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October-December 2013
Volume 19 | Issue 4
Page Nos. 381-513
Online since Saturday, January 04, 2014
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EDITORIAL
Innumerable studies on single nucleotide polymorphisms: What could be its utility?
p. 381
K Ghosh, Ajit Gorakshakar
DOI
:10.4103/0971-6866.124354
PMID
:24497699
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REVIEW ARTICLES
Epigenetics in the nervous system: An overview of its essential role
p. 384
Bhavya Ravi, Manoj Kannan
DOI
:10.4103/0971-6866.124357
PMID
:24497700
The role that epigenetic mechanisms play in phenomena such as cellular differentiation during embryonic development, X chromosome inactivation, and cancers is well-characterized. Epigenetic mechanisms have been implicated to be the mediators of several functions in the nervous system such as in neuronal-glial differentiation, adult neurogenesis, the modulation of neural behavior and neural plasticity, and also in higher brain functions like cognition and memory. Its particular role in explaining the importance of early life/social experiences on adult behavioral patterns has caught the attention of scientists and has spawned the exciting new field of behavioral epigenetics which may hold the key to explaining many complex behavioral paradigms. Epigenetic deregulation is known to be central in the etiology of several neuropsychiatric disorders which underscore the importance of understanding these mechanisms more thoroughly to elucidate novel and effective therapeutic approaches. In this review we present an overview of the findings which point to the essential role played by epigenetics in the vertebrate nervous system.
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ORIGINAL ARTICLES
Genetic variants in the cytochrome P450 2D6 gene in the Sri Lankan population
p. 392
T. D. Praveen Tharanga, C. M. V. Jinadasa, MF Risama, Priyadarshani Galappatthy, RL Jayakody, Vajira H. W. Dissanayake
DOI
:10.4103/0971-6866.124361
PMID
:24497701
Introduction:
Cytochrome P450 2D6 (CYP2D6) enzymes are involved in the metabolism of a large number of commonly prescribed drugs such as antidepressants and cardiovascular drugs. The CYP2D6 *3, *4 and *14 variants associated with the loss of enzyme function; CYP2D6 *10 and *17 variants with reduced enzyme function; and CYP2D6 *2 variant with no effect on enzyme function. Establishing the frequency of these variant alleles in Sri Lankan population would be useful for optimizing pharmacotherapy with CYP2D6-substrate drugs.
Objective:
The objective of this study was to determine the prevalence of CYP2D6 *2, *3, *4, *10, *14 and *17 variants in the main ethnic groups in the Sri Lankan population.
Materials and Methods:
A total of 90 deoxyribonucleic acid (DNA) samples (30 each from Sinhalese, Tamils and Moors) were selected from a DNA resource at the Human Genetic Unit, Faculty of Medicine, University of Colombo. This collection had been made for population genetic studies from a random population based volunteers. Genotyping was performed using published polymerase chain reaction/restriction fragment length polymorphism methods.
Results:
The prevalence of the CYP2D6 variants in Sinhalese, Sri Lankan Tamils and Moors respectively were CYP2D6 *2: 37%, 41.6% and 37.9%; CYP2D6 *3: 60.3%, 45% and 30%; CYP2D6 *4: 21.6%, 6.6% and 8.3%; CYP2D6 *10: 40%, 35% and 44%. CYP2D6 *14 and *17 variants were not identified.
Conclusion:
CYP2D6 *3, *4 and *10 variants, which are associated with reduced or loss of CYP2D6 enzyme function were found in our population in significant frequencies. CYP2D6*4, which is reported to be a Caucasian variant was also found in all three ethnic groups.
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Deoxyribonucleic acid damage study in primary amenorrhea by comet assay and karyotyping
p. 397
Sarah Ramamurthy, Parkash Chand, Latha Chaturvedula, K Ramachandra Rao
DOI
:10.4103/0971-6866.124363
PMID
:24497702
Aim:
This study aims at evaluating the chromosomal abnormalities and deoxyribonucleic acid (DNA) damage in cases with primary amenorrhea by karyotyping and comet assay.
Study Design:
A total of 30 cases of primary amenorrhea were recruited. Secondary sexual characters were assessed by Tanner staging. Chromosomal analysis was performed by conventional phytohemagglutinin stimulated lymphocyte cell culture technique. Alkaline version of comet assay was used to evaluate DNA damage.
Results:
The chromosomal pattern of 20 subjects (66.7%) was found to be normal (46,XX). Two subjects had 46,XY pattern and eight subjects had Turner syndrome (45,X or 45,X/46,XX). The comet parameters were found to be increased among subjects with 45,X monosomy, when compared to the rest of the study group and also in subjects with Tanner stage 1 when compared to stage 2.
