J He1, J Tang1, H Su2, C Shen3, S Luo1, H Wang4, Y Qian1, M Lü1. 1. Department of Medical Genetics and Prenatal Diagnosis, Kunming Maternal and Child Health Care Hospital, Kunming 650031, China. 2. Genetic Counseling Clinic, Kunming Maternal and Child Health Care Hospital, Kunming 650031, China. 3. Department of Obstetrics, Kunming Maternal and Child Health Care Hospital, Kunming 650031, China. 4. Department of Pathology, Kunming Maternal and Child Health Care Hospital, Kunming 650031, China.
Abstract
OBJECTIVE: To identify new biomarkers and molecular pathogenesis of Down syndrome (DS) by analyzing differentially expressed miRNAs in the placentas and their biological pathways. METHODS: Whole transcriptome sequencing was used to identify the differentially expressed miRNAs in DS (n=3) and normal placental samples (n=3) diagnosed by prenatal diagnosis. The target genes were predicted using miRWalk, Targetscan and miRDB, and GO and KEGG pathway analyses were performed for gene enrichment studies. RESULTS: We identified a total of 82 differentially expressed miRNAs in the placental tissues of DS, including 29 up-regulated miRNAs (fold change ≥2, P < 0.05) and 15 down-regulated miRNAs (fold change ≥2, P < 0.05), among which 10 miRNAs with relatively high expression abundance were selected for further analysis, including 4 up-regulated and 6 down-regulated miRNAs. These selected miRNAs shared the common target genes BTBD3 and AUTS2, both of which were associated with neurodevelopment. GO analysis showed that the target genes of the selected miRNAs were mainly enriched in protein binding, hydrolytic enzymes, metal ion binding protein combining, transferase activity, nucleotide, cytoplasmic constituents, nucleus composition, transcriptional regulation, RNA metabolism regulation, DNA-dependent RNA polymerase Ⅱ promoter transcriptional regulation, eye development, and sensory organ development. KEGG enrichment analysis showed that the target genes of these differentially expressed miRNAs were involved in the signaling pathways including tumor-related signaling pathway, PI3K-Akt signaling pathway, Ras signaling pathway, Rap1 signaling pathway, cytoskeletal regulatory signaling pathway, purine metabolization-related signaling pathway and P53 signaling pathway. CONCLUSION: The differentially expressed miRNAs may play important roles in placental damage and pregnancy pathology in DS and provide clues for the prevention and treatment of mental retardation-related diseases.
OBJECTIVE: To identify new biomarkers and molecular pathogenesis of Down syndrome (DS) by analyzing differentially expressed miRNAs in the placentas and their biological pathways. METHODS: Whole transcriptome sequencing was used to identify the differentially expressed miRNAs in DS (n=3) and normal placental samples (n=3) diagnosed by prenatal diagnosis. The target genes were predicted using miRWalk, Targetscan and miRDB, and GO and KEGG pathway analyses were performed for gene enrichment studies. RESULTS: We identified a total of 82 differentially expressed miRNAs in the placental tissues of DS, including 29 up-regulated miRNAs (fold change ≥2, P < 0.05) and 15 down-regulated miRNAs (fold change ≥2, P < 0.05), among which 10 miRNAs with relatively high expression abundance were selected for further analysis, including 4 up-regulated and 6 down-regulated miRNAs. These selected miRNAs shared the common target genes BTBD3 and AUTS2, both of which were associated with neurodevelopment. GO analysis showed that the target genes of the selected miRNAs were mainly enriched in protein binding, hydrolytic enzymes, metal ion binding protein combining, transferase activity, nucleotide, cytoplasmic constituents, nucleus composition, transcriptional regulation, RNA metabolism regulation, DNA-dependent RNA polymerase Ⅱ promoter transcriptional regulation, eye development, and sensory organ development. KEGG enrichment analysis showed that the target genes of these differentially expressed miRNAs were involved in the signaling pathways including tumor-related signaling pathway, PI3K-Akt signaling pathway, Ras signaling pathway, Rap1 signaling pathway, cytoskeletal regulatory signaling pathway, purine metabolization-related signaling pathway and P53 signaling pathway. CONCLUSION: The differentially expressed miRNAs may play important roles in placental damage and pregnancy pathology in DS and provide clues for the prevention and treatment of mental retardation-related diseases.
Entities:
Keywords:
Down syndrome; microRNA; placenta; transcriptome sequencing
Authors: J H Lim; D J Kim; D E Lee; J Y Han; J H Chung; H K Ahn; S W Lee; D H Lim; Y S Lee; S Y Park; H M Ryu Journal: Placenta Date: 2015-01-05 Impact factor: 3.481
Authors: Jeremy A Miller; Song-Lin Ding; Susan M Sunkin; Kimberly A Smith; Lydia Ng; Aaron Szafer; Amanda Ebbert; Zackery L Riley; Joshua J Royall; Kaylynn Aiona; James M Arnold; Crissa Bennet; Darren Bertagnolli; Krissy Brouner; Stephanie Butler; Shiella Caldejon; Anita Carey; Christine Cuhaciyan; Rachel A Dalley; Nick Dee; Tim A Dolbeare; Benjamin A C Facer; David Feng; Tim P Fliss; Garrett Gee; Jeff Goldy; Lindsey Gourley; Benjamin W Gregor; Guangyu Gu; Robert E Howard; Jayson M Jochim; Chihchau L Kuan; Christopher Lau; Chang-Kyu Lee; Felix Lee; Tracy A Lemon; Phil Lesnar; Bergen McMurray; Naveed Mastan; Nerick Mosqueda; Theresa Naluai-Cecchini; Nhan-Kiet Ngo; Julie Nyhus; Aaron Oldre; Eric Olson; Jody Parente; Patrick D Parker; Sheana E Parry; Allison Stevens; Mihovil Pletikos; Melissa Reding; Kate Roll; David Sandman; Melaine Sarreal; Sheila Shapouri; Nadiya V Shapovalova; Elaine H Shen; Nathan Sjoquist; Clifford R Slaughterbeck; Michael Smith; Andy J Sodt; Derric Williams; Lilla Zöllei; Bruce Fischl; Mark B Gerstein; Daniel H Geschwind; Ian A Glass; Michael J Hawrylycz; Robert F Hevner; Hao Huang; Allan R Jones; James A Knowles; Pat Levitt; John W Phillips; Nenad Sestan; Paul Wohnoutka; Chinh Dang; Amy Bernard; John G Hohmann; Ed S Lein Journal: Nature Date: 2014-04-02 Impact factor: 49.962
Authors: Emin Karaca; Ayça Aykut; Biray Ertürk; Burak Durmaz; Ahmet Güler; Barış Büke; Ahmet Özgür Yeniel; Ahmet Mete Ergenoğlu; Ferda Özkınay; Mehmet Özeren; Mert Kazandı; Fuat Akercan; Sermet Sağol; Cumhur Gündüz; Özgür Çoğulu Journal: Balkan Med J Date: 2017-12-08 Impact factor: 2.021