scholarly journals RNA-Sequencing of Umbilical Cord Blood to Investigate Spontaneous Preterm Birth: A Pilot Study

2019 ◽  
Vol 09 (01) ◽  
pp. e60-e66
Author(s):  
Neeta Vora ◽  
Joel Parker ◽  
Piotr Mieckowski ◽  
Lisa Smeester ◽  
Rebecca Fry ◽  
...  

Objective To analyze the transcriptomic gene expression of umbilical cord blood leukocytes using RNA-sequencing from preterm birth (PTB) and term birth (TB). Study Design Eight women with spontaneous PTB (sPTB) and eight women with unlabored TB were enrolled prospectively. The sPTB and TB cohorts were matched for maternal age, race, mode of delivery, and fetal sex. Cord blood RNA was extracted and a globin depletion protocol was applied, then sequenced on the Illumina HiSeq 4000. Raw read counts were analyzed with DESeq2 to test for gene expression differences between sPTB and TB. Results 148 genes had significant differential expression (q < 0.01). Cell cycle/metabolism gene expression was significantly higher and immune/inflammatory signaling gene expression significantly lower in the sPTB cohort compared with term. In African American (AA) infants, 18 genes specific to cell signaling, neutrophil activity, and major histocompatibility complex type 1 had lower expression in preterm compared with term cohort; the opposite pattern was seen in non-Hispanic Whites (NHWs). Conclusion Compared with term, preterm fetuses have higher cell cycle/metabolism gene expression, suggesting metabolic focus on growth and development. Immune function gene expression in this pilot study is lower in the sPTB group compared with term and differs in AA compared with NHW infants.

2018 ◽  
Vol 218 (1) ◽  
pp. S167
Author(s):  
Neeta L. Vora ◽  
Joel Parker ◽  
Piotr Mieczkowski ◽  
Lisa Smeester ◽  
Matthew Laughon ◽  
...  

Gene ◽  
2016 ◽  
Vol 575 (1) ◽  
pp. 108-117 ◽  
Author(s):  
Jingfang Liu ◽  
Miaoran Xia ◽  
Pingzhang Wang ◽  
Chong Wang ◽  
Zihan Geng ◽  
...  

2020 ◽  
Vol 14 ◽  
pp. 117793222091330
Author(s):  
LM Avila-Portillo ◽  
F Aristizabal ◽  
S Perdomo ◽  
A Riveros ◽  
B Ospino ◽  
...  

Biosimilars of granulocyte colony-stimulating factor (G-CSF) have been routinely introduced into clinical practice. However, not functional genomics characterization has been performed yet in comparison with the innovator G-CSF. This study aimed to evaluate the transcriptomic changes in an in vitro model of umbilical cord blood cells (UBC) exposed to G-CSF for the identification of their modulated pathways. Umbilical cord blood cells–derived mononuclear cells (MNCs) were treated with biosimilar and innovator G-CSF for further gene expression profiling analysis using a microarray-based platform. Comparative analysis of biosimilar and innovator G-CSF gene expression signatures allowed us to identify the most commonly modulated pathways by both drugs. In brief, we observed predominantly upmodulation of transcripts related to PI3K-Akt, NF-kappaB, and tumor necrosis factor (TNF) signaling pathways as well as transcripts related to negative regulation of apoptotic process among others. In addition, hematopoietic colony-forming cell assays corroborate the G-CSF phenotypic effects over UBC-derived MNCs. In conclusion, our study suggests that G-CSF impacts UBC-derived cells through the modulation of several signaling pathways associated with cell survival, migration, and proliferation. The concordance observed between biosimilar and innovator G-CSF emphasizes their similarity in regards to their specificity and biological responses.


Blood ◽  
2007 ◽  
Vol 110 (11) ◽  
pp. 3870-3870
Author(s):  
Shaohua Chen ◽  
Yangqiu Li ◽  
Lijian Yang ◽  
Si Chen

