@article{2-s2.0-85201389758,

title = {Transcriptomic profiling reveals histone acetylation-regulated genes involved in somatic embryogenesis in Arabidopsis thaliana},

author = { B. Wójcikowska and K. Chwiałkowska and K. Nowak and S. Citerne and J. Morończyk and A.M. Wójcik and A. Kiwior-Wesołowska and J. Francikowski and M. Kwaśniewski and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85201389758&doi=10.1186%2fs12864-024-10623-5&partnerID=40&md5=610b94d9150b69d42cedfa57e0bee734},

doi = {10.1186/s12864-024-10623-5},

issn = {14712164},

year  = {2024},

date = {2024-01-01},

journal = {BMC Genomics},

volume = {25},

number = {1},

publisher = {BioMed Central Ltd},

abstract = {Background: Somatic embryogenesis (SE) exemplifies the unique developmental plasticity of plant cells. The regulatory processes, including epigenetic modifications controlling embryogenic reprogramming of cell transcriptome, have just started to be revealed. Results: To identify the genes of histone acetylation-regulated expression in SE, we analyzed global transcriptomes of Arabidopsis explants undergoing embryogenic induction in response to treatment with histone deacetylase inhibitor, trichostatin A (TSA). The TSA-induced and auxin (2;4-dichlorophenoxyacetic acid; 2;4-D)-induced transcriptomes were compared. RNA-seq results revealed the similarities of the TSA- and auxin-induced transcriptomic responses that involve extensive deregulation, mostly repression, of the majority of genes. Within the differentially expressed genes (DEGs), we identified the master regulators (transcription factors - TFs) of SE, genes involved in biosynthesis, signaling, and polar transport of auxin and NITRILASE-encoding genes of the function in indole-3-acetic acid (IAA) biosynthesis. TSA-upregulated TF genes of essential functions in auxin-induced SE, included LEC1/LEC2, FUS3, AGL15, MYB118, PHB, PHV, PLTs, and WUS/WOXs. The TSA-induced transcriptome revealed also extensive upregulation of stress-related genes, including those related to stress hormone biosynthesis. In line with transcriptomic data, TSA-induced explants accumulated salicylic acid (SA) and abscisic acid (ABA), suggesting the role of histone acetylation (Hac) in regulating stress hormone-related responses during SE induction. Since mostly the adaxial side of cotyledon explant contributes to SE induction, we also identified organ polarity-related genes responding to TSA treatment, including AIL7/PLT7, RGE1, LBD18, 40, HB32, CBF1, and ULT2. Analysis of the relevant mutants supported the role of polarity-related genes in SE induction. Conclusion: The study results provide a step forward in deciphering the epigenetic network controlling embryogenic transition in somatic cells of plants. © The Author(s) 2024.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85194103059,

title = {DNA methylation analysis of floral parts revealed dynamic changes during the development of homostylous Fagopyrum tataricum and heterostylous F. esculentum flowers},

author = { K. Sala and A. Tomasiak and K. Nowak and A. Piński and A. Betekhtin},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85194103059&doi=10.1186%2fs12870-024-05162-w&partnerID=40&md5=42bf1d5a9f3df72050790bf730e2066d},

doi = {10.1186/s12870-024-05162-w},

issn = {14712229},

year  = {2024},

date = {2024-01-01},

journal = {BMC Plant Biology},

volume = {24},

number = {1},

publisher = {BioMed Central Ltd},

abstract = {Background: Proper flower development is essential for plant reproduction, a crucial aspect of the plant life cycle. This process involves precisely coordinating transcription factors, enzymes, and epigenetic modifications. DNA methylation, a ubiquitous and heritable epigenetic mechanism, is pivotal in regulating gene expression and shaping chromatin structure. Fagopyrum esculentum demonstrates anti-hypertensive, anti-diabetic, anti-inflammatory, cardio-protective, hepato-protective, and neuroprotective properties. However, the heteromorphic heterostyly observed in F. esculentum poses a significant challenge in breeding efforts. F. tataricum has better resistance to high altitudes and harsh weather conditions such as drought, frost, UV-B radiation damage, and pests. Moreover, F. tataricum contains significantly higher levels of rutin and other phenolics, more flavonoids, and a balanced amino acid profile compared to common buckwheat, being recognised as functional food, rendering it an excellent candidate for functional food applications. Results: This study aimed to compare the DNA methylation profiles between the Pin and Thrum flower components of F. esculentum, with those of self-fertile species of F. tataricum, to understand the potential role of this epigenetic mechanism in Fagopyrum floral development. Notably, F. tataricum flowers are smaller than those of F. esculentum (Pin and Thrum morphs). The decline in DNA methylation levels in the developed open flower components, such as petals, stigmas and ovules, was consistent across both species, except for the ovule in the Thrum morph. Conversely, Pin and Tartary ovules exhibited a minor decrease in DNA methylation levels. The highest DNA methylation level was observed in Pin stigma from closed flowers, and the most significant decrease was in Pin stigma from open flowers. In opposition, the nectaries of open flowers exhibited higher levels of DNA methylation than those of closed flowers. The decrease in DNA methylation might correspond with the downregulation of genes encoding methyltransferases. Conclusions: Reduced overall DNA methylation and the expression of genes associated with these epigenetic markers in fully opened flowers of both species may indicate that demethylation is necessary to activate the expression of genes involved in floral development. © The Author(s) 2024.},

note = {1},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85203646112,

title = {miR156-SPL and miR169-NF-YA Modules Regulate the Induction of Somatic Embryogenesis in Arabidopsis via LEC- and Auxin-Related Pathways},

author = { K. Nowak and A.M. Wójcik and K. Konopka and A. Jarosz and K. Dombert and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85203646112&doi=10.3390%2fijms25179217&partnerID=40&md5=795e29b568cf2506ff073245689df897},

doi = {10.3390/ijms25179217},

issn = {16616596},

year  = {2024},

date = {2024-01-01},

journal = {International Journal of Molecular Sciences},

volume = {25},

number = {17},

publisher = {Multidisciplinary Digital Publishing Institute (MDPI)},

abstract = {The embryogenic transition of plant somatic cells to produce somatic embryos requires extensive reprogramming of the cell transcriptome. The prominent role of transcription factors (TFs) and miRNAs in controlling somatic embryogenesis (SE) induction in plants was documented. The profiling of MIRNA expression in the embryogenic culture of Arabidopsis implied the contribution of the miR156 and miR169 to the embryogenic induction. In the present study, the function of miR156 and miR169 and the candidate targets, SPL and NF-YA genes, were investigated in Arabidopsis SE. The results showed that misexpression of MIRNA156 and candidate SPL target genes (SPL2; 3; 4; 5; 9; 10; 11; 13; 15) negatively affected the embryogenic potential of transgenic explants, suggesting that specific fine-tuning of the miR156 and target genes expression levels seems essential for efficient SE induction. The results revealed that SPL11 under the control of miR156 might contribute to SE induction by regulating the master regulators of SE, the LEC (LEAFY COTYLEDON) genes (LEC1; LEC2; FUS3). Moreover, the role of miR169 and its candidate NF-YA targets in SE induction was demonstrated. The results showed that several miR169 targets, including NF-YA1, 3, 5, 8, and 10, positively regulated SE. We found, that miR169 via NF-YA5 seems to modulate the expression of a master SE regulator LEC1/NF-YA and other auxin-related genes: YUCCA (YUC4; 10) and PIN1 in SE induction. The study provided new insights into miR156-SPL and miR169-NF-YA functions in the auxin-related and LEC-controlled regulatory network of SE. © 2024 by the authors.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85176574335,

title = {The improvement of the in vitro plant regeneration in barley with the epigenetic modifier of histone acetylation, trichostatin A},

