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    Zymo Research bisulfite sequencing service
    ESE induces stemness in the murine skin (A) Total study samples: mice skin samples from the Rodent Research-8 mission (also known as Rodent Research Reference-1) were procured from International Space Station (ISS) National. Mice flown in animal enclosure modules on the ISS were classified as Exposure to Space Environment (ESE) group ( n = 17). Ground-based mice (ground controls; n = 18) maintained under similar housing conditions were used as controls. Image created in BioRender. Kanhaiya, K. (2024) https://BioRender.com/q43i834 . (B) To quantify transcriptional differences between the skin of the mice of ESE group ( n = 10) vs. the ground controls ( n = 6), targeted RNA <t>sequencing</t> was performed. A total of 1,498 analysis ready differentially expressed transcripts ( p value < 0.05) were identified using ingenuity pathway analysis (IPA) software. Volcano plot and (C) Venn diagram showing the comparison of differentially expressed genes (DEG) in ESE group skin sample 859 (57.3%) transcripts were upregulated while 639 (42.7%) were downregulated. (D) Canonical pathway enrichment analysis of DEGs, high in ESE group was performed using IPA. Presented canonical pathways were identified as (1) DNA methylation, (2) embryonic stem cell pluripotency, (3) signaling by VEGF, (4) HIF1α signaling, and (5) Sirtuin signaling pathway. (E) Pathway generated by IPA showing the candidate genes involved in the human embryonic stem cell (ESC) pluripotency pathway. Among the biofunctions that were predicted to be upregulated in the skin samples of ESE group were ESC pluripotency, self-renewal of cells, and proliferation of ESC. See also <xref ref-type=Figure S5 and Tables S1 and ; n represents number of animals. For a Figure360 author presentation of this figure, see https://doi.org/10.1016/j.isci.2024.111382 . " width="250" height="auto" />
    Bisulfite Sequencing Service, supplied by Zymo Research, used in various techniques. Bioz Stars score: 90/100, based on 171 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/bisulfite+sequencing+service/pmc11647166-279-21-24?v=Zymo+Research
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    1) Product Images from "Mission SpaceX CRS-19 RRRM-1 space flight induced skin genomic plasticity via an epigenetic trigger"

    Article Title: Mission SpaceX CRS-19 RRRM-1 space flight induced skin genomic plasticity via an epigenetic trigger

    Journal: iScience

    doi: 10.1016/j.isci.2024.111382

    ESE induces stemness in the murine skin (A) Total study samples: mice skin samples from the Rodent Research-8 mission (also known as Rodent Research Reference-1) were procured from International Space Station (ISS) National. Mice flown in animal enclosure modules on the ISS were classified as Exposure to Space Environment (ESE) group ( n = 17). Ground-based mice (ground controls; n = 18) maintained under similar housing conditions were used as controls. Image created in BioRender. Kanhaiya, K. (2024) https://BioRender.com/q43i834 . (B) To quantify transcriptional differences between the skin of the mice of ESE group ( n = 10) vs. the ground controls ( n = 6), targeted RNA sequencing was performed. A total of 1,498 analysis ready differentially expressed transcripts ( p value < 0.05) were identified using ingenuity pathway analysis (IPA) software. Volcano plot and (C) Venn diagram showing the comparison of differentially expressed genes (DEG) in ESE group skin sample 859 (57.3%) transcripts were upregulated while 639 (42.7%) were downregulated. (D) Canonical pathway enrichment analysis of DEGs, high in ESE group was performed using IPA. Presented canonical pathways were identified as (1) DNA methylation, (2) embryonic stem cell pluripotency, (3) signaling by VEGF, (4) HIF1α signaling, and (5) Sirtuin signaling pathway. (E) Pathway generated by IPA showing the candidate genes involved in the human embryonic stem cell (ESC) pluripotency pathway. Among the biofunctions that were predicted to be upregulated in the skin samples of ESE group were ESC pluripotency, self-renewal of cells, and proliferation of ESC. See also <xref ref-type=Figure S5 and Tables S1 and ; n represents number of animals. For a Figure360 author presentation of this figure, see https://doi.org/10.1016/j.isci.2024.111382 . " title="... ground controls ( n = 6), targeted RNA sequencing was performed. A total of 1,498 analysis ready ..." property="contentUrl" width="100%" height="100%"/>
    Figure Legend Snippet: ESE induces stemness in the murine skin (A) Total study samples: mice skin samples from the Rodent Research-8 mission (also known as Rodent Research Reference-1) were procured from International Space Station (ISS) National. Mice flown in animal enclosure modules on the ISS were classified as Exposure to Space Environment (ESE) group ( n = 17). Ground-based mice (ground controls; n = 18) maintained under similar housing conditions were used as controls. Image created in BioRender. Kanhaiya, K. (2024) https://BioRender.com/q43i834 . (B) To quantify transcriptional differences between the skin of the mice of ESE group ( n = 10) vs. the ground controls ( n = 6), targeted RNA sequencing was performed. A total of 1,498 analysis ready differentially expressed transcripts ( p value < 0.05) were identified using ingenuity pathway analysis (IPA) software. Volcano plot and (C) Venn diagram showing the comparison of differentially expressed genes (DEG) in ESE group skin sample 859 (57.3%) transcripts were upregulated while 639 (42.7%) were downregulated. (D) Canonical pathway enrichment analysis of DEGs, high in ESE group was performed using IPA. Presented canonical pathways were identified as (1) DNA methylation, (2) embryonic stem cell pluripotency, (3) signaling by VEGF, (4) HIF1α signaling, and (5) Sirtuin signaling pathway. (E) Pathway generated by IPA showing the candidate genes involved in the human embryonic stem cell (ESC) pluripotency pathway. Among the biofunctions that were predicted to be upregulated in the skin samples of ESE group were ESC pluripotency, self-renewal of cells, and proliferation of ESC. See also Figure S5 and Tables S1 and ; n represents number of animals. For a Figure360 author presentation of this figure, see https://doi.org/10.1016/j.isci.2024.111382 .

