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Keywords: Objective: The current study aimed to assess the association between collagen type II alpha 1 chain (COL2A1)
COL2A1 single nucleotide polymorphism (SNP: rs2070739; C>T; G1405S) and mandibular skeletal malocclusions in the
Mandibular skeletal malocclusions population of Mazandaran (North Iran).
Rs2070739
Design: During 13 months, 102 control samples, 81 samples with skeletal Class III malocclusion contributed by
Single nucleotide polymorphism
mandibular prognathism and 82 samples with skeletal Class II malocclusion contributed by mandibular retro
gnathism were screened. Cephalometric analysis was performed to determine the type of abnormalities. COL2A1-
G1405S genotyping was performed using polymerase chain reaction-restriction fragment length polymorphism
(PCR-RFLP) method. The HOPE tool was used to investigate the effect of COL2A1-G1405S on the three-
dimensional structure of protein.
Results: Results showed that there is no significant correlation between genotypes and alleles related to COL2A1-
G1405S and mandibular prognathism (CT genotype: p-value= 0.210; T allele: p-value= 0.222). On the other
hand, an association was observed between COL2A1-G1405S and mandibular retrognathism (CT genotype: p-
value= 0.008; T allele: p-value= 0.011). The outputs of the HOPE tool also showed that COL2A1-G1405S can
disrupt the NC1 domain of the protein.
Conclusions: Here, we provide evidence that COL2A1-G1405S polymorphism may have positive correlation with
the risk of skeletal Class II malocclusion contributed by mandibular retrognathism in the population of
Mazandaran. Given that the COL2A1-G1405S occurs in NC1 domain, it is possible that this domain plays an
important role in signaling pathways related to ossification. So, we suggest that the study of COL2A1 SNPs can
help researchers understand the significant role of this collagen in mandibular skeletal malocclusions.
Abbreviations: COL2A1, Collagen type II alpha 1 chain; ITGB1, Integrin β1; SMAD1, Mothers against decapentaplegic homolog 1; PCR-RFLP, polymerase chain
reaction-restriction fragment length polymorphism; Runx2, Runt-related transcription factor 2; SNP, single nucleotide polymorphism.
* Corresponding author.
E-mail addresses: a.kalmari@yahoo.com (A. Kalmari), v.arash@mubabol.ac.ir (V. Arash), ahcolagar@umz.ac.ir, acolagar@yahoo.com (A.H. Colagar).
https://doi.org/10.1016/j.archoralbio.2022.105500
Received 16 April 2022; Received in revised form 2 July 2022; Accepted 4 July 2022
Available online 5 July 2022
0003-9969/© 2022 Elsevier Ltd. All rights reserved.
A. Kalmari et al. Archives of Oral Biology 142 (2022) 105500
the condyle surface inward into superficial, proliferative, flattened and suitable for the long-term storage and safe transport of blood samples at
hypertrophic zones (Robinson et al., 2015). The cells in each of these room temperature and does not require freezing for the samples to
four zones have different properties and express specific proteins. One of remain stable.
the most significant proteins expressed by cells in the proliferative zone
is Sox9, which is important for regulation of chondrogenesis (Bi et al., 2.2. Selection and genotyping of SNP
1999). After differentiating of mesenchymal cells into chondrocytes in
the flattened zone, they express collagen type II alpha 1 chain (COL2A1) In a study based on several web-based tools, researchers reported
as well as Sox9 (Shibukawa et al., 2007). The size of the cells in the rs2070739 (C>T; G1405S) as a significant and effective missense SNP in
fourth zone increases, and these hypertrophic cells express large the structure and function of COL2A1 protein (Kalmari et al., 2022). The
amounts of runt-related transcription factor 2 (Runx2) and collagen type global allelic frequency of COL2A1-G1405S is above 0.1 in the 1000
X (Al-kalaly et al., 2009). Hypertrophic chondrocytes eventually un Genomes project and occurs in exon 53 of COL2A1 (Fig. 1). The effect of
dergo apoptosis, and during a process called endochondral ossification, this SNP on the three-dimensional structure of protein was analyzed by
bone replaces cartilage (Chen et al., 2021). Runx2 is a necessary factor HOPE web-based tool (https://www3.cmbi.umcn.nl/hope/). This tool
for bone formation that regulates chondrocyte hypertrophy, cartilage collects structural information from several sources and combines this
matrix calcification, osteoblasts differentiation and osteoclasts function information to give data about the effect of a certain mutation on the
during endochondral ossification in the rat mandibular condyle (Rabie protein structure.