author = { K. Nowak and B. Wójcikowska and M. Gajecka and A. Elżbieciak and J. Morończyk and A.M. Wójcik and P. Żemła and S. Citerne and A. Kiwior-Wesołowska and J. Zbieszczyk and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85176574335&doi=10.1007%2fs13353-023-00800-9&partnerID=40&md5=aba91f468acebb6e7ac6030f68dc49f7},

doi = {10.1007/s13353-023-00800-9},

issn = {12341983},

year  = {2024},

date = {2024-01-01},

journal = {Journal of Applied Genetics},

volume = {65},

number = {1},

pages = {13-30},

publisher = {Springer Science and Business Media Deutschland GmbH},

abstract = {Genotype-limited plant regeneration is one of the main obstacles to the broader use of genetic transformation in barley breeding. Thus, developing new approaches that might improve responses of in vitro recalcitrant genotypes remains at the center of barley biotechnology. Here, we analyzed different barley genotypes, including “Golden Promise,” a genotype commonly used in the genetic transformation, and four malting barley cultivars of poor regenerative potential. The expression of hormone-related transcription factor (TF) genes with documented roles in plant regeneration was analyzed in genotypes with various plant-regenerating capacities. The results indicated differential expression of auxin-related TF genes between the barley genotypes in both the explants and the derived cultures. In support of the role of auxin in barley regeneration, distinct differences in the accumulation of free and oxidized auxin were observed in explants and explant-derived callus cultures of barley genotypes. Following the assumption that modifying gene expression might improve plant regeneration in barley, we treated the barley explants with trichostatin A (TSA), which affects histone acetylation. The effects of TSA were genotype-dependent as TSA treatment improved plant regeneration in two barley cultivars. TSA-induced changes in plant regeneration were associated with the increased expression of auxin biosynthesis-involved TFs. The study demonstrated that explant treatment with chromatin modifiers such as TSA might provide a new and effective epigenetic approach to improving plant regeneration in recalcitrant barley genotypes. © 2023, The Author(s).},

note = {3},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85126018562,

title = {Insights into the Histone Acetylation-Mediated Regulation of the Transcription Factor Genes That Control the Embryogenic Transition in the Somatic Cells of Arabidopsis},

author = { J. Morończyk and A.J. Brąszewska-Zalewska and B. Wójcikowska and K. Chwiałkowska and K. Nowak and A.M. Wójcik and M. Kwaśniewski and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85126018562&doi=10.3390%2fcells11050863&partnerID=40&md5=b2d79e5ee5e0aad3ef0629dc7393c322},

doi = {10.3390/cells11050863},

issn = {20734409},

year  = {2022},

date = {2022-01-01},

journal = {Cells},

volume = {11},

number = {5},

publisher = {MDPI},

abstract = {Somatic embryogenesis (SE), which is a process that involves the in vitro-induced embryo-genic reprogramming of plant somatic cells, requires dynamic changes in the cell transcriptome. These changes are fine-tuned by many genetic and epigenetic factors, including posttranslational histone modifications such as histone acetylation. Antagonistically acting enzymes, histone acetyltransferases (HATs) and deacetylases (HDACs), which control histone acetylation in many developmental pro-cesses, are believed to control SE. However, the function of specific HAT/HDACs and the genes that are subjected to histone acetylation-mediated regulation during SE have yet to be revealed. Here, we present the global and gene-specific changes in histone acetylation in Arabidopsis explants that are undergoing SE. In the TSA (trichostatin A)-induced SE, we demonstrate that H3 and H4 acetylation might control the expression of the critical transcription factor (TF) genes of a vital role in SE, including LEC1, LEC2 (LEAFY COTYLEDON 1; 2), FUS3 (FUSCA 3) and MYB118 (MYB DOMAIN PROTEIN 118). Within the HATs and HDACs, which mainly positively regulate SE, we identified HDA19 as negatively affecting SE by regulating LEC1, LEC2 and BBM. Finally, we provide some evidence on the role of HDA19 in the histone acetylation-mediated regulation of LEC2 during SE. Our results reveal an essential function of histone acetylation in the epigenetic mechanisms that control the TF genes that play critical roles in the embryogenic reprogramming of plant somatic cells. The results implicate the complexity of Hac-related gene regulation in embryogenic induction and point to differences in the regulatory mechanisms that are involved in auxin-and TSA-induced SE. © 2022 by the authors. Licensee MDPI, Basel, Switzerland.},

note = {10},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85124973159,

title = {miR172 Regulates WUS during Somatic Embryogenesis in Arabidopsis via AP2},

author = { K. Nowak and J. Morończyk and M. Grzyb and A. Szczygieł-Sommer and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85124973159&doi=10.3390%2fcells11040718&partnerID=40&md5=ba09056c3ca26cd08825a4f03a93afcc},

doi = {10.3390/cells11040718},

issn = {20734409},

year  = {2022},

date = {2022-01-01},

journal = {Cells},

volume = {11},

number = {4},

publisher = {MDPI},

abstract = {In plants, the embryogenic transition of somatic cells requires the reprogramming of the cell transcriptome, which is under the control of genetic and epigenetic factors. Correspondingly, the extensive modulation of genes encoding transcription factors and miRNAs has been indicated as controlling the induction of somatic embryogenesis in Arabidopsis and other plants. Among the MIRNAs that have a differential expression during somatic embryogenesis, members of the MIRNA172 gene family have been identified, which implies a role of miR172 in controlling the embryogenic transition in Arabidopsis. In the present study, we found a disturbed expression of both MIRNA172 and candidate miR172-target genes, including AP2, TOE1, TOE2, TOE3, SMZ and SNZ, that negatively affected the embryogenic response of transgenic explants. Next, we examined the role of AP2 in the miR172-mediated mechanism that controls the embryogenic response. We found some evidence that by controlling AP2, miR172 might repress the WUS that has an important function in embryogenic induction. We showed that the mechanism of the miR172-AP2-controlled repression of WUS involves histone acetylation. We observed the upregulation of the WUS transcripts in an embryogenic culture that was overexpressing AP2 and treated with trichostatin A (TSA), which is an inhibitor of HDAC histone deacetylases. The increased expression of the WUS gene in the embryogenic culture of the hdac mutants further confirmed the role of histone acetylation in WUS control during somatic embryogenesis. A chromatin-immunoprecipitation analysis provided evidence about the contribution of HDA6/19-mediated histone deacetylation to AP2-controlled WUS repression during embryogenic induction. The upstream regulatory elements of the miR172-AP2-WUS pathway might involve the miR156-controlled SPL9/SPL10, which control the level of mature miR172 in an embryogenic culture. © 2022 by the authors. Licensee MDPI, Basel, Switzerland.},

note = {9},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85115858492,

title = {Mineralogical, geochemical, and rock mechanic characteristics of zeolite‐bearing rocks of the hatrurim basin, israel},

author = { Ł. Kruszewski and V. Palchik and Y. Vapnik and K. Nowak and K. Banasik and I.O. Galuskina},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85115858492&doi=10.3390%2fmin11101062&partnerID=40&md5=25a9f7faab300c940fbff6087604a17e},