Conclusion:
Comet assay revealed increased DNA damage in cases with 45,X monosomy, compared with subjects with 46,XX and 46,XY karyotype, which correlated with clinical features.
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Protein tyrosine phosphatase non-receptor type 22 gene polymorphism C1858T is not associated with leprosy in Azerbaijan, Northwest Iran
p. 403
Mohammad Reza Aliparasti, Shohreh Almasi, Jafar Majidi, Fatemeh Zamani, Ali Reza Khoramifar, Ali Reza Farshi Azari
DOI
:10.4103/0971-6866.124365
PMID
:24497703
Background:
Leprosy (Hansen's disease) is a human chronic granulomatous infectious disease caused by
Mycobacterium leprae
. Several types of study support a role for host genetics in susceptibility to leprosy. The protein tyrosine phosphatase non-receptor type 22 (PTPN22) gene encodes an intracellular lymphoid protein tyrosine phosphatase that has been shown to play a negative regulatory role in T-cell activation.
Aims:
The aim of the present study was to find out associating the PTPN22 C1858T (R620W) polymorphism and leprosy in the Azeri population from Northwest Iran.
Materials and Methods:
A total of 153 treated leprosy patients and 197 healthy and ethnic matched controls entered this study. We used restriction fragment length polymorphism method to type PTPN22 C1858T polymorphism.
Results:
There was no significant difference in distribution of genotype and allele frequencies of PTPN22 C1858T polymorphism between leprosy patients and controls (
P
= 0.641 and 0.645; respectively). Moreover, there was no significant association between different clinical findings (karnofsky performance status score, clinical forms and manifestations of leprosy) and PTPN22 C1858T polymorphism. Data showed a low frequency of the minor (T) allele by 2.3% in leprosy and 1.5% in healthy individuals.
Conclusions:
The PTPN22 C1858T (R620W) is not relevant in susceptibility to leprosy in the Azeri population of Northwest Iran.
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Genetic polymorphisms of estrogen receptor alpha and catechol-
O
-methyltransferase genes in Turkish patients with familial prostate carcinoma
p. 408
Ayfer Pazarbasi, M Bertan Yilmaz, Davut Alptekin, Umit Luleyap, Zuhtu Tansug, Lutfiye Ozpak, Muzeyyen Izmirli, Dilge Onatoglu-Arikan, Sabriye Kocaturk-Sel, Mehmet Ali Erkoc, Ozgur Turgut, Ceyhun Bereketoglu, Erdal Tunc, Eylul Akbal
DOI
:10.4103/0971-6866.124366
PMID
:24497704
Objectives:
Estrogen is one of the most crucial hormones participating in the proliferation and carcinogenesis of the prostate glands. Genetic polymorphisms in the estrogen metabolism pathway might be involved in the risk of prostate carcinoma development. We evaluated the association between genetic polymorphisms in estrogen receptor alpha (
ESR1
) and catechol-
O
-methyltransferase (
COMT
) genes and the risk of developing familial prostate carcinoma.
Materials and Methods:
In this study, 34 cases with prostate carcinoma whose first-degree relatives had prostate carcinoma and 30 healthy age-matched male controls were enrolled. The genotypes of
ESR1
and
COMT
genes were analyzed employing polymerase chain reaction-restriction fragment length polymorphism method. 34 cases with prostate carcinoma, whose first degree relatives had prostate carcinoma and 14 age-matched male controls were enrolled to analyze the genotype of these two genes.
Results:
Among control patients, the
ESR1
Pvu
II genotypes of C/C, C/T and T/T were observed in 37%, 26% and 37%, respectively, whereas the C/C, C/T and T/T genotypes were observed in 18%, 41% and 41% of case patients, respectively. Among controls, the
ESR1
Pvu
II allele frequencies of C and T were equally observed, whereas the C and T allele frequencies were observed in 38% and 62% of patients, respectively. Among
ESR1
Pvu
II genotypes there were not any significant difference in terms of genotype (
P
= 0.199) and allele (
P
= 0.181) frequencies
.
