Presentation Title

RNA Sequencing and Gene Expression Profiling of HCV Infected Monocytes Grown in Adult Bovine Serum

Faculty Mentor

Dr. Dennis Revie

Start Date

18-11-2017 11:30 AM

End Date

18-11-2017 11:45 AM

Location

9-273

Session

Bio Sciences 3

Type of Presentation

Oral Talk

Subject Area

biological_agricultural_sciences

Abstract

RNA from Hepatitis C Virus infected and uninfected monocytes grown in fetal bovine serum (FBS) has previously been sequenced. This study intends to determine which genes are differentially expressed from monocytes grown in adult bovine serum (ABS). To do this, mRNA from infected and uninfected monocytes grown in ABS was purified and prepared for sequencing using the Illumina TruSeq Stranded mRNA Library Preparation Kit. Samples were sequenced using the Illumina Miseq sequencer. DNAStar was used to align and analyze the RNA reads, estimate RPKM of reference genes, and assemble novel transcripts. Each sample yielded over 26.4 million high quality reads. The genes that changed most significantly were determined: Two genes that encode for proteins related to the Innate Immune System Pathway were upregulated, SPPL2B (14989.8-fold) and BTN2A1 (9684.6-fold). SPPL2B encodes Signal Peptide Peptidase Like 2B and BTN2A1 encodes Butyrophilin Subfamily 2 Member A1. Two genes that are involved in structural cell changes and migration were also upregulated, PLXNA1 (2030.7-fold) and CROCC (1983.2-fold). PLXNA1 encodes Plexin A1 and CROCC encodes Ciliary Rootlet Coiled-Coil Protein. CDKN2A was upregulated (19343.3-fold) and encodes Cyclin Dependent Kinase Inhibitor 2A which assists in the regulation of cell proliferation. ACYP1 was upregulated (17801.0-fold) and encodes Acylphosphatase 1, an enzyme related to pyruvate and naphthalene metabolism pathways. IRS2 was upregulated (2895.1-fold) and encodes Insulin Receptor Substrate 2, a cytoplasmic signaling protein involved in insulin mediated cell processes. MNT was upregulated (6599.0-fold) and encodes MAX Binding Protein that binds DNA as a heterodimer with MAX to repress transcription. HGH1 was upregulated (9837.7-fold) and encodes HGH1 homolog (p < 0.01, t > 671.07). These same genes were also most statistically significant for the samples from monocytes grown in FBS. These results suggest that the serum does not affect gene expression for HCV infected monocytes.

Summary of research results to be presented

As a result of mRNA sequencing of monocytes grown in adult bovine serum,,each sample (infected and uninfected) yielded over 26.4 million high quality reads. The genes that changed most significantly were determined: Two genes that encode for proteins related to the Innate Immune System Pathway were upregulated, SPPL2B (14989.8-fold) and BTN2A1 (9684.6-fold). SPPL2B encodes Signal Peptide Peptidase Like 2B and BTN2A1 encodes Butyrophilin Subfamily 2 Member A1. Two genes that are involved in structural cell changes and migration were also upregulated, PLXNA1 (2030.7-fold) and CROCC (1983.2-fold). PLXNA1 encodes Plexin A1 and CROCC encodes Ciliary Rootlet Coiled-Coil Protein. CDKN2A was upregulated (19343.3-fold) and encodes Cyclin Dependent Kinase Inhibitor 2A which assists in the regulation of cell proliferation. ACYP1 was upregulated (17801.0-fold) and encodes Acylphosphatase 1, an enzyme related to pyruvate and naphthalene metabolism pathways. IRS2 was upregulated (2895.1-fold) and encodes Insulin Receptor Substrate 2, a cytoplasmic signaling protein involved in insulin mediated cell processes. MNT was upregulated (6599.0-fold) and encodes MAX Binding Protein that binds DNA as a heterodimer with MAX to repress transcription. HGH1 was upregulated (9837.7-fold) and encodes HGH1 homolog (p < 0.01, t > 671.07). These same genes were also most statistically significant for the samples from monocytes grown in FBS. These results suggest that the serum does not affect gene expression for HCV infected monocytes.

This document is currently not available here.

Share

COinS
 
Nov 18th, 11:30 AM Nov 18th, 11:45 AM

RNA Sequencing and Gene Expression Profiling of HCV Infected Monocytes Grown in Adult Bovine Serum

9-273

RNA from Hepatitis C Virus infected and uninfected monocytes grown in fetal bovine serum (FBS) has previously been sequenced. This study intends to determine which genes are differentially expressed from monocytes grown in adult bovine serum (ABS). To do this, mRNA from infected and uninfected monocytes grown in ABS was purified and prepared for sequencing using the Illumina TruSeq Stranded mRNA Library Preparation Kit. Samples were sequenced using the Illumina Miseq sequencer. DNAStar was used to align and analyze the RNA reads, estimate RPKM of reference genes, and assemble novel transcripts. Each sample yielded over 26.4 million high quality reads. The genes that changed most significantly were determined: Two genes that encode for proteins related to the Innate Immune System Pathway were upregulated, SPPL2B (14989.8-fold) and BTN2A1 (9684.6-fold). SPPL2B encodes Signal Peptide Peptidase Like 2B and BTN2A1 encodes Butyrophilin Subfamily 2 Member A1. Two genes that are involved in structural cell changes and migration were also upregulated, PLXNA1 (2030.7-fold) and CROCC (1983.2-fold). PLXNA1 encodes Plexin A1 and CROCC encodes Ciliary Rootlet Coiled-Coil Protein. CDKN2A was upregulated (19343.3-fold) and encodes Cyclin Dependent Kinase Inhibitor 2A which assists in the regulation of cell proliferation. ACYP1 was upregulated (17801.0-fold) and encodes Acylphosphatase 1, an enzyme related to pyruvate and naphthalene metabolism pathways. IRS2 was upregulated (2895.1-fold) and encodes Insulin Receptor Substrate 2, a cytoplasmic signaling protein involved in insulin mediated cell processes. MNT was upregulated (6599.0-fold) and encodes MAX Binding Protein that binds DNA as a heterodimer with MAX to repress transcription. HGH1 was upregulated (9837.7-fold) and encodes HGH1 homolog (p < 0.01, t > 671.07). These same genes were also most statistically significant for the samples from monocytes grown in FBS. These results suggest that the serum does not affect gene expression for HCV infected monocytes.