Page last updated: 2024-10-24

somite development

Definition

Target type: biologicalprocess

The progression of a somite from its initial formation to the mature structure. Somites are mesodermal clusters that are arranged segmentally along the anterior posterior axis of an embryo. [GOC:dph]

Somite development is a fundamental process in vertebrate embryogenesis, responsible for generating the segmented blocks of mesoderm that give rise to skeletal muscles, vertebrae, and dermis. This intricate process involves a series of precisely coordinated steps:

1. **Formation of the presomitic mesoderm (PSM):** The PSM, located anterior to the forming somites, is a dynamic pool of mesodermal cells that constantly migrate and proliferate.

2. **Segmentation of the PSM:** The PSM undergoes rhythmic segmentation, forming periodic structures called somites. This segmentation is driven by a complex interplay of molecular signaling pathways, including Notch, Wnt, and FGF. The expression of these signaling molecules creates oscillating gradients within the PSM, leading to the formation of somite boundaries.

3. **Somite morphogenesis:** Each somite differentiates into distinct regions:

* **Sclerotome:** The ventromedial region gives rise to the vertebrae and ribs.
* **Myotome:** The dorsolateral region develops into skeletal muscles.
* **Dermatome:** The dorsal region forms the dermis of the skin.

4. **Somite differentiation:** The process of somite formation is tightly linked to the establishment of cell fate within the somite. This involves:

* **Myogenesis:** Myotome cells differentiate into myoblasts, which fuse to form muscle fibers.
* **Chondrogenesis:** Sclerotome cells differentiate into chondrocytes, responsible for forming cartilage that ultimately forms bone.
* **Dermatogenesis:** Dermatome cells form the dermal layer of the skin.

5. **Somite boundary formation:** Somite boundaries are crucial for proper segmentation and the formation of distinct structures. These boundaries are established by the expression of specific genes, such as Ephrins and their receptors, which ensure cell adhesion and prevent cell mixing between adjacent somites.

6. **Somite maturation:** After their initial formation, somites undergo further maturation and refinement, contributing to the development of the axial skeleton, muscles, and skin.

The precise timing and coordination of these molecular events and cellular interactions are crucial for the proper development of the body axis and the formation of functional tissues. Disruptions in somite development can lead to severe congenital malformations.'
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Proteins (4)

ProteinDefinitionTaxonomy
Smoothened homologA protein smoothened that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q99835]Homo sapiens (human)
Sonic hedgehog proteinA sonic hedgehog protein that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q15465]Homo sapiens (human)
Lysyl oxidase homolog 3A lysyl oxidase homolog 3 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P58215]Homo sapiens (human)
C-1-tetrahydrofolate synthase, cytoplasmicA C-1-tetrahydrofolate synthase, cytoplasmic that is encoded in the genome of human. [PRO:DNx, UniProtKB:P11586]Homo sapiens (human)

Compounds (22)

CompoundDefinitionClassesRoles
pyrithionepyrithione : A pyridinethione that is pyridine-2(1H)-thione in which the hydrogen attached to the nitrogen is replaced by a hydroxy group. It is a Zn(2+) ionophore; the zinc salt is used as an antifungal and antibacterial agent.

pyrithione: split from cephalosporin molecule; some metal complexes of this have fumarate reductase inhibitory activity and may be useful against trypanosomes; RN given refers to parent cpd; structure
monohydroxypyridine;
pyridinethione
ionophore
aminopropionitrileAminopropionitrile: Reagent used as an intermediate in the manufacture of beta-alanine and pantothenic acid.aminopropionitrileantineoplastic agent;
antirheumatic drug;
collagen cross-linking inhibitor;
plant metabolite
disulfiramorganic disulfide;
organosulfur acaricide
angiogenesis inhibitor;
antineoplastic agent;
apoptosis inducer;
EC 1.2.1.3 [aldehyde dehydrogenase (NAD(+))] inhibitor;
EC 3.1.1.1 (carboxylesterase) inhibitor;
EC 3.1.1.8 (cholinesterase) inhibitor;
EC 5.99.1.2 (DNA topoisomerase) inhibitor;
ferroptosis inducer;
fungicide;
NF-kappaB inhibitor
thiramthiram : An organic disulfide that results from the formal oxidative dimerisation of N,N-dimethyldithiocarbamic acid. It is widely used as a fungicidal seed treatment.

