Open Access

Gene expression-based comparison of the human secretory neuroepithelia of the brain choroid plexus and the ocular ciliary body: potential implications for glaucoma

  • Sarah F Janssen1,
  • Theo GMF Gorgels1,
  • Jacoline B ten Brink1,
  • Nomdo M Jansonius2 and
  • Arthur AB Bergen1, 3Email author
Fluids and Barriers of the CNS201411:2

https://doi.org/10.1186/2045-8118-11-2

Received: 19 November 2013

Accepted: 26 January 2014

Published: 29 January 2014

Abstract

Background

The neuroepithelia of the choroid plexus (CP) in the brain and the ciliary body (CB) of the eye have common embryological origins and share similar micro-structure and functions. The CP epithelium (CPE) and the non-pigmented epithelium (NPE) of the CB produce the cerebrospinal fluid (CSF) and the aqueous humor (AH) respectively. Production and outflow of the CSF determine the intracranial pressure (ICP); production and outflow of the AH determine the intraocular pressure (IOP). Together, the IOP and ICP determine the translaminar pressure on the optic disc which may be involved in the pathophysiology of primary open angle glaucoma (POAG). The aim of this study was to compare the molecular machinery of the secretory neuroepithelia of the CP and CB (CPE versus NPE) and to determine their potential role in POAG.

Methods

We compared the transcriptomes and functional annotations of healthy human CPE and NPE. Microarray and bioinformatic studies were performed using an Agilent platform and the Ingenuity Knowledge Database (IPA).

Results

Based on gene expression profiles, we found many similar functions for the CPE and NPE including molecular transport, neurological disease processes, and immunological functions. With commonly-used selection criteria (fold-change > 2.5, p-value < 0.05), 14% of the genes were expressed significantly differently between CPE and NPE. When we used stricter selection criteria (fold-change > 5, p-value < 0.001), still 4.5% of the genes were expressed differently, which yielded specific functions for the CPE (ciliary movement and angiogenesis/hematopoiesis) and for the NPE (neurodevelopmental properties). Apart from a few exceptions (e.g. SLC12A2, SLC4A4, SLC4A10, KCNA5, and SCN4B), all ion transport protein coding genes involved in CSF and AH production had similar expression profiles in CPE and NPE. Three POAG disease genes were expressed significantly higher in the CPE than the NPE, namely CDH1, CDKN2B and SIX1.

Conclusions

The transcriptomes of the CPE and NPE were less similar than we previously anticipated. High expression of CSF/AH production genes and candidate POAG disease genes in the CPE and NPE suggest that both might be involved in POAG.

Background

Neuroepithelial cells, which themselves are derived from embryonic stem cells, can be viewed as neural progenitor cells [1, 2]. They appear during embryonic development and form the neuroectoderm of the neural tube [3]. They give rise to multiple cell types, such as neurons, astrocytes and oligodendrocytes. In addition, in specialized areas of the central nervous system (CNS), these cells retain their epithelial nature and differentiate into fluid-secreting cells: the neuroepithelia of the ocular ciliary body and the choroid plexus epithelium of the brain [49]. These tight single-cell layers function together with the outer blood-retina barrier and the blood–brain barrier to maintain CNS homeostasis and are implicated in diseases like age-related macular degeneration, primary open-angle glaucoma (POAG) and Alzheimer’s disease.

In the literature, transcriptome analysis and functional predictions of human neuroepithelia, including the human retinal pigment epithelium [10] and ciliary body [11] in the eye and the choroid plexus epithelium (CPE) of the brain [12] have been described, but most studies are difficult to compare since they used different sampling methods, methodologies and bioinformatic techniques. Previously we determined the RNA expression profiles and predicted functional properties of five adult human neuroepithelia using a single microarray and bioinformatics platform: the central and peripheral retinal pigment epithelium [1315], the pigmented and non-pigmented neural epithelia of the ocular ciliary body (CB) [16], and the choroid plexus neural epithelium (CPE) of the brain [17].

In the current study, we set out to compare the gene expression profiles and functional annotations of two, apparently closely related neural epithelia: the CPE, which produces the cerebrospinal fluid (CSF) of the brain and the CB epithelium (CBE), which produces aqueous humor (AH) of the eye.

The CPE and CBE resemble each other in many ways, as reviewed by Straziella and Ghersi-Egea [18] for the CPE and by Coca-Prados and Escribano [19] for the CBE. In summary, both epithelia are lobed neuroectodermal cell layers sealed by tight junctions, thereby creating diffusion barriers for most hydrophilic molecules between the blood and CNS. Both CPE and CBE produce colorless fluids, the CSF and AH, respectively. The CPE and CBE regulate production, composition and reabsorption of these fluids and are involved in intra-cranial and intra-ocular pressure dynamics, respectively [20, 21]. Both the CPE and CBE form villi that overly a loose extracellular matrix and fenestrated choroidal capillaries.