doi = {10.3390/min11101062},

issn = {2075163X},

year  = {2021},

date = {2021-01-01},

journal = {Minerals},

volume = {11},

number = {10},

publisher = {MDPI},

abstract = {The Hatrurim Basin, Israel, is located on the western border of the Dead Sea Transform. This is one of the localities of a unique pyrometamorphic complex whose genesis remains problem-atic. This paper deals with zeolite‐bearing rock that is known in the Hatrurim Basin only. The strata subjected to zeolitization is called the “olive unit” and consists of anorthite–pyroxene (diopside– esseneite) hornfels. Zeolitization occurred in an alkaline environment provided by the interaction of meteoric water with Portland‐cement‐like rocks of the Hatrurim Complex. The resulting zeolite-bearing rocks contain 20–30% zeolitic material. The main zeolitic minerals are calcic: thomsonite‐Ca ± Sr, phillipsite‐Ca, gismondine‐Ca, and clinoptilolite‐Ca. The remainder is calcite, diopsidic pyrox-ene, garnets (either Ti‐andradite and/or hydrogrossular), and less frequently, fluorapatite, opal, and others. Their major mineralogical and chemical compositions resemble carbonated zeolite‐blended Portland mortar. Rocks show different values of porosity. Their mechanical characteristics are much better for samples with porosity values below 24%. The related parameters are like those of blended concretes. The minimal age of zeolitization is 5 Ka. The natural zeolite‐bearing rocks are resistant to weathering in the Levant desert climate. © 2021 by the authors. Licensee MDPI, Basel, Switzerland.},

note = {1},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85091104919,

title = {Hypermethylation of auxin-responsive motifs in the promoters of the transcription factor genes accompanies the somatic embryogenesis induction in arabidopsis},

author = { D. Grzybkowska and K. Nowak and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85091104919&doi=10.3390%2fijms21186849&partnerID=40&md5=264ea62fcf6e3760a051dca840ab2c4a},

doi = {10.3390/ijms21186849},

issn = {16616596},

year  = {2020},

date = {2020-01-01},

journal = {International Journal of Molecular Sciences},

volume = {21},

number = {18},

pages = {1-22},

publisher = {MDPI AG},

abstract = {The auxin-induced embryogenic reprogramming of plant somatic cells is associated with extensive modulation of the gene expression in which epigenetic modifications, including DNA methylation, seem to play a crucial role. However, the function of DNA methylation, including the role of auxin in epigenetic regulation of the SE-controlling genes, remains poorly understood. Hence, in the present study, we analysed the expression and methylation of the TF genes that play a critical regulatory role during SE induction (LEC1; LEC2; BBM; WUS and AGL15) in auxin-treated explants of Arabidopsis. The results showed that auxin treatment substantially affected both the expression and methylation patterns of the SE-involved TF genes in a concentration-dependent manner. The auxin treatment differentially modulated the methylation of the promoter (P) and gene body (GB) sequences of the SE-involved genes. Relevantly, the SE-effective auxin treatment (5.0 µM of 2;4-D) was associated with the stable hypermethylation of the P regions of the SE-involved genes and a significantly higher methylation of the P than the GB fragments was a characteristic feature of the embryogenic culture. The presence of auxin-responsive (AuxRE) motifs in the hypermethylated P regions suggests that auxin might substantially contribute to the DNA methylation-mediated control of the SE-involved genes. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.},

note = {10},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85085375831,

title = {Greenockite whiskers from the bytom burned coal dump, upper silesia, Poland},

author = { K. Nowak and I.O. Galuskina and E.V. Galuskin},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85085375831&doi=10.3390%2fmin10050470&partnerID=40&md5=440f6106212d59539de2b6e113077e0e},

doi = {10.3390/min10050470},

issn = {2075163X},

year  = {2020},

date = {2020-01-01},

journal = {Minerals},

volume = {10},

number = {5},

publisher = {MDPI AG},

abstract = {Orange greenockite (CdS) aggregates were found in a small fumarole at a burned coal dump near Bytom, Upper Silesia, Poland and were studied using a variety of techniques in order to determine their chemistry, morphology, and most importantly, the mechanism of crystal growth. Greenockite rods, wires, and whiskers with bismuth drops on crystal tops are predominant in these aggregates. Greenockite rods oriented sub-perpendicular to the substrate surface. The rod thickness reaches 5–6 µm and about 10 µm in length. The catalyst bismuth drop has a diameter comparable to the rod thickness. Fiber forms (wires and whiskers) are sub-parallel to the substrate surface. The thickness of these forms is usually less than 2 µm, and the length can be close to 1 mm. The bismuth drop diameter can show a large excess over the fiber thickness. Catalyst drops on the tops of whiskers began to change their form dynamically and exploded, spraying bismuth under the electron beam effect. Rods grow along the [01–10] direction, and whiskers and wires (axial forms) along the [0001] direction. Greenockite rod crystals, carrying on top a relatively homogenous bismuth catalyst drop, were formed on the heated substrate according to the VLS (vapor–liquid–solid) mechanism at temperatures not lower than 270◦ C. Greenockite whiskers and wires grew just above of the substrate surface according to the VQS (vapor–quasiliquid–solid) mechanism at temperatures lower than 200◦ C. These mechanisms of growth have very rarely been recorded to occur in nature and even less so in burning coal dumps. The cooperative growth effects of the fiber greenockite crystals were also described. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85090863996,

title = {AGL15 controls the embryogenic reprogramming of somatic cells in arabidopsis through the histone acetylation-mediated repression of the mirna biogenesis genes},

author = { K. Nowak and J. Morończyk and A.M. Wójcik and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85090863996&doi=10.3390%2fijms21186733&partnerID=40&md5=63d2df1c0f8e6e068cb818919a3e59ae},

doi = {10.3390/ijms21186733},

issn = {16616596},

year  = {2020},

date = {2020-01-01},

journal = {International Journal of Molecular Sciences},

volume = {21},

number = {18},

pages = {1-20},

publisher = {MDPI AG},

abstract = {The embryogenic transition of somatic cells requires an extensive reprogramming of the cell transcriptome. Relevantly, the extensive modulation of the genes that have a regulatory function, in particular the genes encoding the transcription factors (TFs) and miRNAs, have been indicated as controlling somatic embryogenesis (SE) that is induced in vitro in the somatic cells of plants. Identifying the regulatory relationships between the TFs and miRNAs during SE induction is of central importance for understanding the complex regulatory interplay that fine-tunes a cell transcriptome during the embryogenic transition. Hence, here, we analysed the regulatory relationships between AGL15 (AGAMOUS-LIKE 15) TF and miR156 in an embryogenic culture of Arabidopsis. Both AGL15 and miR156 control SE induction and AGL15 has been reported to target the MIR156 genes in planta. The results showed that AGL15 contributes to the regulation of miR156 in an embryogenic culture at two levels that involve the activation of the MIR156 transcription and the containment of the abundance of mature miR156 by repressing the miRNA biogenesis genes DCL1 (DICER-LIKE1), SERRATE and HEN1 (HUA-ENHANCER1). To repress the miRNA biogenesis genes AGL15 seems to co-operate with the TOPLESS co-repressors (TPL and TPR1-4), which are components of the SIN3/HDAC silencing complex. The impact of TSA (trichostatin A), an inhibitor of the HDAC histone deacetylases, on the expression of the miRNA biogenesis genes together with the ChIP results implies that histone deacetylation is involved in the AGL15-mediated repression of miRNA processing. The results indicate that HDAC6 and HDAC19 histone deacetylases might co-operate with AGL15 in silencing the complex that controls the abundance of miR156 during embryogenic induction. This study provides new evidence about the histone acetylation-mediated control of the miRNA pathways during the embryogenic reprogramming of plant somatic cells and the essential role of AGL15 in this regulatory mechanism. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.},

note = {10},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85057991726,

title = {Cell wall epitopes and endoploidy as reporters of embryogenic potential in brachypodium distachyon callus culture},

author = { A. Betekhtin and M. Rojek-Jelonek and K. Nowak and A. Piński and A. Milewska-Hendel and E.U. Kurczyńska and J.H. Doonan and R. Hasterok},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85057991726&doi=10.3390%2fijms19123811&partnerID=40&md5=a019f7df04ed76fd5a1440b62abca7ae},

