Project description:Gene expression programs depend on sequence-specific DNA binding transcription factors, but the mechanisms that control the selective binding of these factors in a chromosomal and genomic context remain enigmatic. Here, we show that two master regulators of B-cell fate, namely EBF1 and RBP-jk, show variable genome-wide chromosome distribution in two related B-lymphocyte lines carrying different forms of Epstein-Barr Virus (EBV) latency. The latency-type specific EBV-encoded EBNA2 colocalized with RBP-jk and EBF1 at induced binding sites. Colocalization of EBF1, RBP-jk, and EBNA2 correlated with transcriptional activation. Conditional expression or repression of EBNA2 lead to a rapid alteration in RBP-jk and EBF1 binding. Biochemical and shRNA depletion studies provide evidence for cooperative assembly at co-occupied sites. These findings reveal that non-DNA binding cofactors can facilitate combinatorial interactions to induce new patterns of transcription factor occupancy and gene programming Examination of EBNA2/EBF1/EBP-jk binding in MutuI and LCL cell lines

2015-12-16 | E-GEOD-75503 | biostudies-arrayexpress

Neurotranscriptomics of mutualistic cleaning in Labroides dimidiatus

Project description:Despite the astonishing diversity of life, evolutionary biologists have documented numerous instances where species converge in how they behave, look, and function. Given the importance of happenstance in evolution, it is often assumed that mechanisms driving independent evolution of similar phenotypes (convergence) are distinct; yet recent discoveries suggest that conserved genomic mechanisms can underlie convergent traits. Here, we generate forebrain transcriptomes from six sympatric Labridae wrasses that vary in mutualistic cleaning behavior and apply differential gene expression, co-expression, and phylogenetic comparative analyses to address three questions. First, do neurotranscriptomes vary among species with distinct cleaning behavior? Second, do species that have independently evolved facultative cleaning share neurotranscriptomic patterns? Third, are transcriptomic signatures linked to facultative cleaning also expressed in obligate cleaners? We identify shared neurotranscriptomic patterns in the repeated evolution of facultative cleaning, including 25 novel candidate genes. We then find that transcriptomic patterns associated with facultative cleaning are shared in our focal obligate cleaner species, with more genes than expected by chance with concordant expression patterns in obligate and facultative cleaners. Our results illuminate the neuromolecular basis of cooperative behavior and demonstrate the predictive potential of comparative transcriptomics to unravel the mechanistic underpinnings of the repeated evolution of complex phenotypes.

2026-04-16 | GSE302323 | GEO

Bartonella quintana JK 63 strain:JK 63

Project description:Bartonella quintana JK 63 strain:JK 63 Genome sequencing and assembly

| PRJNA81683 | ENA