Molecular Vision 2010; 16:2847-2849 <>
Received 14 September 2010 | Accepted 15 December 2010 | Published 18 December 2010

Mutations in the LHX2 gene are not a frequent cause of micro/anophthalmia

Annaïck Desmaison,1 Adeline Vigouroux,1,2,3 Claudine Rieubland,4 Christine Peres,1 Patrick Calvas,1,2,3 Nicolas Chassaing1,2,3

1INSERM, U563, Centre de Physiopathologie de Toulouse Purpan, Toulouse, France; 2CHU Toulouse, Hôpital Purpan, Service de Génétique Médicale, Toulouse, France; 3Université Toulouse III Paul-Sabatier, Toulouse, France; 4Division of Medical Genetics, Centre Hospitalier Universitaire Vaudois, Lausanne, Switzerland

Correspondence to: Dr. Nicolas Chassaing, Service de Génétique Médicale, Pavillon Lefebvre, CHU Purpan, Place du Dr Baylac, 31059 Toulouse Cedex 9, France; Phone: +33 5 61 77 90 55; FAX: +33 5 62 74 45 58; email:


Purpose: Microphthalmia and anophthalmia are at the severe end of the spectrum of abnormalities in ocular development. A few genes (orthodenticle homeobox 2 [OTX2], retina and anterior neural fold homeobox [RAX], SRY-box 2 [SOX2], CEH10 homeodomain-containing homolog [CHX10], and growth differentiation factor 6 [GDF6]) have been implicated mainly in isolated micro/anophthalmia but causative mutations of these genes explain less than a quarter of these developmental defects. The essential role of the LIM homeobox 2 (LHX2) transcription factor in early eye development has recently been documented. We postulated that mutations in this gene could lead to micro/anophthalmia, and thus performed molecular screening of its sequence in patients having micro/anophthalmia.

Methods: Seventy patients having non-syndromic forms of colobomatous microphthalmia (n=25), isolated microphthalmia (n=18), or anophthalmia (n=17), and syndromic forms of micro/anophthalmia (n=10) were included in this study after negative molecular screening for OTX2, RAX, SOX2, and CHX10 mutations. Mutation screening of LHX2 was performed by direct sequencing of the coding sequences and intron/exon boundaries.

Results: Two heterozygous variants of unknown significance (c.128C>G [p.Pro43Arg]; c.776C>A [p.Pro259Gln]) were identified in LHX2 among the 70 patients. These variations were not identified in a panel of 100 control patients of mixed origins. The variation c.776C>A (p.Pro259Gln) was considered as non pathogenic by in silico analysis, while the variation c.128C>G (p.Pro43Arg) considered as deleterious by in silico analysis and was inherited from the asymptomatic father.

Conclusions: Mutations in LHX2 do not represent a frequent cause of micro/anophthalmia.


Microphthalmia and anophthalmia are at the severe end of the spectrum of abnormalities in ocular development. The combined occurrence rate for these two malformations is estimated between 3 and 30 per 100,000 births [1]. Mutations in several genes have been found in syndromic and non-syndromic anophthalmia. Heterozygous mutations in SRY-box 2 (SOX2) account for approximately 10% of anophthalmias [2,3]. Growth differentiation factor 6 (GDF6) mutations may account for up to 8% of micro/anophthalmia [4,5]. Other genes have been identified as causing isolated anophthalmia or microphthalmia in humans (orthodenticle homeobox 2 [OTX2], retina and anterior neural fold homeobox [RAX], and CEH10 homeodomain-containing homolog [CHX10]) [1,3,6-8]. These latter are implicated in a very small proportion of affected individuals, implying wide genetic heterogeneity to match the phenotypic variability.

The LIM homeobox 2 (LHX2) transcription factor has been shown to be essential for mammalian eye development and mice deficient in functional Lhx2 protein have been shown to display anophthalmia [9]. More recent studies on mouse models have demonstrated that, during eye development, Lhx2 regulates levels and/or expression patterns of Rax, Chx10, Sox2, and Otx2 [10,11], themselves involved in human micro/anophthalmia.

We hypothesize that mutations in LHX2 could lead to severe eye developmental disorders including micro/anophthalmia. We thus performed molecular analysis in 70 micro/anophthalmia patients for whom previous molecular analysis of genes implicated in isolated micro/anophthalmia (SOX2, OTX2, RAX, and CHX10) failed to identify any causative mutation.



Seventy patients having non-syndromic forms of colobomatous microphthalmia (n=25), isolated microphthalmia (n=18), or anophthalmia (n=17), or syndromic forms of micro/anophthalmia (n=10) were included in this study. Their informed consent was obtained beforehand, according to French law. Micro/anophthalmia was considered as syndromic when the patient presents at least one other non ocular malformation (in our patients, associated malformations were intestinal atresia multiple, corpus callosum agenesis, heart malformation, deafness, Dandy Walker malformation, labiopalatal cleft, sexual ambiguity, hypospadias, arthrogryposis, and choanal atresia). All patients included had undergone molecular analysis of SOX2, OTX2, RAX, CHX10. Direct sequencing of the coding regions and exon/intron boundaries and exclusion of exonic rearrangement by Quantitative Multiplex PCR of Short fluorescent Fragments (QMPSF) of these genes failed to identify any causative mutation in these patients.