    Techniques Used: RNA Sequencing Assay, Software, Comparison, DNA Methylation Assay, Generated

    ESE-induced promoter hypomethylation increased VEGF-mediated angiogenesis pathway in responders (A) Targeted validation of Vegfb gene promoter methylation status in ground control, responder ESE cohort, and non-responder ESE cohort. Genome track showing the Vegfb locus (top). Representative DNA methylation tracks (bottom) show diminished levels of methylated CpGs in responder ESE skin as compared to non-responder ESE or control skin. (B) Venn diagram showing the percentage of hypomethylated (blue) and hypermethylated (red) CpGs in Vegfb gene in responder ESE cohort ( n = 4) vs. ground control ( n = 12) and in (C) non-responder ESE cohort ( n = 6) vs. ground control ( n = 12). (D) To quantify transcriptional differences between the skin of the mice of responder ESE cohort compared to ground controls, targeted RNA sequencing was performed. Upstream regulator prediction analysis of DEGs, high in responder ESE cohort was performed using IPA. The candidates from VEGF Pathway were enriched in responder ESE cohort. See also <xref ref-type=Figure S4 , Table S5 . n represents number of animals. " title="... ESE cohort compared to ground controls, targeted RNA sequencing was performed. Upstream regulator prediction analysis of DEGs, ..." property="contentUrl" width="100%" height="100%"/>
    Figure Legend Snippet: ESE-induced promoter hypomethylation increased VEGF-mediated angiogenesis pathway in responders (A) Targeted validation of Vegfb gene promoter methylation status in ground control, responder ESE cohort, and non-responder ESE cohort. Genome track showing the Vegfb locus (top). Representative DNA methylation tracks (bottom) show diminished levels of methylated CpGs in responder ESE skin as compared to non-responder ESE or control skin. (B) Venn diagram showing the percentage of hypomethylated (blue) and hypermethylated (red) CpGs in Vegfb gene in responder ESE cohort ( n = 4) vs. ground control ( n = 12) and in (C) non-responder ESE cohort ( n = 6) vs. ground control ( n = 12). (D) To quantify transcriptional differences between the skin of the mice of responder ESE cohort compared to ground controls, targeted RNA sequencing was performed. Upstream regulator prediction analysis of DEGs, high in responder ESE cohort was performed using IPA. The candidates from VEGF Pathway were enriched in responder ESE cohort. See also Figure S4 , Table S5 . n represents number of animals.

