1 Children
| Definition | Name | Synonym | Primary Identifier |
|---|---|---|---|
| nucleus of pedigree ABplpaaaapp | ABplpaaaapp nucleus | WBbt:0001957 |
7 Expression Clusters
| Regulated By Treatment | Description | Algorithm | Primary Identifier |
|---|---|---|---|
| Top 300 transcripts enriched in DB1, DB2, DB3, DB4, DB5, DB6, DB7 according to single cell RNAseq. | Top 300 enriched transcripts were determined by log2.ratio of the tpm in the cell type vs the tpm in the other cells * the log2 of the cell.type tpm. | WBPaper00061340:DB | |
| Single-cell RNA-Seq cell group 6_2 expressed in neuron. | scVI 0.6.0 | WBPaper00065841:6_2 | |
| Single-cell RNA-Seq cell group 6_3 expressed in neuron. | scVI 0.6.0 | WBPaper00065841:6_3 | |
| Transcripts enriched in DB1 according to single cell RNAseq. | Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched. | WBPaper00066550:DB1_enriched | |
| Top 300 transcripts enriched in DA1, DA2, DA3, DA4, DA5, DA6, DA7, DA8, DA9, DB1, DB2, DB3, DB4, DB5, DB6, DB7 according to single cell RNAseq. | Top 300 enriched transcripts were determined by log2.ratio of the tpm in the cell type vs the tpm in the other cells * the log2 of the cell.type tpm. | WBPaper00061340:DA_DB | |
| Transcripts enriched in DB01 according to single cell RNAseq. | Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched. | WBPaper00061651:DB01_enriched | |
| Transcripts enriched in DB according to single cell RNAseq. | Genes that pass the Bonferroni threshold for multiple comparisons (q < 0.05) are significantly enriched. | WBPaper00061651:DB_enriched |
37 Expression Patterns
| Remark | Reporter Gene | Primary Identifier | Pattern | Subcellular Localization |
|---|---|---|---|---|
| Expr15649 | ||||
| Expr15442 | ||||
| Expr15558 | ||||
| Expr15567 | ||||
| Expr15571 | ||||
| Expr15572 | ||||
| Expr15573 | ||||
| Expr15579 | ||||
| Expr15586 | ||||
| Expr15651 | ||||
| Expr15652 | ||||
| Expr15589 | ||||
| Expr15591 | ||||
| Expr15598 | ||||
| Expr15604 | ||||
| Expr14590 | Embryonic expression of exc-7 was first observed at the bean stage. By reverse lineaging with use of SIMI-Biocell software, we confirm the identity of one of the expressing cells at this stage as the excretory canal cell. In L1 animals, broad expression in the head, ventral nerve cord (VNC), and tail was observed. In young adults, expression is notably observed in vulva cells. In the nervous system specifically, expression is observed in many neurons throughout the body, but unlike Drosophila Elav, exc-7::gfp it is not panneuronally expressed. We confirmed previously reported expression in cholinergic VNC MNs, but absence of GABAergic VNC MNs, consistent with previous reports (Fujita et al., 1999; Loria et al., 2003) and consistent with exc-7 functioning in cholinergic, but not GABAergic neurons to control alternative splicing (Norris et al., 2014). exc-7::gfp is also expressed in some non-neuronal cell types, including muscle and hypodermis, but not in the gut. A previous report showed that exc-7 is only transiently and weakly expressed in the excretory cell, which, based on exc-7's excretory mutant phenotype, has puzzled researchers (Fujita et al., 2003). We find that the gfp tagged exc-7 locus is strongly and continuously expressed in the excretory canal cell. | |||
| Expr15608 | ||||
| Expr15611 | ||||
| Expr1842 | Staining embryos with this anti-VAB-7 antibody confirmed that VAB-7 is expressed in posterior muscle and epidermal cells. However, a second phase of VAB-7 expression was discovered in embryonic ventral nerve cord (VNC) neurones, beginning at the 1.5-fold stage. At the threefold stage VAB-7 is expressed in nine neuronal nuclei (seven in the VNC and two nuclei in the head), and in the five most posterior epidermal nuclei, which form the hyp8 to hyp11 cells. VAB-7 is expressed in the seven DB class motoneurones; VAB-7 staining is also seen in two additional head neurones that have not been identified. DB neurones express VAB-7 throughout development. In addition, VAB-7 is expressed continuously in the hypodermal syncitium hyp10, and from the L1 stage in four unidentified neurones in the tail. Finally, at the adult stage, VAB-7 is detected in three VC neurones: VC1, VC2 and VC6. | nuclei | ||
| Expr15570 | ||||
| Expr15644 | ||||
| Expr15646 | ||||
| Expr12716 | ||||
| Expr12717 | ||||
| Expr15316 | acr-5 ORF | |||
| Expr15633 | ||||
| Expr12715 | ||||
| Expr15314 | ||||
| Reporter gene fusion type not specified. This information was extracted from published material (Archana Sharma-Oates, Andrew Mounsey and Ian A. Hope). | Expr626 | First detected prior to hatching, staying constant in most cells throughout the larval and adult stages. Expression seen predominantly in neurons, ventral nerve cord, DA, DB, VA, and VB class-set throughout the entire length of the cord and several pharyngeal neurons. Cytoplasmic expression is also seen in the dorsal cord, in the processes of DA3-7, DB1-7, PDB. Also in pair of unidentified neurons of lateral ganglia. In the male tail, expression is detected in the DVA neuron and the glial cells (Balpha.1/rd and Bgammapl/r)that form the socket for the spicule starting at the L4 stage. | ||
