scholarly journals Diversity of Biodeteriorative Bacterial and Fungal Consortia in Winter and Summer on Historical Sandstone of the Northern Pergola, Museum of King John III’s Palace at Wilanow, Poland

2021 ◽  
Vol 11 (2) ◽  
pp. 620
Author(s):  
Magdalena Dyda ◽  
Agnieszka Laudy ◽  
Przemyslaw Decewicz ◽  
Krzysztof Romaniuk ◽  
Martyna Ciezkowska ◽  
...  
Keyword(s):  
Seasonal Changes ◽  
Microbial Community Composition ◽  
Fungal Communities ◽  
Bacterial Strains ◽  
Microbial Biodiversity ◽  
Acidophilic Bacteria ◽  
Almost All ◽  
Generation Sequencing ◽  
King John

The aim of the presented investigation was to describe seasonal changes of microbial community composition in situ in different biocenoses on historical sandstone of the Northern Pergola in the Museum of King John III’s Palace at Wilanow (Poland). The microbial biodiversity was analyzed by the application of Illumina-based next-generation sequencing methods. The metabarcoding analysis allowed for detecting lichenized fungi taxa with the clear domination of two genera: Lecania and Rhinocladiella. It was also observed that, during winter, the richness of fungal communities increased in the biocenoses dominated by lichens and mosses. The metabarcoding analysis showed 34 bacterial genera, with a clear domination of Sphingomonas spp. across almost all biocenoses. Acidophilic bacteria from Acidobacteriaceae and Acetobacteraceae families were also identified, and the results showed that a significant number of bacterial strains isolated during the summer displayed the ability to acidification in contrast to strains isolated in winter, when a large number of isolates displayed alkalizing activity. Other bacteria capable of nitrogen fixation and hydrocarbon utilization (including aromatic hydrocarbons) as well as halophilic microorganisms were also found. The diversity of organisms in the biofilm ensures its stability throughout the year despite the differences recorded between winter and summer.

scholarly journals NGS Analysis Confirms Common TP53 and RB1 Mutations, and Suggests MYC Amplification in Ocular Adnexal Sebaceous Carcinomas

2021 ◽  
Vol 22 (16) ◽  
pp. 8454
Author(s):  
Cornelia Peterson ◽  
Robert Moore ◽  
Jessica L. Hicks ◽  
Laura A. Morsberger ◽  
Angelo M. De Marzo ◽  
...  
Keyword(s):  
Protein Expression ◽  
Copy Number ◽  
Copy Number Gain ◽  
Sebaceous Carcinoma ◽  
Large Panel ◽  
Copy Number Changes ◽  
Almost All ◽  
Generation Sequencing ◽  
Adequate Tissue

Ocular adnexal (OA) sebaceous carcinomas generally demonstrate more aggressive clinical and histopathological phenotypes than extraocular cases, but the molecular drivers implicated in their oncogenesis remain poorly defined. A retrospective review of surgical and ocular pathology archives identified eleven primary resection specimens of OA sebaceous carcinomas with adequate tissue for molecular analysis; two extraocular cases were also examined. Next-generation sequencing was used to evaluate mutations and copy number changes in a large panel of cancer-associated genes. Fluorescence in situ hybridization (FISH) confirmed MYC copy number gain in select cases, and immunohistochemistry to evaluate MYC protein expression. The commonest mutations occurred in TP53 (10/13) and RB1 (7/13). Additional mutations in clinically actionable genes, or mutations with a frequency of at least 25%, included the NF1 (3/12), PMS2 (4/12), ROS1 (3/12), KMT2C (4/12), MNX1 (6/12), NOTCH1 (4/12), PCLO (3/12), and PTPRT (3/12) loci. Low level copy number gain suggestive of amplification of the MYC locus was seen in two cases, and confirmed using FISH. MYC protein expression, as assessed by immunohistochemistry, was present in almost all sebaceous carcinoma cases. Our findings support the concept that alterations in TP53 and RB1 are the commonest alterations in sebaceous carcinoma, and suggest that MYC may contribute to the oncogenesis of these tumors.