et al., 2004). Collagen type II acts as an extracellular signaling molecule Genomic DNA of all samples was extracted by commercial kits
and interacts with integrin β1 (ITGB1) to regulate hypertrophic differ (SinaClon Co, Iran). Amplification of COL2A1-G1405S flanking frag
entiation of chondrocytes (Lian et al., 2019). It is the most abundant ments performed by two oligomers. They were designed and checked by
collagen in the cartilage matrix and also is the marker for cartilage Oligo7 software and Primer-BLAST (NCBI), respectively. Primers were
formation in the condyle (Rabie et al., 2003). 24 nucleotides in length (COL2A1-F: 5′ TGTCACTCAGCCTATCTT
Single nucleotide polymorphisms (SNPs) can be used as genetic CTCTAC; COL2A1-R: 5′ GGAGGGAAAGAGGAGGAAAAGTAT). The PCR
markers to detect an association between a gene and certain disease. reactions were performed by DNA thermal cycler (Master Cycler
They occur at a specific position in the genome and have a significant Gradient; Eppendorf Co, Germany) in a final volume of 15 µl. This vol
frequency (≥1%) in the human population. A missense mutation is a ume included 2 µl of genomic DNA (~20 ng), 8 µl of Master Mix (1X),
type of SNP which changes the coding region of a particular gene to 0.3 µl of each primer (~0.2 pmol) and 4.4 µl of ddH2O. All of PCR re
replace one amino acid with another in a polypeptide chain (Sukhum agents prepared from SinaClon Co, Iran.
sirichart, 2018). COL2A1-G1405S genotyping was performed by polymerase chain
Due to the role of COL2A1 in chondrocytes differentiation and ulti reaction-restriction fragment length polymorphism (PCR-RFLP)
mately endochondral ossification, the aim of this study is to select an method. Ten microliters of the PCR product digested with 1 U Pvu II
effective missense SNP and investigate its association with mandibular restriction enzyme (5΄-CAG↓CTG; Jena Bioscience Co, Germany) and 1X
skeletal malocclusions in the population of Mazandaran (North Iran). buffer at 37 ◦ C incubation for 12 h. The digested fragments were elec
trophoresed in 1% agarose gel and stained with 1 μg/ml ethidium bro
2. Material and methods mide stock solution to detect of DNA bands with ultraviolet light (Green
& Sambrook, 2012). Direct sequencing of several PCR products (Gen
2.1. Sample collection and craniofacial measurements Fanavaran Co, Iran) was used to confirm the results of the PCR-RFLP
method.
Between January 2021 to February 2022, about 138 patients with
pleasant profile (suspected of skeletal Class I malocclusion), 128 patients 2.3. Statistical analysis
suspected of mandibular prognathism (skeletal Class III malocclusion)
and 114 patients suspected of mandibular retrognathism (skeletal Class The odds ratio was calculated with 95% confidence interval (95 %
II malocclusion) referred to Arash Orthodontic Clinic (Babol, Mazan CI) for different alleles and genotypes in all groups. Hardy Weinberg
daran province, Iran). None of these individuals had previously under equilibrium was also tested in both case and control groups. p-val
gone any orthodontic treatment and had no history of trauma or surgery ue< 0.05 was considered statistically significant. Data were analyzed
in the dentofacial region. Among these patients, 102 control samples using SPSS statistical software (ver. 16) and binary logistic regression
(mean age: 25.5 ± 13.5; 50 males and 52 females), 81 mandibular method.
prognathism samples (mean age: 25.5 ± 15.5; 41 males and 40 females)
and 82 mandibular retrognathism samples (mean age: 20.2 ± 9.0; 42 3. Results
males and 40 females) were screened based on cephalometric analysis
results. Lateral cephalometric radiograph tracing was performed for 3.1. Genotyping of samples
Steiner (SNA, SNB and ANB) and "Wits" appraisal to determine the type
of abnormalities in samples. The control group consisted of individuals The COL2A1-G1405S flanking fragments that amplified by PCR had
with SNA angle values within 82 ± 2 degrees (in patients with skeletal 616 base pairs/bp. In the presence of C or T nucleotide at the SNP site,
Class II malocclusion >84◦ and skeletal Class III malocclusion <80◦ ); the Pvu II restriction enzyme generates three (76, 184 and 356 bp) or
SNB angle values of 80 ± 2 degrees (in patients with skeletal Class II two (76 and 540 bp) fragments, respectively (Fig. 2A). The 76 bp frag
malocclusion contributed by mandibular retrognathism <78◦ and skel ment had no effect on genotyping and was not considered (Fig. 2B). The
etal Class III malocclusion contributed by mandibular prognathism PCR-RFLP results were confirmed by direct sequencing of PCR products
>82◦ ); and ANB angle values of 2 ± 2 degrees (in patients with skeletal (Fig. 2C & D).
