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ChIP-seq of Myxococcus xanthus to identify CdbA DNA binding sites in vivo

ABSTRACT: ChIP-seq of Myxococcus xanthus to identify CdbA DNA binding sites in vivo

PROVIDER: PRJEB35484 | ENA |

REPOSITORIES: ENA

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ChIP-seq of Myxococcus xanthus to identify CdbA DNA binding sites in vivo

Project description:To identify CdbA binding sites on Myxococcus xanthus genome in vivo we performed ChIP-seq, using a polyclonal anti-FLAG antibody and a strain endogenously expressing CdbA_3xFLAG. A WT DK1622 strain was used a negative control and a strain endogenously expressing ParB_3xFLAG was used as positive control.

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Project description:Myxococcus xanthus is a model organism for studying social behaviors and cell differentiation in bacteria. Upon nutrient depletion, M. xanthus cells initiate a developmental program that culminates in formation of spore-filled fruiting bodies and peripheral rods outside of fruiting bodies. Completion of this developmental program depends on fine-tuned spatial and temporal regulation of gene expression, intercellular communication, signaling by nucleotide-based second messengers, and motility. In order to understand regulation of gene expression during growth and development, transcription start sites were identified using Cappable-seq. To this end, we extracted total RNA from vegetative cells (referred as 0 h of development) and from cells developed for 6, 12, 18 and 24 h under submerged conditions in two replicates.

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Project description:Our ChipSeq analysis show that while FrzCD does not bind DNA specific regions, ParB binds parS consistent with what as been previously shown. The FrzCD chemoreceptor from the gliding bacterium Myxococcus xanthus forms cytoplasmic clusters that occupy a large central region of the cell body also occupied by the nucleoid. FrzCD directly binds to the nucleoid and the FrzCD binding to the DNA leads to the formation of chemosensory complexes. This supra-molecular organization is required for cooperative interactions between clustered receptors, in turn important for the modulation of bacterial social behaviors.

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