    In: Geobiology, Wiley, Vol. 12, No. 3 ( 2014-05), p. 212-220
    Abstract: Glycerol dibiphytanyl glycerol tetraether ( GDGT ) lipids are part of the cellular membranes of T haumarchaeota, an archaeal phylum composed of aerobic ammonia oxidizers, and are used in the paleotemperature proxy TEX 86 . GDGT s in live cells possess polar head groups and are called intact polar lipids ( IPL ‐ GDGT s). Their transformation to core lipids ( CL ) by cleavage of the head group was assumed to proceed rapidly after cell death, but it has been suggested that some of these IPL ‐ GDGT s can, just like the CL ‐ GDGT s, be preserved over geological timescales. Here, we examined IPL ‐ GDGT s in deeply buried (0.2–186 mbsf, ~2.5 Myr) sediments from the P eru M argin. Direct measurements of the most abundant IPL ‐ GDGT , IPL ‐crenarchaeol, specific for T haumarchaeota, revealed depth profiles, which differed per head group. Shallow sediments ( 〈 1 mbsf) contained IPL ‐crenarchaeol with both glycosidic and phosphate head groups, as also observed in thaumarchaeal enrichment cultures, marine suspended particulate matter and marine surface sediments. However, hexose, phosphohexose‐crenarchaeol is not detected anymore below 6 mbsf (~7 kyr), suggesting a high lability. In contrast, IPL ‐crenarchaeol with glycosidic head groups is preserved over timescales of Myr. This agrees with previous analyses of deeply buried ( 〉 1 m) marine sediments, which only reported glycosidic and no phosphate‐containing IPL ‐ GDGT s. TEX 86 values of CL ‐ GDGT s did not markedly change with depth, and the TEX 86 of IPL ‐derived GDGT s decreased only when the proportions of monohexose‐ to dihexose‐ GDGT s changed, likely due to the enhanced preservation of the monohexose GDGT s. Our results support the hypothesis that in situ GDGT production and differential IPL degradation in sediments is not substantially affecting TEX 86 paleotemperature estimations based on CL – GDGT s and indicates that likely only a small amount of IPL ‐ GDGT s present in deeply buried sediments is part of cell membranes of active archaea. The amount of archaeal biomass in the deep biosphere based on these IPL s may have been substantially overestimated.
    Type of Medium: Online Resource
    ISSN: 1472-4677 , 1472-4669
    URL: Issue
    URL: Article
    DOI: 10.1111/gbi.2014.12.issue-3
    DOI: 10.1111/gbi.12081
    Language: English
    Publisher: Wiley
    Publication Date: 2014
    detail.hit.zdb_id: 2113509-5
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  • 7
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    A combined lipidomic and 16S rRNA gene amplicon sequencing approach reveals archaeal sources of intact polar lipids in the stratified Black Sea water column
    Wiley ; 2019
    In:  Geobiology Vol. 17, No. 1 ( 2019-01), p. 91-109
    Details
    In: Geobiology, Wiley, Vol. 17, No. 1 ( 2019-01), p. 91-109
    Abstract: Archaea are important players in marine biogeochemical cycles, and their membrane lipids are useful biomarkers in environmental and geobiological studies. However, many archaeal groups remain uncultured and their lipid composition unknown. Here, we aim to expand the knowledge on archaeal lipid biomarkers and determine the potential sources of those lipids in the water column of the euxinic Black Sea. The archaeal community was evaluated by 16S rRNA gene amplicon sequencing and by quantitative PCR . The archaeal intact polar lipids ( IPL s) were investigated by ultra‐high‐pressure liquid chromatography coupled to high‐resolution mass spectrometry. Our study revealed both a complex archaeal community and large changes with water depth in the IPL assemblages. In the oxic/upper suboxic waters ( 〈 105 m), the archaeal community was dominated by marine group ( MG ) I Thaumarchaeota, coinciding with a higher relative abundance of hexose phosphohexose crenarchaeol, a known marker for Thaumarchaeota. In the suboxic waters (80–110 m), MGI Nitrosopumilus sp. dominated and produced predominantly monohexose glycerol dibiphytanyl glycerol tetraethers ( GDGT s) and hydroxy‐ GDGT s. Two clades of MGII Euryarchaeota were present in the oxic and upper suboxic zones in much lower abundances, preventing the detection of their specific IPL s. In the deep sulfidic waters ( 〉 110 m), archaea belonging to the DPANN Woesearchaeota, Bathyarchaeota, and ANME ‐1b clades dominated. Correlation analyses suggest that the IPL s GDGT ‐0, GDGT ‐1, and GDGT ‐2 with two phosphatidylglycerol ( PG ) head groups and archaeol with a PG , phosphatidylethanolamine, and phosphatidylserine head groups were produced by ANME ‐1b archaea. Bathyarchaeota represented 55% of the archaea in the deeper part of the euxinic zone and likely produces archaeol with phospho‐dihexose and hexose‐glucuronic acid head groups.
