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                            Funding & Awards
 Improving Seminal Fluid Detection Sensitivity in Extended Post-Coital Intervals by QQQ Mass Spectrometry
Note:
              This awardee has received supplemental funding. This award detail page includes information about both the original award and supplemental awards.
Award Information
Awardee
              Colorado Seminary, owns & operates the University of Denver
Award #
              2015-R2-CX-0024
Funding Category
              Continuation
Location
                    Denver, CO
Congressional District
              1
Status
              Closed
Funding First Awarded
              2015
Total funding (to date)
              $142,563
Original Solicitation
              NIJ FY 15 Graduate Research Fellowship Program in Science, Technology, Engineering, and Mathematics
Description of original award (Fiscal Year 2015, $49,799)
As submitted by the proposer:
An estimated 79,770 rapes were reported to US law enforcement agencies in 2013. Approximately 18% of women in the US have been raped in their lifetime - including 1.8 million adolescents. The timely recovery of physical evidence is critical to investigations of sexual assault. This is especially true of child victims, where disclosure of sexual abuse and rape is often delayed. As the time between an assault and evidence collection increases, the ability to successfully recover seminal fluid, sperm cells and/or DNA rapidly diminishes. For this reason, the length of time since an assault can influence the potential for successful testing; the priority assigned to testing (especially in backlog reduction efforts); and even whether or not a sexual assault samples will be collected at all.
Commercial kits used to detect seminal fluid often fail to detect semen just 24 to 33 hours into the post-coital interval. These tests are also subject to false positive and false negative results. Even when successful, they provide only a presumptive indication of seminal fluid. Thus, a more sensitive and specific assay for the unambiguous identification of seminal fluid would provide a powerful tool for the investigation of sexual assault.
The aim of the proposed research, therefore, is to address the limitations of existing assays by combining high-sensitivity protein mass spectrometry with high-specificity protein biomarkers. This will allow the detection of trace quantities of seminal fluid. The validity this approach has already been demonstrated in pilot studies of simulated sexual assault evidence. The research detailed in this proposal has two core research objectives:
(1) Develop and optimize a confirmatory high-sensitivity assay for human seminal fluid to facilitate the analysis of challenging sexual assault evidence.
(2) Rigorously assess the post-coital time frame within which seminal fluid can be reliably detected in sexual assault-like samples.
This will improve the quality of sexual assault evidence testing by making it possible to obtain probative results from samples that might otherwise yield inconclusive or no results at all. The successful completion and implementation of the results of this research will provide the forensic and criminal justice communities throughout the United States with a powerful tool to aid in the criminal investigation of sexual assault cases. The results of this work will be made publically available in reports to the NIJ, at professional conferences and in peer reviewed journals.
This project contains a research and/or development component, as defined in applicable law.
ca/ncf
Supplemental Award 1 (Fiscal Year 2016, $49,045)
As submitted by the proposer:  An estimated 84,041 rapes were reported to US law enforcement agencies in 2014, with an increase of 9.6% in 2015. Identification of semen is critical to the analysis of sexual assault samples in forensic laboratories. In cases involving extended post coital reporting, where only trace amounts of male genetic material may remain, the ability to confirm the presence of semen provides critical investigative context. 

Current methodologies used in forensic laboratories for semen identification suffer from several limitations. Colorimetric assays (e.g., acid phosphatase) require catalytically active enzymes and are not highly specific. Immunochromatographic assays (e.g., RSID Semen and ABAcard p30) are subject to cross-reactivity, non-specific binding and suffer from sensitivity limitations, often failing to detect previously deposited semen just 24 to 33 hours into the post-coital interval. Microscopic identification of spermatozoa is costly and time consuming; does not work for azospermic or vasectomized males, and fails to detect spermatozoa 5+ days post coitus.

Alternatively, an assay which combines high-specificity protein biomarkers for seminal fluid with high-sensitivity targeted-ion mass spectrometry has been shown to detect trace levels of seminal fluid results 8+ days into the post coital window. With a level of sensitivity surpassing that possible through Y-STR testing, it becomes important to understand how quantitative levels of semen peptides might correlate with recoverable male DNA. This necessitates converting an already validated qualitative QQQ-MRM assay for seminal fluid into a quantitative one. A quantitative seminal fluid assay could also be used to estimate authentic false positive rates for commercially available immunochromatographic assays by assessing whether the putatively detected target proteins are actually present above the antibody-based detection thresholds. These goals will be met through three core research objectives:
(1) Develop and optimize a quantitative QQQ-MRM mass-spectrometry assay using synthetic PSA and Sg I/II proteins to establish a standard curve which can be used to quantitate these proteins in forensic-type samples.
(2) Assess the correlation between peptide quantitative values for target seminal fluid peptides and the ability to generate Y-STR profiles from vaginal swabs collected at various post coital intervals.
(3) Determine false positive rates associated with immunochromatographic tests of semen-fee vaginal swabs to assess whether target proteins in the sample are actually present above the assays sensitivity threshold.