    Techniques Used: Methylation, Control, DNA Methylation Assay, RNA Sequencing Assay


    Figure Legend Snippet:

    Techniques Used: Methylation, Enzyme-linked Immunosorbent Assay, Isolation, Methylation Sequencing, Software, Microscopy, Fluorescence



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    ESE induces stemness in the murine skin (A) Total study samples: mice skin samples from the Rodent Research-8 mission (also known as Rodent Research Reference-1) were procured from International Space Station (ISS) National. Mice flown in animal enclosure modules on the ISS were classified as Exposure to Space Environment (ESE) group ( n = 17). Ground-based mice (ground controls; n = 18) maintained under similar housing conditions were used as controls. Image created in BioRender. Kanhaiya, K. (2024) https://BioRender.com/q43i834 . (B) To quantify transcriptional differences between the skin of the mice of ESE group ( n = 10) vs. the ground controls ( n = 6), targeted RNA <t>sequencing</t> was performed. A total of 1,498 analysis ready differentially expressed transcripts ( p value < 0.05) were identified using ingenuity pathway analysis (IPA) software. Volcano plot and (C) Venn diagram showing the comparison of differentially expressed genes (DEG) in ESE group skin sample 859 (57.3%) transcripts were upregulated while 639 (42.7%) were downregulated. (D) Canonical pathway enrichment analysis of DEGs, high in ESE group was performed using IPA. Presented canonical pathways were identified as (1) DNA methylation, (2) embryonic stem cell pluripotency, (3) signaling by VEGF, (4) HIF1α signaling, and (5) Sirtuin signaling pathway. (E) Pathway generated by IPA showing the candidate genes involved in the human embryonic stem cell (ESC) pluripotency pathway. Among the biofunctions that were predicted to be upregulated in the skin samples of ESE group were ESC pluripotency, self-renewal of cells, and proliferation of ESC. See also <xref ref-type=Figure S5 and Tables S1 and ; n represents number of animals. For a Figure360 author presentation of this figure, see https://doi.org/10.1016/j.isci.2024.111382 . " width="250" height="auto" />
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    ESE induces stemness in the murine skin (A) Total study samples: mice skin samples from the Rodent Research-8 mission (also known as Rodent Research Reference-1) were procured from International Space Station (ISS) National. Mice flown in animal enclosure modules on the ISS were classified as Exposure to Space Environment (ESE) group ( n = 17). Ground-based mice (ground controls; n = 18) maintained under similar housing conditions were used as controls. Image created in BioRender. Kanhaiya, K. (2024) https://BioRender.com/q43i834 . (B) To quantify transcriptional differences between the skin of the mice of ESE group ( n = 10) vs. the ground controls ( n = 6), targeted RNA sequencing was performed. A total of 1,498 analysis ready differentially expressed transcripts ( p value < 0.05) were identified using ingenuity pathway analysis (IPA) software. Volcano plot and (C) Venn diagram showing the comparison of differentially expressed genes (DEG) in ESE group skin sample 859 (57.3%) transcripts were upregulated while 639 (42.7%) were downregulated. (D) Canonical pathway enrichment analysis of DEGs, high in ESE group was performed using IPA. Presented canonical pathways were identified as (1) DNA methylation, (2) embryonic stem cell pluripotency, (3) signaling by VEGF, (4) HIF1α signaling, and (5) Sirtuin signaling pathway. (E) Pathway generated by IPA showing the candidate genes involved in the human embryonic stem cell (ESC) pluripotency pathway. Among the biofunctions that were predicted to be upregulated in the skin samples of ESE group were ESC pluripotency, self-renewal of cells, and proliferation of ESC. See also <xref ref-type=Figure S5 and Tables S1 and ; n represents number of animals. For a Figure360 author presentation of this figure, see https://doi.org/10.1016/j.isci.2024.111382 . " width="100%" height="100%">

    Journal: iScience

    Article Title: Mission SpaceX CRS-19 RRRM-1 space flight induced skin genomic plasticity via an epigenetic trigger

