WormMine: AnatomyTerm WBbt:0006804

• Definition: type of 95 cells that make up muscles of the body wall.
• Name: body wall muscle cell
• Primary Identifier: WBbt:0006804
• Synonym: body muscle cell

6 Children

Definition	Name	Synonym	Primary Identifier
body wall muscle cell on the ventral side of animal.	ventral body wall muscle		WBbt:0008390
embryonic body wall muscle cell derived from D lineage.	body wall muscle cell from D lineage		WBbt:0006807
embryonic body wall muscle cell derived from C lineage.	body wall muscle cell from C lineage		WBbt:0006806
embryonic body wall muscle cell derived from AB lineage.	body wall muscle cell from AB lineage		WBbt:0006805
post-embryonic body wall muscle cell derived from M lineage.	body wall muscle cell from M lineage		WBbt:0008258
body wall muscle cell on the dorsal side of animal.	dorsal body wall muscle		WBbt:0008389

18 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Genes that showed expression levels higher than the corresponding reference sample (embryonic 24hr reference).	A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes.	WBPaper00037950:bodywall-muscle_L1-larva_expressed
	Transcripts detected in body muscle nuclei according to a nuclear FACS-based strategy.	Cufflinks	WBPaper00065120:body-muscle-transcriptome
	Genes that showed expression levels higher than the corresponding reference sample (L2 all cell reference).	A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes.	WBPaper00037950:bodywall-muscle_L2-larva_expressed
	Proteins expressed in body wall muscle cytoplasm, according to tissue specific APX enzyme expression using myo-3 promoter driven NES(cytoplasm)-GFP-APX, followed with mass spectrometry.	Fold change > 2.	WBPaper00051245:body-wall-muscle_cytoplasm_expressed
	Genes significantly enriched (> 2x, FDR < 5%) in a particular cell-type versus a reference sample of all cells at the same stage.	A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes.	WBPaper00037950:bodywall-muscle_larva_enriched
	Proteins expressed in body wall muscle nucleus, according to tissue specific APX enzyme expression using myo-3 promoter driven NLS(nucleus)-GFP-APX, followed with mass spectrometry.	Fold change > 2.	WBPaper00051245:body-wall-muscle_nucleus_expressed
	Genes that show selective expression in a subset of cell types vs broadly expressed in many cell types. Correspond to 20% - 57% of enriched_genes for a given cell type.	A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes.	WBPaper00037950:bodywall-muscle_larva_SelectivelyEnriched
	Top 300 transcripts enriched in body wall muscle cell 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:Body_wall_muscle
	Genes significantly enriched (> 2x, FDR < 5%) in a particular cell-type versus a reference sample of all cells at both embryonic and larval stages.	A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes.	WBPaper00037950:bodywall-muscle_CoreEnriched
	Genes significantly enriched (> 2x, FDR < 5%) in a particular cell-type versus a reference sample of all cells at the same stage.	A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes.	WBPaper00037950:bodywall-muscle_embryo_enriched
	Proteins specifically expressed in body wall muscle, according to tissue specific APX enzyme expression using myo-3 promoter, followed with mass spectrometry.	Fold change > 2.	WBPaper00051245:body-wall-muscle_specific
	Genes that show selective expression in a subset of cell types vs broadly expressed in many cell types. Correspond to 20% - 57% of enriched_genes for a given cell type.	A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes.	WBPaper00037950:bodywall-muscle_embryo_SelectivelyEnriched
	Single-cell RNA-Seq cell group 11 expressed in: Body wall muscle middle.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:11
	Single-cell RNA-Seq cell group 16 expressed in: Body wall muscle middle.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:16
	Single-cell RNA-Seq cell group 29 expressed in: Body wall muscle anterior.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:29
	Micro RNAs that showed significantly increased expression in day 8 adults comparing to in day 1 adults in body wall muscle.	Differentially expressed miRNAs were identified using DEGseq based on unique molecular identifier (UMI). A minimum UMI sum of 10 in 3 replicates was set as the threshold of expression. MiRNAs with more than five reads were defined as expressed. Differential expression of miRNAs was analysed by t-test (P value < 0.05 and fold-change > 1.5 or < 0.67) after Box-Cox transformation. MiRNA targets were identified by TargetScanWorm (Release 6.2) and Pearson Correlation Coefficient smaller than -0.2.	WBPaper00066447:Day8_vs_Day1_upregulated_BodyWallMuscle
	Micro RNAs that showed significantly decreased expression in day 8 adults comparing to in day 1 adults in body wall muscle.	Differentially expressed miRNAs were identified using DEGseq based on unique molecular identifier (UMI). A minimum UMI sum of 10 in 3 replicates was set as the threshold of expression. MiRNAs with more than five reads were defined as expressed. Differential expression of miRNAs was analysed by t-test (P value < 0.05 and fold-change > 1.5 or < 0.67) after Box-Cox transformation. MiRNA targets were identified by TargetScanWorm (Release 6.2) and Pearson Correlation Coefficient smaller than -0.2.	WBPaper00066447:Day8_vs_Day1_downregulated_BodyWallMuscle
	Single-cell RNA-Seq cell group 53 expressed in: Body wall muscle posterior.	CellRanger, DecontX, Monocle3, Louvain algorithm.	WBPaper00065623:53