scholarly journals Why Plants Harbor Complex Endophytic Fungal Communities: Insights From Perennial Bunchgrass Stipagrostis sabulicola in the Namib Sand Sea

2021 ◽  
Vol 12 ◽  
Author(s):  
Anthony J. Wenndt ◽  
Sarah E. Evans ◽  
Anne D. van Diepeningen ◽  
J. Robert Logan ◽  
Peter J. Jacobson ◽  
...  
Keyword(s):  
Focal Point ◽  
Nutrient Recycling ◽  
Fungal Endophyte ◽  
Fungal Communities ◽  
Island Effect ◽  
Endophyte Community ◽  
Standing Litter ◽  
Generation Sequencing ◽  
Laboratory Assay

All perennial plants harbor diverse endophytic fungal communities, but why they tolerate these complex asymptomatic symbioses is unknown. Using a multi-pronged approach, we conclusively found that a dryland grass supports endophyte communities comprised predominantly of latent saprophytes that can enhance localized nutrient recycling after senescence. A perennial bunchgrass, Stipagrostis sabulicola, which persists along a gradient of extreme abiotic stress in the hyper-arid Namib Sand Sea, was the focal point of our study. Living tillers yielded 20 fungal endophyte taxa, 80% of which decomposed host litter during a 28-day laboratory decomposition assay. During a 6-month field experiment, tillers with endophytes decomposed twice as fast as sterilized tillers, consistent with the laboratory assay. Furthermore, profiling the community active during decomposition using next-generation sequencing revealed that 59–70% of the S. sabulicola endophyte community is comprised of latent saprophytes, and these dual-niche fungi still constitute a large proportion (58–62%) of the litter community more than a year after senescence. This study provides multiple lines of evidence that the fungal communities that initiate decomposition of standing litter develop in living plants, thus providing a plausible explanation for why plants harbor complex endophyte communities. Using frequent overnight non-rainfall moisture events (fog, dew, high humidity), these latent saprophytes can initiate decomposition of standing litter immediately after tiller senescence, thus maximizing the likelihood that plant-bound nutrients are recycled in situ and contribute to the nutrient island effect that is prevalent in drylands.

Studies on antibacterial potential and phytochemical screening of different extract of Achyranthes aspera

2016 ◽  
Vol 5 (12) ◽  
pp. 5138
Author(s):  
Shyamji Shukla* ◽  
Priyanka Soni ◽  
Harish K. Kewat
Keyword(s):  
Methanolic Extract ◽  
Salmonella Typhi ◽  
Maximum Activity ◽  
Phytochemical Screening ◽  
Bacterial Strains ◽  
Antibacterial Compounds ◽  
Achyranthes Aspera ◽  
Biological Sources ◽  
Almost All ◽  
Antibacterial Potential

There is an alarming increase in the problem of resistance towards antibiotics amongst most of the pathogenic bacterial strains in recent years. This has drawn the attention of researchers around the world to search for novel and eco-friendly antibacterial compounds. Several biological sources have been explored in this respect but medicinal plants have taken a centre stage out of all. Plants have been known as a reservoir of number of bioactive compounds specially the antibacterial ones since time immemorial. Therefore, the present investigation was undertaken to analyze the antibacterial potential of the medicinal plant Achyranthes aspera. This study revealed that highest antibacterial activity was observed in the methanolic extract of stem against almost all test Bacteria. It showed maximum activity against E.coli (30 mm), followed by S. aureus (28 mm), Enterococcus sp.(25mm), Salmonella typhi ( 20 mm) and least activity was recorded in same extract against K.pneumoniae (6 mm). Four phytochemicals were screened in various solvent extracts. They are alkaloid, flavonoids, saponins and tannins.

scholarly journals Rock Surface Fungi in Deep Continental Biosphere—Exploration of Microbial Community Formation with Subsurface In Situ Biofilm Trap

