dr Mikołaj Dziurzyński

@article{10.3389/fpls.2023.1288408,

title = {Biocontrol potential of Pseudomonas protegens ML15 against Botrytis cinerea causing gray mold on postharvest tomato (Solanum lycopersicum var. cerasiforme)},

author = {Nur Ajijah and Angelika Fiodor and Mikolaj Dziurzynski and Robert Stasiuk and Julia Pawlowska and Lukasz Dziewit and Kumar Pranaw},

url = {https://www.frontiersin.org/articles/10.3389/fpls.2023.1288408},

doi = {10.3389/fpls.2023.1288408},

issn = {1664-462X},

year  = {2023},

date = {2023-12-15},

urldate = {2023-12-15},

journal = {Frontiers in Plant Science},

volume = {14},

abstract = {Gray mold, caused by Botrytis cinerea is a major cause of post-harvest rot of fresh fruits and vegetables. The utilization of selected microorganisms as biocontrol agents is a promising alternative to effectively control gray mold on tomatoes. The current study was conducted to explore potential biocontrol mechanisms of the Pseudomonas strain to control infections on post-harvest tomatoes. Among the 8 tested bacterial isolates, Pseudomonas protegens ML15 demonstrated antagonistic activity to Botrytis cinerea. Moreover, P. protegens ML15 exhibited the production of siderophores, hydrogen cyanide, ammonia, exopolysaccharides, lipase, biosurfactant, 2,4-diacetylphloroglucinol, and several other antifungal compounds, such as 1-tetradecanol, cyclododecane, 2,4-di-tert-butylphenol, and 2-methyl-1-hexadecanol. A comprehensive genomic analysis of P. protegens ML15 unravels 18 distinct genetic regions with the potential for biosynthesizing secondary metabolites, known for their pivotal role in biocontrol responses against plant pathogens. In vivo, experiments showed that both culture suspension and cell-free supernatant of P. protegens ML15 significantly reduced fungal growth (53.0 ± 0.63%) and mitigated disease development (52.8 ± 1.5%) in cherry tomatoes at four days post-B. cinerea inoculation. During the infection, the application of P. protegens ML15 resulted in the augmentation of total antioxidant, phenolic content, and ascorbic acids content. Thus, our results suggested that P. protegens ML15’s role as a biocontrol agent against B. cinerea-induced postharvest tomato decay achieved through the secretion of antifungal substances, induction of tomato defense responses, and inhibition of mycelial growth of B. cinerea. These findings provide a significant contribution to the ongoing search for alternative, eco-friendly methods of controlling gray mold in fresh products. The utilization of P. protegens ML15 as a biocontrol agent could help to reduce the reliance on chemical fungicides and promote sustainable agriculture practices.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{DZIURZYNSKI2022159072,

title = {Revealing the diversity of bacteria and fungi in the active layer of permafrost at Spitsbergen island (Arctic) – Combining classical microbiology and metabarcoding for ecological and bioprospecting exploration},

author = {Mikolaj Dziurzynski and Adrian Gorecki and Julia Pawlowska and Lukasz Istel and Przemyslaw Decewicz and Piotr Golec and Michal Styczynski and Krzysztof Poszytek and Anna Rokowska and Dorota Gorniak and Lukasz Dziewit},

url = {https://www.sciencedirect.com/science/article/pii/S004896972206171X},

doi = {https://doi.org/10.1016/j.scitotenv.2022.159072},

issn = {0048-9697},

year  = {2023},

date = {2023-01-15},

urldate = {2023-01-15},

journal = {Science of The Total Environment},

volume = {856},

number = {2},

pages = {159072},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Dziurzynski2022,

title = {Development of the LCPDb-MET database facilitating selection of PCR primers for the detection of metal metabolism and resistance genes in bacteria},

author = {Mikolaj Dziurzynski and Adrian Gorecki and Przemyslaw Decewicz and Karol Ciuchcinski and Maria Dabrowska and Lukasz Dziewit},

doi = {10.1016/j.ecolind.2022.109606},

issn = {1470-160X},

year  = {2022},

date = {2022-12-00},

urldate = {2022-12-00},

journal = {Ecological Indicators},

volume = {145},

number = {109606},

publisher = {Elsevier BV},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Bilinski2022,

title = {Fresh Versus Frozen Stool for Fecal Microbiota Transplantation—Assessment by Multimethod Approach Combining Culturing, Flow Cytometry, and Next-Generation Sequencing},

author = {Jaroslaw Bilinski and Mikolaj Dziurzynski and Pawel Grzesiowski and Edyta Podsiadly and Anna Stelmaszczyk-Emmel and Tomasz Dzieciatkowski and Karol Lis and Martyna Tyszka and Krzysztof Ozieranski and Łukasz Dziewit and Grzegorz W. Basak},

