U.S. flag

An official website of the United States government

NCBI Bookshelf. A service of the National Library of Medicine, National Institutes of Health.

StatPearls [Internet]. Treasure Island (FL): StatPearls Publishing; 2024 Jan-.

Cover of StatPearls

StatPearls [Internet].

Show details

Embryology, Optic Fissure

; .

Author Information and Affiliations

Last Update: April 3, 2023.


The optic fissure, also termed the choroid fissure, is an embryologic structure essential for the morphogenesis of the eye. Its formation and eventual closure are implicated in the morphogenesis of the iris, ciliary body, retina, choroid, optic nerve, and central retinal artery. It closes in the seventh week of development, and when it fails to close, it results in significant defects, the most prominent of which is coloboma.[1]


Eye development begins at day 22 of embryogenesis with the evagination of the neural tube from bilateral grooves in the neuroectoderm, forming the optic vesicles. Around five weeks as the neuroectodermal outpouchings form, a depression forms at their distal aspects leading to auto-invagination, which creates a double wall of neuroectoderm. This double-walled ectoderm gives rise to the optic cup. As the neural tube expands and involutes, the surface ectoderm at bilateral lens placodes simultaneously invaginates into these bilateral depressions, forming the lens vesicles. The interaction between the optic cup and lens vesicle results in the development of the optic fissure as the optic cup drapes over the hyaloid artery. In this way, a groove (fissure) is formed along the entire length of the invaginated double-wall neural tube, termed the optic stalk, which is the future optic nerve. This groove contains the hyaloid artery, allowing it to supply the future inner chamber of the eye without having to invade the neuroectoderm. During week 7, the edges of the optic fissure fuse, with the most distal apposition of these edges becoming the pupil. While the edges of the fissure close, the two layers of neuroectoderm comprising the stalk continue to proliferate to the point of apposition and fusion. Cells from the inner layer of neural tissue interact to form a neural network, and thereby the optic nerve is born. A narrow hollow space remains inside the stalk containing a remnant of the hyaloid artery, which gives rise to the central artery of the retina.[2][3]


The optic fissure exists as an invagination of the optic stalk, which is a double-layer of neuroectodermal tissue. The fissure contains undifferentiated mesenchymal tissue of mesodermal origin, which forms the hyaloid artery, eventually giving rise to the central artery of the retina. Closure of the fissure during weeks 6 to 7 and the inherent completion of the optic cup heralds the completion of many circumferential structures of the eye.[4][5]

The periocular mesenchyme cells (POM) derive from the ectodermal and mesodermal leaflets and influence the development process of the optic fissures and morphogenesis of the eye. An alteration of the coding of the genes responsible for creating these cells will lead to dysfunctions (lmx1b, zic2, TFAP2A/tfap2a).

Retinoic acid (RA) contributes to the complete formation of the choroid fissure and by influencing the transcription of the genes mentioned above. Furthermore, an RA deficiency will prevent the correct expression of another specific gene (pitx2), which will cause coloboma.

Molecular Level

The proper development of the eye involves a complex interaction of a myriad of genes and molecular signals. During this process, it is important to understand that genetic mutations and inaccurate molecular products carry links to eye malformations. The full complexity of eye development is too broad for the scope of this article, and the mechanism is discussed further later in this article. Nevertheless, the most important of the genes involved include PAX6, PAX2, sonic hedgehog (SHH), BMP4, and Rx.[2][3][6]

PAX6 is coined as the primary control gene and indicates the eye field with its expression at the anterior neural plate. However, the eye field at this time is yet to undergo division for the creation of the globes. The belief is that SHH is responsible for the division of the eye field into two via suppression of PAX6.[7][8] As such, mutation or inhibition of SHH leads to cyclopia, a single eye. On the other hand, increased expression of SHH can lead to an absence of ocular structures. In the optic vesicles, there are two antagonistic molecular signals: SHH ventrally and BMP4 dorsally. These two signals coordinate together, mutually inhibiting each other, to create the normal pattern of the eye on its dorsal-ventral axis.[9] Additionally, SHH promotes PAX2 expression, which is an optic stalk marker.[10] PAX2 complements the retina marker PAX6, creating a distinct boundary between the optic stalk and the retina. Another gene expressed in the anterior neural plate, Rx, is crucial for the evagination of the optic vesicle and Pax6 expression.[11] In later stages, Rx may play an essential role in the differentiation of the retina.[6]

In addition to paired box gene 2 or PAX2, there are other transcription factors, such as ventral anterior homeobox 1 and 2 (VAX1 and 2); these affect the invagination of the choroid fissure. Other genes are called for an appropriate path: bone morphogenetic protein 7 (BMP7), fibroblast growth factors (FGFs), transforming growth factor beta2 (TGF-beta2), transcription factor AP-2 alpha (TFAP2A).