There are also major differences between the CPE and CBE. Obviously, they are located in different parts of the CNS: the CPE is located in the lateral, third and fourth ventricles of the brain, whereas the CBE resides in the posterior chamber of the eye. A major difference is that the CBE consists of two adjacent neuroectodermal layers: the non-pigmented (NPE) and the pigmented epithelium (PE), whereas the CPE consists of a single epithelial layer. Using large scale gene expression analysis and functional annotation, we recently showed that the NPE and PE layers are highly comparable: only 1% of the transcriptome was different between the NPE and PE [16].

The CPE and CBE are involved in the pressure dynamics in the brain and eye, respectively. The pressures of the ocular and cranial fluids uniquely meet at one location: the optic disc, situated at the point where the optic nerve leaves the eye. The optic disc contains the lamina cribrosa that supports the retinal nerve fibers where they leave the eye. The difference between the posteriorly directed IOP and anteriorly directed ICP on the optic disk is the translaminar pressure gradient. This translaminar pressure ultimately determines the forces applied to the lamina cribrosa and these forces appear to play a key role in a common age-related eye disease POAG. POAG is a progressive optic neuropathy with abnormal cupping of the optic nerve head (excavation) and loss of retinal ganglion cells. The pathogenesis of POAG is largely unknown, but an increased IOP is a major risk factor. Recent findings suggest that it is actually the translaminar pressure, rather than the IOP, that forms the risk factor for POAG and its subtype normal tension glaucoma (NTG) [2229].

Since the CPE and CBE have a similar origin, structure and function, and together are involved in translaminar pressure dynamics, we were interested in the gene expression-based functional comparison of the human CPE and CBE. Previously, we found that the gene expression of the two ciliary epithelia, PE and NPE, resembled each other closely [16]. For the present study we chose to compare the CPE with the NPE (and not the PE), since the NPE is non-pigmented and contains tight junctions, just like the CPE. The aims of this study were (1) to compare the gene expression profiles and functional annotation of the CPE and NPE in order to determine common properties and potential specific functions and (2) to determine CPE/NPE highly and specifically expressed genes coding for ion transport proteins involved in CSF/AH production and (3) for genes previously associated with POAG.

Methods

Ethics statement

This study was performed after institutional approval of the Netherlands Institute for Neuroscience, Amsterdam, Netherlands. The human CPE material was obtained from the Netherlands Brain Bank (Amsterdam, Netherlands). The human donor eyes were provided by the Corneabank Beverwijk, Netherlands. In accordance with the international declaration of Helsinki, the NBB and the Corneabank obtained permission from the donors for, respectively, brain and eye autopsy and the use of clinical information for research purposes. All human data were analyzed anonymously.

Gene expression data of the human choroid plexus and ciliary body epithelia

We used the gene expression data from our previously-published microarray studies of healthy human CPE (seven samples) (GSE49974; [17]) and NPE (seven samples) (GSE37957; [16]). The age of the donors varied between 39 and 73 years. Donors had neither history of any brain or eye disease nor any malignancies. The seven human CPE donors were all male, five human CBE donors were male and two female. Since several external or genetic factors may have influence on our human gene expression data, we could detect only consistent and significant similarities or differences between the selected samples. All RNA samples from each tissue were analyzed separately by microarray. The microarrays were performed against the same common reference sample, being human retinal pigment epithelium (RPE)/choroid. In this way, the CPE and NPE gene-expression data could be compared with each other. Human choroid plexus tissue was removed from the lateral ventricles of fresh post mortem brains. Whereas the gross anatomy of the CPE became somewhat distorted, the neuroepithelium could be identified easily on cryosections for laser dissection. Donor eyes were snap-frozen in their entirety, which maintained the overall structure of the ciliary body. Detailed description of cell sampling, RNA processing, microarray hybridization, and confirmation methodology of the microarray data were described elsewhere previously [16].

Data analysis

The microarray image files were analyzed and processed by Agilent Feature Extraction Software (Agilent Technologies, version 9.5.3.1) and mean intensities (log2) were given to the spots. These mean intensities were normalized between arrays of the CPE and NPE in R (version 2.14.0 for Windows, R Development Core Team, 2009; NormalizeBetweenArrays with the ‘aquantile’ method). Next, the genes were ranked by expression level and assigned percentile ranks [13]. The expression datasets were functionally annotated using the Ingenuity Knowledge Base (Ingenuity® Systems, version 11631407, http://www.ingenuity.com; assessed at August 27, 2013). The ingenuity core-analysis yields information about biological functions, functional molecular networks, and canonical pathways. Functional molecular networks represent the interactions of molecules leading to biological functions that are attributed to a certain dataset of genes. Canonical pathways are the simplest representation of an (established) molecular pathway. The Ingenuity database contains millions of molecular and functional data points from experimental studies, available from both literature and online experimental databases such as PUBMED, the GWAS Database, GEO, and OMIM.

