title: Quantifying difference in gene expression profile between bovine blastocysts derived by in vitro fertilization and somatic cell nuclear transfer.
abstract: Epigenetic reprogramming intensely occurs in somatic-cell nuclear transfer (SCNT) embryos, which highlights the importance of proper expressions of reprogramming-related genes in SCNT embryos. We here assessed gene expression profiles (GEPs) difference between bovine blastocyst groups derived by in-vitro fertilization (IVF) or SCNT; in SCNT, cumulus cells and ear skin fibroblasts were used for cSCNT and fSCNT blastocysts, respectively. We obtained GEPs of 15 reprogramming-related genes in single blastocysts using multiplex PCR and found a broad range of variations in their GEPs. Weighted root-mean-square deviation (wRMSD) analysis, which calculates the deviation of SCNT blastocysts' GEPs from IVF blastocysts' mean GEP, found a significant difference between IVF and fSCNT and between cSCNT and fSCNT blastocysts (p < 0.001) but not between IVF and cSCNT. Since the fibroblasts' GEP was more distant from the IVF blastocysts' than the cumulus cells', it might partly explain the less similarity of fSCNT blastocysts' GEPs to the IVF's mean GEP. Our wRMSD method succeeds in expressing in figures how different two comparable embryo groups of different derivations are in GEP, which would be useful to select a better embryo derivation protocol among the candidates prior to field applications.
authors.affiliation: Development and Differentiation Research Center, KRIBB, 111 Gwahang-ro, Yuseong-gu, Daejeon 305-806, South Korea; Department of Functional Genomics, University of Science and Technology (UST), 113 Gwahang-ro, Yuseong-gu, 305-333 Daejeon, South Korea.
authors.forename: Sujin
authors.initials: S
authors.lastname: Kwon
authors.affiliation: Division of Medicine Research, Korea Institute of Oriental Medicine, 483 Expo-ro, Yuseong-gu, Daejon 305-811, South Korea.
authors.forename: Sangkyun
authors.initials: S
authors.lastname: Jeong
authors.affiliation: Development and Differentiation Research Center, KRIBB, 111 Gwahang-ro, Yuseong-gu, Daejeon 305-806, South Korea.
authors.forename: Jung Sun
authors.initials: JS
authors.lastname: Park
authors.affiliation: Development and Differentiation Research Center, KRIBB, 111 Gwahang-ro, Yuseong-gu, Daejeon 305-806, South Korea; Department of Functional Genomics, University of Science and Technology (UST), 113 Gwahang-ro, Yuseong-gu, 305-333 Daejeon, South Korea. Electronic address: ykkang@kribb.re.kr.
authors.forename: Yong-Kook
authors.initials: YK
authors.lastname: Kang
mesh_terms: D000818:Animals; D001755:Blastocyst / Q000166:cytology / Q000378:metabolism / Q000502:physiology*; D002417:Cattle / Q000196:embryology / Q000502:physiology*; D005260:Female; D005307:Fertilization in Vitro / Q000379:methods / Q000662:veterinary*; D020869:Gene Expression Profiling; D060885:Multiplex Polymerase Chain Reaction; D053652:Nuclear Transfer Techniques / Q000662:veterinary*; D020133:Reverse Transcriptase Polymerase Chain Reaction; D059467:Transcriptome
keywords: Embryo; Multiplex PCR; Reprogramming; wRMSD