Microorganisms play crucial roles in water recycling, pollution removal and resource recovery in the wastewater industry. The structure of these microbial communities is increasingly understood based on 16S rRNA amplicon sequencing data. However, such da
Patterns of transcriptional activity are encoded in our genome through regulatory elements such as promoters or enhancers that, paradoxically, contain similar assortments of sequence-specific transcription factor (TF) binding sites1,2,3. Knowledge of how these sequence motifs encode multiple, often overl...
Chiruvella KK, Renard BM, Birkeland SR, Sunder S, Liang Z, Wilson TE. Yeast DNA ligase IV mutations reveal a nonhomologous end joining function of BRCT1 distinct from XRCC4/Lif1 binding. DNA Repair (Amst). 2014;24:37-45.Chiruvella, K.K., Renard, B.M., Birkeland, S.R., Sunder,...
Alzheimer’s Disease (AD) is a progressive neurodegenerative disorder, which is characterized by cognitive deficit due to synaptic loss and neuronal death. Extracellular amyloid β plaques are one of the pathological hallmarks of AD. The autophagic lysos
StWhy1, a member of the plant-specific Whirly single-stranded DNA-binding protein family, was first characterized as a transcription factor involved in the activation of the nuclear PR-10a gene following defense-related stress in potato. In Arabidopsis thaliana, Whirlies have recently been shown ...
Disruption of β-amyloid (Aβ) homeostasis is the initial culprit in Alzheimer’s disease (AD) pathogenesis. Astrocytes respond to emerging Aβ plaques by altering their phenotype and function, yet molecular mechanisms governing astrocytic response and t
Genomic DNA was isolated using QuickExtract DNA Extraction Solution (Lucigen, Middleton, WI) and PCR products containing the R493X target site were digested with HindIII. Clones with positive digestion signal were selected for Sanger sequencing to confirm the clean introduction of the R493X KI ...
For immunohistochemical staining, after the sections were dewaxed and rehydrated, they were heated in a microwave in citrate buffer solution for antigen retrieval. After resuming to room temperature, the sections were rinsed with PBS and incubated overnight with the primary antibody at 4 °C. The...
Inflammatory microenvironment causes the change of epigenetic modification in periodontal ligament stem cells derived from periodontitis tissues (P-PDLSCs), which results in defective osteogenic differentiation compared to cells from healthy tissues. It’s urgent to explore therapeutic strategies aimed at epi...
of enhancers can be distributed across large genomic intervals, which are referred to as regulatory landscapes2,3. Such landscapes often correspond in linear size to topologically associating domains (TADs)4,5,6, defined as chromatin domains wherein the probability of DNA-to-DNA interactions is ...