    doi: 10.1016/j.isci.2024.111382

    Figure Lengend Snippet: ESE induces stemness in the murine skin (A) Total study samples: mice skin samples from the Rodent Research-8 mission (also known as Rodent Research Reference-1) were procured from International Space Station (ISS) National. Mice flown in animal enclosure modules on the ISS were classified as Exposure to Space Environment (ESE) group ( n = 17). Ground-based mice (ground controls; n = 18) maintained under similar housing conditions were used as controls. Image created in BioRender. Kanhaiya, K. (2024) https://BioRender.com/q43i834 . (B) To quantify transcriptional differences between the skin of the mice of ESE group ( n = 10) vs. the ground controls ( n = 6), targeted RNA sequencing was performed. A total of 1,498 analysis ready differentially expressed transcripts ( p value < 0.05) were identified using ingenuity pathway analysis (IPA) software. Volcano plot and (C) Venn diagram showing the comparison of differentially expressed genes (DEG) in ESE group skin sample 859 (57.3%) transcripts were upregulated while 639 (42.7%) were downregulated. (D) Canonical pathway enrichment analysis of DEGs, high in ESE group was performed using IPA. Presented canonical pathways were identified as (1) DNA methylation, (2) embryonic stem cell pluripotency, (3) signaling by VEGF, (4) HIF1α signaling, and (5) Sirtuin signaling pathway. (E) Pathway generated by IPA showing the candidate genes involved in the human embryonic stem cell (ESC) pluripotency pathway. Among the biofunctions that were predicted to be upregulated in the skin samples of ESE group were ESC pluripotency, self-renewal of cells, and proliferation of ESC. See also Figure S5 and Tables S1 and ; n represents number of animals. For a Figure360 author presentation of this figure, see https://doi.org/10.1016/j.isci.2024.111382 .

    Article Snippet: To validate the findings of the whole genome RRBS study, the isolated DNA samples were processed and analyzed using the Targeted Bisulfite Sequencing Service (Zymo Research, Irvine, CA).

    Techniques: RNA Sequencing Assay, Software, Comparison, DNA Methylation Assay, Generated

    ESE-induced promoter hypomethylation increased VEGF-mediated angiogenesis pathway in responders (A) Targeted validation of Vegfb gene promoter methylation status in ground control, responder ESE cohort, and non-responder ESE cohort. Genome track showing the Vegfb locus (top). Representative DNA methylation tracks (bottom) show diminished levels of methylated CpGs in responder ESE skin as compared to non-responder ESE or control skin. (B) Venn diagram showing the percentage of hypomethylated (blue) and hypermethylated (red) CpGs in Vegfb gene in responder ESE cohort ( n = 4) vs. ground control ( n = 12) and in (C) non-responder ESE cohort ( n = 6) vs. ground control ( n = 12). (D) To quantify transcriptional differences between the skin of the mice of responder ESE cohort compared to ground controls, targeted RNA sequencing was performed. Upstream regulator prediction analysis of DEGs, high in responder ESE cohort was performed using IPA. The candidates from VEGF Pathway were enriched in responder ESE cohort. See also <xref ref-type=Figure S4 , Table S5 . n represents number of animals. " width="100%" height="100%">

    Journal: iScience

    Article Title: Mission SpaceX CRS-19 RRRM-1 space flight induced skin genomic plasticity via an epigenetic trigger

    doi: 10.1016/j.isci.2024.111382

    Figure Lengend Snippet: ESE-induced promoter hypomethylation increased VEGF-mediated angiogenesis pathway in responders (A) Targeted validation of Vegfb gene promoter methylation status in ground control, responder ESE cohort, and non-responder ESE cohort. Genome track showing the Vegfb locus (top). Representative DNA methylation tracks (bottom) show diminished levels of methylated CpGs in responder ESE skin as compared to non-responder ESE or control skin. (B) Venn diagram showing the percentage of hypomethylated (blue) and hypermethylated (red) CpGs in Vegfb gene in responder ESE cohort ( n = 4) vs. ground control ( n = 12) and in (C) non-responder ESE cohort ( n = 6) vs. ground control ( n = 12). (D) To quantify transcriptional differences between the skin of the mice of responder ESE cohort compared to ground controls, targeted RNA sequencing was performed. Upstream regulator prediction analysis of DEGs, high in responder ESE cohort was performed using IPA. The candidates from VEGF Pathway were enriched in responder ESE cohort. See also Figure S4 , Table S5 . n represents number of animals.

    Article Snippet: To validate the findings of the whole genome RRBS study, the isolated DNA samples were processed and analyzed using the Targeted Bisulfite Sequencing Service (Zymo Research, Irvine, CA).

    Techniques: Methylation, Control, DNA Methylation Assay, RNA Sequencing Assay

    Journal: iScience

    Article Title: Mission SpaceX CRS-19 RRRM-1 space flight induced skin genomic plasticity via an epigenetic trigger

    doi: 10.1016/j.isci.2024.111382

    Figure Lengend Snippet:

    Article Snippet: To validate the findings of the whole genome RRBS study, the isolated DNA samples were processed and analyzed using the Targeted Bisulfite Sequencing Service (Zymo Research, Irvine, CA).

    Techniques: Methylation, Enzyme-linked Immunosorbent Assay, Isolation, Methylation Sequencing, Software, Microscopy, Fluorescence