Jörn Kalinowski

Tyrosine availability shapes Staphylococcus aureus nasal colonization and interactions with commensal communities

The paper shows that tyrosine availability influences Staphylococcus aureus nasal colonization and its interactions with commensal bacteria.

High-resolution mapping of Sigma Factor DNA Binding Sequences using Artificial Promoters, RNA Aptamers and Deep Sequencing

The paper maps sigma54 DNA binding sequences in Pseudomonas putida using a data-driven approach combining DNA libraries, RNA aptamers, and deep sequencing, revealing 64,966 distinct motifs.

Role of a single MCP in evolutionary adaptation of Shewanella putrefaciens for swimming in planktonic and structured environments

This study shows that a single MCP deletion in Shewanella putrefaciens enhances chemotaxis in structured environments with minimal metabolic cost.

5'-untranslated region sequences enhance plasmid-based protein production in Sulfolobus acidocaldarius

The paper shows that adding 5'-UTRs from S. acidocaldarius improves plasmid-based protein production, with the alba 5-UTR increasing yield fourfold.

Discovery of a pentose as a cytosine nucleobase modification in Shewanella phage Thanatos-1 genomic DNA mediating enhanced resistance towards host restriction systems

The paper identifies a novel pentose modification on cytosine in phage DNA that enhances resistance to host restriction systems.

Enhanced protein secretion in reduced genome strains of Streptomyces lividans

The paper constructs genome-reduced strains of S. lividans to enhance heterologous protein secretion, finding improved secretion levels and altered metabolic and stress responses.

Histone binding of ASF1 is required for fruiting body development, but not for genome stability in the filamentous fungus Sordaria macrospora

This study shows that ASF1 histone binding is essential for fertility in Sordaria macrospora, but not for genome stability, and identifies a chromosomal duplication linked to the mutant phenotype.

Long-read Sequencing Shows Complex Structural Variants in Tumor-stage Mycosis Fungoides

This study uses long-read sequencing to analyze structural variants in mycosis fungoides tumors, revealing complex SVs and chromothripsis events.

Nanopore sequencing of native adeno-associated virus (AAV) single-stranded DNA using a transposase-based rapid protocol

This paper introduces a transposase-based protocol for nanopore sequencing of ssDNA without second-strand synthesis, demonstrating its utility for characterizing AAV vectors.

25 years of propagation in suspension cell culture results in substantial alterations of the Arabidopsis thaliana genome

The paper reports genome sequencing and analysis of an Arabidopsis thaliana suspension cell culture line, revealing genome size reduction and differences in sequence variants compared to the reference.