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Science Papers Report on Splicing Enhancer, Point of Care Test for Sexual Transmitted Disease

The discovery of a previously unknown RNA structural element that acts as a splicing enhancer and plays a role in cancer progression is reported in Science this week. Aberrant alternative splicing is a hallmark of cancer, yet the underlying regulatory programs that control this process remain largely unknown, partly because the bioinformatic strategies for cis-regulatory element discovery fail to capture the contribution of RNA secondary structure to regulatory information. To overcome this, a group led by University of California, San Francisco, scientists adapted a previously developed computational framework that uses RNA structural and sequence information to identify cis-regulatory elements that are informative of transcriptomic changes to investigate the RNA sequence and structural code that governs a broader range of RNA-related processes such as splicing and RNA processing. Applying this tool to breast cancer sequencing and other data, the team uncovers a structural splicing enhancer that interacts with the RNA-binding protein SNRPA1 to promote cassette exon inclusion, driving breast cancer metastasis.

A low-cost point-of-care molecular test for the rapid detection of both sexually transmitted diseases and antimicrobial susceptibility is detailed in this week's Science Translational Medicine, offering a potential new tool to combat such infections in resource-poor settings. Current methods to detect STIs such as gonorrhea, cases of which have been ballooning worldwide, involve expensive and time-consuming nucleic acid amplification tests. To address this, a Johns Hopkins University-led team developed PROMPT, a portable and rapid cartridge-based PCR device that can simultaneously detect Neisseria gonorrhoeae, which causes gonorrhea, and genotype it for resistance to the antimicrobial drug ciprofloxacin in under 15 minutes. The test was evaluated using penile swab samples from sexual health clinics in Baltimore and Uganda, demonstrating overall sensitivity of 97.7 percent and specificity of 97.6 percent for pathogen detection and 100 percent concordance with culture results for ciprofloxacin resistance. "Compared to the leading industry [point-of-care] PCR diagnostic cartridges, our magnetofluidic cartridge design has potential to provide even faster results, contribute less plastic waste to the environment, and enable greater access to diagnostics in low-resource settings," the technology's developers write.

The Scan

Guidelines for Ancient DNA Work

More than two dozen researchers have developed new ethical guidelines for conducting ancient DNA research, which they present in Nature.

And Cleared

A UK regulator has cleared former UK Prime Minister David Cameron in concerns he should have registered as a consultant-lobbyist for his work with Illumina, according to the Financial Times.

Suit Over Allegations

The Boston Globe reports that David Sabatini, who was placed on leave from MIT after allegations of sexual harassment, is suing his accuser, the Whitehead Institute, and the institute's director.

Nature Papers on Esophageal Cancer, Origin of Modern Horses, Exome Sequencing of UK Biobank Participants

In Nature this week: genetic and environmental influences of esophageal cancer, domestic horse origin traced to Western Eurasian steppes, and more.