WormMine: AnatomyTerm WBbt:0003675

• Definition: Contractile cell that makes up muscle tissue.
• Name: muscle cell
• Primary Identifier: WBbt:0003675

5 Children

Definition	Name	Synonym	Primary Identifier
	muscle of the reproductive system		WBbt:0005786
Any muscle cell that is not pharyngeal.	body muscle cell		WBbt:0007810
A multiple sarcomere muscle cell in which the thin and thick filaments adopt highly ordered patterns, with the thin filaments anchored at dense bodies.	striated muscle	striated muscle cell	WBbt:0005779
Muscle cell that has either one or a few well-structured sarcomeres or myofilament networks that are less well organized.	non-striated muscle	non-striated muscle cell	WBbt:0005780
	cloacal muscle		WBbt:0005809

10 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Genes depleted in muscle cells (24hr muscle dataset). Dissociated myo-3::GFP embryos were cultured for 24 hours before FACS sorting.	A two-class unpaired analysis was performed to identify genes that are elevated 1.7-fold or greater when compared with the reference for each dataset, at a false discovery rate of 1.8% or less for M0 and 1.2% or less for the M24 datasets.	WBPaper00031003:24hr_muscle_depleted
	Total muscle depleted genes (complete list of non-overlapping genes from the 0hr and 24hr muscle depleted datasets).	A two-class unpaired analysis was performed to identify genes that are elevated 1.7-fold or greater when compared with the reference for each dataset, at a false discovery rate of 1.8% or less for M0 and 1.2% or less for the M24 datasets.	WBPaper00031003:total_muscle_depleted
	Genes enriched in muscle cells (24hr muscle dataset). Dissociated myo-3::GFP embryos were cultured for 24 hours before FACS sorting.	A two-class unpaired analysis was performed to identify genes that are elevated 1.7-fold or greater when compared with the reference for each dataset, at a false discovery rate of 1.8% or less for M0 and 1.2% or less for the M24 datasets.	WBPaper00031003:24hr_muscle_enriched
	Total muscle enriched genes (complete list of non-overlapping genes from the 0hr and 24hr muscle enriched datasets).	A two-class unpaired analysis was performed to identify genes that are elevated 1.7-fold or greater when compared with the reference for each dataset, at a false discovery rate of 1.8% or less for M0 and 1.2% or less for the M24 datasets.	WBPaper00031003:total_muscle_enriched
	Genes depleted in muscle cells (0hr muscle dataset). Dissociated myo-3::GFP embryos were cultured for 0 hours before FACS sorting.	A two-class unpaired analysis was performed to identify genes that are elevated 1.7-fold or greater when compared with the reference for each dataset, at a false discovery rate of 1.8% or less for M0 and 1.2% or less for the M24 datasets.	WBPaper00031003:0hr_muscle_depleted
	Genes enriched in muscle cells (0hr muscle dataset). Dissociated myo-3::GFP embryos were cultured for 0 hours before FACS sorting.	A two-class unpaired analysis was performed to identify genes that are elevated 1.7-fold or greater when compared with the reference for each dataset, at a false discovery rate of 1.8% or less for M0 and 1.2% or less for the M24 datasets.	WBPaper00031003:0hr_muscle_enriched
	Transcripts that were enriched in muscle in young adult animals, according to trans-splicing-based RNA tagging (SRT) and RNAseq.	DESeq and Benjamini-Hochberg adjusted p-values were used.	WBPaper00050053:muscle_enriched_Day4
	Transcripts that were enriched in muscle in day 12 animals, according to trans-splicing-based RNA tagging (SRT) and RNAseq.	DESeq and Benjamini-Hochberg adjusted p-values were used.	WBPaper00050053:muscle_enriched_Day12
	Genes enriched in muscle.	A Student t-test was used to determine which genes showed a mean enrichment significantly greater than the mean enrichment for all genes.	[cgc5428]:clustered_muscle_genes
	The cluster contains genes that are significantly enriched in L1 muscle.	A Student t-test was used to determine which genes showed a mean enrichment significantly greater than the mean enrichment for all genes.	[cgc5428]:L1_muscle_enriched

325 Expression Patterns

• Primary Identifier: Expr4858
• Pattern: A-class motor neuron: enriched in embryo (2.8) and larva (3.1). Neuronal expression include: DA, VB, AS, DB, DD, HSN, VC4&5, AIY, head neurons. Also expressed in other cells: Muscle, intestine. Pan-neuronal: expressed in embryo; enriched in larva (1.5).