For the first functional analysis, genes were selected with the highest expression values (expression above 90th percentile [P90]) in both the CPE and NPE. This means that these genes have an expression intensity that falls into the highest 10% intensity values of the CPE and NPE microarrays [13, 16]. These genes are referred to as the “Highly expressed CPE and NPE genes”. Next, the gene expression data of the CPE and NPE was compared with a t-test in R and Benjamini-Hochberg correction for multiple testing (version 2.14.0 for Windows, R Development Core Team, 2009). Our initial selection criteria for differentially expressed genes were a fold-change (FC) >2.5 and a p-value <0.05. To identify larger and more specific differences, a relatively strict criteria of FC > 5 and a p-value < 0.001 was used, and this resulted in a set of genes referred to as the “Significantly differentially expressed CPE and NPE genes”. These significantly differentially expressed CPE and NPE genes were functionally annotated in the Ingenuity Knowledge Base (Ingenuity® Systems, version 11631407, http://www.ingenuity.com; assessed at August 5, 2013). In addition, we looked for highly and significantly differentially expressed ion transport protein coding genes involved in CSF/AH production in the CPE and NPE. The ion-channels and ion transporters that are involved in CSF and AH production were, respectively, reviewed by Brown et al. [30] and Civan et al. [20]. Ingenuity was searched for corresponding genes that code for these channels and transporters. In this way, we created a list of genes involved in CSF/AH production. Next, this list was compared with the “Highly expressed CPE and NPE genes” and “Significantly differentially expressed CPE and NPE genes” to find common or different features in CPE and NPE regarding CSF/AH production. Finally, we searched for (candidate) POAG disease genes that were highly or significantly differentially expressed in the CPE and NPE. To this end we compared the “Highly expressed CPE and NPE genes” and “Significantly differentially expressed CPE and NPE genes” with a list of 65 (candidate) POAG disease genes that we recently reviewed [31].

Results

Comparison of the CPE and NPE transcriptome

There were several functions that are apparently biologically important in both epithelial layers. These were (1) neurological function and disease (migration of neuroglia, Alzheimer’s disease, Parkinson’s disease, tauopathy, Leigh syndrome), (2) immunological and infectious diseases (allergy and autoimmune disease, viral infection pathways), (3) molecular transport, (4) hematological disease (myelodysplastic syndrome, lymphosarcoma, anemia), and (5) basic cellular (dys) functions. However, it is possible that similar expression of house-keeping genes in both tissues underlie some of these shared functional annotations.

The statistical comparison between the entire gene expression datasets of 30,589 unique genes of the CPE and NPE showed that many genes were also significantly differentially expressed between the CPE and NPE. Surprisingly, with the frequently used standard ANOVA selection criteria (FC > 2.5 and p-value < 0.05; [15, 16]), far more significantly differentially expressed genes (14%) were found than we had expected a-priori. To identify the most important and specific differences, we subsequently chose a more strict selection criteria (FC > 5 and p-value < 0.001). With these criteria, there were 760 (2.5%) genes significantly more highly expressed in the CPE than in the NPE. Vice versa, there were 624 (2.0%) genes significantly more highly expressed in the NPE out of a total of 30,589 unique genes. Tables 1 and 2 present the top-30 of “Significantly differentially expressed CPE and NPE genes” according to the strict criteria. The complete lists of the expressed genes in CPE and NPE can be found in Additional files 1 and 2, respectively.
Table 1