The optic fissure exists as a transient element in the development of the optic nerve, but despite its transience, it carries crucial functional significance for the time it exists. The optic fissure contains the hyaloid artery, allowing it to supply the developing inner chamber of the eye without penetrating the neuroectoderm. Beginning at week 5, the edges of the optic fissure begin to fuse, and by week seven, closure is complete with the most distal apposition of these edges becoming the pupil. Once closure of the optic fissure is complete, the two layers of neuroectoderm comprising the stalk continue to proliferate to the point of apposition and fusion. Cells from the inner layer of neural tissue interact to form a neural network, and thereby the optic nerve is born. A narrow hollow space remains inside the stalk containing a remnant of the hyaloid artery, which gives rise to the central artery of the retina.


Closure of the optic fissure is paramount to proper morphogenesis of many structures of the eye, and extensive cellular remodeling and patterning are required for the edges of this double-wall of neural tissue to fuse effectively. Key transcription factors, including Pax2, Pax5, Vax2, Tbx2, Tbx3, Tbx5, Vsx2, and Mitf, are essential for proper closure of the fissure. Their specific mechanisms in the development and closure of the optic fissure appear below.[12]


The transcription factor Pax6 is the key gene involved in eye development. Preceding morphogenesis of the eye, Pax6 is expressed at the anterior neural ridge of the neural plate before neurulation begins and is the primary eye field at this stage. Sonic hedgehog causes division of the central eye field into two optic primordia, upregulating Pax2 in the distal optic vesicle at its juncture with the surface ectoderm. Sonic Hedgehog promotes organized growth and involution of the optic cup by restricting the expression of Pax6 to the optic cup and upregulating Pax2 in the optic stalk and optic fissure margins. In this way, the morphogenic pathways of the optic cup and the optic nerve are distinctive. Heterozygous mutations in Pax2, Pax6, and SHH are known to cause coloboma.[13]

As the optic cup develops from the bi-layer outpouching of neuroectoderm, it has several unique interactions with the adjacent tissues that cause specialized differentiation. The fibroblast growth factor of the surface ectoderm at the lens placode promotes inward differentiation of the neural retina. This is accomplished via FGF-induced downregulation of Mitf, allowing Vsx2 expression and creating a separation between the neural retina and the retinal pigmented epithelium at the optic fissure margin. Transforming growth factor B of the surrounding mesenchyme promotes outward differentiation of the pigmented layer of the retina, a process requiring WNT-B-Catenin signaling. The search clear delineation in retinal layers at this margin is key to the full fusion of the optic fissure. Failure of signaling processes, particularly mutation of WNT receptor gene FZD5, has been implicated in coloboma.[14]


As the layers of the optic vesicle differentiate into the neural retina and retinal pigment epithelium, invagination occurs via another important signaling mechanism. To involute in the formation of the optic cup and fissure, the neuroectodermal cells of the inner layer of the optic vesicle need to undergo a conformational shape change. This change is brought about by the contraction of the actin-myosin cytoskeleton, which is regulated by the cytoplasmic actin genes ACTG1 and ACTB. Mutations of these genes are implicated in the development of coloboma, as seen in Baraitser-Winter syndrome.[15]


Once the invagination of the optic cup and fissure is complete, the next step is the closure of the optic fissure. This process begins at the mid-point of the fissure and proceeds distally and proximally. Studies suggest that as the margins of the fissure come into apposition, the outer layer fuses first, followed by the inner layer. The basement membranes from opposing sides of the fissure margins undergo breakdown, possibly via phagosome-mediated destruction. Studies suggest that the margins of both layers extend cytoplasmic protrusions that play a role in closure. Cadherin-mediated adherens junctions additionally contribute to the successful fusion of retinal layers. Research has shown that dysregulated breakdown at the fissure margins is involved in the pathogenesis of coloboma. CHARGE syndrome, in particular, is caused by mutations in the CHD7 gene, resulting in inappropriate expression of the pro-apoptotic gene p53, resulting in exaggerated apoptosis at the optic fissure and inadequate closure.[16]


Molecular genetic testing techniques can be useful in identifying a genetic cause for patients with congenital eye malformations in the microphthalmia, anophthalmia, coloboma (MAC) spectrum. Testing for the diagnosis of MAC includes clinical exam and corneal measurements, and imaging with ultrasound and computed tomography or magnetic resonance imaging of the brain and orbits.[17]


 Failure of proper closure of the optic fissure can lead to the following defects:

  • Coloboma: A coloboma is a hole or defect in either the eyelid, cornea, iris, lens, ciliary body, zonules, retina, choroid, or optic nerve as a result of incomplete closure of the optic fissure.[18] The frequency is 10 to 20 cases per 100000 infants. In some cases, this problem can be part of a more complex picture that also involves other organs such as, for example, in CHARGE syndrome in which the coloboma correlates with cardiac and facial anomalies, mental retardation, deafness. Since it is a malformation, resolutive drug therapies are not possible. In some cases, good results are obtainable in improving eyesight with the use of lenses and optical aids
  • Optic pits: An optic pit is a depression within the optic nerve as a result of incomplete closure of the optic fissure.[19] This malformation is first described in 1882 by Dr. Wiethe. The optic pit, in about two-thirds of patients, is clinically asymptomatic; but complicated by developing a serous macular detachment, secondary to the accumulation of subretinal fluid, which most frequently appears in the second and third decade of life. However, the treatment of serous macular detachment from the optic pit is still controversial.

Clinical Significance

The optic fissure plays an essential role in the development of a wide variety of ocular structures. As such, its clinical significance is broad. The classic example of an ocular condition due to errors in optic fissure embryogenesis is coloboma.

A coloboma is a congenital hole in a portion of an ocular structure. The etiology of colobomas is defective closure of the optic fissure.[20] Most frequently, the affected structure is the iris, yet most eye structures can have a coloboma. Several ocular abnormalities are associated with colobomas, such as microphthalmia, nystagmus, glaucoma, heterochromia, and strabismus. Colobomas carry associations with many syndromes, including the following, among others:

  • CHARGE syndrome
  • Baraitser-Winter syndrome
  • Trisomy 13 
  • Trisomy 18
  • Oral-facial-digital syndrome (type VIII)
  • Walker-Warburg syndrome
  • Lenz microphthalmia syndrome
  • MIDAS syndrome
  • Catel-Manzke syndrome

Blindness may occur in some cases of coloboma, and care is necessary to manage the condition to preserve vision. Patients often need genetics evaluation for systemic disorders, monocular precautions, and interval monitoring for retinal detachment. Treatment strategies vary based on the case, with a few options being the surgical repair of an iris defect, specialized cosmetic contact lens, prosthetic iris device placement, and refractive correction.

Review Questions

The figure shows the invagination process of the optic stalk and the optic vesicle, with the formation of the choroid fissure (inferiorly)


The figure shows the invagination process of the optic stalk and the optic vesicle, with the formation of the choroid fissure (inferiorly). The blue arrows indicate the direction and area of the invagination. Contributed by Bruno Bordoni, PhD.

Embryology of the optic fissure


Embryology of the optic fissure. A: Lateral view. B: Coronal cross-section. C: Sagittal cross-section. Image created by Ajay Nair Sharma