The 5 exons of the LHX2 gene were amplified by PCR using primers deduced from the LHX2 genomic sequence. Primer pairs and PCR conditions used are summarized in Table 1. Products were amplified in 25 µl reactions containing 50 ng genomic DNA, 1× PCR buffer, 0.2 mM dNTPs, 2 mM MgCl2, 100 nM forward primer, 100 nM reverse primer, and 1 U of Taq polymerase. Betaine (1 M) was added in PCR mix for exons 1 and 2. All PCR reactions were performed with a 5 min 95 °C denaturing step, followed by 14 cycles of 95 °C for 30 s, annealing temperature for 30 s (70 °C to 62 °C, −0.5 °C/cycle) and 72 °C for 45 s, followed by 20 cycles of 95 °C for 30 s, 62 °C for 30 s, and 72 °C for 45 s with a final elongation step of 72 °C for 7 min. PCR amplifications were subsequently purified using QIAquick Gel Extraction kit (QIAGEN SA, Courtaboeuf, France), and both forward and reverse strands were sequenced using Big Dye DNA sequencing kit (Applied Biosystems, Warrington, UK). Reactions were analyzed in an ABI3100 sequencer (Applied Biosystems). Sequence variations were numbered with the adenine of the ATG initiation codon as the first nucleotide (the LHX2 GenBank accession number was NM_004789.3).

Results and Discussion

LHX2 encodes the transcription factor LHX2 which is highly conserved across species [12] and has recently been demonstrated to play a critical role in eye development [10,11]. LHX2 is required to induce or maintain expression of genes required at the early optic vesicle stage for regionalization, establishment of retinal dorsoventral polarity, retinal progenitor cell properties, and lens specification [11]. LHX2 has thus been proposed to link the multiple pathways needed for transition of the optic vesicle to the optic cup [11]. Mice lacking Lhx2 expression display anophthalmia, and this transcription factor has been involved in regulation of expression levels and/or expression patterns of genes already involved in micro/anophthalmia (SOX2, RAX, CHX10, and OTX2) during eye development [10,11]. We hypothesized that mutations in LHX2 may be involved in human micro/anophthalmia, and thus molecular screening of this gene in 70 micro/anophthalmic patients was performed.

Molecular analysis allowed identification of three sequence variations. We observed presence of the described SNP c.783G>C (p.Pro261Pro) either in a heterozygous or homozygous state in 42 out of 70 patients. In addition, two variants of unknown significance were identified. The heterozygous c.128C>G (p.Pro43Arg; Figure 1A) was identified in an anophthalmic patient originating from Libya for whom no other sequence variation was found. Pro43 amino-acid is conserved among species (Figure 1C) and is located closely to the conserved LIM domain 1 of the protein. This variation was not identified in a panel of 200 control chromosomes of mixed geographical origins (Caucasian, African, and Asian), and was considered as probably damaging by in silico analysis (PolyPhen and SIFT software). However, familial study has shown that this variation was inherited from his father who harbors a normal ocular examination. Thus, this heterozygous variation may be non-pathogenic, even if dominant inheritance with incomplete penetrance can not be totally ruled out. We cannot also exclude presence of an undetected maternally inherited mutation (e.g located in intronic or promoter region sequences, or an exonic rearrangement) fitting with an autosomal recessive inheritance. In a French patient with colobomatous microphthalmia, we identified the heterozygous variation c.776C>A (p.Pro259Gln; Figure 1B). This variation was not identified in a panel of 200 chromosomes from Caucasian controls. No sample was available for his parents, and familial segregation study was not possible. Additionally, there are arguments against the implication of this variation in the patient’s ocular phenotype. First, Pro259 is not a conserved amino-acid among species (Figure 1D), and a glutamine is present at this position in several distant species including Xenopus, Chicken, and Fugu Fish [12]. Second, this variation was considered as non damaging by in silico analysis (PolyPhen and SIFT software). Thus, we consider this variant as probably non deleterious. Molecular analysis failed to identify any other sequence variation in the remaining 68 patients included in this study.

In conclusion, although mutations in LHX2 may nevertheless be implicated in some micro/anophthalmia patients, our results suggest that such sequence variations are not a frequent cause of micro/anophthalmia. Molecular basis of these ocular malformations remains still poorly understood and further work remains to be achieved to identify new micro/anophthalmia genes.


This work was supported by a grant from the Clinical Research Hospital Program from the French Ministry of Health (PHRC 09 109 01) and by Retina France. The authors are grateful to Jacqueline Butterworth for help in preparing the manuscript.


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