Abstract CD3 zeta gene is required for efficient TCR expression and plays a central role in the signal-transducing events leading to T and NK-cell activation and proliferation. Umbilical cord blood (UCB) has been used successfully as a source of allogeneic transplantation and UCB T cells have showed capacity for production the specific CTL by tumor associated antigen ex vivo. In order to investigate the feature of CD3 zeta gene expression pattern in cord blood, UCB T cell without or with stimulation by different stimulators, including PHA, IL-2, CD3 monoclonal antibody (McAb), CD28 McAb + IL-2 and PML-RARα peptide) were used to analyze. By using Real-Time PCR with SYBR Green I technique, the expression level of CD3 zeta gene was analyzed in T-cells from 60 cases of UCB before and after T-cells culture at different time points (5–20days), β2-microglobulin gene was used as an endogenous reference. The relative mRNA expression level of CD3 zeta gene was used by the 2- ΔCt method. According to melting curve, polymorphism of nucleotide sequence was determined by PCR products direct sequencing. 60 cases healthy adults served as controls. The results showed that CD3 zeta gene was expressed in all cases from both UCB and healthy adults. The mean value 6.7%±5.56% of relative mRNA expression level of CD3 zeta gene was found in 60 UCB cases, the expression level under 1.0% was detected in 4 cases, over 10% in 14 cases and a high expression of 25.53% only in one case. In contrast, 3.1%±2.23% of relative mRNA expression level of CD3 zeta gene was detected in 60 cases healthy adults. The expression of the CD3 ζ gene from the healthy adults is more concentrated and the highest expression is only 9.34%. Compare with the healthy adults, a significant higher expression of CD3 zeta gene was found from UCB (P=0.000). Polymorphism and mutation of CD3 zeta gene were not identified by sequence analysis in both UCB and healthy samples. For the culture cells, CD3 zeta gene expression level in initial culture (5–10days) was increased after different stimulation. A higher expression lever was found in combined CD3 MCAb + CD28 McAb with or without PML-RARα peptide than in stimulation with PHA or IL-2 alone. The CD3 zeta gene expression lever in UCB T cells induced by combined PML-RARα peptide was 6.37 times as much as unstimulated cells at 10 days, whereas the CD3 zeta gene expression lever in UCB T cells stimulated by IL-2, CD3 McAb plus CD28 McAb was 5.83 times higher than that from un-stimulated cells. However, when the duration of T cells culture was prolonged, the expression of CD3 zeta was gradually reduced in all groups after 10 days. In conclusion, this is to our knowledge, the first description of CD3 zeta gene expression in UCB. Our data suggest that a higher expression of CD3 zeta gene could be found in UCB than in adult peripheral blood, and up-regulation of CD3 zeta gene can also be achieved after stimulation with PHA, IL-2, CD3 McAb + CD28 McAb + IL-2 with or without PML-RARα peptide, respectively. In addition, combined CD3 McAb + CD28 McAb with/without PML-RARα peptide showed a significantly higher capacity for promoting proliferation. The down-expression of CD3 zeta in cultured T cells after 10 days remains an open question.


2004 ◽  
Vol 343 (1-2) ◽  
pp. 173-178 ◽  
Author(s):  
Branka Grskovic ◽  
Katharina Ruzicka ◽  
Alireza Karimi ◽  
Durdi Qujeq ◽  
Mathias M. Müller

Transfusion ◽  
2010 ◽  
Vol 50 (9) ◽  
pp. 1980-1987 ◽  
Author(s):  
Jessica Sun ◽  
June Allison ◽  
Colleen McLaughlin ◽  
Linda Sledge ◽  
Barbara Waters-Pick ◽  
...  

2016 ◽  
Vol 2016 ◽  
pp. 1-13 ◽  
Author(s):  
Rafał Stojko ◽  
Monika Bojdys-Szyndlar ◽  
Agnieszka Drosdzol-Cop ◽  
Andrzej Madej ◽  
Krzysztof Wilk

The aim of the study was to compare the biological activity of the total pool of genes in CD34−umbilical cord blood and bone marrow stem cells and to search for the differences in signaling pathway gene expression responsible for the biological processes. The introductory analysis revealed a big similarity of gene expression among stem cells. When analyzing GO terms for biological processes, we observed an increased activity of JAK-STAT signaling pathway, calcium-mediated, cytokine-mediated, integrin-mediated signaling pathway, and MAPK in a cluster of upregulating genes in CD34−umbilical cord blood stem cells. At the same time, we observed a decreased activity of BMP signaling pathways, TGF-beta pathway, and VEGF receptor signaling pathway in a cluster of downregulating genes in CD34−umbilical cord blood stem cells. In accordance with KEGG classification, the cytokine-cytokine receptor interaction, toll-like receptor signaling pathway, and JAK-STAT signaling pathway are overrepresented in CD34−umbilical cord blood stem cells. A similar gene expression in both CD34−UCB and BM stem cells was characteristic for such biological processes as cell division, cell cycle gene expression, mitosis, telomere maintenance with telomerase, RNA and DNA treatment processes during cell division, and similar genes activity of Notch and Wnt signaling pathways.


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