WormMine: AnatomyTerm WBbt:0004351

• Definition: Intestinal cell of the fouthth intestinal ring, ventral side.
• Name: int4V embryonic
• Primary Identifier: WBbt:0004351
• Synonym: lineage name: Eplaa

4 Children

Definition	Name	Synonym	Primary Identifier
nucleus of pedigree Eplaa	Eplaa nucleus	int4V nucleus	WBbt:0002144
Post-embryonic, binucleated int4V.	int4V post-embryonic		WBbt:0008228
post-embryonic cell of pedigree E.plaaa	E.plaaa		WBbt:0007115
post-embryonic cell of pedigree E.plaap	E.plaap		WBbt:0007116

0 Expression Clusters

13 Expression Patterns

• Primary Identifier: Expr163
• Remark: Other strain-- UL844
• Pattern: Expression is seen in the cells of the E-lineage from the 8E cell stage. Consistent with this expression is seen in all intestinal cells in larvae and adults. Some anterior expression in the head hypodermis and pharynx is also occasionally seen.

• Primary Identifier: Expr91
• Remark: early embryo(author) = proliferating embryo(curator). Other Authors "Bauer PK" "Hope IA"Date 1997-06 pre-comma embryo(author) = bean embryo(curator).
• Pattern: This simple pattern shows expression in the E lineage in early embryos. Staining can be seen upto 16 E cells. No expression is observed beyond comma stage embryo.

• Primary Identifier: Expr103
• Remark: Other strain-- UL123
• Pattern: This strain exhibits strong expression in the embryo. Expression is first seen in the 50-80 cell embryo and extends through to adulthood. It appears that most of the AB cells in the embryo stain, and what appears to be the cells of the C lineage. Some embryos exhibit staining in the two rows of nuclei that are the E lineage. All embryonic staining is very intense, and it spreads to the cytoplasm giving blue embryos, therefore obscuring the DAPI staining, making it difficult to count the number of cells in the embryos as each component begins expressing. This intense staining fades as the embryo ages, sometimes leaving blue comma stage embryos with no distinct nuclei staining. Hypodermal expression is seen in the 3 fold stage of embryogenesis and in young larvae which most probably are C-derived hyp-7 nuclei. Expression weakens as the worm gets older and is much less frequently expressed in adults. Some adults do show staining in the anterior hypodermal nuclei (hyp-3, hyp-4) and in the anterior hypodermal seam cells, also some nuclei stain in the tail.

• Primary Identifier: Expr118
• Remark: Other strain-- UL511
• Pattern: Expression is first seen in precomma stage embryos, in as yet unidentified nuclei. In comma stage embryos staining is seen in the intestinal precursors, and other cells including possibly members of the C cell lineage. In 3-fold embryos and through till L3 stage larvae, expression appears as pairs of nuclei down the body starting anteriorly of the metacorpus, probably hyp-7. There is also a lot of diffuse staining in the head and pharynx. In larvae strong expression is seen in the intestinal nuclei. At L4 stage this expression starts to fade, and fewer nuclei are seen to stain. In adults the expression is reduced to a handful of nuclei (from 1-10) around the pharynx. Sometimes in adults a few anterior intestinal nuclei continue to show expression.

• Primary Identifier: Expr621
• Remark: This information was extracted from published material (Archana Sharma-Oates, Andrew Mounsey and Ian A. Hope).
• Pattern: High level of gut cell staining in all developmental stages except embryos. There was variability in intensity and the number of gut cells staining between individuals of the same transgenic lines. A small number of transformants within each line showed expression in all gut cells but the majority showed staining restricted to the most anterior (Int1) the mid anterior (Int2 and Int3) and the mid gut cells (Int4, 5 and 6). Both intensity and frequency of expression decreased from the most anterior to the mid-gut region. A few worms stained only in posterior gut cells.

• Primary Identifier: Expr10516
• Pattern: Inferred Expression. EPIC dataset. http://epic.gs.washington.edu/ Large-scale cellular resolution compendium of gene expression dynamics throughout development. This reporter was inferred to be expressing in this cell or one of its embryonic progenitor cells as described below. To generate a compact description of which cells express a particular reporter irrespective of time, the authors defined a metric "peak expression" for each of the 671 terminal ("leaf") cells born during embryogenesis. For each of these cells, the peak expression is the maximal reporter intensity observed in that cell or any of its ancestors; this has the effect of transposing earlier expression forward in time to the terminal set of cells. This metric allows straightforward comparisons of genes' cellular and lineal expression overlap, even when the expression occurs with different timing and despite differences in the precise time point that curation ended in different movies, at the cost of ignoring the temporal dynamics of expression, a topic that requires separate treatment. For simplicity, the authors use the term "expressing cells" to mean the number of leaf cells (of 671) with peak expression greater than background (2000 intensity units) and at least 10% of the maximum expression in that embryo. Quantitative expression data for all cells are located here: ftp://caltech.wormbase.org/pub/wormbase/datasets-published/murray2012/

