Magdalena Ewa Pawełkowicz

Magdalena Ewa Pawełkowicz
Warsaw University of Life Sciences - SGGW | SGGW · Department of Plant Genetics Breeding and Biotechnology Institute of Biology

PhD

About

110
Publications
22,864
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655
Citations
Citations since 2016
48 Research Items
410 Citations
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2016201720182019202020212022020406080
2016201720182019202020212022020406080
2016201720182019202020212022020406080

Publications

Publications (110)
Article
Full-text available
The role of miRNAs in connection with the phenomenon of somaclonal variation, which occurs during plant in vitro culture, remains uncertain. This study aims to investigate the possible role of miRNAs in multi-omics regulatory pathways in cucumber somaclonal lines. For this purpose, we performed sRNA sequencing (sRNA-seq) from cucumber fruit samples...
Article
Full-text available
In terms of the process of air purification, a lot of attention has been devoted to trees and shrubs. Little attention has been paid to herbaceous vegetation from the lower forest layers. Urban forests are often located on the outskirts of cities and surround exit roads where there is heavy traffic, generating particulate matter (PM) pollution. The...
Article
Full-text available
Somaclonal variation during in vitro culture is often an undesirable phenomenon but may also be a source of genetic variation useful for breeders. The molecular mechanisms underlying this phenomenon remain uncertain. In this study, we analyzed the fruit transcriptome of three independent cucumber lines using RNA-sequencing technology and performed...
Article
Full-text available
The development of new plant varieties by genetic modification aims at improving their features or introducing new qualities. However, concerns about the unintended effects of transgenes and negative environmental impact of genetically modified plants are an obstacle for the use of these plants in crops. To analyze the impact of transgenesis on pla...
Article
Full-text available
Snake melon (Cucumis melo subsp. melo L. var. flexuosus (L.) Naudin) is an ancient and traditional crop in the Mediterranean region. Nevertheless, there has been poor interest in assessing snake melon germplasm where its genetic resources have not been surveyed before despite their potential in adaptation to environmental changes. In this study, we...
Article
Full-text available
Transgenic plants are commonly used in breeding programs because of the various features that can be introduced. However, unintended effects caused by genetic transformation are still a topic of concern. This makes research on the nutritional safety of transgenic crop plants extremely interesting. Cucumber (Cucumis sativus L.) is a crop that is gro...
Article
The emergence of somaclonal variability in in vitro cultures is undesirable during micropropagation, but this phenomenon may be a source of genetic variability sought by breeders. The main factors that affect the appearance of variability are known, but the exact mechanism has not yet been determined. In this paper, we used next-generation sequenci...
Article
Full-text available
Genetic variation is expressed by the presence of polymorphisms in compared genomes of individuals that can be transferred to next generations. The aim of this work was to reveal genome dynamics by predicting polymorphisms among the genomes of three individuals of the highly inbred B10 cucumber (Cucumis sativus L.) line. In this study, bioinformati...
Article
Full-text available
Key message Transcriptome data and qPCR analysis revealed new insight into genes regulatory mechanism related to cucumber sex determination. Abstract Cucumber (Cucumis sativus L.) is an economically important crop cultivated worldwide. Enhancing the genomic resources for cucumber may enable the regulation of traits relevant to crop productivity an...
Article
Full-text available
Despite the importance of plant sex determination in genetic diversity, there is no clear picture of the regulation of this process. Cucumber has recently emerged as an excellent model system to explore sex determination. In this review, we describe the current state of sex determination in cucumber and propose a model to explain the regulation of...
Article
The present study demonstrates how different potato virus Y (PVY) strains affect the miRNA balance in tobacco cv. Samsun. The two prevalent strains PVYNTN and PVYN−Wi caused severe and mild veinal necrosis (VN) respectively, and the unique PVYZ-NTN strain induced milder vein clearing (VCl) in the upper non-inoculated leaves. A single amino acid pol...
Article
Full-text available
microRNA molecules belong to a class of small non-coding RNAs composed of 21–24 nucleotides and have been identified in most eukaryotes. These small RNA molecules can either transcriptionally or post-transcriptionally regulate expression of their target messenger RNAs. Access to the latest RNA-profiling technologies (e.g. high-throughput sequencing...
Conference Paper
Full-text available
Genome sequencing is the core of genomic research. With the development of NGS and lowering the cost of procedure there is another tight gap - genome assembly. Developing the proper tool for this task is essential as quality of genome has important impact on further research. Here we present comparison of several de Bruijn assemblers tested on C. s...
Conference Paper
Full-text available
The application of genomic approaches may serve as an initial step in understanding the complexity of biochemical network and cellular processes responsible for regulation and execution of many developmental tasks. The molecular mechanism of sex expression in cucumber is still not elucidated. A study of differential expression was conducted to iden...
Conference Paper
Full-text available
Laser Capture Microdissection (LCM) is a sample preparation microscopic method that enables isolation of an interesting cell or cells population from human, animal or plant tissue. This technique allows for obtaining pure sample from heterogeneous mixture. From isolated cells, it is possible to obtain the appropriate quality material used for genom...
Data
Homology search results for 3737 non-redundant rye DArT marker sequences.
Data
