Acoel genome reveals the regulatory landscape of whole-body regeneration

Science ◽  
2019 ◽  
Vol 363 (6432) ◽  
pp. eaau6173 ◽  
Author(s):  
Andrew R. Gehrke ◽  
Emily Neverett ◽  
Yi-Jyun Luo ◽  
Alexander Brandt ◽  
Lorenzo Ricci ◽  
...  
Keyword(s):  
Growth Response ◽  
Whole Body ◽  
Early Growth Response ◽  
Pioneer Factor ◽  
Gene Regulatory ◽  
Chromatin Profiling ◽  
Transcriptomic Changes ◽  
Early Wound ◽  
Regulatory Landscape ◽  
Regulatory Landscapes

Whole-body regeneration is accompanied by complex transcriptomic changes, yet the chromatin regulatory landscapes that mediate this dynamic response remain unexplored. To decipher the regulatory logic that orchestrates regeneration, we sequenced the genome of the acoel worm Hofstenia miamia, a highly regenerative member of the sister lineage of other bilaterians. Epigenomic profiling revealed thousands of regeneration-responsive chromatin regions and identified dynamically bound transcription factor motifs, with the early growth response (EGR) binding site as the most variably accessible during Hofstenia regeneration. Combining egr inhibition with chromatin profiling suggests that Egr functions as a pioneer factor to directly regulate early wound-induced genes. The genetic connections inferred by this approach allowed the construction of a gene regulatory network for whole-body regeneration, enabling genomics-based comparisons of regeneration across species.

scholarly journals Multifactorial chromatin regulatory landscapes at single cell resolution

2021 ◽  
Author(s):  
Michael P. Meers ◽  
Derek H. Janssens ◽  
Steven Henikoff
Keyword(s):  
Single Cell ◽  
Target Identification ◽  
Developmental Trajectories ◽  
Single Cells ◽  
High Sensitivity ◽  
Cell Types ◽  
Specific Gene ◽  
Gene Regulatory ◽  
Chromatin Profiling ◽  
Regulatory Landscapes

Chromatin profiling at locus resolution uncovers gene regulatory features that define cell types and developmental trajectories, but it remains challenging to map and compare distinct chromatin-associated proteins within the same sample. Here we describe a scalable antibody barcoding approach for profiling multiple chromatin features simultaneously in the same individual cells, Multiple Target Identification by Tagmentation (MulTI-Tag). MulTI-Tag is optimized to retain high sensitivity and specificity of enrichment for multiple chromatin targets in the same assay. We use MulTI-Tag to resolve distinct cell types using multiple chromatin features on a commercial single-cell platform, and to distinguish unique, coordinated patterns of active and repressive element regulatory usage in the same individual cells. Multifactorial profiling allows us to detect novel associations between histone marks in single cells and holds promise for comprehensively characterizing cell-specific gene regulatory landscapes in development and disease.

Bone Marrow Mesenchymal Stem Cell mediated Ultrasmall Gold Nanoclusters and hNIS Gene Synergize Radiotherapy in Breast Cancer

2021 ◽  
Author(s):  
Lu Zhang ◽  
Benchao Zheng ◽  
Rui Guo ◽  
Ying Miao ◽  
Biao Li
Keyword(s):  
Breast Cancer ◽  
Bone Marrow ◽  
Stem Cell ◽  
Growth Response ◽  
Sodium Iodide ◽  
Gold Nanoclusters ◽  
Early Growth ◽  
Sodium Iodide Symporter ◽  
Early Growth Response ◽  
131I Treatment

The human sodium iodide symporter (hNIS) can be linked to the downstream of radiation-sensitive early growth response protein1 (Egr1) promoter, and activated by the Egr1 following 131I treatment. However, the...

scholarly journals Genetic Evidence for the Association between the Early Growth Response 3 (EGR3) Gene and Schizophrenia

PLoS ONE ◽  
2012 ◽  
Vol 7 (1) ◽  
pp. e30237 ◽  
Author(s):  
Rui Zhang ◽  
Shemin Lu ◽  
Liesu Meng ◽  
Zixin Min ◽  
Juan Tian ◽  
...  
Keyword(s):  
Growth Response ◽  
Early Growth ◽  
Genetic Evidence ◽  
Early Growth Response
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