2020 ◽  
Vol 9 (1) ◽  
pp. 64
Author(s):  
Maija Nuppunen-Puputti ◽  
Riikka Kietäväinen ◽  
Lotta Purkamo ◽  
Pauliina Rajala ◽  
Merja Itävaara ◽  
...  
Keyword(s):  
Significant Proportion ◽  
Debaryomyces Hansenii ◽  
Fungal Communities ◽  
Fungal Colonization ◽  
Rock Surface ◽  
Mica Schist ◽  
Deep Subsurface ◽  
Bacterial Phyla ◽  
In Situ Conditions

Fungi have an important role in nutrient cycling in most ecosystems on Earth, yet their ecology and functionality in deep continental subsurface remain unknown. Here, we report the first observations of active fungal colonization of mica schist in the deep continental biosphere and the ability of deep subsurface fungi to attach to rock surfaces under in situ conditions in groundwater at 500 and 967 m depth in Precambrian bedrock. We present an in situ subsurface biofilm trap, designed to reveal sessile microbial communities on rock surface in deep continental groundwater, using Outokumpu Deep Drill Hole, in eastern Finland, as a test site. The observed fungal phyla in Outokumpu subsurface were Basidiomycota, Ascomycota, and Mortierellomycota. In addition, significant proportion of the community represented unclassified Fungi. Sessile fungal communities on mica schist surfaces differed from the planktic fungal communities. The main bacterial phyla were Firmicutes, Proteobacteria, and Actinobacteriota. Biofilm formation on rock surfaces is a slow process and our results indicate that fungal and bacterial communities dominate the early surface attachment process, when pristine mineral surfaces are exposed to deep subsurface ecosystems. Various fungi showed statistically significant cross-kingdom correlation with both thiosulfate and sulfate reducing bacteria, e.g., SRB2 with fungi Debaryomyces hansenii.

scholarly journals Spectroscopic Study of the Molecular Structure of the New Hybrid with a Potential Two-Way Antibacterial Effect

Molecules ◽  
2021 ◽  
Vol 26 (5) ◽  
pp. 1442
Author(s):  
Dorota Kowalczuk ◽  
Agata Gładysz ◽  
Monika Pitucha ◽  
Daniel M. Kamiński ◽  
Agnieszka Barańska ◽  
...  
Keyword(s):  
Spectroscopic Study ◽  
Good Alternative ◽  
Structure Characterization ◽  
Resonance Spectroscopy ◽  
Spectroscopic Techniques ◽  
Bacterial Strains ◽  
Active Components ◽  
Hybrid Compound ◽  
Coordination Sites ◽  
Almost All

Bacterial strains become resistant to almost all classes of antibiotics, which makes it necessary to look for new substitutes. The non-absorbable ciprofloxacin–biguanide bismuth complex, used locally, may be a good alternative to a conventional therapy. The purpose of this study was to study the structure of the proposed ciprofloxacin (CIP) -bismuth(III)—chlorhexidine (CHX) composite (CIP-Bi-CHX). The spectroscopic techniques such as UV-VIS (ultraviolet-visible) spectroscopy, FTIR (Fourier-transform infrared) spectroscopy and NMR (Nuclear Magnetic Resonance) spectroscopy were used for structure characterization of the hybrid compound. The performed analysis confirmed the presence of the two active components—CIP and CHX and revealed the possible coordination sites of the ligands with bismuth ion in the metallo-organic structure. Spectroscopic study showed that the complexation between Bi(III) and CIP occurs through the carboxylate and ketone groups of the quinolone ring, while CHX combines with the central ion via the biguanide moieties.

scholarly journals Challenging Diagnosis in NUT Carcinoma

2021 ◽  
pp. 106689692110195
Author(s):  
Grosse Claudia ◽  
Grosse Alexandra
Keyword(s):  
Nuclear Protein ◽  
Hematological Malignancy ◽  
Undifferentiated Carcinoma ◽  
Squamous Differentiation ◽  
Poorly Differentiated Carcinoma ◽  
Poorly Differentiated ◽  
Nut Carcinoma ◽  
Disseminated Disease ◽  
Generation Sequencing

