WormMine: AnatomyTerm WBbt:0004530

• Definition: Pharyngeal gland cell 1AR, before fusion into g1ARP.
• Name: g1AR
• Primary Identifier: WBbt:0004530
• Synonym: lineage name: MSpapaapaa

1 Children

Definition	Name	Synonym	Primary Identifier
nucleus of pedigree MSpapaapaa	MSpapaapaa nucleus		WBbt:0002028

9 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Top 300 transcripts enriched in g1AL, g1AR 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:g1A
	Top 300 transcripts enriched in g1AL, g1AR, g1P 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:g1A_g1P
	Single-cell RNA-Seq cell group 164 expressed in: g1A (pharyngeal gland) .	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:164
	Single-cell RNA-Seq cell group 168 expressed in: PVT.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:168
	Single-cell RNA-Seq cell group 165 expressed in: PDA.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:165
	Single-cell RNA-Seq cell group 166 expressed in: DVC.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:166
	Single-cell RNA-Seq cell group 167 expressed in: PVN.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:167
	Single-cell RNA-Seq cell group 169 expressed in: URB.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:169
	Single-cell RNA-Seq cell group 170 expressed in: Seminal vesicle (male).	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:170

24 Expression Patterns

• Primary Identifier: Expr10176

• Primary Identifier: Expr8677
• Remark: Picture: Fig 3.
• Pattern: Expression in the alimentary canal: Strong and consistent expression in anterior arcades, posterior arcades. Weak or rare expression in pm2, pm3, pm4, pm5, pm6, pm7, pm8, mc1, g1, g2, rectal gland cells, rectal epithelial cells. Expression in the nervous system: Phsh, AVK, DVC (early larva), PVR, SIB (early larva), URB, I3. Expression in the reproductive system: In adult stage, expressed in gonad sheath, uterus, vulval muscle. In developing larva stage, expressed in vulva. Neuronal expression of inx-9 appears around three-fold stage. The rectal gland expresses inx-9 during early larval stages. inx-9 is expressed in adult hermaphrodite sex muscles. inx-9 was expressed at high levels in arcade cells starting around two-fold stage continuing throughout development and adulthood.

• Primary Identifier: Expr8675
• Remark: Picture: N.A.
• Pattern: Expression in the alimentary canal: Strong and consistent expression in pm5, MC. Weak or rare expression in pharyngeal epithelium, pm1, pm2, pm3, pm4 pm6, pm7, pm8, g1, g2, rectal gland cells. Expression in the nervous system: ADE, AIY, ALM, ALN, AVA, AVK, AVM, BDU, CAN, DAn, DVA, DVB, DVC, FLP, HSN, LUA, PLM, PLN, PVC, PVM, PVP, PVQ, PVT, PVW, RID, RIS, SDQ, URB, MC. Expression in the reproductive system: In adult stage, expressed in HSN. Faint hypodermal expression of inx-7 is seen around two-fold stage and becomes stronger by threefold stage.

• Primary Identifier: Expr8679
• Remark: Picture: Fig 3.
• Pattern: Expression in the alimentary canal: Strong and consistent expression in anterior arcades, posterior arcades, pharyngeal epithelium, pm4, pm8, g1, g2, vir, K.a/K' cells. inx-11 is more strongly expressed in the most posterior (int 9) intestinal cell. Weak or rare expression in pm1, pm2, pm3, pm5, pm6, pm7. Expression in the nervous system: CEPsh, DVC, LUA. Expression in the reproductive system: In adult stage, expressed in utse. In developing larva stage, expressed in uterus, sperm (spermatocytes, spermatids). Expression of inx-11 appears in pharyngeal tissue around two-fold stage, and by three-fold stage, strong expression becomes restricted to g1, g2, pm4, and pm8. inx-11 is expressed in the hypodermal cells of the animal in postembryonic stages.

