Spatial transcriptomics reveals asymmetric cellular responses to injury in the regenerating spiny mouse ( Acomys ) ear
In contrast to other mammals, the spiny mouse ( Acomys ) regenerates skin and ear tissue, which includes hair follicles, glands, and cartilage, in a scar-free manner. Ear punch regeneration is asymmetric with only the proximal wound side participating in regeneration. Here, we show that cues origina...
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| Veröffentlicht in: | Genome research 2023-08, Vol.33 (8), p.1424-1437 |
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| creator | van Beijnum, Henriëtte Koopmans, Tim Tomasso, Antonio Disela, Vanessa Te Lindert, Severin Bakkers, Jeroen Alemany, Anna Berezikov, Eugene Bartscherer, Kerstin |
| description | In contrast to other mammals, the spiny mouse (
Acomys
) regenerates skin and ear tissue, which includes hair follicles, glands, and cartilage, in a scar-free manner. Ear punch regeneration is asymmetric with only the proximal wound side participating in regeneration. Here, we show that cues originating from the proximal side are required for normal regeneration and use spatially resolved transcriptomics (tomo-seq) to understand the molecular and cellular events underlying this process. Analyzing gene expression across the ear and comparing expression modules between proximal and distal wound sides, we identify asymmetric gene expression patterns and pinpoint regenerative processes in space and time. Moreover, using a comparative approach with nonregenerative rodents (
Mus
,
Meriones
), we strengthen a hypothesis in which particularities in the injury-induced immune response may be one of the crucial determinants for why spiny mice regenerate whereas their relatives do not. Our data are available in SpinyMine, an easy-to-use and expandable web-based tool for exploring
Acomys
regeneration-associated gene expression. |
| doi_str_mv | 10.1101/gr.277538.122 |
| format | Article |
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Acomys
) regenerates skin and ear tissue, which includes hair follicles, glands, and cartilage, in a scar-free manner. Ear punch regeneration is asymmetric with only the proximal wound side participating in regeneration. Here, we show that cues originating from the proximal side are required for normal regeneration and use spatially resolved transcriptomics (tomo-seq) to understand the molecular and cellular events underlying this process. Analyzing gene expression across the ear and comparing expression modules between proximal and distal wound sides, we identify asymmetric gene expression patterns and pinpoint regenerative processes in space and time. Moreover, using a comparative approach with nonregenerative rodents (
Mus
,
Meriones
), we strengthen a hypothesis in which particularities in the injury-induced immune response may be one of the crucial determinants for why spiny mice regenerate whereas their relatives do not. Our data are available in SpinyMine, an easy-to-use and expandable web-based tool for exploring
Acomys
regeneration-associated gene expression.</description><identifier>ISSN: 1088-9051</identifier><identifier>EISSN: 1549-5469</identifier><identifier>DOI: 10.1101/gr.277538.122</identifier><identifier>PMID: 37726147</identifier><language>eng</language><publisher>New York: Cold Spring Harbor Laboratory Press</publisher><subject>Acomys ; Ear ; Follicles ; Gene expression ; Immune response ; Resources ; Transcriptomics ; Wounds</subject><ispartof>Genome research, 2023-08, Vol.33 (8), p.1424-1437</ispartof><rights>Copyright Cold Spring Harbor Laboratory Press Aug 2023</rights><rights>2023</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c393t-48baea696f73e1ed26fa49a83ebab02cf16bfaf6608b7ffbcfd4964f192db49f3</citedby><cites>FETCH-LOGICAL-c393t-48baea696f73e1ed26fa49a83ebab02cf16bfaf6608b7ffbcfd4964f192db49f3</cites><orcidid>0000-0002-0795-0290 ; 0000-0001-8192-3285 ; 0000-0003-2869-1969 ; 0000-0002-9418-0422 ; 0000-0002-3070-4389 ; 0000-0002-1145-2884</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC10547259/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC10547259/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,27923,27924,53790,53792</link.rule.ids></links><search><creatorcontrib>van Beijnum, Henriëtte</creatorcontrib><creatorcontrib>Koopmans, Tim</creatorcontrib><creatorcontrib>Tomasso, Antonio</creatorcontrib><creatorcontrib>Disela, Vanessa</creatorcontrib><creatorcontrib>Te Lindert, Severin</creatorcontrib><creatorcontrib>Bakkers, Jeroen</creatorcontrib><creatorcontrib>Alemany, Anna</creatorcontrib><creatorcontrib>Berezikov, Eugene</creatorcontrib><creatorcontrib>Bartscherer, Kerstin</creatorcontrib><title>Spatial transcriptomics reveals asymmetric cellular responses to injury in the regenerating spiny mouse ( Acomys ) ear</title><title>Genome research</title><description>In contrast to other mammals, the spiny mouse (
Acomys
) regenerates skin and ear tissue, which includes hair follicles, glands, and cartilage, in a scar-free manner. Ear punch regeneration is asymmetric with only the proximal wound side participating in regeneration. Here, we show that cues originating from the proximal side are required for normal regeneration and use spatially resolved transcriptomics (tomo-seq) to understand the molecular and cellular events underlying this process. Analyzing gene expression across the ear and comparing expression modules between proximal and distal wound sides, we identify asymmetric gene expression patterns and pinpoint regenerative processes in space and time. Moreover, using a comparative approach with nonregenerative rodents (
Mus
,
Meriones
), we strengthen a hypothesis in which particularities in the injury-induced immune response may be one of the crucial determinants for why spiny mice regenerate whereas their relatives do not. Our data are available in SpinyMine, an easy-to-use and expandable web-based tool for exploring
Acomys
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Acomys
) regenerates skin and ear tissue, which includes hair follicles, glands, and cartilage, in a scar-free manner. Ear punch regeneration is asymmetric with only the proximal wound side participating in regeneration. Here, we show that cues originating from the proximal side are required for normal regeneration and use spatially resolved transcriptomics (tomo-seq) to understand the molecular and cellular events underlying this process. Analyzing gene expression across the ear and comparing expression modules between proximal and distal wound sides, we identify asymmetric gene expression patterns and pinpoint regenerative processes in space and time. Moreover, using a comparative approach with nonregenerative rodents (
Mus
,
Meriones
), we strengthen a hypothesis in which particularities in the injury-induced immune response may be one of the crucial determinants for why spiny mice regenerate whereas their relatives do not. Our data are available in SpinyMine, an easy-to-use and expandable web-based tool for exploring
Acomys
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| fulltext | fulltext |
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| language | eng |
| recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_10547259 |
| source | PubMed Central; Alma/SFX Local Collection |
| subjects | Acomys Ear Follicles Gene expression Immune response Resources Transcriptomics Wounds |
| title | Spatial transcriptomics reveals asymmetric cellular responses to injury in the regenerating spiny mouse ( Acomys ) ear |
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