    Type of Medium: Online Resource
    ISSN: 1472-4677 , 1472-4669
    URL: Issue
    URL: Article
    DOI: 10.1111/gbi.2019.17.issue-1
    DOI: 10.1111/gbi.12316
    Language: English
    Publisher: Wiley
    Publication Date: 2019
    detail.hit.zdb_id: 2113509-5
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  • 8
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    Incomplete recovery of intact polar glycerol dialkyl glycerol tetraethers from lacustrine suspended biomass : Incomplete recovery of intact polar GDGTs
    Wiley ; 2017
    In:  Limnology and Oceanography: Methods Vol. 15, No. 9 ( 2017-09), p. 782-793
    Details
    In: Limnology and Oceanography: Methods, Wiley, Vol. 15, No. 9 ( 2017-09), p. 782-793
    Type of Medium: Online Resource
    ISSN: 1541-5856
    URL: Article
    DOI: 10.1002/lom3.10198
    Language: English
    Publisher: Wiley
    Publication Date: 2017
    detail.hit.zdb_id: 2161715-6
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  • 9
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    Putative ammonia‐oxidizing Crenarchaeota in suboxic waters of the Black Sea: a basin‐wide ecological study using 16S ribosomal and functional genes and membrane lipids
    Wiley ; 2007
    In:  Environmental Microbiology Vol. 9, No. 4 ( 2007-04), p. 1001-1016
    Details
    In: Environmental Microbiology, Wiley, Vol. 9, No. 4 ( 2007-04), p. 1001-1016
    Abstract: Within the upper 400 m at western, central and eastern stations in the world's largest stratified basin, the Black Sea, we studied the qualitative and quantitative distribution of putative nitrifying Archaea based on their genetic markers (16S rDNA, amoA encoding for the alpha‐subunit of archaeal ammonia monooxygenase), and crenarchaeol, the specific glycerol diphytanyl glycerol tetraether of pelagic Crenarchaeota within the Group I.1a. Marine Crenarchaeota were the most abundant Archaea (up to 98% of the total archaeal 16S rDNA copies) in the suboxic layers with oxygen levels as low as 1 μM including layers where previously anammox bacteria were described. Different marine crenarchaeotal phylotypes (both 16S rDNA and amoA ) were found at the upper part of the suboxic zone as compared with the base of the suboxic zone and the upper 15–30 m of the anoxic waters with prevailing sulfide concentrations of up to 30 μM. Crenarchaeol concentrations were higher in the sulfidic chemocline as compared with the suboxic zone. These results indicate an abundance of putative nitrifying Archaea at very low oxygen levels within the Black Sea and might form an important source of nitrite for the anammox reaction.
    Type of Medium: Online Resource
    ISSN: 1462-2912 , 1462-2920
    URL: Issue
    URL: Article
    DOI: 10.1111/emi.2007.9.issue-4
    DOI: 10.1111/j.1462-2920.2006.01227.x
    Language: English
    Publisher: Wiley
    Publication Date: 2007
    detail.hit.zdb_id: 2020213-1
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  • 10
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    Spatial distribution of intact polar lipids in North Sea surface waters: Relationship with environmental conditions and microbial community composition
    Wiley ; 2012
    In:  Limnology and Oceanography Vol. 57, No. 4 ( 2012-07), p. 959-973
    Details
    In: Limnology and Oceanography, Wiley, Vol. 57, No. 4 ( 2012-07), p. 959-973
    Abstract: We characterized and quantified the intact polar lipid (IPL) composition of the surface waters of the North Sea and investigated its relationships with environmental conditions, microbial abundances, and community composition. The total IPL pool comprised at least 600 different IPL species in seven main classes: the glycerophospholipids phosphatidylcholine (PC), phosphatidylglycerol (PG), and phosphatidylethanolamine (PE); the sulfur‐bearing glycerolipid sulfoquinovosyldiacylglycerol (SQDG); and the nitrogen‐bearing betaine lipids diacylglyceryl‐trimethylhomoserine (DGTS), diacylglyceryl‐hydroxymethyltrimethylalanine (DGTA), and diacylglyceryl‐carboxyhydroxymethylcholine (DGCC). Although no significant relationships were found between the IPL composition and environmental parameters, such as nutrient concentrations, distance‐based ordination yielded distinct clusters of IPL species, which could in turn be tentatively correlated with the predominant microbial groups. SQDGs and PGs, as well as PC species containing saturated fatty acid moieties, were related to picoeukaryote abundances and PC species with polyunsaturated fatty acid (PUFA) moieties to nanoeukaryote abundances. The PEs were likely of mixed cyanobacterial–bacterial origin, whereas DGTA and DGCC species were mainly associated with cyanobacteria. DGTSs were likely derived from either pico‐ or nanoeukaryotes, although the DGTS species with PUFAs also showed some relationship with cyanobacterial abundances. Concentrations of the algal‐derived IPLs showed strong positive correlations with chlorophyll a concentrations, indicating they may be used as biomarkers for living photosynthetic microbes. However, direct relationships between the IPLs and microbial groups were relatively weak, implying that the predominant IPLs in marine surface waters are not derived from single microbial groups and that direct inferences of microbial community compositions from IPL compositions should be considered with care.
    Type of Medium: Online Resource
    ISSN: 0024-3590 , 1939-5590
    URL: Article
    URL: Article
    DOI: 10.4319/lo.2012.57.4.0959
    DOI: 10.4319/lo.2012.57.4.0959a
    Language: English
    Publisher: Wiley
    Publication Date: 2012
    detail.hit.zdb_id: 2033191-5
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