Nuclear protein in testis (NUT) carcinoma represents a highly aggressive, poorly differentiated carcinoma that is genetically defined by rearrangement of NUT gene. The histomorphological appearance ranges from entirely undifferentiated carcinoma to carcinoma with prominent squamous differentiation. NUT carcinoma can display neuroendocrine features. Although it is typically distributed along the midline axis, it may manifest in nonmidline locations. The majority of patients develop rapidly disseminated disease. We illustrate 2 cases of NUT carcinoma, one located in the lung, which closely resembled a neuroendocrine carcinoma, and the other one with assumed lung origin demonstrating metastatic dissemination with diffuse bone involvement, which was clinically first suspected to be a hematological malignancy. Due to its undifferentiated nature, NUT carcinoma may be confused with many entities. NUT immunohistochemistry is considered to be sufficient for the diagnosis. Fluorescence in-situ hybridization analysis and next-generation sequencing are currently used to confirm the diagnosis.

scholarly journals Identifying the sensitivity of GPS to non-tidal loadings at various time resolutions: examining vertical displacements from continental Eurasia

GPS Solutions ◽  
2021 ◽  
Vol 25 (3) ◽  
Author(s):  
Anna Klos ◽  
Henryk Dobslaw ◽  
Robert Dill ◽  
Janusz Bogusz
Keyword(s):  
Time Series ◽  
Seasonal Changes ◽  
System Modeling ◽  
Sea Level Changes ◽  
Observation Level ◽  
Earth System Modeling ◽  
Atmospheric Loading ◽  
Modeling Group ◽  
Vertical Displacements ◽  
Almost All

AbstractWe examine the sensitivity of the Global Positioning System (GPS) to non-tidal loading for a set of continental Eurasia permanent stations. We utilized daily vertical displacements available from the Nevada Geodetic Laboratory (NGL) at stations located at least 100 km away from the coast. Loading-induced predictions of displacements of earth’s crust are provided by the Earth-System-Modeling Group of the GFZ (ESMGFZ). We demonstrate that the hydrological loading, supported by barystatic sea-level changes to close the global mass budget (HYDL + SLEL), contributes to GPS displacements only in the seasonal band. Non-tidal atmospheric loading, supported by non-tidal oceanic loading (NTAL + NTOL), correlates positively with GPS displacements for almost all time resolutions, including non-seasonal changes from 2 days to 5 months, which are often considered as noise, intra-seasonal and seasonal changes with periods between 4 months and 1.4 years, and, also, inter-annual signals between 1.1 and 3.0 years. Correcting the GPS vertical displacements by NTAL leads to a reduction in the time series variances, evoking a whitening of the GPS stochastic character and a decrease in the standard deviation of noise. Both lead, on average, to an improvement in the uncertainty of the GPS vertical velocity by a factor of 2. To reduce its impact on the GPS displacement time series, we recommend that NTAL is applied at the observation level during the processing of GPS observations. HYDL might be corrected at the observation level or remain in the data and be applied at the stage of time series analysis.

scholarly journals Detected Changes in Precipitation Extremes at Their Native Scales Derived from In Situ Measurements

2019 ◽  
Vol 32 (23) ◽  
pp. 8087-8109 ◽  
Author(s):  
Mark D. Risser ◽  
Christopher J. Paciorek ◽  
Travis A. O’Brien ◽  
Michael F. Wehner ◽  
William D. Collins
Keyword(s):  
Extreme Precipitation ◽  
Seasonal Changes ◽  
Signal To Noise Ratio ◽  
Statistical Technique ◽  
In Situ Measurements ◽  
Absolute Sense ◽  
Underlying Causes ◽  
Changes Over Time ◽  
Future Work