Thiram: A dithiocarbamate chemical, used commercially in the rubber processing industry and as a fungicide. In vivo studies indicate that it inactivates the enzyme GLUTATHIONE REDUCTASE. It has mutagenic activity and may induce chromosomal aberrations.
organic disulfideantibacterial drug;
antifungal agrochemical;
antiseptic drug
jervinejervine: teratogen from Veratrum grandiflorum; RN given refers to parent cpd(3beta,23beta)-isomer; structurepiperidines
cyclopaminepiperidinesglioma-associated oncogene inhibitor
pd 173955PD 173955: inhibits src family-selective tyrosine kinase; structure in first sourcearyl sulfide;
dichlorobenzene;
methyl sulfide;
pyridopyrimidine
tyrosine kinase inhibitor
purmorphaminepurmorphamine : A member of the class of purines that is purine substituted at C-2 by a 1-naphthyloxy group, at C-4 by a 4-morpholinophenylamino group, and at N-9 by a cyclohexyl group.

purmorphamine: structure in first source
aromatic ether;
morpholines;
purines;
secondary amino compound
osteogenesis regulator;
SMO receptor agonist
cur 61414CUR 61414: inhibits the hedehog signaling pathway; structure in first source
abt 869aromatic amine;
indazoles;
phenylureas
angiogenesis inhibitor;
antineoplastic agent;
EC 2.7.10.1 (receptor protein-tyrosine kinase) inhibitor
lde225sonidegib : A member of the classo of biphenyls that is the amide obtained by formal condensation of the carboxy group of 2-methyl-4'-(trifluoromethoxy)[1,1'-biphenyl]-3-carboxylic acid with the amino group of 6-(2,6-dimethylmorpholin-4-yl)pyridin-3-amine. Used (as its phosphate salt) for treatment of locally advanced basal cell carcinoma.

sonidegib: specific Smoothened/Smo antagonist
aminopyridine;
aromatic ether;
benzamides;
biphenyls;
morpholines;
organofluorine compound;
tertiary amino compound
antineoplastic agent;
Hedgehog signaling pathway inhibitor;
SMO receptor antagonist
gdc 0449HhAntag691: inhibits the hedgehog pathway and ABC transporters; has antineoplastic activitybenzamides;
monochlorobenzenes;
pyridines;
sulfone
antineoplastic agent;
Hedgehog signaling pathway inhibitor;
SMO receptor antagonist;
teratogenic agent
N-[[3-fluoro-4-[[2-(1-methyl-4-imidazolyl)-7-thieno[3,2-b]pyridinyl]oxy]anilino]-sulfanylidenemethyl]-2-phenylacetamidethioureas
ipi-926IPI-926: a semisynthetic derivative of cyclopamine that is a smoothened inhibitor with antineoplastic activity; structure in first sourcepiperidines
robotnikininrobotnikinin: binds sonic hedgehog protein to block its signaling pathway; structure in first source
gsk 1363089GSK 1363089: a multikinase inhibitor that acts on Met, RON, Axl, and VEGFR; structure in first sourcearomatic ether
tak-441TAK-441: structure in first source
ly2940680
3-(2,6-dichloro-3,5-dimethoxyphenyl)-1-(6-(4-(4-ethylpiperazin-1-yl)-phenylamino)pyrimidin-4-yl)-1-methylureaBGJ-398 : A member of the class of phenylureas that is urea in which a hydrogen attached to one of the nitrogens is replaced by a 2,6-dichloro-3,5-dimethoxyphenyl group, while the hydrogens attached to the other nitrogen are replaced by a methyl group and a 6-{[4-(4-ethylpiperazin-1-yl)phenyl]amino}pyrimidin-4-yl group. It is a potent and selective fibroblast growth factor receptor inhibitor.

infigratinib: structure in first source
aminopyrimidine;
dichlorobenzene;
N-alkylpiperazine;
N-arylpiperazine;
phenylureas
antineoplastic agent;
fibroblast growth factor receptor antagonist
cep-32496agerafenib: inhibitor of RAF family kinases; structure in first source
pf-52748571-(4-(5'-chloro-3,5-dimethyl-2,4'-bipyridin-2'-yl)piperazin-1-yl)-3-(methylsulfonyl)propan-1-one: a potent and selective Smoothened antagonist that penetrates the blood-brain barrier; structure in first source
5-methyltetrahydrohomofolic acid5-methyltetrahydrohomofolic acid: RN given refers to parent cpd