WormMine

WS294

Intermine data mining platform for C. elegans and related nematodes

Anatomy Term :

Definition  Inner labial sheath Name  ILshVR
Primary Identifier  WBbt:0004523 Synonym  lineage name: ABarapppaap

1 Children

Definition Name Synonym Primary Identifier
nucleus of pedigree ABarapppaap ABarapppaap nucleus   WBbt:0002122

2 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  Top 300 transcripts enriched in ILshL, ILshR, ILshDL, ILshDR, ILshVL, ILshVR, OLLshL, OLLshR, OLQshDL, OLQshDR, OLQshVL, OLQshVR 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:ILsh_OLLsh_OLQsh
  Single-cell RNA-Seq cell group 21_0 expressed in glia. scVI 0.6.0 WBPaper00065841:21_0

4 Expression Patterns

Remark Reporter Gene Primary Identifier Pattern Subcellular Localization
Picture: Fig. 1G, 1H, Fig S1G-L.   Marker30 Expressed in CEPsh glia and in sheath and socket glia of inner and outer labial sensilla, and of the deirid.  
Picture: Fig 6.   Expr8786 Apart from cells in the neuroblast lineage that generate ASE, nhr-67::mCherry was expressed in multiple other neuroblast lineages in the developing embryo. Expression was usually observed in the grandmother or mother of a neuron, but not earlier. Within the ASEL and ASER-generating lineage branches, nhr-67 was expressed in neuroblasts that generate closely or distantly related cousins of ASEL and ASER. For example, the sister neuroblast of the ASE-generating neuroblast creates the AUA and ASJ neurons and it expressed nhr-67. The cousin of the ASE-mother cell generates the AWB and ADF sensory neurons. nhr-67 was expressed in these cells. In late stage embryos, a few other, postmitotic neurons started to express nhr-67. Embryonic nhr-67 expression was not restricted to the nervous system, but was observed in a small subset of mesodermal and hypodermal cells. No expression was detected in endodermal cells or the germ line. nhr-67 was expressed in the excretory canal cell. Postembryonically, nhr-67 expression persisted only in a few neurons in the head ganglia until the first larval stage and faded shortly thereafter in most, but not all, of these neurons, with expression persisting through adulthood only in the CEPD/V, RMED/V, AVL and RIS neurons. During mid-larval development, nhr-67 was transiently and dynamically expressed in the AC cells of the vulva. Expression was also found in the VU cells and somatic gonad, but not in vulA, vulB or vulC. Within the ASEL/R generating lineages, nhr-67::mCherry was first observed in the grandmother cells of ASEL and ASER. Transgenic animals that co-express a functional nhr-67::mCherry reporter and a functional che-1::yfp reporter revealed that nhr-67 precedes che-1 expression. nhr-67 expression was maintained in the ASEL and ASER neurons until the first larval stage after which it became undetectable, whereas che-1 expression was maintained throughout the life of the animal. In spite of its genetically deduced role in asymmetric gene expression in ASEL and ASER, nhr-67 expression is bilaterally symmetric in ASEL and ASER.  
Picture: N.A.   Expr8681 Arcade cells are seen to express inx-13 at high levels starting around two-fold stage continuing throughout development and adulthood. inx-13 is expressed in the hypodermal cells of the animal in postembryonic stages. Expression in the alimentary canal: Strong and consistent expression in M1, M2. Weak or rare expression in intestine, rectal epithelial cells. Expression in the nervous system: Amsh, CEPsh, CEPso, ILsh, ILso, OLsh, OLso, Phsh, CAN, DVA, DVB, DVC, LUA, PHA, PHB, PLN, PVC, PVQ, PVR, M1, M2. Expression in the reproductive system: In adult stage, expressed in spermatheca, sp-ut valve.  
No detailed description on cellular expression pattern at hermaphrodites.   Expr1300 LIN-29 accumulates in B cell progeny. In contrast to the LIN-29 accumulation pattern observed in wild-type hermaphrodites, LIN-29 is not detectable in the F, U, Y, or M blast cell nuclei, or in their progeny, in males. LIN-29 is detected in the progeny of B. LIN-29 is first detectable in B cell progeny during the L3 stage. Although all B.a and B.p progeny accumulate LIN-29, the LIN-29 accumulation signals appear weaker and transient in B.p progeny. The identification of these LIN-29-accumulating cells as B progeny is based on their size, shape, and relative position within the male tail and is further supported by laser microsurgery experiments and the examination of LIN-29-accumulation patterns in a mutant with defects in B cell specification. Elimination of the B cell by laser micro-surgery during the L1 stage reduced the number of LIN-29-accumulating nuclei in the male tail by 1015. LIN-29 appears to persist in B.a progeny in the adult stage. LIN-29 accumulates in the linker cell. The first male-specific LIN-29 accumulation is detected in the nucleus of the linker cell (LC) positioned at the tip of the growing end of the gonad. LIN-29 accumulates in the LC during the L3 stage, after the gonad arm has completed the 180 turn. LIN-29 remains detectable until the late L4 stage when its disappearance is presumably due to LC destruction. LIN-29 accumulates in the male tail seam. LIN-29 accumulates in the lateral body seam cell nuclei and in the SET nuclei in L4 stage wild-type males. LIN-29 accumulates in ventral cord nuclei. During the late L3 stage, five to seven nuclei that belong to the preanal ganglion accumulate LIN-29. Four preanal ganglion nuclei accumulates LIN-29 and were identified by position as the CA9, CP9, AS11, and VA11 neurons which are descended from P11.a. LIN-29 accumulation in the preanal ganglion cluster persists through adulthood. In late L4 stage and adult males, additional ventral cord nuclei anterior to the preanal ganglion accumulate LIN-29. The accumulation of LIN-29 in ventral cord neurons is not observed in hermaphrodites. Also in contrast to hermaphrodites, the ventral hypodermal nuclei positioned within the ventral cord do not contain detectable levels of LIN-29 in adult males. nuclei

11 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 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

4 Parents

Definition Name Synonym Primary Identifier
embryonic cell ABarapppaa   WBbt:0006074
portion of anterior ganglion of somatic nervous system that is anterior to the metacorpus of pharynx. anterior ganglion (ant)   WBbt:0005372
  IL sensillum ventral right   WBbt:0005120
inner labial sheath cell. IL sheath cell   WBbt:0008412