Rapid No-Spin Chlamydia RNA Extraction via Filtering, Lysis and Monolith Binding

DESCRIPTION provided by applicant This application addresses the urgent need for expanded screening and test and treat programs for Chlamydia trachomatis CT through the development of a fast straightforward sample preparation method CT infection which is often asymptomatic in female patients can result in pelvic inflammatory disease and irreversible infertility in the infected individual as well as blindness in infants born to infected mothers CT infection can be readily resolved through a short course of antibiotics but achieving optimal patient outcomes depends on identifying infection and prescribing treatment within a single visit to a doctorandapos s office hospital or clinic the andquot test and treatandquot approach to infectious disease care Multiple studies have shown current rapid CT antigen tests to exhibit such poor sensitivity as to have almost no value in clinical decision making In contrast both the sensitivity and the specificity of nucleic acid testing for CT infection typically exceed With increasing availability and low cost of compact thermocyclers and other emerging nucleic acid testing technologies smaller clinics are increasingly well positioned to run the amplification and detection steps in CT nucleic acid testing Yet the requisite preparation of vaginal swab and urine samples for subsequent CT nucleic acid testing including lysis filtering and extraction and elution of bacterial RNA and DNA is a barrier to widespread adoption of CT nucleic acid testing outside of sophisticated laboratories This application seeks to enable expanded access to CT nucleic acid testing through the development of high performance fully automated CT sample preparation in an inexpensive disposable cartridge The usage procedure consists of simply placing a urine or vaginal swab sample in a small cup which attaches to the cartridge Slit capillary array fluidic actuator SCAFA chips an innovative technology recently developed by the Applicant Organization are built into the disposable cartridge and drive all sample and reagent transport steps entailed in a high extraction efficiency sample preparation process The extraction process will leverage an innovative fully cartridge integrated no centrifugation soli phase extraction method using porous polymer monoliths within short glass capillaries tuned to have optimal porosity for efficient capture of a nucleic acid target without clogging The sample preparation process executed within the cartridge also includes pre extraction steps of sample metering filtering CT from sample lysing CT on the filter and elution from the filter Sample in to results out turnaround time is minutes This Phase I project is organized around two specific aims Specific Aim focuses on the sample prep moduleandapos s front end including metering and lysing Specific Aim focuses on high yield extraction in the porous polymer monolith including monolith composition and capture elution chemistry The two Aims collectively establish the feasibility of the high performance low cost CT sample preparation cartridge laying groundwork for full development in Phase II PUBLIC HEALTH RELEVANCE Chlamydia trachomatis CT is the most commonly reported STD domestically and asymptomatic infections in women lead to pelvic inflammatory disease and infertility undetected infections in pregnant women lead to infant conjunctivitis and blindness The only sensitive and specific CT tests are nucleic acid tests NATs which are not available on site at the clinics that high risk patients visit because NATs are subcontracted to consolidated testing centers the turnaround time causes loss to follow up in many patients who remain untreated The proposed rapid automated fully enclosed sample preparation system for nucleic acid extraction from urine or vaginal swab samples will enable these clinics to run NATs on site with compact nucleic acid testing systems expanding access to accurate CT diagnosis and reducing disparities in CT infection