doi = {10.3389/fmicb.2022.872735},

issn = {1664-302X},

year  = {2022},

date = {2022-07-01},

urldate = {2022-07-01},

journal = {Front. Microbiol.},

volume = {13},

publisher = {Frontiers Media SA},

abstract = {<jats:p>The objective of this work was to compare the quality of FMT preparations made from fresh feces with those made from feces frozen at –30°C without any pre-processing or cryopreservation additives. The research hypothesis was that such preservation protocol (frozen whole stool, then thawed and processed) is equipotent to classical fresh FMT preparation. For that, three complementary methods were applied, including: (i) culturing in aerobic and anaerobic conditions, (ii) measuring viability by flow cytometry, and (iii) next-generation sequencing. Flow cytometry with cell staining showed that the applied freezing protocol causes significant changes in all of the observed bacterial fractions. Alive cell counts dropped four times, from around 70% to 15%, while the other two fractions, dead and unknown cell counts quadrupled and doubled, with the unknown fraction becoming the dominant one, with an average contribution of 57.47% per sample. It will be very interesting to uncover what this unknown fraction is (e.g., bacterial spores), as this may change our conclusions (if these are spores, the viability could be even higher after freezing). Freezing had a huge impact on the structure of cultivable bacterial communities. The biggest drop after freezing in the number of cultivable species was observed for Actinobacteria and Bacilli. In most cases, selected biodiversity indices were slightly lower for frozen samples. PCoA visualization built using weighted UniFrac index showed no donor-wise clusters, but a clear split between fresh and frozen samples. This split can be in part attributed to the changes in the relative abundance of Bacteroidales and Clostridiales orders. Our results clearly show that whole stool freezing without any cryoprotectants has a great impact on the cultivability and biodiversity of the bacterial community, and possibly also on the viability of bacterial cells.</jats:p>},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Fondi2021,

title = {Modelling hCDKL5 Heterologous Expression in Bacteria},

author = {Marco Fondi and Stefano Gonzi and Mikolaj Dziurzynski and Paola Turano and Veronica Ghini and Marzia Calvanese and Andrea Colarusso and Concetta Lauro and Ermenegilda Parrilli and Maria Luisa Tutino},

doi = {10.3390/metabo11080491},

issn = {2218-1989},

year  = {2021},

date = {2021-08-00},

urldate = {2021-08-00},

journal = {Metabolites},

volume = {11},

number = {491},

issue = {8},

publisher = {MDPI AG},

abstract = {hCDKL5 refers to the human cyclin-dependent kinase like 5 that is primarily expressed in the brain. Mutations in its coding sequence are often causative of hCDKL5 deficiency disorder, a devastating neurodevelopmental disorder currently lacking a cure. The large-scale recombinant production of hCDKL5 is desirable to boost the translation of preclinical therapeutic approaches into the clinic. However, this is hampered by the intrinsically disordered nature of almost two-thirds of the hCDKL5 sequence, making this region more susceptible to proteolytic attack, and the observed toxicity when the enzyme is accumulated in the cytoplasm of eukaryotic host cells. The bacterium Pseudoalteromonas haloplanktis TAC125 (PhTAC125) is the only prokaryotic host in which the full-length production of hCDKL5 has been demonstrated. To date, a system-level understanding of the metabolic burden imposed by hCDKL5 production is missing, although it would be crucial for upscaling of the production process. Here, we combined experimental data on protein production and nutrients assimilation with metabolic modelling to infer the global consequences of hCDKL5 production in PhTAC125 and to identify potential overproduction targets. Our analyses showed a remarkable accuracy of the model in simulating the recombinant strain phenotype and also identified priority targets for optimised protein production.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Dziurzyński2021,

title = {Prototheca-ID: a web-based application for molecular identification of Prototheca species},

author = {Mikołaj Dziurzyński and Przemyslaw Decewicz and Mateusz Iskra and Zofia Bakuła and Tomasz Jagielski},

doi = {10.1093/database/baab073},

issn = {1758-0463},

year  = {2021},

date = {2021-01-01},

urldate = {2021-01-01},

journal = {Database},

volume = {2021},

number = {baab073},

publisher = {Oxford University Press (OUP)},

abstract = {The genus Prototheca houses unicellular, achlorophyllous, yeast-like algae, widely distributed in the environment. Protothecae are the only known plants that have repeatedly been reported to infect vertebrates, including humans. Although rare, protothecosis can be clinically demanding, with an unpredictable and treatment-resistant behavior. Accurate identification of Prototheca species relies upon DNA sequence-based typing of the mitochondrially encoded CYTB gene. However, no bioinformatic tool for the processing and analyzing of protothecal sequence data exists. Moreover, currently available sequence databases suffer from a limited number of records and lack of or flawed sequence annotations, making Prototheca identification challenging and often inconclusive. This report introduces the Prototheca-ID, a user-friendly, web-based application providing fast and reliable speciation of Prototheca isolates. In addition, the application offers the users the possibility of depositing their sequences and associated metadata in a fully open Prototheca-ID database, developed to enhance research integrity and quality in the field of Protothecae and protothecosis.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}