doi = {10.3390/ijms19123811},

issn = {16616596},

year  = {2018},

date = {2018-01-01},

journal = {International Journal of Molecular Sciences},

volume = {19},

number = {12},

publisher = {MDPI AG},

abstract = {Effective regeneration of callus tissue into embryos and then into whole plants is essential for plant biotechnology. The embryonic potential is often low and can further decrease with time in culture, which limits the utilisation of calli for transformation procedures and in vitro propagation. In this study, we show that the loss of embryogenic potential in callus cultures of Brachypodium distachyon is progressive over time. Flow cytometry analyses indicated endoploidy levels increased in 60-and 90-day-old calli with effective loss of the 2C DNA content peak in the latter. Analysis of indolic compounds content revealed a decrease in 60-and 90-day-old calli compared to either freshly isolated explants or 30-day-old calli. Immunohistochemical analysis revealed a decrease in arabinogalactan proteins (AGP) signal with the time of culture, but extensin (EXT) epitopes either increased (JIM12 epitopes) or decreased (JIM11 epitopes). The transcript accumulation levels of AGPs and EXTs confirmed these results, with most of AGP and EXT transcripts gradually decreasing. Some chimeric EXT transcripts significantly increased on the 30th day of culture, perhaps because of an increased embryogenic potential. Selected somatic embryogenesis-related genes and cyclins demonstrated a gradual decrease of transcript accumulation for YUCCA (YUC), AINTEGUMENTA-LIKE (AIL), BABY BOOM (BBM), and CLAVATA (CLV3) genes, as well as for most of the cyclins, starting from the 30th day of culture. Notably, WUSCHEL (WUS) transcript was detectable only on the 30th and 60th day and was not detectable in the zygotic embryos and in 90-day-old calli. © 2018 by the authors. Licensee MDPI, Basel, Switzerland.},

note = {7},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85048889878,

title = {5-Azacitidine induces cell death in a tissue culture of brachypodium distachyon},

author = { A. Betekhtin and A. Milewska-Hendel and Ł. Chajec and M. Rojek-Jelonek and K. Nowak and J. Kwaśniewska and E.A. Wolny and E.U. Kurczyńska and R. Hasterok},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85048889878&doi=10.3390%2fijms19061806&partnerID=40&md5=72a6b817774ef0346f00f6530b07a6ac},

doi = {10.3390/ijms19061806},

issn = {16616596},

year  = {2018},

date = {2018-01-01},

journal = {International Journal of Molecular Sciences},

volume = {19},

number = {6},

publisher = {MDPI AG},

abstract = {Morphological and histological observations revealed that, at a concentration of 50 µM, 5-azacitidine (5-azaC) totally inhibited the induction of embryogenic masses (EM), while the cultivation of explants (zygotic embryos; ZEs) in the presence of 5 µM of 5-azaC led to the formation of a callus with EM in 10% of the cases. Transmission electron microscopy (TEM) analyzes revealed the presence of the morphological and ultrastructural features that are typical for the vacuolar type of cell death in the callus cells that were treated. A TUNEL assay confirmed the presence of DNA double-strand breaks for the callus cells that had been treated with both 5 and 50 µM 5-azaC concentrations. Analysis of the gene expression of selected cell death markers demonstrated a reduced expression of metacaspase, protein executer 1 (EX1), and thioredoxin (TRX) in the callus cells that had been treated compared to the control culture. The strongest increase in the gene activity was characteristic for glutathione S-transferase (GST). Our studies also included an analysis of the distribution of some arabinogalactan proteins (AGPs) and extensin epitopes, which can be used as markers of cells that are undergoing death in a Brachypodium distachyon tissue culture. © 2018 by the authors. Licensee MDPI, Basel, Switzerland.},

note = {14},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85010888075,

title = {MicroRNAs are intensively regulated during induction of somatic embryogenesis in arabidopsis},

author = { K.P. Szyrajew and D. Bielewicz and J. Dolata and A.M. Wójcik and K. Nowak and A. Szczygieł-Sommer and Z. Szweykowska-Kulinska and A. Jarmolowski and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85010888075&doi=10.3389%2ffpls.2017.00018&partnerID=40&md5=d8db68bd8366253f2074f2b48d23b4ca},

doi = {10.3389/fpls.2017.00018},

issn = {1664462X},

year  = {2017},

date = {2017-01-01},

journal = {Frontiers in Plant Science},

volume = {8},

publisher = {Frontiers Media S.A.},

abstract = {Several genes encoding transcription factors (TFs) were indicated to have a key role in the induction of somatic embryogenesis (SE), which is triggered in the somatic cells of plants. In order to further explore the genetic regulatory network that is involved in the embryogenic transition induced in plant somatic cells, micro-RNA (miRNAs) molecules, the products of MIRNA (MIR) genes and the common regulators of TF transcripts, were analyzed in an embryogenic culture of Arabidopsis thaliana. In total, the expression of 190 genes of the 114 MIRNA families was monitored during SE induction and the levels of the primary (pri-miRNAs) transcripts vs. the mature miRNAs were investigated. The results revealed that the majority (98%) of the MIR genes were active and that most of them (64%) were differentially expressed during SE. A distinct attribute of the MIR expression in SE was the strong repression of MIR transcripts at the early stage of SE followed by their significant up-regulation in the advanced stage of SE. Comparison of the mature miRNAs vs. pri-miRNAs suggested that the extensive post-transcriptional regulation of miRNA is associated with SE induction. Candidate miRNA molecules of the assumed function in the embryogenic response were identified among the mature miRNAs that had a differential expression in SE, including miR156, miR157, miR159, miR160, miR164, miR166, miR169, miR319, miR390, miR393, miR396, and miR398. Consistent with the central role of phytohormones and stress factors in SE induction, the functions of the candidate miRNAs were annotated to phytohormone and stress responses. To confirm the functions of the candidate miRNAs in SE, the expression patterns of the mature miRNAs and their presumed targets were compared and regulatory relation during SE was indicated for most of the analyzed miRNA-target pairs. The results of the study contribute to the refinement of the miRNA-controlled regulatory pathways that operate during embryogenic induction in plants and provide a valuable platform for the identification of the genes that are targeted by the candidate miRNAs in SE induction. © 2017 Szyrajew, Bielewicz, Dolata, Wójcik, Nowak, Szczygieł-Sommer, Szweykowska-Kulinska, Jarmolowski and Gaj.},

note = {42},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84960158396,

title = {Stress-related function of bHLH109 in somatic embryo induction in Arabidopsis},

author = { K. Nowak and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84960158396&doi=10.1016%2fj.jplph.2016.02.012&partnerID=40&md5=e493e62a7f2ecf7ef319aa1cc887db65},

doi = {10.1016/j.jplph.2016.02.012},

issn = {01761617},

year  = {2016},

date = {2016-01-01},

journal = {Journal of Plant Physiology},

volume = {193},

pages = {119-126},

publisher = {Elsevier GmbH},

abstract = {The bHLH109 gene of the bHLH family was identified among the transcription factor encoding genes that were differentially expressed in an embryogenic culture of Arabidopsis. A strong activation of bHLH109 expression was found to be associated with somatic embryogenesis (SE) induction. Several pieces of evidence suggested the involvement of bHLH109 in SE, including the high stimulation of the gene expression in SE-induced explants, which contrasts to the drastically lower level of the gene transcripts in the non-embryogenic callus and in tissue that is induced towards shoot regeneration via organogenesis. Moreover, in contrast to the overexpression of bHLH109, which has been indicated to enhance SE induction in a culture, the bhlh109 knock-out mutation was found to impair the embryogenic potential of explants. In order to identify the genes interacting with the bHLH109, the candidate co-expressed genes were identified in a yeast one hybrid assay. The in vitro regulatory interactions that were identified were verified through mutant and expression analysis. The results suggest that in SE bHLH109 acts as an activator of ECP63, a member of the LEA (LATE EMBRYOGENESIS ABUNDANT) family. Among the potential regulators of bHLH109, three candidates (At5g61620; bZIP4 and bZIP43) were indicated to possibly control bHLH109. The functions of all of the genes that are assumed to interact with bHLH109 are annotated to stress responses.Collectively, the results of the study provide new evidence that cell responses to stress that is imposed under in vitro conditions underlies the promotion of SE. bHLH109 may play a central role in the stress-related mechanism of SE induction via an increased accumulation of the LEA protein (ECP63), which results in the enhanced tolerance of the cells to stress. © 2016 Elsevier GmbH.},