Among controls, the
ESR1 XbaI
genotypes of G/G, G/A and A/A were observed in 33%, 37% and 33%, respectively, whereas the G/G, G/A and A/A genotypes were observed in 12%, 47% and 41% of patients, respectively. Among controls, the
ESR1 XbaI
allele frequencies of A and G were observed equally, respectively, whereas the A and G frequencies were observed in 65% and 35% of patients, respectively. Among
ESR1 Χ baI,
there was not any significant difference in terms of genotype (
P
= 0.111) and allele (
P
= 0.093) frequencies. But the C/C genotype of the
Pvu
II site and G/G genotype of the
XbaI
site in the
ESR1
gene were associated significantly with the risk of developing prostate carcinoma. The G/G, G/A and A/A genotypes of the
COMT
gene were observed in 50%, 29% and 21% of control patients and in 53%, 21% and 26% of case patients, respectively. The A and G allele frequencies of the
COMT
gene were observed in 36.7%, 63.3% of control patients and in 36.8%, 63.2% of case patients, respectively. In
COMT
gene
,
there was not any significant difference in terms of genotype (
P
= 0.843) and allele (
P
= 0.991) frequencies
.
But the G/A genotype of the
COMT
gene had a weak tendency toward increased risk.
Conclusion:
Polymorphisms of
ESR1
gene in the estrogen metabolism pathway were associated significantly with familial prostate carcinoma risk. Single nucleotide polymorphisms of low-penetrance genes are targets for understanding the genetic susceptibility of familial prostate carcinoma.
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Prevalence of methylenetetrahydrofolate reductase 677 C-T polymorphism among mothers of Down syndrome children
p. 412
Anupam Kaur, Amandeep Kaur
DOI
:10.4103/0971-6866.124368
PMID
:24497705
Introduction:
The relationship between chromosomal non-disjunction leading to aneuploidy and folate metabolism has drawn attention in the recent years. In this study, we examined the polymorphism in the gene encoding the folate metabolizing enzyme methylenetetrahydrofolate reductase (MTHFR), namely, 677 C-T in women having Down syndrome (DS) children.
Materials and Methods:
The prevalence of these variant genotypes (MTHFR 677 C-T polymorphism) in women having DS children (case mothers) (
n
= 110) was compared with controls (
n
= 111) from Punjab. Genotyping was done using the polymerase chain reaction method followed by restriction fragment length polymorphism.
Results:
In the present study, 1.8% of case mothers had TT genotype while none of the control mothers showed this genotype. T allele frequency among cases was 0.13 and 0.11 in controls. The Chi-square value showed a non-significant difference between cases and controls.
Conclusion:
No association has been observed between 677 C-T polymorphism and risk of non-disjunction in case mothers. Detection of polymorphisms in more genes of folate pathway is required to find out the exact cause of non-disjunction.
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Chromosomal abnormalities in couples with repeated fetal loss: An Indian retrospective study
p. 415
Frenny J Sheth, Thomas Liehr, Pritti Kumari, Ralph Akinde, Harsh J Sheth, Jayesh J Sheth
DOI
:10.4103/0971-6866.124369
PMID
:24497706
Background:
Recurrent pregnancy loss is a common occurrence and a matter of concern for couples planning the pregnancy. Chromosomal abnormalities, mainly balanced rearrangements, are common in couples with repeated miscarriages.
Purpose:
The purpose of this study is to evaluate the contribution of chromosomal anomalies causing repeated spontaneous miscarriages and provide detailed characterization of a few structurally altered chromosomes.
Materials and Methods:
A retrospective cytogenetic study was carried out on 4859 individuals having a history of recurrent miscarriages. The cases were analyzed using G-banding and fluorescence
in situ
hybridization wherever necessary.
Results:
Chromosomal rearrangements were found in 170 individuals (3.5%). Translocations were seen in 72 (42.35%) cases. Of these, reciprocal translocations constituted 42 (24.70%) cases while Robertsonian translocations were detected in 30 (17.64%) cases. 7 (4.11%) cases were mosaic, 8 (4.70%) had small supernumerary marker chromosomes and 1 (0.6%) had an interstitial microdeletion. Nearly, 78 (1.61%) cases with heteromorphic variants were seen of which inversion of Y chromosome (57.70%) and chromosome 9 pericentromeric variants (32.05%) were predominantly involved.
Conclusions:
Chromosomal analysis is an important etiological investigation in couples with repeated miscarriages. Characterization of variants/marker chromosome enable calculation of a more precise recurrent risk in a subsequent pregnancy thereby facilitating genetic counseling and deciding further reproductive options.
