Jan Gawor

@[email protected]
136 Followers
168 Following
42 Posts
Sanger, NGS sequencing specialist (love long reads :), microbial de novo sequencing, Research Associate at http://oligo.pl DNA Sequencing Facility IBB PAS
Twitter: @gaworj
Twitterhttps://twitter.com/gaworj
ORCIDhttps://orcid.org/0000-0003-3800-2557
Jan GaworFeb 8, 2023
I'm delighted to present the 40th paper in my career.🥳
We assessed the phylogenetic structure of the whole and active fractions of bacterial communities housed by Antarctic lichens using targeted gDNA and cDNA 16S rRNA gene amplicon #NGS sequencing.
https://academic.oup.com/femsec/advance-article-abstract/doi/10.1093/femsec/fiad015/7030896?redirectedFrom=fulltext
Bacterial communities of Antarctic lichens explored by gDNA and cDNA 16S rRNA gene amplicon sequencing

Abstract. Recently, lichens came once more into the scientific spotlight due to their unique relations with Prokaryotes. Several temperate region lichen species

OUP Academic
Jan GaworJan 10, 2023

Our recent paper is out🥳
We identified and characterized proteins interacting with partitioning protein ParB in Pseudomonas aeruginosa, a Gram-negative pathogen causing life-threatening infections in immunocompromised patients.
We mapped the domain of interactions with its cognate ParA partner and showed that ParB–ParA interactions are crucial for the chromosome segregation and for proper SMC action on DNA.

https://journals.asm.org/doi/10.1128/spectrum.04289-22

Jan GaworDec 27, 2022
I watched Avatar 2 at the cinema today. Pandora has impressed me once again. CGI is amazing. It's definitely worth watching on the big screen. 8/10 #AvatarTheWayOfWater
Jan GaworDec 22, 2022
Has anyone of you recently used Phaster web service? It in not working properly for several days. All of my analyzes are stalled.
Jan GaworNov 24, 2022
Show threadDavid Eccles 🌻🇵🇸6x🩹🛡️Nov 17, 2022
Hmm... interesting
Jan GaworNov 23, 2022
Our recent paper is out!
Functional Characterization of TetR-Like Transcriptional Regulator PA3973 from Pseudomonas aeruginosa
https://www.mdpi.com/1422-0067/23/23/14584
Functional Characterization of TetR-like Transcriptional Regulator PA3973 from Pseudomonas aeruginosa

Pseudomonas aeruginosa, a human opportunistic pathogen, is a common cause of nosocomial infections. Its ability to survive under different conditions relies on a complex regulatory network engaging transcriptional regulators controlling metabolic pathways and capabilities to efficiently use the available resources. P. aeruginosa PA3973 encodes an uncharacterized TetR family transcriptional regulator. In this study, we applied a transcriptome profiling (RNA-seq), genome-wide identification of binding sites using ChIP-seq, as well as the phenotype analyses to unravel the biological role of PA3973. Transcriptional profiling of P. aeruginosa PAO1161 overexpressing PA3973 showed changes in the mRNA level of 648 genes. Concomitantly, ChIP-seq analysis identified more than 300 PA3973 binding sites in the P. aeruginosa genome. A 13 bp sequence motif was indicated as the binding site of PA3973. The PA3973 regulon encompasses the PA3972-PA3971 genes encoding a probable acyl-CoA dehydrogenase and a thioesterase. In vitro analysis showed PA3973 binding to PA3973p. Accordingly, the lack of PA3973 triggered increased expression of PA3972 and PA3971. The ∆PA3972-71 PAO1161 strain demonstrated impaired growth in the presence of stress-inducing agents hydroxylamine or hydroxyurea, thus suggesting the role of PA3972-71 in pathogen survival upon stress. Overall our results showed that TetR-type transcriptional regulator PA3973 has multiple binding sites in the P. aeruginosa genome and influences the expression of diverse genes, including PA3972-PA3971, encoding proteins with a proposed role in stress response.

MDPI
Jan GaworNov 21, 2022
How to write scientific article:step by step guide.
https://www.sciencedirect.com/science/article/abs/pii/S1878764915001606
Jan GaworNov 17, 2022
microshades: An R Package for Improving Color Accessibility and Organization of Microbiome Data
https://journals.asm.org/doi/10.1128/mra.00795-22?utm_source=twitter&utm_medium=social&utm_content=ASM&utm_id=falcon&utm_campaign=MicrobiologyResourceAnnouncements
Show threadJan GaworNov 15, 2022
Bacterial genomes can be rich in long repeats:
https://academic.oup.com/nar/article/46/17/8953/5078241?login=false
Pushing the limits of de novo genome assembly for complex prokaryotic genomes harboring very long, near identical repeats

Abstract. Generating a complete, de novo genome assembly for prokaryotes is often considered a solved problem. However, we here show that Pseudomonas koreensis

OUP Academic
Jan GaworNov 15, 2022
Great preprint!
"Assembling the perfect bacterial genome using OxfordNanopore and Illumina sequencing"
https://preprints.scielo.org/index.php/scielo/preprint/view/5053/9840
View of Assembling the perfect bacterial genome using Oxford Nanopore and Illumina sequencing

SciELO Preprints Collection is an integral part of SciELO, an international cooperation program aiming at the development of open access scientific communication covering all areas of knowledge. It operates as a collection of non-peer-reviewed manuscripts within the SciELO Network of national and thematic collection of journals.