note = {17},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84925493018,

title = {ERF022 impacts the induction of somatic embryogenesis in Arabidopsis through the ethylene-related pathway},

author = { K. Nowak and B. Wójcikowska and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84925493018&doi=10.1007%2fs00425-014-2225-9&partnerID=40&md5=484ed96fbd6cd5bdc8273abcabee016a},

doi = {10.1007/s00425-014-2225-9},

issn = {00320935},

year  = {2015},

date = {2015-01-01},

journal = {Planta},

volume = {241},

number = {4},

pages = {967-985},

publisher = {Springer Verlag},

abstract = {Main conclusion: TheERF022gene was found to affect embryogenic transition in somatic cells in Arabidopsis via the ethylene-related pathway. The study provides evidence thatERF022-LEC2interaction is involved in the auxin–ethylene crosstalk that operates in somatic embryogenesis induction.The ERF022 gene of the ERF family was previously identified among the transcription factor genes that were differentially expressed in an embryogenic culture of Arabidopsis. A strong inhibition of the gene was found to be associated with the induction of somatic embryogenesis (SE) and an erf022 mutant was indicated to display a substantially impaired capacity for SE. Therefore, the molecular function of ERF022 in the induction of SE was studied in the present work. A phenotype of an erf022 mutant was indicated as being related to an increased content of ethylene. The results further suggest that the ERF022 controls the genes that are involved in both the biosynthesis (ACS7) and signalling (ERF1; ETR1) of ethylene and indicate that the ERF022 is a new regulatory element in ethylene-related responses that negatively control the ethylene content and perception. It is proposed that the negative impact of ethylene on the induction of SE may result from a modulation of the auxin-related genes that control the embryogenic transition in somatic cells. Among them, the LEC2, which is a key regulator of the induction of SE through the stimulation of auxin synthesis, was possibly related to ERF022. The results of the study provide new hormone-related clues to define the genetic network that governs SE. A putative model of the regulatory pathway is proposed that is involved in the induction of SE in which the auxin–ethylene interactions are controlled by ERF022 and LEC2 and their targets. © 2014, The Author(s).},

note = {43},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-85027938728,

title = {Effect of thermal oxidation process on wear resistance of B2 iron aluminide},

author = { K. Nowak and M. Kupka and J. Maszybrocka and A. Barylski},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-85027938728&doi=10.1016%2fj.vacuum.2014.11.021&partnerID=40&md5=067a8ff6a7bf7a1a267fccdf1632f50c},

doi = {10.1016/j.vacuum.2014.11.021},

issn = {0042207X},

year  = {2015},

date = {2015-01-01},

journal = {Vacuum},

volume = {114},

pages = {221-225},

publisher = {Elsevier Ltd},

abstract = {The paper presents the abrasive wear resistance of surface layers formed as a result of isothermal oxidation of an FeAlCrZrB iron aluminide in the temperature range 800-1100°C, during 200 h. Mechanical properties, e.g. the hardness and Young's modulus of the surface treated layers have been determined. The coefficient of micromechanical wear and the wear micromechanism were studied. It has been found that the oxide scale formed at the temperature of 1000°C on the iron aluminide surface improves remarkably the wear resistance. © 2014 Elsevier Ltd All rights reserved.},

note = {10},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84902164948,

title = {Phase behavior and mechanical properties of Ni-W studied by first-principles calculations and ab initio based thermodynamics},

author = { N. Schindzielorz and K. Nowak and S.B. Maisel and S. Müller},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84902164948&doi=10.1016%2fj.actamat.2014.04.029&partnerID=40&md5=7298e61625753bb7b2ab871829f17a1c},

doi = {10.1016/j.actamat.2014.04.029},

issn = {13596454},

year  = {2014},

date = {2014-01-01},

journal = {Acta Materialia},

volume = {75},

pages = {307-315},

publisher = {Elsevier Ltd},

abstract = {The substitutional ordering phenomena of face-centered cubic Ni-rich Ni-W alloys are investigated by means of cluster-expansion Hamiltonians based on density functional theory calculations. We observe a strong tendency for ordering in Ni-W characterized by the formation of tungsten chains along the 〈100〉 direction. While previous studies only report a D1 a-type compound at a stoichiometry of Ni4W with this 〈100〉-ordering tendency, we predict that within the solubility range of tungsten in nickel, structures with tungsten 〈100〉-chains are the predominant form of short-range order even at elevated temperatures. In particular, we find a Pt8Ti-structured compound (which also shows this 〈100〉-ordering) to be stable in Ni-W at low temperatures and low tungsten contents. Even at high temperatures, Ni-W solid solutions are found to exhibit strong remnant order. The implications of these findings are discussed from a metallurgical perspective with an emphasis on the stiffening effect of tungsten alloying on Ni-rich matrices. Using these insights on the short-range order, we then determine a parametrization of the composition-dependent stiffening cij(xW) and ∂cij/ ∂xW. © 2014 Acta Materialia Inc. Published by Elsevier Ltd. All rights reserved.},

note = {9},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84891629588,

title = {Studies on hydrogen diffusivity in iron aluminides using the Devanathan-Stachurski method},

author = { M. Kupka and K. Stępień and K. Nowak},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84891629588&doi=10.1016%2fj.jpcs.2013.10.009&partnerID=40&md5=a9a84ff6f234b6f28f91387871e6cfad},

doi = {10.1016/j.jpcs.2013.10.009},

issn = {00223697},

year  = {2014},

date = {2014-01-01},

journal = {Journal of Physics and Chemistry of Solids},

volume = {75},

number = {3},

pages = {344-350},

abstract = {An electrolytic method for cathodic hydrogen saturation developed by Devanathan and Stachurski was successfully used to study hydrogen diffusivity in iron aluminides. Both an appropriate electrolyte and a saturating current density are required for this method. A proper form of the saturation curve was only obtained with 35% NaCl electrolyte, which removed the oxide film blocking hydrogen penetration without further corrosive destruction of the iron aluminide. The optimum saturation current density for determining the most reliable diffusivity was 1.91 A/cm2, yielding Deff},

note = {10},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84880397137,

title = {Extensive Modulation of the Transcription Factor Transcriptome during Somatic Embryogenesis in Arabidopsis thaliana},

author = { M. Gliwicka and K. Nowak and S. Balazadeh and B. Mueller-Roeber and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84880397137&doi=10.1371%2fjournal.pone.0069261&partnerID=40&md5=ac729d4b4a424a526a64c9ea1ffdee18},