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Distribution and genotype frequency of the C1431T and pro12ala polymorphisms of the peroxisome proliferator activator receptor gamma gene in an Iranian population
p. 423
Hassan Rooki, Monir-Sadat Haerian, Pedram Azimzadeh, Mahmoud Ebrahimi, Reza Mirhafez, Gordon Ferns, Majid Ghayour-Mobarhan, Mohammad-Reza Zali
DOI
:10.4103/0971-6866.124370
PMID
:24497707
Background:
Peroxisome proliferator activator receptor gamma (PPARγ) is a nuclear transcription factor regulating multiple genes involved in cell growth, differentiation, carbohydrate and lipid metabolism and energy production. Several genetic variations in the PPARγ gene have been identified to be associated with diabetes, obesity, dyslipidemia, insulin resistance, metabolic syndrome and coronary artery disease. The present study was designed to explore the distribution of two common single nucleotide polymorphisms of the PPARγ gene (C1431T and Pro12Ala) in an Iranian population.
Materials and Methods:
Genotype frequencies for these two polymorphisms were compared for 160 healthy Iranian individuals with reports from other populations. The Genotyping was performed using real-time polymerase chain reaction.
Results:
The genotype distribution of the C1431T PPARγ polymorphism was 0.869 for the CC genotype, 0.119 for the CT genotype and 0.013 for uncommon TT genotype. Allelic frequencies were 0.93 for C and 0.07 for T allele respectively. For the Pro12Ala polymorphism of PPARγ gene, genotypic distributions and allelic frequencies were, 0.813 for CC, 0.181 for CG and 0.06 for GG and 0.903 for C and 0.097 for G respectively. Allelic and genotypic frequencies for both polymorphisms of PPARγ gene were in Hardy-Weinberg equilibrium.
Conclusions:
Iran is a country with an ethnically diverse population and a comparison of allelic and genotypic frequencies of PPARγ C1431T and Pro12Ala polymorphisms between our population and others showed significant differences.
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Promoter variants in interleukin-6 and tumor necrosis factor alpha and risk of coronary artery disease in a population from Western India
p. 430
Aparna A Bhanushali, BR Das
DOI
:10.4103/0971-6866.124371
PMID
:24497708
Introduction:
A central component of the atherosclerotic process is inflammation. Single nucleotide polymorphisms (SNPs) present in the promoter region of various cytokines can lead to altered levels of the transcript and a state of low-grade inflammation exacerbating the risk of coronary artery disease (CAD). The present work tries to understand the role of permissive promoter variants in the interleukin-6 gene (IL-6-174G/C) and the tumor necrosis factor alpha (TNFα-308G/A) in the causation of CAD and also dyslipidemia.
Materials and Methods:
Genotyping was conducted on 100 cases of CAD and 150 controls by the allele termination assay SNaPshot. Biochemical parameters were determined by routine enzymatic endpoint methods. The results were analyzed by appropriate statistical methods.
Results:
No differences in the minor allele frequency IL-6-174G/C SNP were seen between cases and controls (0.13 vs. 0.12). The differences in the allele frequency of TNFα-308A between cases (6%) and controls (2%) have led to an odds ratio, 3.370; 95% confidence interval, 1.039-11.543;
P=0.033
in the univariate analysis. In the final logistic regression analysis, however none of the variants were associated with an increased risk of CAD.
Conclusions:
In summary, no association of the permissive promoter variants in the IL-6 gene and the TNFα gene were seen with an increased CAD risk. These and other studies highlight the importance of doing population specific studies.
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Mutation analysis of mitogen activated protein kinase 1 gene in Indian cases of 46,XY disorder of sex development
p. 437
Dhanjit Kumar Das, Subodh G Rahate, Bhakti P Mehta, Harshavardhan M Gawde, Parag M Tamhankar
DOI
:10.4103/0971-6866.124372
PMID
:24497709
Background:
Determination of sex is the result of cascade of molecular events that cause undifferentiated bipotential gonad to develop as a testis or an ovary. A series of genes such as
SRY
, steroidogenic factor-1 (
SF1
),
AR
, SRD5 α, Desert hedgehog (
DHH
) etc., have been reported to have a significant role in development of sex in the fetus and secondary sexual characteristics at the time of puberty. Recently, mitogen activated protein kinase kinase kinase 1 (
MAP3K1
) gene was found to be associated with 46, XY disorders of sex development (DSD).
Aim:
The present study is focused to identify mutations in
MAP3K1
gene in the cohort of 10 Indian patients with 46,XY DSD including one family with two affected sisters. These patients were already screened for
SRY
,
SF1
and
DHH
gene, but no mutation was observed in any of these genes.
Materials and Methods:
The entire coding regions of
MAP3K1
were amplified and sequenced using the gene specific primers.