Top-30 genes significantly higher expressed in CPE compared to NPE

Gene name

Systematic name

FC

p-value

TTR

NM_000371

4307.5

2.38E-12

SLC24A4

NM_153646

425.1

3.49E-14

W60781

W60781

390.8

4.65E-09

ARMC3

NM_173081

196.7

7.12E-13

KL

NM_153683

191.7

4.53E-10

SPAG6

NM_012443

171.5

2.74E-11

SLCO1C1

NM_017435

134.0

1.96E-11

KLK11

NM_144947

127.7

1.47E-14

IL13RA2

NM_000640

97.5

4.59E-12

FAM81B

NM_152548

90.5

2.08E-11

EFCAB1

NM_024593

88.1

4.38E-13

THC2741529

THC2741529

82.8

1.86E-09

DNER

NM_139072

82.6

2.08E-12

KIAA1456

NM_020844

77.6

2.09E-12

C13orf26

NM_152325

77.5

1.13E-12

SLC4A10

NM_022058

73.1

9.42E-10

FLJ23049

NM_024687

71.8

3.49E-12

KCNA5

NM_002234

70.4

1.97E-11

NAT8L

NM_178557

69.9

5.20E-10

SPAG8

NM_172312

62.9

1.47E-10

BUB1B

NM_001211

59.2

7.40E-08

AIM2

NM_004833

55.6

9.11E-13

THC2657259

THC2657259

55.0

6.28E-11

GRM8

NM_000845

54.9

5.38E-10

HRK

NM_003806

54.6

8.93E-11

POLE

AF128542

54.3

4.24E-09

FABP4

NM_001442

52.4

8.89E-10

C2orf39

NM_145038

50.6

2.09E-12

CLIC6

NM_053277

49.7

2.07E-11

KIAA1199

NM_018689

47.9

1.10E-12

Table 2

Top-30 genes expressed significantly higher in NPE compared to CPE

Gene name

Systematic name

FC

p-value

AOC3

NM_003734

375.2

4.24E-10

FGFBP2

NM_031950

272.4

9.92E-11

THC2677285

THC2677285

268.8

9.11E-13

LOC92196

NM_001017920

250.9

3.32E-11

CPAMD8

NM_015692

214.9

9.80E-11

HSD17B2

NM_002153

195.9

9.23E-12

CD96

NM_198196

162.3

9.23E-12

AK124698

AK124698

161.5

7.00E-10

GRM1

NM_000838

128.9

2.64E-13

PCSK2

NM_002594

125.6

2.49E-11

CLRN1

NM_174878

118.3

1.09E-12

LIPC

NM_000236

107.8

2.40E-12

ATP1A2

NM_000702

105.1

2.77E-08

C8orf47

NM_173549

89.4

2.38E-12

TFPI2

NM_006528

88.7

2.44E-09

DSC1

NM_004948

87.4

1.20E-10

GPR64

NM_001079858

86.5

8.89E-12

SLC5A8

NM_145913

85.6

5.97E-14

LHX2

NM_004789

77.8

2.64E-13

RAX

NM_013435

77.7

1.70E-11

ABI3BP

NM_015429

76.6

1.65E-09

FAM83D

NM_030919

75.9

4.79E-12

BHLHB5

NM_152414

75.4

5.31E-10

SLITRK5

NM_015567

66.0

5.56E-10

THC2636507

THC2636507

64.2

1.45E-08

THC2676797

THC2676797

62.6

7.23E-12

DSCR8

NM_203429

61.8

2.38E-12

OXGR1

NM_080818

60.7

4.41E-11

LRRN1

NM_020873

56.7

9.48E-12

KIAA1727

NM_033393

55.6

3.40E-09

Functional annotation of the genes expressed significantly higher in CPE than in NPE

Ingenuity attributed four major statistically significant biological functions to the CPE: (1) ciliary and flagella motion and primary ciliary dyskinesia, (2) development of blood vessels and angiogenesis and related diseases (vascular disease, occlusion of artery, arteriosclerosis), (3) molecular transport, and (4) several types of cancer (adenocarcinoma, epithelial neoplasia, cancer of lung, uterine endometrium, and ovary). Using the same dataset, Ingenuity subsequently built 25 functional molecular CPE networks. Figure 1 shows as an example, a diagram of network 1 that represents the gene and protein interactions leading to ciliary movement and dyskinesia. This network is functionally annotated with “Developmental and hereditary disorders and respiratory disease”. The other 24 functional molecular network diagrams can be found in Additional file 3. After correction for multiple testing, there were no statistically significant canonical pathways specifically assigned by Ingenuity to the CPE compared with the NPE.
Figure 1

Molecular network of genes expressed significantly more highly in the brain choroid plexus epithelium compared to the non-pigmented epithelium of the eye. Example of a molecular network generated by Ingenuity software. Grey symbols represent genes expressed more highly in the CPE than in the NPE. Transparent entries are molecules inserted by the knowledge database. Gene names are abbreviated according to those used in GenBank. Solid lines between molecules indicate direct physical or functional relationships between molecules (such as regulating and interacting protein domains). The genes DNAH5, DNAH9, DNAH11 and DNAI2 indicated in bold, code for dynein proteins. Dyneins keep the microtubules of the cilia together and promote the movement of the cilia. Mutations in these genes can cause primary ciliary dyskinesia. The main functionalities given by Ingenuity for this entire molecular network are “Developmental and hereditary disorder and respiratory disease”. Reproduced with permission.

Functional annotation of the genes expressed significantly higher in NPE than in CPE

Ingenuity assigned four major statistically significant biological functions to the NPE compared to the CPE. The first and most significant biological function was (1) nervous system development, and more specifically neuronal development of sensory organ, head, body axis, eye, forebrain, brain, and telencephalon. This functionality also comprised neurological and ophthalmic diseases (seizure, epilepsy, schizophrenia, bipolar disorder, and congenital anomalies of the eye). Examples of genes underlying this NPE functionality are ALDH1A1, ATOH7, CYP1B1, MSX2, OTX1, PAX6, PVRL3, RP1, SEMA5A, SIX6, and SOX4 (eye development) and BMP2, FGFR1, GAP43, GLI3, GSX2, HES1, PAX6, RELN, SLIT1, SOX3, SOX4, and ZIC3 (brain development). For the total list, see Additional file 4. Another statistically significant function was formation of cellular protrusions and plasma membrane projections. This function was based on 47 genes expressed significantly higher in NPE, for example genes involved in actin function (ANK3, ARGHGAP24, ENC1, MARCKS, PALLD), genes involved in filopodium formation and cytoskeleton organization (MCF2, RHOU) and axonal growth and guidance (CNTN4, GAP43, LRRC4C, SEMA3A, TIAM1, TIAM2). For the total list, see Additional file 5. Finally, we identified the functions of molecular transport, and several types of cancer (adenocarcinoma, epithelial neoplasia, cancer of lung).