12 Expression Patterns

• Primary Identifier: Expr12917
• Pattern: Expression of wild-type miro-1 in neurons under the control of the unc-119 promoter, expression in body wall muscles under the control of the myo-3 promoter, and expression in pharyngeal muscles under the control of the myo-2 promoter all independently restored close to normal life span in the miro-1(tm1966) mutant background.

• Primary Identifier: Expr15971
• Pattern: We made a similar transcriptional reporter using a 4.5-kb jph-1 promoter to express GFP. We confirmed GFP expression in all hermaphroditemuscle types, including body wall, pharyngeal, vulval, uterine, stomatointestinal, anal sphincter, and anal depressor muscles, with the exception of the contractile gonadal sheath. We also observed expression in many neurons from head to tail.

• Primary Identifier: Expr12599
• Pattern: Broad expression of the frpr-4::gfp translational reporter was observed during both larval development and adulthood; expression was in body wall muscles, pharyngeal muscles, and multiple neurons, including the RIA neurons, the DVA neuron, and the PVM neuron. Membrane localization of the green fluorescence was observed, as would be expected for a GPCR.

• Primary Identifier: Expr1200096
• Pattern: Data from the TransgeneOme project

• Primary Identifier: Expr12281
• Subcellular Localization: MAK-1 localizes between and around dense bodies and partially co-localizes with MHC B at the edge of the A-band.

• Primary Identifier: Expr11360
• Pattern: At postembryonic stages, epg-11::gfp was widely expressed, including in pharyngeal, body wall muscle, intestinal, and vulval cells.
• Subcellular Localization: EPG-11::GFP was diffusely localized in the cytoplasm during embryogenesis.

• Primary Identifier: Expr14253
• Pattern: ced-5 was expressed in three types of engulfing cells, including intestinal cells, body wall muscles and gonadal sheath cells in adults.

• Primary Identifier: Expr14254
• Pattern: A 5-kb ced-1 promoter reporter -Pced-1::myr::mCherry reporter- at the adult stage displays expression in syncytial hypodermal cells, which envelop the main body of worms, in gonadal sheath cells and Body wall muscles.

• Primary Identifier: Expr1200163
• Pattern: Data from the TransgeneOme project

• Primary Identifier: Expr13553
• Pattern: SET-18::GFP was specifically distributed in pharyngeal and body wall muscles. Muscle-specific expression of SET-18::GFP was gradually increased from day 3 to day 11.

• Primary Identifier: Expr15876
• Pattern: Fer-1 is expressed in cultured C. elegans muscle cells

• Primary Identifier: Expr13005
• Pattern: The lect-2 transcriptional reporter is strongly expressed in body-wall muscle cells throughout life.

2 Life Stages

Remark	Definition	Other Name	Public Name	Primary Identifier
	The second stage larva. At 25 Centigrade, it ranges 25.5-32.5 hours after fertilization, 11.5-18.5 hours after hatch.		L2 larva Ce	WBls:0000027
	The first stage larva. At 25 Centigrade, it ranges 14-25.5 hours after fertilization, 0-11.5 hours after hatch.		L1 larva Ce	WBls:0000024

2 Parents

Definition	Name	Synonym	Primary Identifier
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