Biomarker imaging of single diatom cells in a microbial mat using time-of-flight secondary ion mass spectrometry (ToF-SIMS)

Leefmann, Tim; Heim, Christine; Kryvenda, Anastasiia; Siljeström, Sandra; Sjövall, Peter; Thiel, Volker

doi:10.1016/j.orggeochem.2013.01.005

Cited by 49 publications

(41 citation statements)

References 51 publications

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“…Another way to obtain high mass resolution and spatial resolution together is to acquire HCBU and BA images on the same area, successively . However, switching from one mode to another takes significant time, especially if a large number of acquisitions is needed, and often the mass assignment is not precise enough with the poor mass resolution obtained in BA mode.…”

Section: Resultsmentioning

confidence: 99%

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Time‐of‐flight secondary ion mass spectrometry imaging of biological samples with delayed extraction for high mass and high spatial resolutions

Vanbellingen

Elie

Eller

et al. 2015

Rapid Comm Mass Spectrometry

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RationaleIn Time‐of‐Flight Secondary Ion Mass Spectrometry (TOF‐SIMS), pulsed and focused primary ion beams enable mass spectrometry imaging, a method which is particularly useful to map various small molecules such as lipids at the surface of biological samples. When using TOF‐SIMS instruments, the focusing modes of the primary ion beam delivered by liquid metal ion guns can provide either a mass resolution of several thousand or a sub‐µm lateral resolution, but the combination of both is generally not possible.MethodsWith a TOF‐SIMS setup, a delayed extraction applied to secondary ions has been studied extensively on rat cerebellum sections in order to compensate for the effect of long primary ion bunches.ResultsThe use of a delayed extraction has been proven to be an efficient solution leading to unique features, i.e. a mass resolution up to 10000 at m/z 385.4 combined with a lateral resolution of about 400 nm. Simulations of ion trajectories confirm the experimental determination of optimal delayed extraction and allow understanding of the behavior of ions as a function of their mass‐to‐charge ratio.ConclusionsAlthough the use of a delayed extraction has been well known for many years and is very popular in MALDI, it is much less used in TOF‐SIMS. Its full characterization now enables secondary ion images to be recorded in a single run with a submicron spatial resolution and with a mass resolution of several thousand. This improvement is very useful when analyzing lipids on tissue sections, or rare, precious, or very small size samples. © 2015 The Authors. Rapid Communications in Mass Spectrometry published by John Wiley & Sons Ltd.

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Section: Resultsmentioning

confidence: 99%

“…[12,13] In some cases it is possible to record images of a single cell. [14,15] Furthermore, TOF-SIMS is used in diverse areas, such as cosmo-chemistry, [16] and for the study of cultural heritage samples. [17,18] Compared with other molecular mass spectrometry imaging methods, e.g.…”

mentioning

confidence: 99%

Time‐of‐flight secondary ion mass spectrometry imaging of biological samples with delayed extraction for high mass and high spatial resolutions

Vanbellingen

Elie

Eller

et al. 2015

Rapid Comm Mass Spectrometry

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“…Other m/z peaks in the 250–300 amu range may also record different groups of ions bearing carboxylic groups like 255.23, 283.26, and 299.25 matching C 16 H 31 O 2 + , C 18 H 35 O 2 + , and C 18 H 35 O 3 + (supporting information Figure S11), which may represent positive fragments of some middle‐chained fatty acids (e.g., linoleic, oleic, and ricinoleic acids) that have also been identified by their negatively charged fragments (see supporting information Figure S14) [ Ostrowski et al ., ; Richter et al ., ]; as well as some N‐ and P‐bearing ions such as C 5 H 13 NPO 2 + and Na 5 P 2 O 7 + [ Vaezian et al ., ] detected at 150.02 and 186.90 amu, respectively (supporting information Figure S11). Positive ions with masses greater than 300 amu include ions detected at 311.28, 313.27, 339.25, and 341.28 amu, consistent with the C 19 H 35 O 3 + , C 19 H 37 O 3 + , C 21 H 39 O 3 + , and C 21 H 41 O 3 + which can be assigned to fragments of monoacylglycerols (MAGs) bearing long‐chained fatty acids [ Leefmann et al ., ]. Other positive m/z peaks of larger ions observed at 367.43, 368.44, 369.45, 378.71, 386.65, 390.66, 394.45, 396.47, and 402.38 (supporting information Figure S11) may represent still larger hydrocarbon ions such as C 27 H 43 + , C27H44+, C 27 H 45 + , C26H50O+, C28H50+, C 27 H 46 O +, C 27 H 50 O+, C 27 H 54 O + , C 28 H 44 O + , and C 28 H 50 O + which could be ions and fragments of sterol adducts and radicals of fungi like [M‐H] + and [M]+* [ Ghumman et al ., ; Leefmann et al ., ; Nygren et al ., ; Passarelly and Winograd , ].…”