doi = {10.1371/journal.pone.0069261},

issn = {19326203},

year  = {2013},

date = {2013-01-01},

journal = {PLoS ONE},

volume = {8},

number = {7},

abstract = {Molecular mechanisms controlling plant totipotency are largely unknown and studies on somatic embryogenesis (SE), the process through which already differentiated cells reverse their developmental program and become embryogenic, provide a unique means for deciphering molecular mechanisms controlling developmental plasticity of somatic cells. Among various factors essential for embryogenic transition of somatic cells transcription factors (TFs), crucial regulators of genetic programs, are believed to play a central role. Herein, we used quantitative real-time polymerase chain reaction (qRT-PCR) to identify TF genes affected during SE induced by in vitro culture in Arabidopsis thaliana. Expression profiles of 1,880 TFs were evaluated in the highly embryogenic Col-0 accession and the non-embryogenic tanmei/emb2757 mutant. Our study revealed 729 TFs whose expression changes during the 10-days incubation period of SE; 141 TFs displayed distinct differences in expression patterns in embryogenic versus non-embryogenic cultures. The embryo-induction stage of SE occurring during the first 5 days of culture was associated with a robust and dramatic change of the TF transcriptome characterized by the drastic up-regulation of the expression of a great majority (over 80%) of the TFs active during embryogenic culture. In contrast to SE induction, the advanced stage of embryo formation showed attenuation and stabilization of transcript levels of many TFs. In total, 519 of the SE-modulated TFs were functionally annotated and transcripts related with plant development, phytohormones and stress responses were found to be most abundant. The involvement of selected TFs in SE was verified using T-DNA insertion lines and a significantly reduced embryogenic response was found for the majority of them. This study provides comprehensive data focused on the expression of TF genes during SE and suggests directions for further research on functional genomics of SE. © 2013 Gliwicka et al.},

note = {84},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84878666955,

title = {Electrospun poly(L-lactic)acid/nanoalumina (PLA/Al2O3) composite fiber mats with potential biomedical application - Investigation of cytotoxicity},

author = { P. Kurtycz and T. Ciach and A. Olszyna and A. Kunicki and E. Radziun and M. Roslon and J. Dudkiewicz Wilczyńska and K. Nowak and E.L. Anuszewska},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84878666955&doi=10.1007%2fs12221-013-0578-5&partnerID=40&md5=dea1e4370f89829f98978479ec7f81d5},

doi = {10.1007/s12221-013-0578-5},

issn = {12299197},

year  = {2013},

date = {2013-01-01},

journal = {Fibers and Polymers},

volume = {14},

number = {4},

pages = {578-583},

abstract = {PLA fibrous mats containing nanoalumina filler were fabricated by electrospinning method. The morphology of the mats was characterized by SEM, and TEM. In vitro biocompatibility of the electrospun fiber mats was also evaluated. Indirect cytotoxicity evaluation of the fiber mats with human skin fibroblasts revealed that the materials were non-toxic to living cells. The cells cultured on the fibrous mat exhibited normal cells shapes and were integrated well with surrounding fibers. The obtained results confirmed the potential for use of the electrosupun PLA/Al2O3 fiber mats for biomedical application. © 2013 The Korean Fiber Society and Springer Science+Business Media Dordrecht.},

note = {16},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84882990244,

title = {LEAFY COTYLEDON2 (LEC2) promotes embryogenic induction in somatic tissues of Arabidopsis, via YUCCA-mediated auxin biosynthesis},

author = { B. Wójcikowska and K. Jaskóła and P. Gąsiorek and M. Meus and K. Nowak and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84882990244&doi=10.1007%2fs00425-013-1892-2&partnerID=40&md5=b86ad3f6b078c67f6368504f82397b4b},

doi = {10.1007/s00425-013-1892-2},

issn = {00320935},

year  = {2013},

date = {2013-01-01},

journal = {Planta},

volume = {238},

number = {3},

pages = {425-440},

publisher = {Springer Verlag},

abstract = {The LEAFY COTYLEDON2 (LEC2) transcription factor with a plant-specific B3 domain plays a central role in zygotic and somatic embryogenesis (SE). LEC2 overexpression induced in planta leads to spontaneous somatic embryo formation, but impairs the embryogenic response of explants cultured in vitro under auxin treatment. The auxin-related functions of LEC2 appear during SE induction, and the aim of the present study was to gain further insights into this phenomenon. To this end, the effect of LEC2 overexpression on the morphogenic responses of Arabidopsis explants cultured in vitro under different auxin treatments was evaluated. The expression profiles of the auxin biosynthesis genes were analysed in embryogenic cultures with respect to LEC2 activity. The results showed that LEC2 overexpression severely modifies the requirement of cultured explants for an exogenous auxin concentration at a level that is effective in SE induction and suggested an increase in the auxin content in 35S::LEC2-GR transgenic explants. The assumption of an LEC2 promoted increase in endogenous auxin in cultured explants was further supported by the expression profiling of the genes involved in auxin biosynthesis. The analysis indicated that YUCCAs and TAA1, working in the IPA-YUC auxin biosynthesis pathway, are associated with SE induction, and that the expression of three YUCCA genes (YUC1; YUC4 and YUC10) is associated with LEC2 activity. The results also suggest that the IAOx-mediated auxin biosynthesis pathway involving ATR1/MYB34 and CYP79B2 does not seem to be involved in SE induction. We conclude that de novo auxin production via the tryptophan-dependent IPA-YUC auxin biosynthesis pathway is implicated in SE induction, and that LEC2 plays a key role in this mechanism. © 2013 The Author(s).},

note = {97},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84867014033,

title = {Approach to methods of network services exploitation},

author = { K. Nowak and J. Mazurkiewicz},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84867014033&doi=10.1007%2f978-3-642-30662-4-11&partnerID=40&md5=31d88c4389f41d3edcf84dda6c971d67},

doi = {10.1007/978-3-642-30662-4-11},

issn = {18675662},

year  = {2012},

date = {2012-01-01},

journal = {Advances in Intelligent and Soft Computing},

volume = {170 AISC},

pages = {165-178},

abstract = {The chapter is focused on the methods of network services exploitation. The approach is based on two streams of data: dependability factors and the features defined by the type of business service realized. The dependability means the combination of the reliability and functional parameters of the network. We try to analyze two types of sophisticated systems: discrete transport systems and the computer networks. The proposed method is based on modeling and simulating of the system behavior. This way it is possible to operate with large and complex networks described by various-not only classic-distributions and set of parameters. The results are converted to the unified system description and generic model. The model can be used as a source to create different measures-also for the economic quality of the network systems. The presented problem is practically essential for defining and organization of network services exploitation. © 2012 Springer-Verlag Berlin Heidelberg.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84859873413,

title = {Evaluation of different embryogenic systems for production of true somatic embryos in Arabidopsis},

author = { K. Nowak and B. Wójcikowska and K.P. Szyrajew and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84859873413&doi=10.1007%2fs10535-012-0063-9&partnerID=40&md5=5a3da4545127c05ea9df9d0597eb6ad3},

doi = {10.1007/s10535-012-0063-9},

issn = {00063134},

year  = {2012},

date = {2012-01-01},

journal = {Biologia Plantarum},

volume = {56},

number = {3},

pages = {401-408},

abstract = {Somatic embryogenesis (SE) in Arabidopsis was induced using various systems, including auxin treatment of in vitro cultured explants (immature zygotic embryos; IZEs) and transgenic plants overexpressing embryogenesis-related transcription factors, e. g. LEC2 together with the GUS reporter gene under control of the auxin-induced DR5 promoter. The study indicated that the SE-systems used gave different embryogenic capacities for the production of true embryos. The highest ratio of true embryos (75 %) was found among embryo-like structures in transgenic seedlings overexpressing LEC2. Analysis of in vitro induced SE systems indicated that in somatic embryos produced in response to exogenous auxin treatment the formation of root poles is frequently disturbed. A lack of a properly formed root meristem was observed in 35-80 % of in vitro induced somatic embryos, in dependence on auxin concentration and duration of treatment. © 2012 Springer Science+Business Media B.V.},

note = {8},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84859431559,

title = {Expression of seed storage product genes (CRA1 and OLEO4) in embryogenic cultures of somatic tissues of Arabidopsis},

author = { M. Gliwicka and K. Nowak and E. Cieśla and M.D. Gaj},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84859431559&doi=10.1007%2fs11240-011-0089-2&partnerID=40&md5=3ca1c154c6f2ff92ae14f16ba58c124e},

