Sedimentary Cobalt Protoporphyrin as a Potential Precursor of Prosthetic Heme Group for Bacteria Inhabiting Fossil Organic Matter-Rich Shale Rock

This study hypothesizes that bacteria inhabiting shale rock affect the content of the sedimentary cobalt protoporphyrin present in it and can use it as a precursor for heme synthesis. To verify this hypothesis, we conducted qualitative and quantitative comparative analyses of cobalt protoporphyrin as well as heme, and heme iron in shale rock that were (i) inhabited by bacteria in the field, (ii) treated with bacteria in the laboratory, and with (iii) bacterial culture on synthetic cobalt protoporphyrin. Additionally, we examined the above-mentioned samples for the presence of enzymes involved in the heme biosynthesis and uptake as well as hemoproteins. We found depletion of cobalt protoporphyrin and a much higher heme concentration in the shale rock inhabited by bacteria in the field as well as the shale rock treated with bacteria in the laboratory. Similarly, we observed the accumulation of protoporphyrin in bacterial cells grown on synthetic cobalt protoporphyrin. We detected numerous hemoproteins in metaproteome of bacteria inhabited shale rock in the field and in proteomes of bacteria inhabited shale rock and synthetic cobalt protoporhyrin in the laboratory, but none of them had all the enzymes involved in the heme biosynthesis. However, proteins responsible for heme uptake, ferrochelatase and sirohydrochlorin cobaltochelatase/sirohydrochlorin cobalt-lyase were detected in all studied samples.

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Preliminary Study on In Situ Realtime Quantitation of Target Bacteria on the Principle of Flow Cytometry

Solid State Phenomena ◽

10.4028/www.scientific.net/ssp.262.224 ◽

2017 ◽

Vol 262 ◽

pp. 224-227

Author(s):

Gen Murakami ◽

Yuichi Sugai ◽

Kyuro Sasaki

Keyword(s):

Flow Cytometry ◽

Bacterial Culture ◽

Scattered Light ◽

Bacterial Suspension ◽

Culture Solution ◽

Bacterial Cells ◽

Monitoring Wells ◽

Measurement Principle ◽

Preliminary Study

In-situ realtime method that can monitor the target bacteria should be used to determine the real situation of the bacteria in deep parts of heaps in heap bioleaching plants. This study suggest to apply flow cytometry technology to in-situ realtime monitoring of target bacteria. Flow cytometry is a method that can rapidly quantify the bacterial cells in bacterial suspension based on the detection of lights that are emitted from bacterial cells. In this study, we estimated the possibility of the application of flow cytometry to the selective detection of target bacteria. The bacterial culture solution that had been diluted by water including other bacteria was provided for fluorescence spectral analysis and scattered light analysis that were functions of flow cytometry. Our target bacteria could be selectively detected by those analyses in this study, therefore, it was shown that the flow cytometry could be useful for detecting target bacteria selectively. Because the measurement principle of flow cytometry is quite simple, it can be expected to be installed into deep heaps through the monitoring wells and determine the dominance of target bacteria in-situ and realtime in the future.

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Dioxygenation of Human Serum Albumin Having a Prosthetic Heme Group in a Tailor-Made Heme Pocket

Journal of the American Chemical Society ◽

10.1021/ja046022t ◽

2004 ◽

Vol 126 (44) ◽

pp. 14304-14305 ◽

Cited By ~ 34

Author(s):

Teruyuki Komatsu ◽

Naomi Ohmichi ◽

Patricia A. Zunszain ◽

Stephen Curry ◽

Eishun Tsuchida

Keyword(s):

Human Serum Albumin ◽

Serum Albumin ◽

Human Serum ◽

Heme Group ◽

Heme Pocket ◽

Prosthetic Heme Group

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Adhesion ofE. coliBacteria Cells to Prosthodontic Alloys Surfaces Modified by TiO2Sol-Gel Coatings

Advances in Materials Science and Engineering ◽

10.1155/2013/179241 ◽

2013 ◽

Vol 2013 ◽

pp. 1-6 ◽

Cited By ~ 3

Author(s):