Subsequently, from the same dataset, Ingenuity built 25 functional molecular networks significantly present in the NPE, but not in the CPE. Figure 2 presents, as an example, a diagram of network 1 that shows specific neurodevelopmental functions of the NPE, annotated with top functions “Embryonic, organ and organismal development”. The other 24 functional molecular network diagrams can be found in Additional file 6. After correction for multiple testing, Ingenuity did not assign statistically significant canonical pathways specific for the NPE compared to the CPE.
Figure 2

Molecular network of genes expressed significantly more highly in non-pigmented epithelium of the eye compared to the brain choroid plexus epithelium. Example of a molecular network generated by Ingenuity software. Gene names are abbreviated according to those used in GenBank. Solid lines between molecules indicate direct physical or functional relationships between molecules (such as regulating and interacting protein domains). This network contains many genes involved in brain and nervous system development (orange bordered symbols) and eye development (green filled symbols). The main functionalities given by Ingenuity for this entire molecular network are “Embryonic organ and organismal development”. Reproduced with permission.

CPE and NPE expressed genes involved in CSF and AH production

We constructed a list of 157 coding genes corresponding to all the CPE and CBE ion channels and ion transporters proteins as described by Brown et al.[30] and Civan et al.[20] (see Additional file 7). Table 3 presents a list of ion channels and ion-transporters of which at least some of the coding genes were highly and/or significantly differentially expressed in the CPE and NPE, in order to find common or different features in CPE and NPE regarding CSF/AH production. Based on our gene expression data, all these ion channels and ion transporters were present in both epithelia. Eight coding genes were both highly expressed in CPE and NPE (SLC12A7, ATP1A1, ATP1A2, ATP1B1, ATP1B2, ATP1B3, KCNJ13, and AQP1), 13 were expressed significantly higher in the CPE compared to the NPE (ATP1B1, SLC12A2, SLC4A2, SLC4A10, KCNA5, KCNE1, KCNF1, KCNH2, KCNK1, KCNN2, KCNN3, SCN2A, and AQP4), and 10 higher in the NPE compared to the CPE (ATP1A1, ATP1B3, SLC4A4, KCNA4, KCNB2, KCNG1, KCNS1, SCN2B, SCN3B, and SCN4B).
Table 3

Genes coding for ion channels and transporters involved in CSF and AH production in the CPE and NPE

Ion channels and transporters

Present in

Coding genes

High gene expr.

Sign. diff. gene expr.

Na+/K+ ATPase

CPE and CBE

ATP1A1

Both

NPE

ATP1A2

Both

 

ATP1A3

CPE

 

ATP1A4

  

ATP1B1

Both

CPE

ATP1B2

Both

 

ATP1B3

Both

NPE

Na+/2Cl-/K+ co-transport

CPE and CBE

SLC12A1

  

SLC12A2

CPE

CPE

Na+/Cl- symport

CBE

SLC12A3

  

K+/Cl- symport

CPE

SLC12A4

  

SLC12A5

  

SLC12A6

  

SLC12A7

Both

 

SLC12A9

  

Cl-/HCO3 exchanger

CPE and CBE

SLC4A1

  

SLC4A2

 

CPE

SLC4A3

  

Na+/HCO3 symport

CPE

SLC4A4

NPE

NPE

SLC4A5

  

SLC4A7

  

SLC4A8

  

SLC4A9

  

SLC4A10

CPE

CPE

Na+/H+ exchanger

CPE and CBE

SLC9A1

  

SLC9A2

  

SLC9A3

  

SLC9A4

  

SLC9A5

  

SLC9A6

  

K+ channel

CPE and CBE

KCNA4

 

NPE

KCNA5

CPE

CPE

KCNAB1

NPE

 

KCNB2

 

NPE

KCNE1

 

CPE

KCNF1

 

CPE

KCNG1

 

NPE

KCNH2

 

CPE

KCNJ13

Both

 

KCNK1

CPE

CPE

KCNN2

 

CPE

KCNN3

 

CPE

KCNS1

 

NPE

Cl- channel

CPE and CBE

CLCN1

  

CLCN2

  

CLCN3

  

CLCN4

  

CLCN5

  

CLCN6

  

CLCN7

  

Na+ channel

CPE and CBE

SCN1A

  

SCN1B

  

SCN2A

 

CPE

SCN2B

 

NPE

SCN3A

  

SCN3B

 

NPE

SCN4A

  

SCN4B

NPE

NPE

SCN5A

  

SCN7A

  

SCN8A

  

SCN9A

  

SCN10A

  

SCN11A

  

Water channel

CPE and CBE

AQP1

Both

 
  