Eckert P, Knickmeyer MD, Schütz L, Wittbrodt J, Heermann S. Morphogenesis and axis specification occur in parallel during optic cup and optic fissure formation, differentially modulated by BMP and Wnt. Open Biol. 2019 Feb 28;9(2):180179. [PMC free article: PMC6395882] [PubMed: 30958096]
Bales TR, Lopez MJ, Clark J. StatPearls [Internet]. StatPearls Publishing; Treasure Island (FL): Mar 27, 2023. Embryology, Eye. [PubMed: 30860715]
Rosen D, Mahabadi N. StatPearls [Internet]. StatPearls Publishing; Treasure Island (FL): May 1, 2023. Embryology, Optic Cup. [PubMed: 31424734]
Onwochei BC, Simon JW, Bateman JB, Couture KC, Mir E. Ocular colobomata. Surv Ophthalmol. 2000 Nov-Dec;45(3):175-94. [PubMed: 11094243]
Weiss O, Kaufman R, Michaeli N, Inbal A. Abnormal vasculature interferes with optic fissure closure in lmo2 mutant zebrafish embryos. Dev Biol. 2012 Sep 15;369(2):191-8. [PubMed: 22819672]
Chow RL, Lang RA. Early eye development in vertebrates. Annu Rev Cell Dev Biol. 2001;17:255-96. [PubMed: 11687490]
Zagozewski JL, Zhang Q, Eisenstat DD. Genetic regulation of vertebrate eye development. Clin Genet. 2014 Nov;86(5):453-60. [PubMed: 25174583]
Sharma D, Yadav J, Garg E. Cyclopia syndrome. BMJ Case Rep. 2014 Jun 09;2014 [PMC free article: PMC4054394] [PubMed: 24913079]
Zhao L, Saitsu H, Sun X, Shiota K, Ishibashi M. Sonic hedgehog is involved in formation of the ventral optic cup by limiting Bmp4 expression to the dorsal domain. Mech Dev. 2010 Jan-Feb;127(1-2):62-72. [PubMed: 19854269]
Echelard Y, Epstein DJ, St-Jacques B, Shen L, Mohler J, McMahon JA, McMahon AP. Sonic hedgehog, a member of a family of putative signaling molecules, is implicated in the regulation of CNS polarity. Cell. 1993 Dec 31;75(7):1417-30. [PubMed: 7916661]
Zhang L, Mathers PH, Jamrich M. Function of Rx, but not Pax6, is essential for the formation of retinal progenitor cells in mice. Genesis. 2000 Nov-Dec;28(3-4):135-42. [PubMed: 11105055]
Behesti H, Papaioannou VE, Sowden JC. Loss of Tbx2 delays optic vesicle invagination leading to small optic cups. Dev Biol. 2009 Sep 15;333(2):360-72. [PMC free article: PMC2735611] [PubMed: 19576202]
Wang L, He F, Bu J, Zhen Y, Liu X, Du W, Dong J, Cooney JD, Dubey SK, Shi Y, Gong B, Li J, McBride PF, Jia Y, Lu F, Soltis KA, Lin Y, Namburi P, Liang C, Sundaresan P, Paw BH, Li W, Li DY, Phillips JD, Yang Z. ABCB6 mutations cause ocular coloboma. Am J Hum Genet. 2012 Jan 13;90(1):40-8. [PMC free article: PMC3257322] [PubMed: 22226084]
Liu C, Widen SA, Williamson KA, Ratnapriya R, Gerth-Kahlert C, Rainger J, Alur RP, Strachan E, Manjunath SH, Balakrishnan A, Floyd JA, UK10K Consortium. Li T, Waskiewicz A, Brooks BP, Lehmann OJ, FitzPatrick DR, Swaroop A. A secreted WNT-ligand-binding domain of FZD5 generated by a frameshift mutation causes autosomal dominant coloboma. Hum Mol Genet. 2016 Apr 01;25(7):1382-91. [PMC free article: PMC4787907] [PubMed: 26908622]
Verloes A, Drunat S, Pilz D, Di Donato N. Baraitser-Winter Cerebrofrontofacial Syndrome. In: Adam MP, Feldman J, Mirzaa GM, Pagon RA, Wallace SE, Bean LJH, Gripp KW, Amemiya A, editors. GeneReviews® [Internet]. University of Washington, Seattle; Seattle (WA): Nov 19, 2015. [PMC free article: PMC327153] [PubMed: 26583190]
Armstrong JF, Kaufman MH, Harrison DJ, Clarke AR. High-frequency developmental abnormalities in p53-deficient mice. Curr Biol. 1995 Aug 01;5(8):931-6. [PubMed: 7583151]
Bardakjian T, Weiss A, Schneider A. Microphthalmia/Anophthalmia/Coloboma Spectrum – RETIRED CHAPTER, FOR HISTORICAL REFERENCE ONLY. In: Adam MP, Feldman J, Mirzaa GM, Pagon RA, Wallace SE, Bean LJH, Gripp KW, Amemiya A, editors. GeneReviews® [Internet]. University of Washington, Seattle; Seattle (WA): Jan 29, 2004. [PubMed: 20301552]
Warburg M. Classification of microphthalmos and coloboma. J Med Genet. 1993 Aug;30(8):664-9. [PMC free article: PMC1016495] [PubMed: 8411053]
Brown GC, Shields JA, Goldberg RE. Congenital pits of the optic nerve head. II. Clinical studies in humans. Ophthalmology. 1980 Jan;87(1):51-65. [PubMed: 7375086]
Ludwig PE, Lopez MJ, Czyz CN. StatPearls [Internet]. StatPearls Publishing; Treasure Island (FL): Apr 3, 2023. Embryology, Eye Malformations. [PubMed: 29494102]

Disclosure: Daniel Azzam declares no relevant financial relationships with ineligible companies.

Disclosure: Bruno Bordoni declares no relevant financial relationships with ineligible companies.

Copyright © 2024, StatPearls Publishing LLC.

This book is distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) ( http://creativecommons.org/licenses/by-nc-nd/4.0/ ), which permits others to distribute the work, provided that the article is not altered or used commercially. You are not required to obtain permission to distribute this article, provided that you credit the author and journal.

Bookshelf ID: NBK554433PMID: 32119320


  • PubReader
  • Print View
  • Cite this Page

Related information

  • PMC
    PubMed Central citations
  • PubMed
    Links to PubMed

Similar articles in PubMed

See reviews...See all...

Recent Activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...