ACD can configure probes for the various manual and automated assays for INS for RNAscope Assay, or for Basescope Assay compatible for your species of interest.
STAR protocols
2022 Jun 17
Lim, HYG;Yada, S;Barker, N;
PMID: 35620071 | DOI: 10.1016/j.xpro.2022.101411
Nature (2015)
Wang B, Zhao L, Fish M, Logan CY, Nusse R.
PMID: 26245375 | DOI: 10.1038/nature14863
Scientific reports
2023 Mar 10
Lim, SBH;Wei, S;Tan, AH;van Steensel, MAM;Lim, X;
PMID: 36899019 | DOI: 10.1038/s41598-023-30411-7
Development.
2016 Dec 07
Tsai YH, Nattiv R, Dedhia PH, Nagy MS, Chin AM, Thomson M, Klein O, Spence J.
PMID: 27927684 | DOI: 10.1242/dev.138453
The intestine plays a central role in digestion, nutrient absorption and metabolism, with individual regions of the intestine having distinct functional roles. For example, the most proximal region of the small intestine, the duodenum, is associated with absorption of micronutrients such as iron and folate, whereas the more distal ileum is responsible for recycling bile salts. Many examples of region-specific gene expression in the adult intestine are known, but how intestinal regional identity is established during development is a largely open question. Here, we identified several genes that are expressed in a region-specific manner in the developing human intestine, and using human embryonic stem cell derived intestinal organoids, we demonstrate that the time of exposure to active FGF and WNT signaling controls regional identity. Exposure to short durations of FGF4 and CHIR99021 (a GSK3β inhibitor that stabilizes β-CATENIN) resulted in organoids with gene expression patterns similar to developing human duodenum, whereas long durations of exposure resulted in organoids similar to ileum. When region-specific organoids were transplanted into immunocompromised mice, duodenum-like organoids and ileum-like organoids retained their regional identity, demonstrating that regional identity of organoids is stable after initial patterning occurs. This work provides insights into the mechanisms that control regional specification of the developing human intestine and provides new tools for basic and translational research.
Stem cell reports
2022 Jun 03
Hu, Z;Ma, J;Yue, H;Luo, Y;Li, X;Wang, C;Wang, L;Sun, B;Chen, Z;Wang, L;Gu, Y;
PMID: 35750042 | DOI: 10.1016/j.stemcr.2022.05.016
Cell Reports
2016 Jan 07
Quétier I, Marshall JJT, Spencer-Dene B, Lachmann S, Casamassima A, Franco C, Escuin S, Worrall JT, Baskaran P, Rajeeve V, Howell M, Copp AJ, Stamp G, Rosewell I, Cutillas P, Gerhardt H, Parker PJ, Cameron AJM.
PMID: - | DOI: http://dx.doi.org/10.1016/j.celrep.2015.12.049
In animals, the protein kinase C (PKC) family has expanded into diversely regulated subgroups, including the Rho family-responsive PKN kinases. Here, we describe knockouts of all three mouse PKN isoforms and reveal that PKN2 loss results in lethality at embryonic day 10 (E10), with associated cardiovascular and morphogenetic defects. The cardiovascular phenotype was not recapitulated by conditional deletion of PKN2 in endothelial cells or the developing heart. In contrast, inducible systemic deletion of PKN2 after E7 provoked collapse of the embryonic mesoderm. Furthermore, mouse embryonic fibroblasts, which arise from the embryonic mesoderm, depend on PKN2 for proliferation and motility. These cellular defects are reflected in vivo as dependence on PKN2 for mesoderm proliferation and neural crest migration. We conclude that failure of the mesoderm to expand in the absence of PKN2 compromises cardiovascular integrity and development, resulting in lethality.
Nat Cell Biol.
2017 Jun 05
Leushacke M, Tan SH, Wong A, Swathi Y, Hajamohideen A, Tan LT, Goh J, Wong E, Denil SLIJ, Murakami K, Barker N.
PMID: 28581476 | DOI: 10.1038/ncb3541
The daily renewal of the corpus epithelium is fuelled by adult stem cells residing within tubular glands, but the identity of these stem cells remains controversial. Lgr5 marks homeostatic stem cells and 'reserve' stem cells in multiple tissues. Here, we report Lgr5 expression in a subpopulation of chief cells in mouse and human corpus glands. Using a non-variegated Lgr5-2A-CreERT2 mouse model, we show by lineage tracing that Lgr5-expressing chief cells do not behave as corpus stem cells during homeostasis, but are recruited to function as stem cells to effect epithelial renewal following injury by activating Wnt signalling. Ablation of Lgr5+ cells severely impairs epithelial homeostasis in the corpus, indicating an essential role for these Lgr5+ cells in maintaining the homeostatic stem cell pool. We additionally define Lgr5+ chief cells as a major cell-of-origin of gastric cancer. These findings reveal clinically relevant insights into homeostasis, repair and cancer in the corpus.
Stem Cells.
2018 Jan 17
Kalha S, Shrestha B, Sanz Navarro M, Jones KB, Klein OD, Michon F.