AQP2

  
  

AQP3

  
  

AQP4

 

CPE

  

AQP5

  
  

AQP7

  
  

AQP8

  
  

AQP9

  
  

AQP10

  
  

AQP11

  

This table lists the ion channels and ion transporters involved in cerebrospinal fluid (CSF)/aqueous humor (AH) production, their presence in choroid plexus epithelium (CPE) and/or non-pigmented epithelium (NPE) of the ciliary body epithelium according to literature [20, 30] and the gene expression profiles in the CPE and NPE according to our microarray gene expression studies. Column 1: Ion channels and transporters involved in CSF/AH production. For the K+ channel, we only presented the highly and/or statistical significant different expressed genes of the CPE and NPE; Column 2 - Present in: The presence of the different ion channels and ion transporters are reviewed in [30] for the CPE and [20] for the NPE; Column 3 - Coding genes: the genes coding for the ion channels and ion transporters listed in column 1; Column 4 - High gene expr.: Here we indicate the genes that are highly expressed in the CPE and/or NPE according to our gene expression microarray data of the CPE and NPE. Highly expressed gene are genes with mean expression values >90th percentile. This means that these genes have an expression intensity that falls into the highest 10% intensity values of the microarray. Both = high expression in both CPE and NPE; Column 5 - Sign. diff. gene expr.: Here we indicate the genes that were statistically significant higher expressed in the CPE or NPE compared with the NPE and CPE, respectively, according to our gene expression microarray data of the CPE and NPE. The selection criteria were fold change > 5 and p-value < 0.001.

CPE and NPE expressed genes previously associated with POAG

We compared a recently constructed list of 65 candidate POAG genes (reviewed in [31]) with the genes that were highly and/or significantly differently expressed in the CPE and NPE. Table 4 presents the results. We found 10 candidate POAG genes that were highly expressed in both the CPE and NPE (AKAP13, C1QBP, CHSY1, COL8A2, CYP1B1, FBN1, IBTK, MFN2, TMCO1, and TMEM248), three genes that were expressed significantly higher in the CPE (CDH1, CDKN2B, and SIX1), and six genes that were expressed significantly higher in the NPE (ATOH7, CYP1B1, FBN1, MYOC, PAX6, and SIX6).
Table 4

Gene expression profiles of candidate POAG disease genes in CPE and NPE

Candidate POAG disease genes

High gene expr.

Sign. diff. gene expr.

APOE

CPE

 

AKAP13

Both

 

ATOH7

 

NPE

C1QBP

Both

 

CDH1

CPE

CPE

CDKN2B

 

CPE

CHSY1

Both

 

COL8A2

Both

 

CYP1B1

Both

NPE

FBN1

Both

NPE

GSTM1

CPE

 

IBTK

Both

 

MFN2

Both

 

MYOC

NPE

NPE

OPTN

CPE

 

PAX6

NPE

NPE

RFTN1

NPE

 

SIX1

 

CPE

SIX6

NPE

NPE

TMCO1

Both

 

TMEM248

Both

 

High gene expr: Genes that are highly expressed in the CPE and/or NPE according to our gene expression microarray data of the CPE and NPE. Highly expressed gene are genes with mean expression values >90th percentile. Both = high expression in both CPE and NPE. Sign. diff. gene expr.: Genes that are statistically significant higher expressed in the CPE or NPE compared with the NPE and CPE, respectively, according to our gene expression microarray data. The selection criteria were fold change > 5 and p-value < 0.001.

Discussion

The gene expression data of the brain CPE and the NPE of the CBE from the eye were compared. The CPE and NPE are both secretory neuroepithelia, which share a common embryological origin and important structural and functional features (fluid production, brain and eye homeostasis and pressure dynamics) but also exhibit substantial anatomical differences (location, single (CPE) or double (CBE) layered). Together, the CPE and CBE are ultimately involved in building the translaminar pressure of CSF and AH on the optic disc. A disturbed translaminar pressure is a risk factor for POAG and NTG.

Comparison of the CPE and NPE transcriptome

It had been anticipated that the transcriptomes and predicted functionalities of the CPE and NPE in the current study would be highly similar. After all, using (initially) the same criteria, methodology and platform, the neuroepithelial transcriptomes of the ocular NPE and PE differed only by 1% [16] and the transcriptomes of the macular and peripheral RPE only by 1-5% [15]. Several overlapping functionalities for the CPE and NPE most highly expressed genes were found, including neurological function and diseases, immunological properties, and molecular transport. However, unexpectedly, there were also large differences between the two neuroepithelia. In the initial analysis, in which we applied the same selection criteria (FC > 2.5 and p-value < 0.05) as used in our previous neuroepithelial microarray studies [13, 15, 16], there was a large, 14% difference (data not shown); in our final analysis (FC > 5 and p-value < 0.001) this was still 4.5%. Hence, although the transcriptomes of the two neuroepithelia showed substantial overlap, there were large differences as well.