• Primary Identifier: Expr8849
• Remark: Picture: Fig 3.
• Pattern: Neuronal Expression: AVD, AIN?, AUA?, RIC?, RIF? RMD, SMDV, I2, MC, M4, M3?, M2?. Non-neuronal Expression: g1 glands.

• Primary Identifier: Expr8692
• Remark: Picture: N.A.
• Pattern: Expression in the alimentary canal: Weak or rare expression in posterior arcades, g1, g2. Expression in the nervous system: AIN, AVA, AVB, AVD, AVG, AVK, DDn (3-fold to early larva), DVA, DVB, DVC, IL1, OLL, PVD, PVQ, PVT, RIV, RME, RMG, SDQ, SIA, SIB, SMB, VCn. Expression in the reproductive system: In adult stage, expressed in VCn. In developing larva stage, expressed in VCn.

• Primary Identifier: Expr8686
• Remark: Picture: N.A.
• Pattern: During development, inx-18 shows no expression until after early morphogenesis. inx-18 is mainly expressed in head and tail neurons starting around threefold stage. Expression in the alimentary canal: Strong and consistent expression in g1. Expression in the nervous system: ADL, ASI, ASK, AVJ, AVK, DVA, DVC, IL1 (L and R only), IL2 (L and R only), PVT.

• Primary Identifier: Expr8576
• Remark: Picture: Figure 1. Reporter gene fusion type not specified.
• Pattern: Expressed specifically in pharyngeal glands. phat-5 was only expressed in the two anterior-most glands, the left and right g1A cells (g1AR and g1AL)

• Primary Identifier: Expr2005
• Pattern: Expression is generally confined to the g1 and g2 pharyngeal gland cells, both within the nuclei of these cells, and more weakly throughout the cytoplasm and processes of these cells. Expression is seen predominantly in older larvae and adults, but is occasionally seen in young larvae. Weak expression in the larval and adult intestine is also occasionally seen.
• Subcellular Localization: Expressed in nuclei, more weakly throughout the cytoplasm and processes of pharyngeal gland cells.

• Primary Identifier: Expr11138
• Pattern: GFP::SPTF-3 was expressed ubiquitously in embryos and early larval animals; its expression in the M4 neuron and g1A cells decreased during larval development. GFP::SPTF-3 was strongly expressed in the seam cells and the hyp7 cells. GFP::SPTF-3 expression was observed in MSpaa in embryos and in the M4 neuron at the first larval stage.
• Subcellular Localization: GFP::SPTF-3 localized exclusively to nuclei, consistent with the presumed function of SPTF-3 as a transcription factor.

• Primary Identifier: Expr9161
• Remark: Picture: Fig. 4.
• Pattern: Transgenic animals expressing nlr-1prom::gfp showed strong fluorescence in pharyngeal g1 and g2 gland cells, pharyngeal muscle cells and the unilateral, GABAergic RIS interneuron. These are the only cells in which strong and consistent expression is observed. Expression was observed during all stages of larval development and adulthood.

• Primary Identifier: Expr10163

• Primary Identifier: Expr10164
• Remark: Reporter gene fusion type not specified.

• Primary Identifier: Expr10165

• Primary Identifier: Expr10166
• Pattern: Reporter gene fusion type not specified.

• Primary Identifier: Expr10168
• Remark: Reporter gene fusion type not specified.

• Primary Identifier: Expr10169

• Primary Identifier: Expr10170

• Primary Identifier: Expr10171

• Primary Identifier: Expr10172

• Primary Identifier: Expr10173

• Primary Identifier: Expr10174

• Primary Identifier: Expr10177
• Remark: Reporter gene fusion type not specified.

• Primary Identifier: Expr10167

8 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 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

3 Parents

Definition	Name	Synonym	Primary Identifier
Pharyngeal gland cell 1.	G1		WBbt:0003712
embryonic cell	MSpapaapa		WBbt:0006627
cell that is mononuclear and has a strong potential to fuse with other cell(s) to form a multinucleated cell.	syncytium precursor		WBbt:0008073