PMID: 29282831 | DOI: 10.1002/stem.2767
The outermost layer of the eye, the cornea, is renewed continuously throughout life. Stem cells of the corneal epithelium reside in the limbus at the corneal periphery and ensure homeostasis of the central epithelium. However, in young mice, homeostasis relies on cells located in the basal layer of the central corneal epithelium. Here, we first studied corneal growth during the transition from newborn to adult and assessed Keratin 19 (Krt19) expression as a hallmark of corneal maturation. Next, we set out to identify a novel marker of murine corneal epithelial progenitor cells before, during and after maturation, and we found that Bmi1 is expressed in the basal epithelium of the central cornea and limbus. Furthermore, we demonstrated that Bmi1+ cells participated in tissue replenishment in the central cornea. These Bmi1+ cells did not maintain homeostasis of the cornea for more than 3 months, reflecting their status as progenitor rather than stem cells. Finally, after injury, Bmi1+ cells fueled homeostatic maintenance, whereas wound closure occurred via epithelial reorganization.
J Clin Invest.
2018 Mar 19
Atkinson PJ, Dong Y, Gu S, Liu W, Najarro EH, Udagawa T, Cheng AG.
PMID: 29553487 | DOI: 10.1172/JCI97248
During development, Sox2 is indispensable for cell division and differentiation, yet its roles in regenerating tissues are less clear. Here, we used combinations of transgenic mouse models to reveal that Sox2 haploinsufficiency (Sox2haplo) increases rather than impairs cochlear regeneration in vivo. Sox2haplo cochleae had delayed terminal mitosis and ectopic sensory cells, yet normal auditory function. Sox2haplo amplified and expanded domains of damage-induced Atoh1+ transitional cell formation in neonatal cochlea. Wnt activation via β-catenin stabilization (β-cateninGOF) alone failed to induce proliferation or transitional cell formation. By contrast, β-cateninGOF caused proliferation when either Sox2haplo or damage was present, and transitional cell formation when both were present in neonatal, but not mature, cochlea. Mechanistically, Sox2haplo or damaged neonatal cochleae showed lower levels of Sox2 and Hes5, but not of Wnt target genes. Together, our study unveils an interplay between Sox2 and damage in directing tissue regeneration and Wnt responsiveness and thus provides a foundation for potential combinatorial therapies aimed at stimulating mammalian cochlear regeneration to reverse hearing loss in humans.
Cell stem cell
2022 Nov 03
Su, Y;Zhou, Y;Bennett, ML;Li, S;Carceles-Cordon, M;Lu, L;Huh, S;Jimenez-Cyrus, D;Kennedy, BC;Kessler, SK;Viaene, AN;Helbig, I;Gu, X;Kleinman, JE;Hyde, TM;Weinberger, DR;Nauen, DW;Song, H;Ming, GL;
PMID: 36332572 | DOI: 10.1016/j.stem.2022.09.010
Progress in neurobiology
2022 Jul 21
Leschik, J;Gentile, A;Cicek, C;Péron, S;Tevosian, M;Beer, A;Radyushkin, K;Bludau, A;Ebner, K;Neumann, I;Singewald, N;Berninger, B;Lessmann, V;Lutz, B;
PMID: 35872219 | DOI: 10.1016/j.pneurobio.2022.102333
British journal of haematology
2021 May 01
Aoki, K;Kurashige, M;Ichii, M;Higaki, K;Sugiyama, T;Kaito, T;Ando, W;Sugano, N;Sakai, T;Shibayama, H;HANDAI Clinical Blood Club, ;Takaori-Kondo, A;Morii, E;Kanakura, Y;Nagasawa, T;
PMID: 33837967 | DOI: 10.1111/bjh.17396
Description | ||
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sense Example: Hs-LAG3-sense | Standard probes for RNA detection are in antisense. Sense probe is reverse complent to the corresponding antisense probe. | |
Intron# Example: Mm-Htt-intron2 | Probe targets the indicated intron in the target gene, commonly used for pre-mRNA detection | |
Pool/Pan Example: Hs-CD3-pool (Hs-CD3D, Hs-CD3E, Hs-CD3G) | A mixture of multiple probe sets targeting multiple genes or transcripts | |
No-XSp Example: Hs-PDGFB-No-XMm | Does not cross detect with the species (Sp) | |
XSp Example: Rn-Pde9a-XMm | designed to cross detect with the species (Sp) | |
O# Example: Mm-Islr-O1 | Alternative design targeting different regions of the same transcript or isoforms | |
CDS Example: Hs-SLC31A-CDS | Probe targets the protein-coding sequence only | |
EnEm | Probe targets exons n and m | |
En-Em | Probe targets region from exon n to exon m | |
Retired Nomenclature | ||
tvn Example: Hs-LEPR-tv1 | Designed to target transcript variant n | |
ORF Example: Hs-ACVRL1-ORF | Probe targets open reading frame | |
UTR Example: Hs-HTT-UTR-C3 | Probe targets the untranslated region (non-protein-coding region) only | |
5UTR Example: Hs-GNRHR-5UTR | Probe targets the 5' untranslated region only | |
3UTR Example: Rn-Npy1r-3UTR | Probe targets the 3' untranslated region only | |
Pan Example: Pool | A mixture of multiple probe sets targeting multiple genes or transcripts |
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