Key resources table.
| Reagent type (species) or resource |
Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Antibody | Anti-Tubulin, Acetylated antibody (Mouse Monoclonal) | Sigma | Cat#: T6793 | (1:300) |
| Antibody | Anti-phospho-Histone H3 (Ser10) Antibody (Rabbit Polyclonal) | Millipore | Cat#: 06–570 | (1:300) |
| Antibody | Donkey anti-Mouse IgG (H+L) Secondary Antibody, Alexa Fluor 488 | Life Tech (Invitrogen) | Cat#: A-21202 | (1:300) |
| Antibody | Donkey anti-Rabbit IgG (H+L) Highly Cross-Adsorbed Secondary Antibody, Alexa Fluor 555 | Life Tech (Invitrogen) | Cat#: A-31572 | (1:300) |
| Antibody | Fluorescein Antibody (Goat Polyclonal) | Novus Biologicals | Cat#: NB600-493 | (1:300 on sections, 1:500 whole mount) |
| Antibody | Donkey anti-Goat IgG (H+L) Cross-Adsorbed Secondary Antibody, Alexa Fluor 488 | Invitrogen | Cat#: A-11055 | (1:300) |
| Strain, strain background (Escherichia coli) | JM109 chemocompetent cells | Promega | Cat#: L2005 L1001 | |
| Chemical compound, drug | Mowiol 4–88 | Sigma | Cat#: 81381 | |
| Chemical compound, drug | TRI Reagent Solution | Invitrogen | Cat#: AM9738 | |
| Chemical compound, drug | Eukitt quick-hardening mounting medium | Sigma | Cat#: 03989 | |
| Chemical compound, drug | Poly(dimethylsiloxane-co-methylphenylsiloxane) viscosity 125 cSt | Sigma-Aldrich | Cat#: 378488 | |
| Chemical compound, drug | Mineral oil | Sigma-Aldrich | Cat#: M8410 | |
| Chemical compound, drug | Silicone Elastomer, 2 Part, 1:1 Mix, Sylgard 170, Black / White, Container, 2 kg | DOWSIL | Cat#: 101693 | |
| Commercial assay or kit | RNeasy Micro Kit | Qiagen | Cat#: 74004 | |
| Commercial assay or kit | SMARTer PCR cDNA Synthesis Kit | Takara Bio Inc | Cat#: 634925 | |
| Commercial assay or kit | NEBNext Single Cell/Low Input cDNA Synthesis and Amplification Module | New England BioLabs. | Cat#: E6421S | |
| Commercial assay or kit | Superscript III Reverse Transcriptase | Invitrogen | Cat#: 18080–044 | |
| Commercial assay or kit | TOPO TA Cloning Kit, Dual Promoter, without competent cells (25 reactions). | Invitrogen | Cat#: 450640 | |
| Commercial assay or kit | Micro Bio-Spin P-30 Gel Columns, Tris Buffer (RNase-free) | BioRad Lab. | Cat#: 7326250 | |
| Commercial assay or kit | Ribomap Kit | Roche | Cat#: 5266190001 | |
| Commercial assay or kit | Bluemap detection kit | Roche | Cat#: 5266327001 | |
| Other | Proteinase K, recombinant, PCR Grade | Roche | Cat#: 3115887001 | ISH (1:1000) HCR (1:3000) |
| Other | Tissue-Tek Biopsy 6-Chamber Cassette | Sakura | Cat#: 4073 Biopsy 6 Chamber Cassette White 1.000pcs | For paraffin embedding |
| Other | DAPI | Sigma Aldrich | Cat#: 32670–5 MG-F | (1:1000) |
| Other | HCR Amplifier B1, Alexa Fluor 546 | Molecular Instruments (US) | HCR Amplifier | |
| Other | HCR Amplifier B2, Alexa Fluor 647 | Molecular Instruments (US) | HCR Amplifier | |
| Other | HCR Amplifier B3, Alexa Fluor 488 | Molecular Instruments (US) | HCR Amplifier | |
| Other | Glass Capillaries, 3.5’, For All Model Nanoject Models | Drummond | Cat#: 3-000-203-G/X | For microinjection |
| Other | CFDA-SE | SanBio | Cat#: 14456–10 | (1 mM for trajectory mapping, 0.1 mM for long term tracing in filtered seawater) |
| Other | Fast Green FGF | Sigma-Aldrich | Cat#: F7252 | (0.3 mg/ml) |
| Software, algorithm | Fiji: ImageJ | DOI: 10.1038/nmeth.2019 | ||
| Software, algorithm | SMRT Link v. 9.0.0 | Pacific Biosciences (PACBIO) | ||
| Software, algorithm | IsoSeq 3.3 | Pacific Biosciences (PACBIO) | ||
| Software, algorithm | ARIVIS Vision4D Zeiss Edition 3.1.4 | ARIVIS AG | ||
| Software, algorithm | Adobe Photoshop | Adobe | ||
| Software, algorithm | Blast2GO | DOI: 10.1093/bioinformatics/bti610 | ||
| Software, algorithm | insitu_probe_generator | DOI: 10.5281/zenodo.4086058 | ||
| Software, algorithm | tBLASTn, BLASTp | NCBI: https://blast.ncbi.nlm.nih.gov/Blast.cgi | ||
| Software, algorithm | UCSC Genome Browser on Euprymna scolopes Euprymna scolopes Assembly (eupSco1) | DOI: 10.1073/pnas.1817322116 | ||
| Software, algorithm | ORFfinder | NCBI (RRID:SCR_016643) | ||
| Software, algorithm | MUSCLE Alignment | DOI: 10.1093/bioinformatics/bth090 | ||
| Software, algorithm | MegaX | DOI: 10.1093/molbev/msy096 | ||
| Software, algorithm | TrimAl | DOI: 10.1093/bioinformatics/btp348 | ||
| Software, algorithm | IQTree | DOI: 10.1093/molbev/msu300 | ||
| Software, algorithm | FigTree v.1.4.4 | DOI:http://tree.bio.ed.ac.ukSoftware/Figtree/ | ||
| Software, algorithm | CDD Search Tool | DOI: 10.1093/nar/gkz991 |