Comparative transcriptome analysis of hESC- and iPSC-derived corneal endothelial cells

Muhammad Ali, Shahid Khan, Firoz Kabir, John D Gottsch, Sheikh Amer Riazuddin

Research output: Contribution to journalArticle

Abstract

The corneal endothelium (CE), a monolayer of hexagonal cells constitutes the innermost layer of the cornea that is critical in maintaining clarity by mediating hydration through barrier and pump functions. Corneal endothelial cells (CECs) have limited proliferative potential and therefore generation of CECs has been undertaken by many groups. We previously reported generation of CECs from peripheral blood mononuclear cell (PBMC)-originated, induced pluripotent stem cells (iPSCs). In here, we extend our analysis through next-generation seqeuncing based transcriptome profiling of H9 human embryonic stem cell (hESC)- and human PBMC-originated, iPSC-derived CECs. The differentiating CECs on day 20 (D20) exhibited a tightly packed hexagonal/polygonal shape expressing zona occludens-1 (ZO-1) and N-cadherin at the cell boundaries. Next-generation RNA sequencing of hESC- and iPSC-derived CECs detected expression (≥0.659 RPKM) of 13,546 and 13,536 genes, respectively. Comparative transcriptome analysis of hESC- and iPSC-derived CECs revealed 13,208 (>96%) genes common in both transcriptomes. Among the 13,208 genes common in these transcriptomes, 12,580 (>95%) exhibited a quantitatively similar expression. To the best of our knowledge, this is the first report presenting comparative transcriptome analysis of hESC- and iPSC-derived CECs.

Original languageEnglish (US)
Pages (from-to)252-257
Number of pages6
JournalExperimental Eye Research
Volume176
DOIs
StatePublished - Nov 1 2018

Fingerprint

Induced Pluripotent Stem Cells
Gene Expression Profiling
Endothelial Cells
Transcriptome
Blood Cells
Genes
RNA Sequence Analysis
Corneal Endothelium
Human Embryonic Stem Cells
Herpes Zoster
Cadherins
Cornea

ASJC Scopus subject areas

  • Ophthalmology
  • Sensory Systems
  • Cellular and Molecular Neuroscience

Cite this

Comparative transcriptome analysis of hESC- and iPSC-derived corneal endothelial cells. / Ali, Muhammad; Khan, Shahid; Kabir, Firoz; Gottsch, John D; Riazuddin, Sheikh Amer.

In: Experimental Eye Research, Vol. 176, 01.11.2018, p. 252-257.

Research output: Contribution to journalArticle

@article{9d29301c33aa4843809c610b374723db,
title = "Comparative transcriptome analysis of hESC- and iPSC-derived corneal endothelial cells",
abstract = "The corneal endothelium (CE), a monolayer of hexagonal cells constitutes the innermost layer of the cornea that is critical in maintaining clarity by mediating hydration through barrier and pump functions. Corneal endothelial cells (CECs) have limited proliferative potential and therefore generation of CECs has been undertaken by many groups. We previously reported generation of CECs from peripheral blood mononuclear cell (PBMC)-originated, induced pluripotent stem cells (iPSCs). In here, we extend our analysis through next-generation seqeuncing based transcriptome profiling of H9 human embryonic stem cell (hESC)- and human PBMC-originated, iPSC-derived CECs. The differentiating CECs on day 20 (D20) exhibited a tightly packed hexagonal/polygonal shape expressing zona occludens-1 (ZO-1) and N-cadherin at the cell boundaries. Next-generation RNA sequencing of hESC- and iPSC-derived CECs detected expression (≥0.659 RPKM) of 13,546 and 13,536 genes, respectively. Comparative transcriptome analysis of hESC- and iPSC-derived CECs revealed 13,208 (>96{\%}) genes common in both transcriptomes. Among the 13,208 genes common in these transcriptomes, 12,580 (>95{\%}) exhibited a quantitatively similar expression. To the best of our knowledge, this is the first report presenting comparative transcriptome analysis of hESC- and iPSC-derived CECs.",
author = "Muhammad Ali and Shahid Khan and Firoz Kabir and Gottsch, {John D} and Riazuddin, {Sheikh Amer}",
year = "2018",
month = "11",
day = "1",
doi = "10.1016/j.exer.2018.08.023",
language = "English (US)",
volume = "176",
pages = "252--257",
journal = "Experimental Eye Research",
issn = "0014-4835",
publisher = "Academic Press Inc.",

