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This Week in Nucleic Acids Research : Feb 22, 2012

Researchers at Spain's Universitat Pompeu Fabra show in a paper published online in advance in Nucleic Acids Research this week that a subset of genes dependent upon the transcription factor Pap1 "only require nuclear Pap1 for activation, whereas another subset of genes … do need oxidized Pap1 to form a heterodimer with the constitutively nuclear transcription factor Prr1." The Pompeu Fabra team adds that "the ability of Pap1 to bind and activate drug tolerance promoters is independent on Prr1, whereas its affinity for the antioxidant promoters is significantly enhanced upon association with Prr1," which suggests to the team that "the activation of both antioxidant and drug resistance genes in response to oxidative stress share a common inducer, H2O2, but alternative effectors."

In another paper published online in advance in Nucleic Acids Research, a team led by investigators at New Zealand's University of Otago compares the performance of three existing pipelines for aligning bisulphite converted sequencing reads, providing "provides guidance to advance sequence-based methylation data analysis for molecular biologists."

Finally, Anthony Bugaut and Shankar Balasubramanian at University of Cambridge discuss the roles of 5'-untranslated region RNA G-quadruplexes in translation regulation and targeting in a Nucleic Acids Research paper this week. In their review, Bugaut and Balasubramanian consider "progresses in the study of 5'-UTR RNA G-quadruplex-mediated translational control."

The Scan

Enzyme Involved in Lipid Metabolism Linked to Mutational Signatures

In Nature Genetics, a Wellcome Sanger Institute-led team found that APOBEC1 may contribute to the development of the SBS2 and SBS13 mutational signatures in the small intestine.

Family Genetic Risk Score Linked to Diagnostic Trajectory in Psychiatric Disorders

Researchers in JAMA Psychiatry find ties between high or low family genetic risk scores and diagnostic stability or change in four major psychiatric disorders over time.

Study Questions Existence of Fetal Microbiome

A study appearing in Nature this week suggests that the reported fetal microbiome might be the result of sample contamination.

Fruit Fly Study Explores Gut Microbiome Effects on Circadian Rhythm

With gut microbiome and gene expression experiments, researchers in PNAS see signs that the microbiome contributes to circadian rhythm synchronicity and stability in fruit flies.