Abstract The gridding of daily accumulated precipitation—especially extremes—from ground-based station observations is problematic due to the fractal nature of precipitation, and therefore estimates of long period return values and their changes based on such gridded daily datasets are generally underestimated. In this paper, we characterize high-resolution changes in observed extreme precipitation from 1950 to 2017 for the contiguous United States (CONUS) based on in situ measurements only. Our analysis utilizes spatial statistical methods that allow us to derive gridded estimates that do not smooth extreme daily measurements and are consistent with statistics from the original station data while increasing the resulting signal-to-noise ratio. Furthermore, we use a robust statistical technique to identify significant pointwise changes in the climatology of extreme precipitation while carefully controlling the rate of false positives. We present and discuss seasonal changes in the statistics of extreme precipitation: the largest and most spatially coherent pointwise changes are in fall (SON), with approximately 33% of CONUS exhibiting significant changes (in an absolute sense). Other seasons display very few meaningful pointwise changes (in either a relative or absolute sense), illustrating the difficulty in detecting pointwise changes in extreme precipitation based on in situ measurements. While our main result involves seasonal changes, we also present and discuss annual changes in the statistics of extreme precipitation. In this paper we only seek to detect changes over time and leave attribution of the underlying causes of these changes for future work.

Screening and Isolation of Bacterial Strains with the Biotechnological Potential to Destruct Cyanide-Bearing Compounds under the Conditions of Extreme Continental Climate

2015 ◽  
Vol 1130 ◽  
pp. 19-22
Author(s):  
M.P. Belykh ◽  
S.V. Petrov ◽  
V.F. Petrov ◽  
A.Yu. Chikin ◽  
N.L. Belkova
Keyword(s):  
Microbial Communities ◽  
Gold Mining ◽  
Molecular Genetic ◽  
Heap Leaching ◽  
Bacterial Strains ◽  
Mining Operations ◽  
Biotechnological Potential ◽  
Enriched Cultures ◽  
Continental Climate

The methods of biodegradation are of special interest because they help solving environmental problems of wastes detoxification from gold-mining operations. The use of bacterial strains is a promising approach in the field of biotechnology to destruct cyanide-bearing compounds. The diversity of microbial communities both in heap in situ and in the enriched cultures was studied with molecular genetic methods. The differences in representation of bacteria, cultivated in unexploitable and operating heaps, are territory, site and heap specific. The strains of Pseudomonas sp. and Methylobacterium sp. possess the biotechnological potential and might be used in biodegradation of heap leaching wastes in extreme continental climate.

scholarly journals Genotypic diversity of S. mutans in dental biofilm formed in situ under sugar stress exposure

2007 ◽  
Vol 18 (3) ◽  
pp. 185-191 ◽  
Author(s):  
Rodrigo Alex Arthur ◽  
Cínthia Pereira Machado Tabchoury ◽  
Renata de Oliveira Mattos-Graner ◽  
Altair A. Del Bel Cury ◽  
Adriana Franco Paes Leme ◽  
...  
Keyword(s):  
Genotypic Diversity ◽  
Negative Control ◽  
Stress Exposure ◽  
Chain Reaction ◽  
Dental Biofilm ◽  
Polymerase Chain ◽  
Fermentable Carbohydrates ◽  
Almost All ◽  
Frequent Exposure

In situ dental biofilm composition under sugar exposure is well known, but sugar effect on the genotypic diversity of S. mutans in dental biofilm has not been explored. This study evaluated S. mutans genotypic diversity in dental biofilm formed in situ under frequent exposure to sucrose and its monosaccharide constituents (glucose and fructose). Saliva of 7 volunteers was collected for isolation of S. mutans and the same volunteers wore intraoral palatal appliances, containing enamel slabs, which were submitted to the following treatments: distilled and deionized water (negative control), 10% glucose + 10% fructose (fermentable carbohydrates) solution or 20% sucrose (fermentable and EPS inductor) solution, 8x/day. After 3, 7 and 14 days, the biofilms were colleted and S. mutans colonies were isolated. Arbitrarily primed polymerase chain reaction (AP-PCR) of S. mutans showed that salivary genotypes were also detected in almost all biofilm samples, independently of the treatment, and seemed to reflect those genotypes present at higher proportion in biofilms. In addition to the salivary genotypes, others were found in biofilms but in lower proportions and were distinct among treatment. The data suggest that the in situ model seems to be useful to evaluate genotypic diversity of S. mutans, but, under the tested conditions, it was not possible to clearly show that specific genotypes were selected in the biofilm due to the stress induced by sucrose metabolism or simple fermentation of its monosaccharides.

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