Percentages of GO terms assigned to functional groups. Percentages of GO terms assigned to functional groups within (A) biological process, (B) cellular component and (C) molecular function categories.
Data
Functional annotations of non-redundant rye DArT marker sequences.
Article
Full-text available
Large genome size and complexity hamper considerably the genomics research in relevant species. Rye (Secale cereale L.) has one of the largest genomes among cereal crops and repetitive sequences account for over 90% of its length. Diversity Arrays Technology is a high-throughput genotyping method, in which a preferential sampling of gene-rich regio...
Article
Two Arabidopsis thaliana genes from the PP2C family of protein phosphatases (AtABI1 and AtABI2) were used to find orthologous genes in the Cucumis sativus L. cv. Borszczagowski (cucumber) genome. Cucumber has been used as a model plant for sex expression studies because although it has been defined as a monoecious species, numerous genotypes are kn...
Article
Three cDNA clones were used to screen cucumber genome in order to find genes and proteins. Functional annotation reveals that they are correlated with ubiquitination pathways. Various bioinformatics tools were used to screen and check protein sequences features such as: the presence of specific domains, transmembrane regions, cleavage site and cell...
Article
Real-time quantitative polymerase chain reaction is consider as the most reliable method for gene expression studies. However, the expression of target gene could be misinterpreted due to improper normalization. Therefore, the crucial step for analysing of qPCR data is selection of suitable reference genes, which should be validated experimentally....
Article
Our study demonstrates the new sources of resistance available in potato cv. Etola, which represent multiple strain-specific resistance genes against three strains of PVY. Etola is the first documented cultivar of this sort in Europe that exhibits hypersensitive resistance (HR) to PVYNTN isolate PVY-3202 and different levels of partial resistance t...
Article
Full-text available
An important computational challenge is finding the regulatory elements across the promotor region. In this work we present the advantages and disadvantages from the application of different bioinformatics programs for localization of transcription factor binding sites in the upstream region of genes connected with sex determination in cucumber. We...
Article
Full-text available
The new sequencing methods, called Next Generation Sequencing gives an opportunity to possess a vast amount of data in short time. This data requires structural and functional annotation. Functional identification and characterization of predicted proteins could be done by in silico approches, thanks to a numerous computational tools available nowa...
Article
Full-text available
Wild Cucumis species have been divided into Australian/Asian and African groups using morphological and phylogenetic characteristics, and new species have been described recently. No molecular cytogenetic information is available for most of these species. The crossability between 5 southern African Cucumis species (C. africanus, C. anguria, C. myr...
Conference Paper
Full-text available
Recent rapid development of next generation sequencing (NGS) technologies provided significant impact into genomics field of study enabling implementation of many de novo sequencing projects of new species which was previously confined by technological costs. Along with advancement of NGS there was need for adjustment in assembly programs. New algo...
Conference Paper
Full-text available
A major focus of sequencing project is to identify genes in genomes. However it is necessary to define the variety of genes and the criteria for identifying them. In this work we present discrepancies and dependencies from the application of different bioinformatic programs for structural annotation performed on the cucumber data set from Polish Co...
Article
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Identifying structural variations is crucial to obtain comprehensive knowledge on genomic differentiation. Massive data generated by present technologies determines researchers to make use of computational methods for variation discovery in genomes. Focusing on results and trying to specify challenges remained and possible solutions for the future,...
Article
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Cucumis metuliferus (2n = 24) is a cultivated species of the Cucumis genus which is a potential genetic resource for Cucumis crops. Although some cytogenetic research has been reported, there is no study of karyotyping in this species. Here, we used 4',6-diamidino-2-phenylindole and chromomycin A3 staining to identify 12 pairs of chromosomes in ear...
Article
Full-text available
Two previously sequenced tobacco rattle virus (TRV) isolates, Slu24 and Deb57, from Polish potato fields have recombinant RNA2 species. The 3'-proximal region of the Slu24 RNA2 is derived from the 3' terminus of its supporting RNA1, while that of the Deb57 RNA2 is derived from the 3' terminus of the unrelated RNA1 from the isolate SYM or PpK20. Gen...
Article
Four Tobacco rattle virus (TRV) isolates were identified from tobacco bait seedlings planted in soil samples from Polish potato fields. Sequence analysis of the genomic RNA1 of the isolates revealed significant homologies to the isolates Ho and AL recently found in Germany. Multiple sequence alignments of the genomic RNA2 indicated that the two iso...
Conference Paper
Introduction: Protein phosphatases (PPs) reverse the functional modification of protein phosphorylation that is catalyzed by protein kinases, and thereby modulate protein phosphoregulation. Modification of the phosphorylation state of a protein also changes the protein conformation, which in turn modulates protein-protein interactions or activation...
Conference Paper
Full-text available
Cucumber is an important plant in horticulture and science world. Sequencing projects of C. sativus genome enable new methodological aproaches in further investigation of this species. Accessibility is crucial to fully exploit obtained information about detail structure of genes, markers and other characteristic features such contigs, scaffolds and...