• Primary Identifier: Expr4817
• Remark: Picture: Fig. 2G.
• Pattern: In wild-type animals, GFP was observed in all identified serotonergic and dopaminergic neurons and many muscle cells. Please note: this strain -JY739- shows expression in biogenic amine neurons and the epidermis, not in muscle cells (Loer et al., 2015. Genetics. WBPaper00046585, Expr12165).

• Primary Identifier: Expr4698
• Pattern: Expressed in muscle cells and neurons.

• Primary Identifier: Expr4794
• Pattern: Muscle cells expressed GFP; however, the expression was weak and was observed only in a few anterior muscle cells in each animal. Additionally, not all transgenic animals displayed GFP fluorescence, and GFP expression was not meiotically stable. GFP was observed in these lines past the F3 generation. However, in GFP-expressing muscle cells, intracellular fluorescence that was clearly reticular and not mitochondrial.
• Subcellular Localization: HAF-6 localizes to intracellular, reticular membranes.

• Primary Identifier: Expr4777
• Pattern: Expressed in muscle.

• Primary Identifier: Expr4772
• Pattern: Expressed in excretory cell, muscle, hypodermis.

• Primary Identifier: Expr4768
• Pattern: vps-45::EGFP is ubiquitously expressed in all major tissues, such as neuron, muscle, hypodermis and intestine. vps-45::EGFP is also expressed in coelomocytes.

• Primary Identifier: Expr4981
• Remark: Picture: Fig. 4D, 4E.
• Pattern: BRO-1 and RNT-1 are co-expressed in seam and muscle cells, and BRO-1 is additionally expressed in hypodermal nuclei, certain pharyngeal neurons and the utse.
• Subcellular Localization: Co-localisation is shown using rescuing bro-1::DsRed (pAW303) and rnt-1::GFP (pAW260) constructs. Faint BRO-1::RFP and RNT-1::GFP co-localisation is also observed in certain body wall muscle cells. BRO-1::RFP, but not RNT-1::GFP, was observed in certain pharyngeal neurons.

• Primary Identifier: Expr4982
• Remark: Picture: Fig. 4D, 4E.
• Pattern: BRO-1 and RNT-1 are co-expressed in seam and muscle cells.
• Subcellular Localization: Co-localisation is shown using rescuing bro-1::DsRed (pAW303) and rnt-1::GFP (pAW260) constructs. Faint BRO-1::RFP and RNT-1::GFP co-localisation is also observed in certain body wall muscle cells.

• Primary Identifier: Expr4951
• Remark: Picture: Figure 2.
• Pattern: GLO-4::GFP showed a discrete punctate localization in many different tissues, including muscle, pharynx, gut, and nervous system.

• Primary Identifier: Expr4383
• Pattern: The eps-8p::nls::gfp reporter is expressed in a variety of cell types including neurons, gut, muscle and seam cells as well as in the VPCs and their descendants. A time course analysis revealed a dynamic expression pattern of eps-8::nls:.gfp in the vulval cells. In mid-L2 larvae, eps-8p::nls::gfp is weakly expressed in all VPCs except for P3.p. Around 6 h later in early L3 larvae, before the first round of vulval cell divisions, expression is strongest in P6.p, lowest in P5.p and P7.p and intermediate in P3.p, P4.p and P8.p.

• Primary Identifier: Expr4236
• Pattern: Expressed in neurons and muscles.
• Subcellular Localization: Whole-mount staining with SYD-9 antibodies showed specific staining in the nuclei of neurons and muscles in WT animals, whereas in ju49 and ok1110 animals, the staining either disappeared completely or was drastically reduced. Both antibodies revealed staining patterns enriched at specific subdomains within the nuclei. The C-terminal antibody detected a speckle-like pattern exclusively in the nuclei. The N-terminal antibody stained a broader region but also included the speckle-like pattern in the nuclei, suggesting that SYD-9 isoforms may have slightly different subcellular distribution.

