# Comparison of the Transcriptional Profiles of Melanocytes from Dark and Light Skinned Individuals under Basal Conditions and Following Ultraviolet-B Irradiation

**Authors:** Saioa López, Isabel Smith-Zubiaga, Alicia García de Galdeano, María Dolores Boyano, Oscar García, Jesús Gardeazábal, Conrado Martinez-Cadenas, Neskuts Izagirre, Concepción de la Rúa, Santos Alonso

PMC · DOI: 10.1371/journal.pone.0134911 · PLoS ONE · 2015-08-05

## TL;DR

This study compares how melanocytes from dark and light-skinned individuals respond to UVB radiation and their environment, revealing differences in gene activity and signaling pathways.

## Contribution

The study identifies novel interactions between ribosomal proteins and P53 signaling in melanocytes under UVB stress and highlights evolutionary roles of MIF and ATP6V0B.

## Key findings

- Differential gene expression in dark and light melanocytes occurs within 6 hours of UVB exposure, linked to inflammation and melanoma.
- KCM+ culture activates mTOR pathways in light melanocytes, affecting metabolism and survival.
- Natural selection analysis supports MIF and ATP6V0B as evolutionarily significant for pigmentation.

## Abstract

We analysed the whole-genome transcriptional profile of 6 cell lines of dark melanocytes (DM) and 6 of light melanocytes (LM) at basal conditions and after ultraviolet-B (UVB) radiation at different time points to investigate the mechanisms by which melanocytes protect human skin from the damaging effects of UVB. Further, we assessed the effect of different keratinocyte-conditioned media (KCM+ and KCM-) on melanocytes. Our results suggest that an interaction between ribosomal proteins and the P53 signaling pathway may occur in response to UVB in both DM and LM. We also observed that DM and LM show differentially expressed genes after irradiation, in particular at the first 6h after UVB. These are mainly associated with inflammatory reactions, cell survival or melanoma. Furthermore, the culture with KCM+ compared with KCM- had a noticeable effect on LM. This effect includes the activation of various signaling pathways such as the mTOR pathway, involved in the regulation of cell metabolism, growth, proliferation and survival. Finally, the comparison of the transcriptional profiles between LM and DM under basal conditions, and the application of natural selection tests in human populations allowed us to support the significant evolutionary role of MIF and ATP6V0B in the pigmentary phenotype.

## Linked entities

- **Genes:** TP53 (tumor protein p53) [NCBI Gene 7157], MIF (macrophage migration inhibitory factor) [NCBI Gene 4282], ATP6V0B (ATPase H+ transporting V0 subunit b) [NCBI Gene 533]
- **Diseases:** melanoma (MONDO:0005105)

