| Literature DB >> 32693629 |
Carlo Alberto Paggi1,2,3, Amel Dudakovic2,3, Yao Fu1, Catalina Galeano Garces2, Mario Hevesi2, Daniela Galeano Garces2, Allan B Dietz4, Andre J van Wijnen2,3, Marcel Karperien1.
Abstract
OBJECTIVE: Cartilage formation is stimulated in mixtures of chondrocytes and human adipose-derived mesenchymal stromal cells (MSCs) both in vitro and in vivo. During coculture, human MSCs perish. The goal of this study is to elucidate the mechanism by which adipose tissue-derived MSC cell death occurs in the presence of chondrocytes.Entities:
Keywords: autophagy; chondrocytes; coculture; mesenchymal stem cells; pellet
Mesh:
Year: 2020 PMID: 32693629 PMCID: PMC8721613 DOI: 10.1177/1947603520941227
Source DB: PubMed Journal: Cartilage ISSN: 1947-6035 Impact factor: 4.634
RPKM Values of 7 Individual Male Genes.
| Chr | GeneID | A211 | A211 + ch | A283 | A283 + ch | ch | ([A211 + ch]/A211) * 100 | ([A283 + ch]/A283) * 100 | |
|---|---|---|---|---|---|---|---|---|---|
| chrY | RPS4Y1 | 108.6745 | 67.97581 | 92.28269 | 43.43297 | 0.337399 | 62.54994 | 47.06513 | |
| chrY | DDX3Y | 21.43654 | 11.931 | 15.98953 | 8.763549 | 0.077968 | 55.6573 | 54.80805 | |
| chrY | PRKY | 6.416036 | 3.24354 | 4.049743 | 2.343155 | 0.056736 | 50.55364 | 57.85934 | |
| chrY | USP9Y | 3.647092 | 1.915803 | 1.484446 | 0.86582 | 0.023051 | 52.5296 | 58.32615 | |
| chrY | KDM5D | 3.099356 | 2.289926 | 2.886254 | 1.85711 | 0.00957 | 73.88392 | 64.34326 | |
| chrY | ZFY | 3.287543 | 1.731643 | 3.220577 | 1.739003 | 0.02219 | 52.67286 | 53.99662 | |
| chrY | EIF1AY | 8.868548 | 4.7055 | 8.95836 | 5.544899 | 0.038423 | 53.05829 | 61.89636 | |
| Average | 57.27222 | 56.89927 |
RPKM = Reads Per Kilobase pair per Million mapped reads.
The values of the monoculture are compared with the coculture and an average of the 7 genes was obtained. Based on these data, we assumed that 57% of the RPKM in the cocultures was derived from the mesenchymal stromal cells and 43% was derived from chondrocytes.
Figure 1.(a) A 96-well plate containing the monoculture or coculture pellets. (b) Heatmap of the entire genome normalized and clustered using MORPEUS software. The downregulated genes are expressed in blue whereas the upregulated in red. (c) Venn diagrams presenting the similarity between the upregulated (top) or down-regulated (bottom) genes belonging to the different cocultures.
Figure 2.(a) Interconnections of the 51 upregulated genes using STRING software. Red circle symbolizes genes that have previously been annotated to apoptotic or autophagic processes. For other genes insufficient data were present in literature or have been previously annotated to other pathways. (b) Pie chart presenting the percentage of the 51 genes involved in the apoptotic or autophagic pathways based on gene counts in a. (c) Heatmap presenting the normalized (log 2) overexpression (red) levels of 17 upregulated genes using the RPKM values obtained from the RNA sequencing.
Figure 3.(a) Comparison between the RPKM values of pro-apoptotic markers (BAD, BAX, BCL2L11/BIM, BID); (b) of the anti-apoptotic markers (BCL2, BCL2L1); (c) apoptotic markers (CASP-3, CASP-9, CASP-5, CASP-8); (d) of the autophagic markers (DRAM1, MAP1LC3B, GBP1, SQSTM1/P62, APOL3,ULK1, SOD2, UVRAG) obtained from the RNA sequencing.
Figure 4.(a) Magnification of a cell undergoing apoptosis (on the left) through caspase-3 (in red) or autophagy (on the right) through LC3B (red) and P62 (green). In blue nuclei (b) immunofluorescence of the 7 conditions after 7 days of culture of the caspase-3 (in red) and nuclei (in blue); (c) immunofluorescence of the same 7 conditions of LC3B (in red) and P62 (in green). In blue nuclei. Yellow color represents overimposed green and red signals. Scale bars equate to 40 μm.