Class II malocclusion >4◦ and skeletal Class III malocclusion <0◦ )
(Steiner, 1953). According to the "Wits" appraisal, its normal value is 1 3.2. Allelic and genotypic frequencies
mm in males and 0 in females (Jacobson, 2003). Values higher and
lower than this normal threshold represent patients with skeletal Class II The distributions of genotypes in all groups were in accordance with
and Class III malocclusions, respectively. All participants gave informed Hardy-Weinberg equilibrium. The frequencies of homozygous (CC) and
written consent and filled out questionnaires about their personal in heterozygous (CT) genotypes in the control group were 93.13% and
formation. Their gingival blood droplets were transferred to DNA 6.87%, respectively (Table 1). In the mandibular prognathism group,
banking card (Kawsar Biotech Co, Iran) using a pen grasp. This card is these frequencies were 87.66% for homozygotes and 12.34% for
2
A. Kalmari et al. Archives of Oral Biology 142 (2022) 105500
Fig. 1. Human COL2A1 gene is localized to chromosome band 12q13.11. The rs2070739 is located in exon 53 (mRNA/Protein accession number: NM_001844.5/
NP_001835.3 retrieved from NCBI database).
Fig. 2. PCR-RFLP and direct sequencing results. (A) A schematic representation indicating how the Pvu II restriction enzyme digests PCR products. (B) Restriction
digest pattern on the 1% agarose gel electrophoresis, which stained by Ethidium bromide, CC and CT lanes indicate genotypes, L= Marker DNA ladder. (C) Elec
tropherogram result of PCR product direct sequencing which showed CC genotype. (D) Electropherogram result of PCR product direct sequencing which showed
CT genotype.
heterozygotes. Also, in the mandibular retrognathism group, homozy www.uniprot.org/) showed that COL2A1-G1405S SNP leads to the
gotes and heterozygotes had 79.27% and 20.73% genotypic frequencies, substitution of Serine residue with Glycine in the fibrillar collagen NC1
respectively. In this study, no samples with TT genotype were observed. domain (Fig. 3A). This replacement according to HPOE tool results, can
According to the statistical results obtained in Table 1, there is no sig disturb NC1 domain and abolish its function (Fig. 3B1-B3).
nificant association between genotypes and alleles related to COL2A1-
G1405S and mandibular prognathism. On the other hand, a linkage 4. Discussion
was observed between the T-allele of COL2A1-G1405S (CT genotype: p-
value=0.008; T allele: p-value= 0.011) and mandibular retrognathism. Mandible is one of the 28 bones of the human skull that plays an
important role in mastication and normal speech articulation because
some of the facial muscles are attached to it (White et al., 2011).
3.3. Analysis of protein structure Overgrowth or undergrowth of this bone can lead to skeletal Class III or
Class II malocclusion, respectively (Morcos & Patel, 2007). Collagen
Analysis of COL2A1 protein sequence in UniProt database (https://
3
A. Kalmari et al. Archives of Oral Biology 142 (2022) 105500
Fig. 3. Schematic structure of COL2A1 sequence and HOPE results. (A) Complete protein sequence of human COL2A1 (accession number: NP_001835.3) which is
composed of 1487 amino acid residues. (B1-B3) Structural analysis in HOPE tool. (B1) Mutated residue is colored magenta and shown as small balls. (B2) Close-up of
the rs2070739 SNP; The protein is colored grey, the side chains of both the wild-type and the mutant residue are shown and colored green and red respectively. (B3)
Close-up of the rs2070739 SNP (seen from a different angle).
4
A. Kalmari et al. Archives of Oral Biology 142 (2022) 105500
play an effective role in skeletal Class III malocclusion contributed by Author agreement
mandibular prognathism. On the other hand, the results showed that the
T-allele of COL2A1-G1405S can cause mandibular retrognathism (As All authors gave final approval and agree to be accountable for all
shown in Table 1: CT genotype: p-value= 0.008; T allele: p-value= aspects of the work.
0.011). This SNP may enhance the interaction of COL2A1 with ITGB1 by
altering the NC1 domain structure. As a result of this increased inter References
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The authors would like to thank Mr Mohammadkazem Heydari (PhD ar2896
candidate from University of Mazandaran, Iran) for his assistance in White, T. D., Black, M. T., & Folkens, P. A. (2011). Human osteology. . Academic Press.
Xue, F., Rabie, A. B. M., & Luo, G. (2014). Analysis of the association of COL2A1 and IGF-
some data curation and analysis; Dr. Parsa Nouri Delavar (from Babol 1 with mandibular prognathism in a Chinese population. Orthodontics & Craniofacial
University of Medical Sciences, Iran) and Dr. Mohammad Sadeghi (from Research, 17(3), 144–149. https://doi.org/10.1111/ocr.12038
Hormozgan University of Medical Sciences, Iran) for their cooperation
in tracing of lateral cephalometric radiograph.