Katarzyna Banaszek ◽

Witold Szymanski ◽

Bożena Pietrzyk ◽

Leszek Klimek

Keyword(s):

Titanium Dioxide ◽

Bacterial Adhesion ◽

Culture Medium ◽

Bacterial Culture ◽

Bare Metal ◽

Bacterial Cells ◽

E Coli ◽

Modified Surfaces ◽

Bare Substrate ◽

Scanning Electron

The evaluation of the degree of bacteriaE. coliadhesion to modified surfaces of the chosen prosthodontic alloys was presented. The study was carried out on Co-Cr (Wironit), Ni-Cr (Fantocer), and Fe-Cr-Ni (Magnum AN) alloys. Bare substrate as a control and titanium dioxide coated samples were used. The samples were placed for 24 hours in bacterial culture medium. After incubation period, a number of bacterial cells were evaluated by scanning electron microscope. The study revealed that modification of the alloy surfaces by titanium dioxide coating significantly decreases the amount of bacteria adhering to the surfaces and that additionally bare metal alloy substrates have a different degree of susceptibility to bacterial adhesion.

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1H-NMR studies of the coordination geometry at the heme iron and the electronic structure of the heme group in cytochrome c-552 from Euglena gracilis

Biochimica et Biophysica Acta (BBA) - Protein Structure ◽

10.1016/0005-2795(80)90192-0 ◽

1980 ◽

Vol 626 (1) ◽

pp. 15-22 ◽

Cited By ~ 28

Author(s):

Regula M. Keller ◽

Abel Schejter ◽

Kurt Wüthrich

Keyword(s):

Electronic Structure ◽

Cytochrome C ◽

1H Nmr ◽

Euglena Gracilis ◽

Heme Iron ◽

Coordination Geometry ◽

Heme Group ◽

Nmr Studies

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Inhibition of hemolytic activity of Streptococcus pyogenes in mechanisms of antibacterial action of zinc ions

Journal of microbiology epidemiology immunobiology ◽

10.36233/0372-9311-2019-5-16-23 ◽

2019 ◽

pp. 16-23

Author(s):

S. B. Cheknev ◽

E. I. Vostrova ◽

M. A. Sarycheva ◽

A. V. Vostrov

Keyword(s):

Growth Inhibition ◽

Streptococcus Pyogenes ◽

Hemolytic Activity ◽

Inhibitory Action ◽

Bacterial Culture ◽

Copper Ions ◽

Zinc Ions ◽

Bacterial Cells ◽

Bacterial Cultures ◽

Culture Growth

Aim. The work was performed with the purpose to study a hemolytic activity in the culture of S.pyogenes under the inhibitory action of millimolar concentrations of zinc ions.Materials and methods. Suspensions of S.pyogenes bacteria which contained 108 CFU/ml were sown by the lawns into the standard Petri dishes coated with the supplemented Blood Nutrient Agar. 30 min later the salt solutions of zinc or copper which contained the metals at the concentrations ranged between 5 x 10-3 M to 5 x 10-1 M were added by the 5 μl drops on the surfaces of the lawns with use of 36-channel stamp replicator. Then the dishes with bacterial cultures were incubated for 24 hrs at 37°C followed by measuring diameter of the area of culture growth inhibition and of the area of inhibition of hemolysis. The study was performed with use of controls towards measuring the state of bacterial cells obtained from different zones of the areas.Results. In presence of the zinc ions concentrations ranged between 50 to 500 mM the area of the growth inhibition of S.pyogenes was surrounded on the lawn of the bacterial culture by the area of the inhibition of hemolysis where the growth inhibition of S.pyogenes was not registered. Copper ions did not form such an area of the hemolysis inhibition.Conclusion. Inhibitory action of zinc ions on the hemolytic S.pyogenes activity in the culture seems to be specific and reversible, and is discussed in a context of the antivirulent zinc ions properties.

