title: A comparison of sample collection methods for quantifying cell-free fetal neurodevelopment transcripts in amniotic fluid.
abstract: BACKGROUND
  Cell-free RNA (cfRNA) transcripts known to be expressed by the fetal brain are detectable by quantitative reverse transcription PCR (RT-qPCR) in amniotic fluid and represent potential biomarkers of neurodevelopment. The aim of this study was to compare the cfRNA yields from amniotic fluid (AF) collected in a commercial RNA stabilization product with the traditional method of freezing alone.
  
  
  RESULTS
  Thirteen women undergoing elective Cesarean birth at term without labor had whole AF collected at the time of uterine incision, prior to membrane rupture. Patient samples were split between Streck RNA blood collection tubes (BCT) and plain sterile polypropylene centrifuge tubes. Cell-free RNA from the AF supernatant was extracted according to a previously published protocol. RT qPCR was performed for the reference gene GAPDH, and three genes associated with neurodevelopment (NRXN3, NTRK3, and ZBTB18). The yield from samples collected in Streck RNA BCT and plain centrifuge tubes were compared with the paired t test. GAPDH, NRXN3 and ZBTB18 amplified successfully in all samples, but NTRK3 did not. The RNA yield was significantly lower in samples collected in the Streck RNA BCT compared with the traditional storage method of freezing alone for all three successfully amplified genes (p < 0.0001).
  
  
  CONCLUSIONS
  Selected cfRNA neurodevelopment transcripts are consistently detectable in third trimester AF. There appears to be no benefit in collecting AF in Streck RNA BCT for quantitative studies of AF cell-free RNA.
authors.affiliation: Translational Obstetrics Group, Department of Obstetrics and Gynaecology, Mercy Hospital for Women, University of Melbourne, 163 Studley Rd, Heidelberg, VIC, 3084, Australia. lisahui77@gmail.com.|Public Health Genetics, Murdoch Childrens Research Institute, Parkville, VIC, Australia. lisahui77@gmail.com.
authors.forename: Lisa
authors.identifier: http://orcid.org/0000-0002-9720-3562
authors.initials: L
authors.lastname: Hui
authors.affiliation: Translational Obstetrics Group, Department of Obstetrics and Gynaecology, Mercy Hospital for Women, University of Melbourne, 163 Studley Rd, Heidelberg, VIC, 3084, Australia.
authors.forename: Stephen
authors.initials: S
authors.lastname: Tong
authors.affiliation: Translational Obstetrics Group, Department of Obstetrics and Gynaecology, Mercy Hospital for Women, University of Melbourne, 163 Studley Rd, Heidelberg, VIC, 3084, Australia.
authors.forename: Tu'Uhevaha J
authors.initials: TJ
authors.lastname: Kaitu'u-Lino
authors.affiliation: Translational Obstetrics Group, Department of Obstetrics and Gynaecology, Mercy Hospital for Women, University of Melbourne, 163 Studley Rd, Heidelberg, VIC, 3084, Australia.
authors.forename: Natalie J
authors.initials: NJ
authors.lastname: Hannan
mesh_terms: D000328:Adult; D000653:Amniotic Fluid / Q000737:chemistry*; D015415:Biomarkers / Q000378:metabolism; D002585:Cesarean Section; D005260:Female; D015870:Gene Expression; D006801:Humans; D007231:Infant, Newborn; D015997:Neonatal Screening; D009419:Nerve Tissue Proteins / Q000235:genetics / Q000378:metabolism; D065886:Neurodevelopmental Disorders / Q000175:diagnosis* / Q000235:genetics / Q000378:metabolism; D055495:Neurogenesis / Q000235:genetics*; D011247:Pregnancy; D012333:RNA, Messenger / Q000235:genetics* / Q000378:metabolism; D020812:Receptor, trkC / Q000235:genetics / Q000378:metabolism; D012097:Repressor Proteins / Q000235:genetics / Q000378:metabolism; D020133:Reverse Transcriptase Polymerase Chain Reaction; D013048:Specimen Handling / Q000295:instrumentation / Q000592:standards*; D047929:Term Birth
chemical_list: D015415:Biomarkers; D009419:Nerve Tissue Proteins; D012333:RNA, Messenger; D012097:Repressor Proteins; C115048:ZBTB18 protein, human; C082354:neurexin IIIalpha; D020812:Receptor, trkC
keywords: Amniotic fluid; Cell-free RNA; Fetal development; Gene expression; qPCR