• Primary Identifier: Expr10422
• Pattern: Inferred Expression. EPIC dataset. http://epic.gs.washington.edu/ Large-scale cellular resolution compendium of gene expression dynamics throughout development. This reporter was inferred to be expressing in this cell or one of its embryonic progenitor cells as described below. To generate a compact description of which cells express a particular reporter irrespective of time, the authors defined a metric "peak expression" for each of the 671 terminal ("leaf") cells born during embryogenesis. For each of these cells, the peak expression is the maximal reporter intensity observed in that cell or any of its ancestors; this has the effect of transposing earlier expression forward in time to the terminal set of cells. This metric allows straightforward comparisons of genes' cellular and lineal expression overlap, even when the expression occurs with different timing and despite differences in the precise time point that curation ended in different movies, at the cost of ignoring the temporal dynamics of expression, a topic that requires separate treatment. For simplicity, the authors use the term "expressing cells" to mean the number of leaf cells (of 671) with peak expression greater than background (2000 intensity units) and at least 10% of the maximum expression in that embryo. Quantitative expression data for all cells are located here: ftp://caltech.wormbase.org/pub/wormbase/datasets-published/murray2012/

• Primary Identifier: Expr1585
• Remark: F-11 antigen cDNA was isolated and found located on C05E4, with GenBank accession number U23159. Blast search traced it to C05E4.14, also known as srh-2.
• Pattern: Expression associated with developing intestine and body wall muscle cells. About 4-6 faintly labeled E-derived cells were detected at about 100-cell embryos, Eight E-derived cells were more prominently labeled in 250-cell embryo. Body wall muscle cells were first detected with the mAb in addition to the complement of 20 intestinal cells at about 450-cell embryos. Native gut fluorescent was not visible.

• Primary Identifier: Expr2123
• Remark: Clone = pUL#L450A Strain = UL925
• Pattern: Expression is seen in the E-cell lineage and intestinal cells throughout embryonic development and in early larval stages. This gene has homology to hexose transporters.

• Primary Identifier: Expr10320
• Pattern: Inferred expression. EPIC dataset. http://epic.gs.washington.edu/ Large-scale cellular resolution compendium of gene expression dynamics throughout development. This reporter was inferred to be expressing in this cell or one of its embryonic progenitor cells as described below. To generate a compact description of which cells express a particular reporter irrespective of time, the authors defined a metric "peak expression" for each of the 671 terminal ("leaf") cells born during embryogenesis. For each of these cells, the peak expression is the maximal reporter intensity observed in that cell or any of its ancestors; this has the effect of transposing earlier expression forward in time to the terminal set of cells. This metric allows straightforward comparisons of genes' cellular and lineal expression overlap, even when the expression occurs with different timing and despite differences in the precise time point that curation ended in different movies, at the cost of ignoring the temporal dynamics of expression, a topic that requires separate treatment. For simplicity, the authors use the term "expressing cells" to mean the number of leaf cells (of 671) with peak expression greater than background (2000 intensity units) and at least 10% of the maximum expression in that embryo. Quantitative expression data for all cells are located here: ftp://caltech.wormbase.org/pub/wormbase/datasets-published/murray2012/

• Primary Identifier: Expr672
• Remark: This information was extracted from published material (Archana Sharma-Oates, Andrew Mounsey and Ian A. Hope).
• Pattern: First detection at 2E cell stage and persists in E lineage throughout embryogenesis (expression pattern same as Ab).

• Primary Identifier: Expr673
• Remark: This information was extracted from published material (Archana Sharma-Oates, Andrew Mounsey and Ian A. Hope).
• Pattern: ELT-2 protein first detected at 2E cell stage (half way through cell cycle and following E-cell ingression associated with gastrulation). At 44-46 cell stage, expression is observed in 2E cells. During all subsequent stages of embryogenesis, ELT-2 protein is detected in all gut lineage, staining is nuclear localized. Protein persists in nuclei of all gut cells, in all larval stages, as well as in adults. Above pattern for male and hermaphrodite.

• Primary Identifier: Expr3817
• Remark: Reporter gene fusion type not specified.
• Pattern: Expressed in embryo, larva, adult. Expressed in intestinal cells, most likely int2 to int8. The cln-3::GFP transgenic hermaphrodite and male nematodes displayed fluorescence in the intestine, most likely in cells designated int2 to int8, whereas the most anterior and posterior segments of the intestine remained negative from the embryonic comma-stage on throughout adult life. Intestinal cells of cln-3.1::GFP transgenic embryos and larvae exhibited bright speckled fluorescence, in contrast to a diffuse cytoplasmic fluorescence in transgenic adults. In addition, transgenic L2 and L3 larvae displayed intestinal fluorescence visible as threads near the apical cytoplasmic membrane.

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 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 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 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

2 Parents

Definition	Name	Synonym	Primary Identifier
embryonic cell	Epla		WBbt:0006661
any of 20 large epithelial cells which form a tube and are mostly situated as bilaterally symmetric pairs around the tubular lumen. Each of these cell pairs forms an intestinal ring ( II-IX int rings). The most anterior intestinal ring (int ring I), however, is made of four cells. Intestinal cells contain large nuclei with large nucleoli and numerous autofluorescent granules in their cytoplasm.	intestinal cell		WBbt:0005792