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Bacteria autoaggregation: how and why bacteria stick together

Biochemical Society Transactions ◽

10.1042/bst20200718 ◽

2021 ◽

Author(s):

El-shama Q. A. Nwoko ◽

Iruka N. Okeke

Keyword(s):

Protein Interaction ◽

Biofilm Formation ◽

Ex Vivo ◽

Therapeutic Targets ◽

Phase Variation ◽

Bacterial Adherence ◽

Specific Interactions ◽

Bacterial Cells ◽

Qualitative And Quantitative

Autoaggregation, adherence between identical bacterial cells, is important for colonization, kin and kind recognition, and survival of bacteria. It is directly mediated by specific interactions between proteins or organelles on the surfaces of interacting cells or indirectly by the presence of secreted macromolecules such as eDNA and exopolysaccharides. Some autoaggregation effectors are self-associating and present interesting paradigms for protein interaction. Autoaggregation can be beneficial or deleterious at specific times and niches. It is, therefore, typically regulated through transcriptional or post-transcriptional mechanisms or epigenetically by phase variation. Autoaggregation can contribute to bacterial adherence, biofilm formation or other higher-level functions. However, autoaggregation is only required for these phenotypes in some bacteria. Thus, autoaggregation should be detected, studied and measured independently using both qualitative and quantitative in vitro and ex vivo methods. If better understood, autoaggregation holds the potential for the discovery of new therapeutic targets that could be cost-effectively exploited.

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Heme Pocket Architecture in Human Serum Albumin: Regulation of O2Binding Affinity of a Prosthetic Heme Group by Site-Directed Mutagenesis

Macromolecular Symposia ◽

10.1002/masy.200851022 ◽

2008 ◽

Vol 270 (1) ◽

pp. 187-192 ◽

Cited By ~ 1

Author(s):

Teruyuki Komatsu ◽

Akito Nakagawa ◽

Eishun Tsuchida

Keyword(s):

Human Serum Albumin ◽

Serum Albumin ◽

Human Serum ◽

Site Directed Mutagenesis ◽

Directed Mutagenesis ◽

Heme Group ◽

Heme Pocket ◽

Prosthetic Heme Group

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Molecular ecology of anaerobic granular sludge grown at different conditions

Water Science & Technology ◽

10.2166/wst.2003.0357 ◽

2003 ◽

Vol 48 (6) ◽

pp. 57-64 ◽

Cited By ~ 29

Author(s):

E. Díaz ◽

R. Amils ◽

J.L. Sanz

Keyword(s):

Inner Core ◽

Molecular Ecology ◽

Methanogenic Archaea ◽

Granular Sludge ◽

Anaerobic Granular Sludge ◽

Bacterial Cells ◽

High Concentration ◽

Qualitative And Quantitative ◽

Low Concentrations

Qualitative and quantitative diversity of microorganisms present in anaerobic granular sludges fed with different substrates, as well as the structure of these granules have been studied using fluorescent 16S rRNA-targeted in situ hybridization and electron microscopy. The granules showed a multi-layered structure, in which both densely packed and loose micro-colonies, channels and holes could be observed. Only bacteria were found in the outer shell of the granules, while both archaea and bacteria were detected in the inner core. Although high cell density was found in the granules (more than 1011 cells/gram, determined by DAPI-stain) only a low percentage of cells was able to hybridize with the rRNA-targeted probes. Significant quantitative and qualitative differences were observed in the composition of granules fed with different substrates (formate, acetate at high and low concentrations, propionate, sucrose, starch and peptone). Bacterial cells were mostly gram-positives. Active proteobacteria were scarce in the granules exposed to VFA. Syntrophobacteria became dominant in the propionate-grown biomass. Concerning methanogenic archaea, Methanosaeta was the predominant species using complex substrates or low acetate concentration fed granules, while Methanosarcina and members of Methanobacteriales were predominant in the granules grown at high concentration of acetate or formate, respectively. Other Methanomicrobiales and Methanococcales, have been detected in the anaerobic granular sludge in the conditions used in this work.

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