Genomics & Functional Genomics
The cation exchanger Letm1, circadian rhythms, and NAD(H) levels interconnect in diurnal zebrafishThe mitochondrial osmoregulator Letm1 exhibits a diel regulation, impacts on NAD+/H levels, circadian genes, and its study allows new perspectives on possible genetic compensation mechanisms.
LncRNA RUS shapes the gene expression program towards neurogenesisThe chromatin-associated lncRNA RUS binds in the vicinity to neural differentiation-associated genes and regulates them in a context-dependent manner to enable proper neuron development.
miR-486 is essential for muscle function and suppresses a dystrophic transcriptomeThe authors identify miR-486 as essential for normal muscle function and a driver of dystrophic transcriptomic pathways using mir-486 knockout mice and multiple sequencing platforms.
Exploring YAP1-centered networks linking dysfunctional CFTR to epithelial–mesenchymal transitionIn this work, a systems biology approach identifies potentially dysregulated EMT signaling in CF (including the Hippo, Wnt, TGF-β, p53, and MYC pathways), integrated by YAP1 and TEAD4.
The value of genotype-specific reference for transcriptome analyses in barleyWe demonstrate in this study that using a common reference genome may lead to loss of genotype-specific information in the assembled Reference Transcript Dataset (RTD) and the generation of erroneous, incomplete, or misleading transcriptomics analysis results in barley.
Phylogenetic profiling resolves early emergence of PRC2 and illuminates its functional coreThis study strengthens the support for PRC2 emergence before the diversification of eukaryotes, detects a common presence of E(z) and ESC, indicating a conserved core, identifies diverse VEFS-Box Su(z)12 candidate proteins, and proposes a substrate specificity shift during E(z) evolution.
Intensive single-cell analysis reveals immune-cell diversity among healthy individualsThis study describes the diversity of the immune-cell profiling in healthy adults at the single-cell level using RNA-seq, VDJ repertoires, and proteome.
Profiles of telomeric repeats in Insecta reveal diverse forms of telomeric motifs in HymenopteransA bioinformatic pipeline for telomeric repeat motif detection was applied to 129 insect species and identified diverse forms of telomeric motifs in Hymenopterans, including canonical 5-bp, novel 8- and 9-bp forms, suggesting extraordinary evolutionary fluidity of telomeric repeat in Hymenopterans.
DNA methylation–independent long-term epigenetic silencing with dCRISPR/Cas9 fusion proteinsLong-term epigenetic gene silencing can be induced independently of DNA methylation by dCas9-KRABd-MeCP2 fusion proteins.
Genome analysis of Legionella pneumophila ST23 from various countries reveals highly similar strainsST23 isolated in Italy are analysed by cgMLST and SNP approaches and they are also compared with ST23 from other countries. They are found to be phylogenetically related independently on year, town, or country of isolation.