Screening Services of DNA Interacting with Plant Proteins

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Screening Services of DNA Interacting with Plant Proteins

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Screening Services of DNA Interacting with Plant Proteins.

DNA-protein interactions (DPIs) are involved in physiological processes such as plant transcription, transcriptional regulation, and DNA modification. CD BioSciences provides ChIP-seq, cleavage under targets and tagmentation, and DAP-seq technologies to help clients explore the DNA interacting with plant target proteins.

In epigenetics, DPIs are crucial for gene transcription and regulation. Analyzing the mechanism of DPIs is an essential guideline to understand the regulation of DNA transcription and gene expression, and reveal the phenomena of various physiological activities in plants.

Service Content

ChIP-seq service

The ChIP-seq technology we provide is the traditional method for researching DPIs. The samples are cross-linked in formaldehyde and fragmented using ultrasonic equipment. Then, we utilize specific antibodies to perform target enrichment, and sequence the enriched DNA to obtain the DNA information interacting with the target protein.

Cleavage under targets and tagmentation service

Our cleavage under targets and tagmentation is a novel technology for studying DPIs. The antibody targeting region is cleaved using transposase, and the cleaved DNA sequence can be one-step amplified to obtain a DNA library. Compared with ChIP-seq experiments, cleavage under targets and tagmentation has the advantages of high reproducibility and low background noise.

DAP-seq service

We offer DAP-seq performs affinity purification of proteins and DNA expressed in vitro, and high-throughput sequencing after elution of protein-bound DNA. It is mainly for some non-model species that are difficult to manipulate to construct transgenic systems or overexpression experiments.

Comparison of ChIP-Seq, cleavage under targets and tagmentation, and DAP-Seq

Type ChIP-Seq Cleavage under targets and tagmentation DAP-Seq
Reaction site Intracellular reaction. Intracellular reaction. Extracellular reaction.
Sample processing Formaldehyde cross-linking. Collection of cells without special treatment. Sample DNA extracted, fragmented, and ligated to junctions.
Cells are broken and lysed, and gDNA is interrupted by sonication. ConA magnetic beads incubated with cells. /
Targeted enrichment Primary antibody binding to target protein. Primary and secondary antibodies bind target proteins. The wheat endosperm protein expression system expresses proteins and co-incubates them with DNA in vitro.
DNA fragment formation Immunoprecipitation. Transposase complex binds secondary antibody and activates the reaction. /
DNA fragment acquisition Elution and cross-linking to obtain DNA fragments. Recovery of DNA fragments by magnetic beads. Elution and purification to obtain DNA fragments.
DNA amplification Multi-step reaction, repair plus A, plus splice, PCR amplification. One-step PCR amplification of the library. Multi-step reaction, repair plus A, plus splice, PCR amplification.
Application Histone modification and transcription factors. Histone modification. Transcription factors.

Application Fields

CD BioSciences is dedicated to assisting relevant researchers in exploring and revealing the relationship between plant proteins and gene transcriptional activity, and our services can

  • Uncovering transcriptional regulatory networks in plants and identifying cis-regulatory elements and target genes on which proteins act directly.
  • Identifying critical regulators and target genes associated with desired traits such as disease resistance, yield, and nutritional quality can be used for targeted genetic engineering or breeding strategies.
  • Study epigenetic modifications and the effects on gene expression.
  • Identify genes and regulatory elements involved in plant developmental processes such as morphogenesis, organ differentiation, and flowering.

CD BioSciences is a leading biological company engaged in plant protein research. Our scientists have deep expertise and extensive experience in plant biology and molecular technology. We help clients unravel the complex regulatory networks and molecular mechanisms of plant gene expression. If you have any questions, please feel free to contact us.

Reference

  1. Park P. J. (2009). ChIP-seq: advantages and challenges of a maturing technology. Nature reviews. Genetics. 10(10), 669-680.
  2. Kaya-Okur, H. S., et al. (2019). Cleavage under targets and tagmentation for efficient epigenomic profiling of small samples and single cells. Nature communications. 10(1), 1930.
  3. Bartlett, A., et al. (2017). Mapping genome-wide transcription-factor binding sites using DAP-seq. Nature Protocols. 12(8), 1659-1672.

For research use only, not for clinical use.