Previously published data showed many molecular similarities between CPE and CBE, but also some differences: for example the ion channels and ion transporters involved in CSF and AH production. These were widely studied and extensively reviewed by Brown et al.[30] for the CPE and by Civan et al. [20] for the CBE. These reviews reported that most of the ion channels and ion-transporters involved in the CSF/AH production are found in both the CPE and CBE, for example Na+/K+-ATPase, Na+/K+/2Cl- -symporters, Cl-/HCO3 and Na+/H+ exchangers, and aquaporins. However, there were also some ion transport proteins in the CPE that have not been identified in the CBE, for example Na+/HCO3 and K+/Cl- symporters. On the other hand, Na+/Cl- exchangers were found in the CBE, but not (yet) in the CPE [20, 30].

Predicted CPE functionalities not present in the NPE

Function of cilia

The most important predicted function found in the CPE, but not in the NPE, was genes for ciliary motion and primary ciliary dyskinesia. Cilia, which consist of bundles of microtubules held together by dyneins, are essential for CSF flow in the brain ventricles. Hydrocephalus is a common sign of primary ciliary dyskinesia, a disease caused by mutations in dynein proteins [32, 33]. A detailed inspection of the expression datasets showed that six dynein coding genes (DNAH5, DNAH7, DNAH9, DNAH11, DNAI1, and DNAI2) were expressed significantly more highly in the CPE compared to the NPE. Vice versa, there were no dynein coding genes expressed more highly in the NPE compared to the CPE. Hence, our data are in line with the idea that ciliary function is biologically more important in CPE than in NPE.

Angiogenesis

Another important CPE function that was not present in the NPE was “angiogenesis and development of blood vessels”. Ingenuity yielded this function because of 57 relevant genes expressed significantly higher in the CPE than in the NPE, most importantly ACE2, ADRA2B, AHR, FN1, FOXC1, GATA6, HGF, HHEX, KLF2, PGF, PTHLH, SERPINF1, and TEK (for the complete list, see Additional file 8). The appearance of this function could be explained either by a technical artifact or by a genuine biological reason. The CPE samples are much more closely entangled with blood vessels than the NPE. Thus, potential contamination of CPE tissue with blood vessel cells during laser dissection microscopy may underlie this finding. We previously showed that cellular contamination of adjacent tissue is a possible limitation of (our) cellular microarray approach [13]. Alternatively, the CPE could actually have a specific function that is not present in the NPE. This function could be extramedullary hematopoiesis (EH), which previously has been assigned to the human and mouse CPE [31]. Indeed, the functional molecular network 4 (“Hematological system development and function and hematopoiesis”) built by Ingenuity of significantly higher expressed CPE genes, also points to this specific property (Additional file 3). EH is a compensatory mechanism of hematopoiesis in sites other than the bone marrow, and some case reports point to a role of EH in the CPE [3436]. We could not find published reports of possible presence of EH in the NPE.

Predicted NPE functions not present in the CPE

Neuronal development

The first and most significant predicted function for the NPE not present in the CPE was “development of neuronal tissues and organs, including eye, retina, brain and forebrain”. The potential neural embryological properties of the CBE have been a topic of fierce recent discussion. The pars plana and the ciliary marginal zone of the CBE may, or may not, contain retinal progenitor cells, and there may even be differences between animal species. Some authors reported the presence of specific retinal stem cell or progenitor cell markers, such as NES, MITF, PAX6, SIX3, Rx, FGF2, and CHX10 [3742]. Isolated CBE neural progenitor cells were shown to proliferate and differentiate in vitro into neural spheres and possible photoreceptor-like cells [37, 4350], although this was not found in all studies [51, 52]. Interestingly, our gene expression data are primarily of the pars plicata of the human NPE, not from the ora serrata, but, even here, some embryological properties seem to be present in the adult neuroepithelium.

Cellular protrusions

The second predicted function of the NPE was “formation of cellular protrusions and plasma membrane projections”. The reason why this function is apparently more prominent in the NPE is currently not clear. After all, both the NPE and CPE contain actin and both cell types have filopodia. Possibly, the attachment of lens zonule fibers to the NPE may play a role in this finding. Future research is warranted.

Ion channels and ion transporters involved in CSF and AH production

The genes coding for the ion channels and ion-transporters involved in CSF and AH production had highly similar expression patterns in both tissues. Indeed, in the literature, some of these proteins were already identified in the CPE and CBE, such as ATP1A1, ATP1B1 and ATP1B2 [20, 30], AQP1 [53, 54] and SLC12A7 [55]. However, there are some significant expression differences in specific genes, which point to (subtle) differences in CSF and AH production: namely 13 specifically-expressed genes in the CPE and 10 in the NPE. To compare, a study of the molecular background of AH production in the CBE, the NPE and PE only showed four specifically expressed genes in the PE and none in the NPE [56]. At the protein level, previous studies showed expression of SLC12A2 [57], SLC4A2 [58], and SLC4A10 [59] in the CPE and expression of SLC4A4 [60] and sodium channels [61] in CBE. However, these finding were not proof that these proteins definitely differ between CPE and CBE, and comparative studies on protein level in both CPE and CPE are necessary to determine this. The differences between CPE and NPE could be a starting point for further biochemical, physiological and pharmacological research. Perhaps, these differences will open the door for specific drug delivery to the brain and the eye after systemic treatment as for example in a systemic drug that simultaneously increases ICP and lowers the IOP for POAG/NTG treatment.