The proposed work will improve the quality of sexual assault evidence testing; provide information on the rates of false positive with currently employed seminal fluid assays; allow for the development of more informed interpretation guidelines for seminal fluid identification; enable practitioners to better guide forensic investigations and; facilitate the efficient allocation of resources by allowing analysts to focus downstream genetic analyses on those samples where successful male DNA typing is more likely.

Overall, the successful completion and implementation of this research will provide the forensic and criminal justice communities throughout the United States with a powerful tool to aid in the criminal investigation of sexual assault cases. The results of this work will be made publically available in reports to the NIJ, through presentations at professional conferences and in peer reviewed journals. 

This project contains a research and/or development component, as defined in applicable law.  nca/ncf.
    Supplemental Award 2 (Fiscal Year 2017, $43,719)
An estimated 84,041 rapes were reported to US law enforcement agencies in 2014, with an increase of 9.6% in 2015. Identification of semen is critical to the analysis of sexual assault samples in forensic laboratories.
In cases involving extended post coital reporting, where only trace amounts of male genetic material may remain, the ability to confirm the presence of semen provides critical investigative context.
Current methodologies used in forensic laboratories for semen identification suffer from several limitations. Colorimetric assays (e.g., acid phosphatase) require catalytically active enzymes and are not highly specific. Immunochromatographic assays (e.g., RSID Semen and ABAcard p30) are subject to cross-reactivity, non-specific binding and suffer from sensitivity limitations, often failing to detect previously deposited semen just 24 to 33 hours into the post-coital interval. Microscopic identification of spermatozoa is costly and time consuming; does not work for azospermic or vasectomized males, and fails to detect spermatozoa 5+ days post coitus.
Alternatively, an assay which combines high-specificity protein biomarkers for seminal fluid with high-sensitivity targeted-ion mass spectrometry has been shown to detect trace levels of seminal fluid results 8+ days into the post coital window. With a level of sensitivity surpassing that possible through Y-STR testing, it becomes important to understand how quantitative levels of semen peptides might correlate with recoverable male DNA. This necessitates converting an already validated qualitative QQQ-MRM assay for seminal fluid into a quantitative one. A quantitative seminal fluid assay could also be used to estimate authentic false positive rates for commercially available immunochromatographic assays by assessing whether the putatively detected target proteins are actually present above the antibody-based detection thresholds. These goals will be met through three core research objectives: (1) Develop and optimize a quantitative QQQ-MRM mass-spectrometry assay using synthetic PSA and Sg I/II proteins to establish a standard curve which can be used to quantitate these proteins in forensic-type samples. (2) Assess the correlation between peptide quantitative values for target seminal fluid peptides and the ability to generate Y-STR profiles from vaginal swabs collected at various post coital intervals. (3) Determine false positive rates associated with immunochromatographic tests of semen-fee vaginal swabs to assess whether target proteins in the sample are actually present above the assays sensitivity threshold. The proposed work will improve the quality of sexual assault evidence testing; provide information on the rates of false positive with currently employed seminal fluid assays; allow for the development of more informed interpretation guidelines for seminal fluid identification; enable practitioners to better guide forensic investigations and; facilitate the efficient allocation of resources by allowing analysts to focus downstream genetic analyses on those samples where successful male DNA typing is more likely. Overall, the successful completion and implementation of this research will provide the forensic and criminal justice communities throughout the United States with a powerful tool to aid in the criminal investigation of sexual assault cases.
The results of this work will be made publically available in reports to the NIJ, through presentations at professional conferences and in peer reviewed journals.
This project contains a research and/or development component, as defined in the applicable law. nca/ncf


  
Grant-Funded Publications
        
                      NextGen serology: leveraging mass spectrometry for protein-based human body fluid identification

  
Date Created: September 15, 2015
    
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