Project description:To elucidate the mechanisms by which ammonia induced the dispersion and proliferation of A. pleuropneumoniae biofilms, NH3·H2O was added to biofilms and planktonic bacteria cultured to the log-phase for short-term stimulation and incubation. Subsequently, planktonic bacteria after ammonia stimulation (PK_NH3, the rapidly proliferating planktonic bacteria after ammonia stimulation), bacteria in the biofilm adhered layer (BF_NH3, adhered biofilm) and the supernatant layer (Up_NH3, bacteria dispersed from the BF layer ) were collected, along with the supernatant layer (Up_DspB) and adhered layer (BF_DspB) treated with DspB, and untreated control groups (PK_Con, Up_Con, BF_Con). RNA was extracted for transcriptome sequencing analysis.
2026-02-28 | GSE289808 | GEO
Project description:study of planktonic bacteria diversity in environment
Project description:To determine whether flow alters the gene expression of planktonic P. aeruginosa, we designed a long microfluidic channel that enabled us to expose bacteria to flow for significant lengths of time and then be fixed as they exit the channel. The experiments mimic the kinds of shear flows characteristic of a wide variety of confined flow configurations. Using this microfluidic system, we performed bulk RNA-Seq analysis of planktonic bacteria that flowed for 55 min at a shear rate of 20 per second, and compared gene expression of this population with a control population of planktonic bacteria under similar conditions with no flow.
Project description:Strain N16961 was incubated with crab shell in artificial seawater media for 24 hours. cDNA from 1 ug RNA was labeled with Cy3 (planktonic bacteria) and Cy5 (crab attached bacteria).