Potential CPE and NPE involvement in POAG

Both the CPE and CBE may, ultimately, play a role in the development of POAG (see Background section), and especially in the development of NTG [31]. Ten (AKAP13, C1QBP, CHSY1, COL8A2, CYP1B1, FBN1, IBTK, MFN2, TMCO1 and TMEM248) of the 65 candidate POAG disease genes were highly expressed in both CPE and NPE, which might indicate overlapping pathobiological mechanisms of POAG in the two epithelia. On the other hand, we also identified three candidate POAG disease genes, CDH1, CDKN2B and SIX1, which were expressed more highly in the CPE than in the NPE. CDKN2B regulates cell cycle and growth, SIX1 is involved in developmental processes and CDH1 is a cell-cell adhesion glycoprotein. Interestingly, mutations in CDKN2B were previously implicated in NTG [6265]. In addition, mutations in both CDKN2B and SIX1 were previously associated with the vertical-cup-disc-ratio, an endophenotype of POAG [66, 67], and not, for example, with IOP. Vice versa, we found six (candidate) POAG-disease genes significantly higher expressed in the NPE than in the CPE (ATOH7, CYP1B1, FBN1, MYOC, PAX6, and SIX6). The potential involvement of these genes in POAG via the CPE and CBE is currently not clear.

As mentioned in the Background section, it seems that not only an increase in IOP but also a decrease in ICP could be a risk factor for POAG [2229, 6870]. Thus, manipulation of either IOP or ICP, together or apart, would be a possible form of POAG treatment. For example, alpha-adrenergic receptors are present in the both NPE and CPE albeit with differences in affinity and effect upon stimulation [7173]. Our expression data show that ADRA2B (an alpha-2-adrenergic receptor) is expressed more highly in the CPE compared to NPE and ADRA1B (an alpha-1-adrenergic receptor) is expressed more highly in the NPE compared to the CPE. Of specific interest are the alpha-2 adrenoceptors in the brain and eye. Chiou et al.[71] found that intraocular administration of an alpha-2 antagonist (yohimbine) resulted in a decreased IOP in cats, whereas McCormick et al.[73] showed that an intravenous administered alpha-2 antagonist (tolazine) resulted in an increased ICP. These findings might suggest that an intravenous alpha-2 antagonist is an ideal treatment option for POAG and NTG: it lowers the IOP and increases the ICP, thereby changing the translaminar pressure on both sides. Chiou et al.[71] also found that intraocular treatment with an alpha-2 agonist (clonidine) resulted in a decreased IOP (but less effective than alpha-2 antagonist). In the brain, intravenous alpha-2 agonist (xylazine) resulted also in a decreased ICP, making this agent less interesting for the dual, systemic treatment of POAG/NTG. However, more research is warranted, to prove these findings and hypothesis, to specify which alpha-2 antagonist does both decrease IOP and increase ICP, and if this approach is a good treatment option.

Conclusions

The gene expression patterns and predicted functions of the CPE and NPE overlap (molecular transport, immunological functions), but also show substantial differences. The ion channels and ion-transporters involved in CSF and AH production share the same expression profiles for most of their coding genes in CPE and NPE, with a few exceptions. The CPE showed specific functions in ciliary movement and angiogenesis/hematopoiesis compared to the NPE. Vice versa, the NPE analysis yielded specific neurodevelopmental properties not present in the CPE. In POAG and NTG, the CPE and NPE could act together in creating a disturbed, net posteriorly directed translaminar pressure over the optic disc, where brain and eye meet.

Abbreviations

AH: 

Aqueous humor

EH: 

Extramedullary hematopoiesis

CBE: 

Ciliary body epithelium

CNS: 

Central nervous system

CPE: 

Choroid plexus epithelium

CSF: 

Cerebrospinal fluid

ICP: 

Intracranial pressure

IOP: 

Intraocular pressure

NPE: 

Non-pigmented epithelium

NTG: 

Normal tension glaucoma

PE: 

Pigmented epithelium

POAG: 

Primary open angle glaucoma

RPE: 

Retinal pigment epithelium.

Declarations

Authors’ Affiliations

(1)
Department of Clinical and Molecular Ophthalmogenetics, the Netherlands Institute for Neuroscience (NIN), Royal Netherlands Academy of Arts and Sciences (KNAW)
(2)
Department of Ophthalmology, University of Groningen, University Medical Center Groningen
(3)
Department of Clinical Genetics, AMC

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This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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