| Expr15183 | We examined cnd-1p::mCherry expression in early L1 larvae, within an hour of hatching, counting nuclei in the retrovesicular ganglion and also the ventral nerve cord. The retrovesicular ganglion is a linear cluster of cells located on the ventral midline of the worm immediately posterior to the pharynx, and contains the anterior most DA, DB and DD motorneurons (DA1, DB1, DB2 and DD1), along with eight additional cells. Wild type animals showed an average of nine cnd-1p::mCherry nuclei in the retrovesicular ganglion and 10 in theventral nerve cord (n = 26). As there are 22 motorneurons in early L1 larvae, this suggests that only a subset express the cnd-1 reporter gene. Based on their location along the ventral nerve cord, co-labeling with unc-25p::GFP (a known DD neuron marker), and by corroborating against single cell RNA-seq expression data (Packer et al. 2019), we tentatively conclude that cnd-1p::mCherry is expressed in DA1-5, DB1, DB3, and DD1-6. |
12 Life Stages
| Remark | Definition | Other Name | Public Name | Primary Identifier |
|---|---|---|---|---|
| The whole period of embryogenesis in the nematode Caenorhabditis elegans, from the formation of an egg until hatching. | embryo Ce | WBls:0000003 | ||
| The C. elegans life stage spanning 620-800min(hatch) after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. A stage after elongation is over. The last stage of embryogenesis. Also called pre-hatched embryo, late embryo or morphogenetic embryo. | fully-elongated embryo Ce | WBls:0000021 | ||
| The C. elegans life stage spanning 350-620min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The stage that embryo starts elongation until elongation is over. | elongating embryo Ce | WBls:0000015 | ||
| The C. elegans life stage spanning 290-350min after first cleavage at 20 Centigrade. Proliferate from 421 cells to 560 cells. The stage when embryo just finished gastrulation and is enclosing. | enclosing embryo Ce | WBls:0000013 | ||
| The C. elegans life stage spanning 100-290min after first cleavage at 20 Centigrade. Proliferate from 28 cells to 421 cells. Referring to the whole period of gastrulation. | gastrulating embryo Ce | WBls:0000010 | ||
| The C. elegans life stage spanning 0-350min after first cleavage at 20 Centigrade. Proliferate from 1 cell to 560 cells. From start of first cleavage until cleavage is over. | proliferating embryo Ce | WBls:0000004 | ||
| The C. elegans life stage spanning 390-420min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The shape of embryo looks like a comma. A stage between bean embryo and 1.5-fold embryo. | comma embryo Ce | WBls:0000017 | ||
| The C. elegans life stage spanning 460-520min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The shape of embryo is elongated and double fold. A stage between 1.5-fold embryo and 3-fold embryo. | 2-fold embryo Ce | WBls:0000019 | ||
| The C. elegans life stage spanning 520-620min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The shape of embryo is elongated and tripple fold. A stage between 2-fold embryo and fully-elongated embryo. Also called pretzel embryo or pretzel stage. | 3-fold embryo Ce | WBls:0000020 | ||
| The C. elegans life stage spanning 420-460min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. The shape of embryo is elongated and fold back 50%. A stage between comma embryo and 2-fold embryo. | 1.5-fold embryo Ce | WBls:0000018 | ||
| The C. elegans life stage spanning 350-390min after first cleavage at 20 Centigrade. Cell number remains at ~560 cells, with some new cells generated and some cells go through programmed cell death. Emrbyo elongation started but have not formed comma shape yet. The shape of embryo looks like a lima bean. A stage right before comma embryo. Also called lima embryo or lima bean stage. | bean embryo Ce | WBls:0000016 | ||
| The C. elegans life stage spanning 210-350min after first cleavage at 20 Centigrade. Proliferate from 421 cells to 560 cells. The stage before the fast cleavage of cells finishes. | late cleavage stage embryo Ce | WBls:0000014 |
3 Parents
| Definition | Name | Synonym | Primary Identifier |
|---|---|---|---|
| Neuron class of seven motoneurons that innervate dorsal muscles and have cell bodies in the ventral cord. | DB neuron | WBbt:0005274 | |
| neuron whose cell body is in the retrovesicular ganglion. | retrovesicular ganglion neuron | retrovesicular ganglion | WBbt:0005403 |
| embryonic cell | ABplpaaaap | WBbt:0006528 |
