An unbiased high-throughput functional screening strategy is developed to decode the regulatory potential of the Salmonella enterica transcriptome during macrophage infection, establishing a scalable strategy for extracting functional regulatory information from condition-specific bacterial transcriptomes and providing a framework for uncovering context-dependent RNA-mediated control of complex host-associated phenotypes.
A hybrid sequencing strategy integrating Oxford Nanopore long-read and Illumina short-read sequencing enabled discovery of full-length transcripts with novel 5' and 3' boundaries and uncovered 349 previously unannotated long non-coding RNAs highly induced during late stages of wasp infestation.
Kyung-Tae Lee, Bumsik Cho, Daewon Lee et al.· Genetics· 0 citations
CRISPR spacer-based host-virus linkage analysis is applied to 3,229 myxobacterial genomes and identified 790 nonredundant myxophages spanning diverse global ecosystems, substantially expanding the myxoviral diversity and providing insights into virus-host interactions and evolutionary adaptation of myxophages.
A high-resolution transcriptome map and curated sRNA set for the pathogen Vibrio parahaemolyticus is provided and it is shown that broadly conserved VcrX represses chitin utilization genes and may regulate Vibrio Spot 42, which is also confirmed is translated.
Zhi-Zhou Jia, Han Zhang, D. Falush et al.· bioRxiv· 0 citations
It is shown that control of TE expression and propagation is deeply embedded within host regulatory circuits, with DNA methylation and transcription factors jointly shaping TE transcriptional activity.
Carles Borredá, Pol Vendrell-Mir, Basile Leduque et al.· Nature Communications· 1 citation
The development and application of Stochastic Lineage-based Iterative Minimization (SLIM) is shown, providing a modular, high-throughput platform for unbiased genome reduction across phylogenetically diverse bacteria and establishing a scalable, generalizable framework for navigating the vast landscape of minimized gen...
Mikel Lipschitz, Bai-Yi Quan, Indeever Madireddy et al.· bioRxiv· 0 citations
Wolbachia pipientis is a widespread obligate intracellular bacterium and an effective biocontrol agent being deployed in the field against mosquito-borne viral diseases. Investigating the transcriptomic dynamics of Wolbachia within host cells is highly desired but is fundamentally challenged by the overwhelming abundan...
Amit Sinha, C. Carlow, Zhiru Li· Frontiers in Microbiology· 0 citations
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