doi = {10.1007/s11240-011-0089-2},

issn = {01676857},

year  = {2012},

date = {2012-01-01},

journal = {Plant Cell, Tissue and Organ Culture},

volume = {109},

number = {2},

pages = {235-245},

abstract = {In Arabidopsis, immature zygotic embryos (IZEs) at the late cotyledon stage provide the only explants that can be used to induce in vitro somatic embryogenesis (SE) with high efficiency. The most conspicuous characteristic of SE-competent IZEs is the accumulation of seed storage reserves (SSR), as proteins and lipids. In order to elucidate an assumed role of these compounds in the mechanisms involved in tissue capacity for SE, the genes encoding the main seed storage protein, cruciferin (CRUCIFERIN1; CRA1) and the lipid body-related protein oleosin (OLEOSIN4; OLEO4), were studied. Significantly higher transcriptional activity of both genes, CRA1 and OLEO4, in embryogenic than in non-embryogenic cultures, were indicated. However, their activity under in vitro culture were found not to be induced by auxin treatment or LEC2 expression, and were unspecific for SE induction. In addition, the results on mutants severely impaired in SE response indicated that high activity of SSR genes in explant tissue is not sufficient for SE induction. On the other hand, the cra1 and oleo4 insertional mutants were found to be defective in their capacity for SE. In addition, it was found that the mutants displayed lower tolerance to high salinity and osmotic stress. Altogether, the results suggest an indirect influence of SSR genes on the embryogenic capacity of cultured tissues possibly via improvement of cell response to stress imposed in vitro. © 2011 The Author(s).},

note = {13},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84856611770,

title = {High-temperature oxidation behaviour of B2 FeAl based alloy with Cr, Zr and B additions},

author = { K. Nowak and M. Kupka},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84856611770&doi=10.1016%2fj.matchemphys.2011.12.031&partnerID=40&md5=9f1d65ebfd36db41e80249a750851a90},

doi = {10.1016/j.matchemphys.2011.12.031},

issn = {02540584},

year  = {2012},

date = {2012-01-01},

journal = {Materials Chemistry and Physics},

volume = {132},

number = {2-3},

pages = {902-908},

publisher = {Elsevier Ltd},

abstract = {The isothermal oxidation behaviour of FeAlCrZrB intermetallic in air over the temperature range of 700-1100 °C was studied. Characterisation of the specimens after oxidation was conducted using Xray diffraction (XRD), scanning electron microscopy (SEM) and energy dispersive spectroscopy (EDS). The rate constants of the isothermal oxidation and activation energies for oxide layer growth were determined. Limited scale spallation was observed in the specimens oxidised at 1100 °C. Scale failure for these specimens results from the high thermal stresses induced during the cooling stage after oxidation. © 2011 Elsevier B.V. All rights reserved.},

note = {14},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-84855815168,

title = {Multiagent modeling and xml-like description of discrete transport system},

author = { K. Nowak and J. Mazurkiewicz},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-84855815168&partnerID=40&md5=a24d88bc91f4eccf4cf44c18095fe630},

issn = {14076160},

year  = {2011},

date = {2011-01-01},

journal = {Transport and Telecommunication},

volume = {12},

number = {4},

pages = {14-26},

abstract = {The paper describes a novel idea to monitoring and modeling of Discrete Transport System (DTS). We propose the formal model of the transport system with the approach to its modelling based on the system behaviour observation. The proposed method is based on specified description languages that can be seen as a bridge between the system description (as a mathematical or expert specification) and the analysis tools. The DTS is a simplified case of the Polish Post. Using a multilevel-agent based architecture the realistic data are collected. Described architecture can be found as a basis for a tool that can visualize and analyze data, with respect to the real parameters. Absence of any restrictions on the system structure and on the kind of distribution describing the system functional and reliability parameters is the main advantage of the approach. The paper presents some exemplar system modeling based on a case study. The proposed approach can be used as a helpful tool to administrate the system.},

note = {3},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-82755182784,

title = {Assessment of the cytotoxicity of aluminium oxide nanoparticles on selected mammalian cells},

author = { E. Radziun and J. Dudkiewicz Wilczyńska and I. Ksiazek and K. Nowak and E.L. Anuszewska and A. Kunicki and A. Olszyna and T. Zabkowski},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-82755182784&doi=10.1016%2fj.tiv.2011.07.010&partnerID=40&md5=4ccb742d1f5a095ee7cf090b8cdab201},

doi = {10.1016/j.tiv.2011.07.010},

issn = {08872333},

year  = {2011},

date = {2011-01-01},

journal = {Toxicology in Vitro},

volume = {25},

number = {8},

pages = {1694-1700},

abstract = {The rapid development of nanotechnology raises both enthusiasm and anxiety among researchers, which is related to the safety use of the manufactured materials. Thus, the aim of this study was to investigate the effect of aluminium oxide nanoparticles on the viability of selected mammalian cells in vitro. The aluminium oxide nanoparticles were characterised using SEM and BET analyses. Based on Zeta (ζ) potential measurements and particle size distribution, the tested suspensions of aluminium oxide nanoparticles in water and nutrient solutions with or without FBS were classified as unstable. Cell viability, the degree of apoptosis induction and nanoparticles internalization into the cells were assessed after 24h of cell exposure to Al 2O 3 nanoparticles. Our results confirm the ability of aluminium oxide nanoparticles to penetrate through the membranes of L929 and BJ cells. Despite this, there was no significant increase in apoptosis or decrease in cell viability observed, suggesting that aluminium oxide nanoparticles in the tested range of concentrations has no cytotoxic effects on the selected mammalian cells. © 2011 Elsevier Ltd.},

note = {90},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-27544467906,

title = {Application of the bismuth film electrode for catalytic adsorptive stripping potentiometric determination of cobalt in dimethylglyoxime-nitrite system},

author = { K. Nowak and A. Bobrowski},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-27544467906&doi=10.1080%2f00032710500230863&partnerID=40&md5=38d7d84ff7e77a10e1a9fc632dccd43e},

doi = {10.1080/00032710500230863},

issn = {00032719},

year  = {2005},

date = {2005-01-01},

journal = {Analytical Letters},

volume = {38},

number = {12},

pages = {1887-1897},

abstract = {The application of bismuth film electrodes to the determination of cobalt by constant current adsorptive stripping potentiometry with exploitation of a catalytic effect is presented. The addition of NaNO2 to the solution containing ammonia buffer and dimethylglyoxime results in a 25-fold enhancement of the adsorptive stripping potentiometric cobalt signal. Several key parameters of the potentiometric stripping mode were optimized, including the composition of the supporting electrolyte, the stripping current, the accumulation potential, and the accumulation time. The optimized procedure yields favorable and highly stable stripping responses with good precision (RSD = 1.4% for a Co concentration of 2 μg L-1), low detection limit (0.07 μg L -1), and good linearity (up to 10 μg L-1; R2 = 0.998) with a deposition time of 60 s and a stripping current of 10 μA. The method enables the determination of Co in the presence of high excesses of Ni or Zn. Copyright © Taylor & Francis, Inc.},

note = {20},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-20444386579,

title = {Novel voltammetric methods for vanadium determination by exploitation of catalytic adsorptive vanadium-chloranilic acid-bromate system},

author = { A. Bobrowski and K. Nowak and J. Zarębski},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-20444386579&doi=10.1016%2fj.aca.2005.03.074&partnerID=40&md5=c3a6d35f6fd3b5a17dc81526bc643d1c},