## Full-text entities

- **Genes:** ATP6V0B (ATPase H+ transporting V0 subunit b) [NCBI Gene 533] {aka ATP6F, HATPL, VMA16}, Def6 (differentially expressed in FDCP 6) [NCBI Gene 23853] {aka 2410003F05Rik, 6430538D02Rik, Ibp, Slat, Slat2, Slat6}, PRP18 (mRNA splicing protein PRP18) [NCBI Gene 852889], Nptx2 (neuronal pentraxin 2) [NCBI Gene 53324] {aka Narp, np2}, SLC45A2 (solute carrier family 45 member 2) [NCBI Gene 51151] {aka 1A1, AIM1, MATP, OCA4, SHEP5}, DNAH8 (dynein axonemal heavy chain 8) [NCBI Gene 1769] {aka ATPase, SPGF46, hdhc9}, Fn1 (fibronectin 1) [NCBI Gene 14268] {aka E330027I09, Fn, Fn-1}, ATP6V0D1 (ATPase H+ transporting V0 subunit d1) [NCBI Gene 9114] {aka ATP6D, ATP6DV, P39, VATX, VMA6, VPATPD}, INS (insulin) [NCBI Gene 3630] {aka IDDM, IDDM1, IDDM2, ILPR, IRDN, MODY10}, GAPDH (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 2597] {aka G3PD, GAPD, HEL-S-162eP}, Col6a2 (collagen, type VI, alpha 2) [NCBI Gene 12834] {aka Col6a-2}, Rpl7a (ribosomal protein L7A) [NCBI Gene 27176] {aka Surf3}, OLE1 (stearoyl-CoA 9-desaturase) [NCBI Gene 852825] {aka MDM2}, RPL37A (60S ribosomal protein eL37 RPL37A) [NCBI Gene 850882], RPL11 (ribosomal protein L11) [NCBI Gene 6135] {aka DBA7, GIG34, L11, uL5}, HGF (hepatocyte growth factor) [NCBI Gene 3082] {aka DFNB39, F-TCF, HGFB, HPTA, SF}, UPF3 (Upf3p) [NCBI Gene 852963] {aka SUA6, SUP112}, BAG1 (BAG cochaperone 1) [NCBI Gene 573] {aka BAG-1, HAP, RAP46}, TRIAP1 (TP53 regulated inhibitor of apoptosis 1) [NCBI Gene 51499] {aka HSPC132, MDM35, P53CSV, WF-1}, SESN1 (sestrin 1) [NCBI Gene 27244] {aka PA26, SEST1}, Tmem8b (transmembrane protein 8B) [NCBI Gene 242409] {aka 4930500O05Rik}, OCA2 (OCA2 melanosomal transmembrane protein) [NCBI Gene 4948] {aka BEY, BEY1, BEY2, BOCA, D15S12, EYCL}, F2RL1 (F2R like trypsin receptor 1) [NCBI Gene 2150] {aka GPR11, PAR2}, Mmp13 (matrix metallopeptidase 13) [NCBI Gene 17386] {aka Clg, MMP-13, Mmp1}, LINGO2 (leucine rich repeat and Ig domain containing 2) [NCBI Gene 158038] {aka LERN3, LRRN6C}, EDA2R (ectodysplasin A2 receptor) [NCBI Gene 60401] {aka EDA-A2R, EDAA2R, TNFRSF27, XEDAR}, FTH1 (Fth1p) [NCBI Gene 852506], Angptl4 (angiopoietin-like 4) [NCBI Gene 57875] {aka Arp4, Bk89, Fiaf, Hfarp, Ng27, Pgar}, PARD3 (par-3 family cell polarity regulator) [NCBI Gene 56288] {aka ASIP, Baz, PAR3, PAR3alpha, PARD-3, PARD3A}, SNAR-E (small NF90 (ILF3) associated RNA E) [NCBI Gene 100170220], MEG3 (maternally expressed 3) [NCBI Gene 55384] {aka FP504, GTL2, LINC00023, Lnc-DLK1-35, NCRNA00023, PRO0518}, VRG4 (GDP-mannose transporter) [NCBI Gene 852647] {aka GOG5, LDB3, VAN2, VIG4}, RPL36A (60S ribosomal protein eL36 RPL36A) [NCBI Gene 855232] {aka RPL39B}, Cxcl1 (C-X-C motif chemokine ligand 1) [NCBI Gene 14825] {aka Fsp, Gro1, KC, Mgsa, N51, Scyb1}, Grtp1 (GH regulated TBC protein 1) [NCBI Gene 66790] {aka 5430401C05Rik, Tbc1d6}, KCNQ2 (potassium voltage-gated channel subfamily Q member 2) [NCBI Gene 3785] {aka BFNC, DEE7, EBN, EBN1, ENB1, HNSPC}, SLC24A5 (solute carrier family 24 member 5) [NCBI Gene 283652] {aka JSX, NCKX5, OCA6, SHEP4}, RNH70 (Rnh70p) [NCBI Gene 853193] {aka REX1, RNA82}, ATP6 (ATP synthase F0 subunit 6) [NCBI Gene 4508] {aka ATPase6, MTATP6}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, CYP2B6 (cytochrome P450 family 2 subfamily B member 6) [NCBI Gene 1555] {aka CPB6, CYP2B, CYP2B7, CYPIIB6, EFVM, IIB1}, Tnni3 (troponin I, cardiac 3) [NCBI Gene 21954] {aka Tn1, cTnI}, FDXR (ferredoxin reductase) [NCBI Gene 2232] {aka ADR, ADXR, ANOA, MMDS9B}, MMP23A (matrix metallopeptidase 23A (pseudogene)) [NCBI Gene 