Section: Resultsmentioning

confidence: 99%

“…Positive ions with masses greater than 300 amu include ions detected at 311. 28, 313.27, 339.25, and 341.28 [Leefmann et al, 2013a]. Other positive m/z peaks of larger ions observed at 367.…”

Section: Molecular Compositionmentioning

confidence: 93%

Formation of iron‐rich shelled structures by microbial communities

et al. 2015

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In this paper, we describe the discovery and characterization of shelled structures that occur inside galleries of Pyrenees mines. The structures are formed by the mineralization of iron and zinc oxides, dominantly franklinite (ZnFe 2 O 4 ) and poorly ordered goethite (α-FeO(OH)). Subsurface oxidation and hydration of polymetallic sulfide orebodies produce solutions rich in dissolved metal cations including Fe 2+/3+ and Zn 2+ . The microbially precipitated shell-like structure grows by lateral or vertical stacking of thin laminae of iron oxide particles which are accreted mostly by fungal filaments. The resulting structures are composed of randomly oriented aggregates of needle-like, uniform-sized crystals, suggesting some biological control in the structure formation. Such structures are formed by the integration of two separated shells, following a complex process driven likely by different strategies of fungal microorganisms that produced the complex macrostructure.

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“…The algal sample was taken from a microbial mat grown under artificial light during a flow tank experiment in the € Asp€ o Hard Rock Laboratory ('Tunnel of € Asp€ o', near Oskarshamn, SE Sweden; see Leefmann et al, 2013). Samples were prepared by breaking off small pieces of resin under a microscope, using a stainless steel scalpel whose blade had been pre-rinsed with distilled acetone.…”

Section: Methodsmentioning

confidence: 99%

Microbe‐like inclusions in tree resins and implications for the fossil record of protists in amber

et al. 2016

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During the past two decades, a plethora of fossil micro-organisms have been described from various Triassic to Miocene ambers. However, in addition to entrapped microbes, ambers commonly contain microscopic inclusions that sometimes resemble amoebae, ciliates, microfungi, and unicellular algae in size and shape, but do not provide further diagnostic features thereof. For a better assessment of the actual fossil record of unicellular eukaryotes in amber, we studied equivalent inclusions in modern resin of the Araucariaceae; this conifer family comprises important amber-producers in Earth history. Using time-of-flight secondary ion mass spectrometry (ToF-SIMS), we investigated the chemical nature of the inclusion matter and the resin matrix. Whereas the matrix, as expected, showed a more hydrocarbon/aromatic-dominated composition, the inclusions contain abundant salt ions and polar organics. However, the absence of signals characteristic for cellular biomass, namely distinctive proteinaceous amino acids and lipid moieties, indicates that the inclusions do not contain microbial cellular matter but salts and hydrophilic organic substances that probably derived from the plant itself. Rather than representing protists or their remains, these microbe-like inclusions, for which we propose the term 'pseudoinclusions', consist of compounds that are immiscible with the terpenoid resin matrix and were probably secreted in small amounts together with the actual resin by the plant tissue. Consequently, reports of protists from amber that are only based on the similarity of the overall shape and size to extant taxa, but do not provide relevant features at light-microscopical and ultrastructural level, cannot be accepted as unambiguous fossil evidence for these particular groups.

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Biomarker imaging of single diatom cells in a microbial mat using time-of-flight secondary ion mass spectrometry (ToF-SIMS)

Cited by 49 publications

References 51 publications

Time‐of‐flight secondary ion mass spectrometry imaging of biological samples with delayed extraction for high mass and high spatial resolutions

Time‐of‐flight secondary ion mass spectrometry imaging of biological samples with delayed extraction for high mass and high spatial resolutions

Formation of iron‐rich shelled structures by microbial communities

Microbe‐like inclusions in tree resins and implications for the fossil record of protists in amber

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