doi = {10.1016/j.aca.2005.03.074},

issn = {00032670},

year  = {2005},

date = {2005-01-01},

journal = {Analytica Chimica Acta},

volume = {543},

number = {1-2},

pages = {150-155},

abstract = {A new differential pulse polarographic (DPP) and catalytic adsorptive stripping voltammetric (CAdSV) methods for the determination of vanadium(V) have been developed. The CAdSV method is based on the adsorptive accumulation of the vanadium-chloroanilic acid (CAA) complex on the surface of a HMDE and the utilization of the catalytic reaction with BrO3-. The optimal CAdSV vanadium(V) response was obtained in (0.04 ÷ 0.2) M acetic buffer at pH 4.5-4.8 in the presence of (2.0 ÷ 4.0) × 10 -5 M CAA and (5.0 ÷ 10.0) × 10-3 M KBrO 3 with an accumulation potential of (-0.10 ÷ -0.15) V and accumulation time of (80 ÷ 120) s. The sensitivity of the CAdSV was 42.7 nA nM-1 and the linearity range amounted from 2 × 10 -10 up to 5 × 10-8 M for 100 s of accumulation. The R.S.D. was 4.5% at the 1.0 × 10-9 V(V) level. The detection limits were found to be 2.8 × 10-9 M for DP polarography and 9 × 10-12 M for CAdSV with 100 s of accumulation. Possible interferences by Sb(III), Pb(II), Cu(II), Cd(II), Fe(III), Bi(III), Sn(II), Sn(IV), U(VI), Mo(VI) and surface active substances were evaluated. The results of the determination of V(V) in certified reference material water sample showed good reproducibility (R.S.D. = 3.4%) and reliability of the elaborated CAdSV method. © 2005 Elsevier B.V. All rights reserved.},

note = {26},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-14744285381,

title = {Volumetric properties of binary mixtures of alkoxyethanols with ethyl tert-butyl ether at various temperatures},

author = { C.M. Kinart and K. Nowak and W.J. Kinart},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-14744285381&doi=10.1016%2fj.jct.2004.09.014&partnerID=40&md5=7e58a1f597cab3d7fd351ed5e5606a87},

doi = {10.1016/j.jct.2004.09.014},

issn = {00219614},

year  = {2005},

date = {2005-01-01},

journal = {Journal of Chemical Thermodynamics},

volume = {37},

number = {5},

pages = {423-429},

abstract = {Densities at T = (293.15; 298.15; 303.15; 308.15; and 313.15) K in the binary liquid mixtures of ethyl tert-butyl ether with 2-methoxyethanol, 2-(2-methoxyethoxy)ethanol or 2-{2-(2-methoxyethoxy)ethoxy}ethanol have been measured over the entire mixture compositions. These data have been used to compute the excess molar volumes. The excess molar volumes are negative over the entire range of composition for all mixtures. The changes of VE with variations of the composition and the chain-length of the alkyl groups in the alkoxyethanol molecules are discussed in terms of intermolecular interactions. © 2004 Elsevier Ltd. All rights reserved.},

note = {16},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-23244456851,

title = {Application of a bismuth film electrode to the voltammetric determination of trace iron using a Fe(III)-TEA-BrO 3 - Catalytic system},

author = { A. Bobrowski and K. Nowak and J. Zarębski},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-23244456851&doi=10.1007%2fs00216-005-3313-2&partnerID=40&md5=7854f6a92a23d112991680975c66ed3d},

doi = {10.1007/s00216-005-3313-2},

issn = {16182642},

year  = {2005},

date = {2005-01-01},

journal = {Analytical and Bioanalytical Chemistry},

volume = {382},

number = {7},

pages = {1691-1697},

publisher = {Springer Verlag},

abstract = {A sensitive catalytic voltammetric method for determining trace iron at a bismuth film electrode (BiFE) is described. The method is based on the cathodic reduction of the Fe(III)-triethanolamine (TEA) complex to Fe(II). It has been proved that the addition of KBrO 3 causes rapid oxidation of Fe(II) and TEA, and therefore results in a large increase in the analytical signal from Fe(III) when TEA is placed in alkaline solution. When TEA was present in the solution, operating the BiFE under optimized conditions yielded a stable catalytic voltammetric response for iron, with high sensitivity (0.88 μA μM -1 ), good precision (RSD=3.9%) and a low detection limit (7.7×10 -9 M), obtained without any preconcentration procedure. Possible interferences from the coexisting ions and surface-active substances were investigated. Finally, the method was applied with satisfactory results to the determination of iron in certified reference river water samples. © Springer-Verlag 2005.},

note = {141},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-18244392675,

title = {Densities and relative permittivities of binary mixtures containing dipropylene glycol monomethyl ether},

author = { C.M. Kinart and K. Nowak and A. Ćwiklińska and W.J. Kinart and A. Bald},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-18244392675&doi=10.1007%2fs10973-004-0565-6&partnerID=40&md5=18fbae7224368e57f526ab6a2c0a89b4},

doi = {10.1007/s10973-004-0565-6},

issn = {13886150},

year  = {2005},

date = {2005-01-01},

journal = {Journal of Thermal Analysis and Calorimetry},

volume = {79},

number = {1},

pages = {79-84},

publisher = {Springer Netherlands},

abstract = {Relative permittivities (ε) and densities (Ρ) of numerous binary mixtures of dipropylene glycol monomethyl ether (1)+propylene glycol mono n-butyl ether (2) and dipropylene glycol monomethyl ether (1)+dipropylene glycol mono n-butyl ether (2) at five temperatures, between (293.15 and 313.15) K, are reported. The excess molar volumes (VE) and the relative permittivity deviations (Δε) were calculated from these experimental data. The results are discussed in terms of intermolecular interactions in the bulk of studied the binary mixtures. © 2005 Akadémiai Kiadó, Budapest binary liquid mixtures, density, dipropylene glycol.},

note = {2},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-2942545735,

title = {Excess molar volumes of binary mixtures containing dipropylene glycol monomethyl ether with water and 2-methoxyethanol},

author = { C.M. Kinart and K. Nowak and A. Bald and W.J. Kinart and Z. Kinart},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-2942545735&doi=10.1080%2f0031910042000197157&partnerID=40&md5=6d64b42730d210c89473c4b8b5ab1144},

doi = {10.1080/0031910042000197157},

issn = {00319104},

year  = {2004},

date = {2004-01-01},

journal = {Physics and Chemistry of Liquids},

volume = {42},

number = {3},

pages = {291-295},

abstract = {Densities (ρ) at five temperatures, between 293.15 and 313.15 K, of binary mixtures of dipropylene glycol monomethyl ether + water and dipropylene glycol monomethyl ether + 2-methoxyethanol, are reported. The excess molar volumes (VE) were calculated from these experimental data. The results are discussed in terms of intermolecular interactions. © 2004 Taylor & Francis Ltd.},

note = {1},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{2-s2.0-1242321204,

title = {Density, relative permittivity and refractive index for propylene glycol mono n-butyl ether + 2-methoxyethanol mixtures},

author = { C.M. Kinart and A. Bald and W.J. Kinart and K. Nowak and Z. Kinart},

url = {https://www.scopus.com/inward/record.uri?eid=2-s2.0-1242321204&doi=10.1080%2f00319100310001625044&partnerID=40&md5=0fa9f5664b4414aeb1879718c8796c91},

doi = {10.1080/00319100310001625044},

issn = {00319104},

year  = {2004},

date = {2004-01-01},

journal = {Physics and Chemistry of Liquids},

volume = {42},

number = {1},

pages = {95-102},

abstract = {Densities (ρ), relative permittivities (ε) and refractive indexes (n) at five temperatures, between 293.15 and 313.15 K, of binary mixtures of propylene glycol mono n-butyl ether (1) + 2-methoxyethanol (2), are reported. The excess molar volumes (VE), the relative permittivity and refractive index deviations (Δε and Δn were calculated from these experimental data. The results are fitted to the Redlich-Kister polynomial equation to estimate the binary coefficients and standard errors. Furthermore; the experimental results are used to disclose the nature of binary interactions in the bulk of the binary mixtures studied.},

note = {6},

keywords = {},

pubstate = {published},

tppubtype = {article}

}