8511] {aka MIFR, MIFR-1, MMP21}, EGF (epidermal growth factor) [NCBI Gene 1950] {aka HOMG4, URG}, ERC1 (Erc1p) [NCBI Gene 856427], FCER1A (Fc epsilon receptor Ia) [NCBI Gene 2205] {aka FCE1A, FCERIA, FcERI}, CDKN1A (cyclin dependent kinase inhibitor 1A) [NCBI Gene 1026] {aka CAP20, CDKN1, CIP1, MDA-6, P21, SDI1}, EDAR (ectodysplasin A receptor) [NCBI Gene 10913] {aka DL, ECTD10A, ECTD10B, ED1R, ED3, ED5}, MIF (macrophage migration inhibitory factor) [NCBI Gene 4282] {aka GIF, GLIF, MMIF}, COB (cytochrome b) [NCBI Gene 854583] {aka COB1, CYTB}, Il6 (interleukin 6) [NCBI Gene 16193] {aka Il-6}, Trim33 (tripartite motif-containing 33) [NCBI Gene 94093] {aka 8030451N04Rik, Ecto, Tif1g}, TP53INP1 (tumor protein p53 inducible nuclear protein 1) [NCBI Gene 94241] {aka SIP, TP53DINP1, TP53INP1A, TP53INP1B, Teap, p53DINP1}, Cxcl3 (C-X-C motif chemokine ligand 3) [NCBI Gene 330122] {aka Dcip1, Gm1960}, RET (ret proto-oncogene) [NCBI Gene 5979] {aka CDHF12, CDHR16, HSCR1, MEN2A, MEN2B, MTC1}, SORCS1 (sortilin related VPS10 domain containing receptor 1) [NCBI Gene 114815] {aka hSorCS}, Tnfrsf11b (tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin)) [NCBI Gene 18383] {aka OCIF, Opg, TR1}, Guca1b (guanylate cyclase activator 1B) [NCBI Gene 107477] {aka GCAP2}, Tnfaip2 (tumor necrosis factor, alpha-induced protein 2) [NCBI Gene 21928] {aka B94, Exoc3l3, M-sec, Tnfip2, tnfb94}
- **Diseases:** melanoma growth stimulating activity (MESH:D006130), pigmentation (MESH:D010859), recessive disease (MESH:D004194), LM (MESH:D020795), Endometrial cancer (MESH:D016889), Colorectal cancer (MESH:D015179), inflammatory (MESH:D007249), Wolf-Hirschhorn syndrome candidate (MESH:D054877), malignant melanoma (MESH:D008545), sunburn (MESH:D013471), Chronic myeloid leukemia (MESH:D015464), inflammatory skin reactions (MESH:D012871), nephroblastoma (MESH:D009396), DM (MESH:D014202), skin cancer (MESH:D012878), Bardet-Biedl syndrome 9 (MESH:C565918), erythema (MESH:D004890), xeroderma pigmentosum (MESH:D014983), Systemic lupus erythematosus (MESH:D008180), cancer (MESH:D009369)
- **Chemicals:** cGMP (MESH:D006152), CoQ10 (MESH:C024989), cAMP (MESH:D000242), Pyrimidine (MESH:C030986), ROS (MESH:D017382), Purine (MESH:C030985), CO2 (MESH:D002245), SYBR Green (MESH:C098022), neuromelanin (MESH:C014121), coenzyme Q (MESH:D014451), leucine (MESH:D007930), ozone (MESH:D010126), Propanoate (MESH:D011422), isoleucine (MESH:D007532), galactoside (MESH:D005697), Valine (MESH:D014633), melanin (MESH:D008543), H+ (MESH:D006859), Phosphatidylinositol (MESH:D010716), DM (-), dopaminechrome (MESH:C083549)
- **Species:** Escherichia coli (E. coli, species) [taxon 562], Mus musculus (house mouse, species) [taxon 10090], Drosophila melanogaster (fruit fly, species) [taxon 7227], Homo sapiens (human, species) [taxon 9606], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Dipturus trachyderma (ray, species) [taxon 255564]
- **Cell lines:** DM — Canis lupus familiaris (Dog), Canine osteosarcoma, Cancer cell line (CVCL_A0WU), LM — Cricetulus griseus (Chinese hamster), Spontaneously immortalized cell line (CVCL_A9P5), Chinese hamster cells — Cricetulus griseus (Chinese hamster), Spontaneously immortalized cell line (CVCL_0212)

## Full text

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## Figures

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## References

64 references — full list in the complete paper: https://tomesphere.com/paper/PMC4526690/full.md

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Source: https://tomesphere.com/paper/PMC4526690