}

TY - JOUR

T1 - Comparative transcriptome analysis of hESC- and iPSC-derived corneal endothelial cells

AU - Ali, Muhammad

AU - Khan, Shahid

AU - Kabir, Firoz

AU - Gottsch, John D

AU - Riazuddin, Sheikh Amer

PY - 2018/11/1

Y1 - 2018/11/1

N2 - The corneal endothelium (CE), a monolayer of hexagonal cells constitutes the innermost layer of the cornea that is critical in maintaining clarity by mediating hydration through barrier and pump functions. Corneal endothelial cells (CECs) have limited proliferative potential and therefore generation of CECs has been undertaken by many groups. We previously reported generation of CECs from peripheral blood mononuclear cell (PBMC)-originated, induced pluripotent stem cells (iPSCs). In here, we extend our analysis through next-generation seqeuncing based transcriptome profiling of H9 human embryonic stem cell (hESC)- and human PBMC-originated, iPSC-derived CECs. The differentiating CECs on day 20 (D20) exhibited a tightly packed hexagonal/polygonal shape expressing zona occludens-1 (ZO-1) and N-cadherin at the cell boundaries. Next-generation RNA sequencing of hESC- and iPSC-derived CECs detected expression (≥0.659 RPKM) of 13,546 and 13,536 genes, respectively. Comparative transcriptome analysis of hESC- and iPSC-derived CECs revealed 13,208 (>96%) genes common in both transcriptomes. Among the 13,208 genes common in these transcriptomes, 12,580 (>95%) exhibited a quantitatively similar expression. To the best of our knowledge, this is the first report presenting comparative transcriptome analysis of hESC- and iPSC-derived CECs.

AB - The corneal endothelium (CE), a monolayer of hexagonal cells constitutes the innermost layer of the cornea that is critical in maintaining clarity by mediating hydration through barrier and pump functions. Corneal endothelial cells (CECs) have limited proliferative potential and therefore generation of CECs has been undertaken by many groups. We previously reported generation of CECs from peripheral blood mononuclear cell (PBMC)-originated, induced pluripotent stem cells (iPSCs). In here, we extend our analysis through next-generation seqeuncing based transcriptome profiling of H9 human embryonic stem cell (hESC)- and human PBMC-originated, iPSC-derived CECs. The differentiating CECs on day 20 (D20) exhibited a tightly packed hexagonal/polygonal shape expressing zona occludens-1 (ZO-1) and N-cadherin at the cell boundaries. Next-generation RNA sequencing of hESC- and iPSC-derived CECs detected expression (≥0.659 RPKM) of 13,546 and 13,536 genes, respectively. Comparative transcriptome analysis of hESC- and iPSC-derived CECs revealed 13,208 (>96%) genes common in both transcriptomes. Among the 13,208 genes common in these transcriptomes, 12,580 (>95%) exhibited a quantitatively similar expression. To the best of our knowledge, this is the first report presenting comparative transcriptome analysis of hESC- and iPSC-derived CECs.

UR - http://www.scopus.com/inward/record.url?scp=85053475614&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85053475614&partnerID=8YFLogxK

U2 - 10.1016/j.exer.2018.08.023

DO - 10.1016/j.exer.2018.08.023

M3 - Article

C2 - 30196069

AN - SCOPUS:85053475614

VL - 176

SP - 252

EP - 257

JO - Experimental Eye Research

JF - Experimental Eye Research

SN - 0014-4835

ER -