• Primary Identifier: Expr4233
• Pattern: The reporter gene that contains R11A5.4 promoter is expressed in C muscle cells.

• Primary Identifier: Expr4235
• Remark: Speckle-like patterns at the interchromatin regions are hallmarks for many RNA-binding proteins and proteins regulating pre-mRNA processing, suggesting that SYD-9 is likely involved in pre-mRNA processing.
• Pattern: GFP expression was observed throughout the nervous system and muscle cells.
• Subcellular Localization: SYD-9::GFP accumulates in speckle-like patterns. SYD-9B::GFP preferentially accumulates at interchromatin regions.

• Primary Identifier: Expr4578
• Pattern: The transgene was expressed in the adult neurons, muscles, and intestine.

• Primary Identifier: Expr4548
• Pattern: apl-1 expression was detected in more than 50 neuronal, muscle, hypodermal, and supporting cells in adults. The larval expression pattern was similar to the adult pattern with a few exceptions; for instance, apl-1 is expressed in more ventral cord motor neurons in the first larval stage (L1) animals than in other larval stages or adults.

• Primary Identifier: Expr14377

• Primary Identifier: Expr14361

• Primary Identifier: Expr15204
• Pattern: In vivo examination of the PFK-1.1 expression pattern revealed, as expected, broad expression of PFK-1.1 in multiple tissue types, including muscles and neurons.

• Primary Identifier: Expr2801
• Pattern: Expressed in muscle.

• Primary Identifier: Expr9912
• Pattern: Expressed in pharynx and hypodermis. Weak muscle labeling.

• Primary Identifier: Expr14374

• Primary Identifier: Expr12818
• Remark: Don't dump for LEGO CAM (capturing function in GO)
• Pattern: TCER-1::GFP was visible at all stages of embryonic and larval development. In adults, we observed strong nuclear localization of TCER-1::GFP in intestinal cells, many head and body neurons, muscle and hypodermal cells. In some intestinal cells, weak expression was also observed in the cytoplasm.

• Primary Identifier: Expr11040
• Pattern: ZK370.8-YFP is observable in muscle cells and several other tissues including the pharyngeal muscle cells.
• Subcellular Localization: ZK370.8-YFP is not present freely in the cytosol but is attached to cellular substructures. Comparing the appearance of MitoTracker and of ZK370.8, the TPR protein clearly is localized to the mitochondrial membrane.

• Primary Identifier: Expr11907
• Pattern: ICD-2::GFP was mainly expressed in intestinal cells and muscle cells.
• Subcellular Localization: ICD-2 colocalized with the ER marker TRAM-1::mCherry.

• Primary Identifier: Expr16103
• Subcellular Localization: We found that NPR-5::GFP localizes to dense bodies within muscle cells and is highly enriched in muscle arms and the muscle plate around the nerve ring.

• Primary Identifier: Marker38
• Remark: Picture: N.A. Reporter gene fusion type not specified.
• Pattern: Expressed in muscles, not expressed in Y cell.

• Primary Identifier: Expr15190
• Pattern: NFYB-1 endogenously tagged with mKate2 was nuclear localized in tissues throughout the body, including neurons, hypodermis, muscle, intestine and germline. Expression was found from embryo to adult, and levels in the adult peaked at day 5 and then declined thereafter.

• Primary Identifier: Expr7991
• Remark: Picture: Fig. 3C.
• Pattern: GFP expression was observed throughout the germline from the L4 stage onward and in all cells of the early embryo. Expression was also observed in muscle cells in 3-fold stage embryos.

• Primary Identifier: Expr12830
• Reporter Gene: fosmid fUL#SB103
• Pattern: GFP, arising from the R11A8.5::gfp fusion, was observed in the cytoplasm of the muscle and intestinal cells only.

0 Life Stages

2 Parents

Definition	Name	Synonym	Primary Identifier
a cellular object that consists of subcellular components, expresses genes or functions.	Cell	Cell type	WBbt:0004017
the organ system that allows the animal move, includes all muscles.	muscular system		WBbt:0005737