Results and Discussions:
Sequence analysis of
MAP3K1
gene has revealed four variants including one missense, two silent and one deletion mutation. The missense mutation p.D806N was observed in four patients with hypospadias. Two patients showed the presence of silent mutation p.Q1028Q present in exon 14. Another silent mutation p.T428T was observed in a patient with gonadal dysgenesis. We have also observed one deletion mutation p. 942insT present in two patients. The pathogenicity of the missense mutation p.D806N was carried out using
in-silico
approach. Sequence homology analysis has revealed that the aspartate at 806 was found to be well-conserved across species, indicated the importance of this residue. The score for polyphen analysis of this mutation was found to be 0.999 indicating to be pathogenic mutation. Since, p.D806N mutation was found to be important residue; it might contribute to sexual development. We have reported the presence of mutations/polymorphism in
MAP3K1
gene. All the mutations were found to be polymorphism upon comparing to single nucleotide polymorphism database. However,
in-silico
analysis of the missense mutation revealed to be a pathogenic mutation.
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Genomic characterization of some Iranian children with idiopathic mental retardation using array comparative genomic hybridization
p. 443
Farkhondeh Behjati, Saghar Ghasemi Firouzabadi, Roxana Kariminejad, Roshanak Vameghi, Firouzeh Sajedi, Yousef Shafaghati, Behruz Ebrahimizade Ghasemlou, Azadeh Shojaei, Peyman Jamali, Ideh Bahman, Hossein Najmabadi
DOI
:10.4103/0971-6866.124373
PMID
:24497710
Background:
Mental retardation (MR) has a prevalence of 1-3% and genetic causes are present in more than 50% of patients. Chromosomal abnormalities are one of the most common genetic causes of MR and are responsible for 4-28% of mental retardation. However, the smallest loss or gain of material visible by standard cytogenetic is about 4 Mb and for smaller abnormalities, molecular cytogenetic techniques such as array comparative genomic hybridization (array CGH) should be used. It has been shown that 15-25% of idiopathic MR (IMR) has submicroscopic rearrangements detectable by array CGH. In this project, the genomic abnormalities were investigated in 32 MR patients using this technique.
Materials and Methods:
Patients with IMR with dysmorphism were investigated in this study. Karyotype analysis, fragile X and metabolic tests were first carried out on the patients. The copy number variation was then assessed in a total of 32 patients with normal results for the mentioned tests using whole genome oligo array CGH. Multiple ligation probe amplification was carried out as a confirmation test.
Results:
In total, 19% of the patients showed genomic abnormalities. This is reduced to 12.5% once the two patients with abnormal karyotypes (upon re-evaluation) are removed.
Conclusion:
The array CGH technique increased the detection rate of genomic imbalances in our patients by 12.5%. It is an accurate and reliable method for the determination of genomic imbalances in patients with IMR and dysmorphism.
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Mutational identification of fibroblast growth factor receptor 1 and fibroblast growth factor receptor 2 genes in craniosynostosis in Indian population
p. 449
Rajeev Kumar Pandey, Minu Bajpai, Abid Ali, Sukanya Gayan, Amit Singh
DOI
:10.4103/0971-6866.124374
PMID
:24497711
Objective:
The Objective of this study was to identify the association of mutation of fibroblast growth factor receptor 1 (FGFR1), FGFR2 genes with syndromic as well as non-syndromic craniosynostosis in Indian population.
Materials and Methods:
Retrospective analysis of our records from January 2008 to December 2012 was done. A total of 41 cases satisfying the inclusion criteria and 51 controls were taken for the study. A total volume of 3 ml blood from the patient as well as parents was taken. Deoxyribonucleic acid extracted using phenol chloroform extraction method followed by polymerase chain reaction-restriction fragment length polymorphism method.
Results:
There were 33 (80.4%) non-syndromic cases of craniosynostosis while 8 (19.5%) were syndromic. Out of these 8 syndromic cases, 4 were Apert syndrome, 3 were Crouzon syndrome and 1 Pfeiffer syndrome. Phenotypically the most common non-syndromic craniosynostosis was scaphocephaly (19, 57.7%) followed by plagiocephaly in (14, 42.3%). FGFR1 mutation (Pro252Arg) was seen in 1 (2.4%) case of non-syndromic craniosynostosis while no association was noted either with FGFR1 or with FGFR2 mutation in syndromic cases. None of the control group showed any mutation.
Conclusion:
Our study proposed that FGFR1, FGFR2 mutation, which confers predisposition to craniosynostosis does not exist in Indian population when compared to the western world.
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The proportion of tetrahydrobiopterin deficiency and PAH gene deficiency variants among cases with hyperphenyalaninemia in Western Iran
p. 454
Keyvan Moradi, Reza Alibakhshi, Shohreh Khatami
DOI
:10.4103/0971-6866.124375
PMID
:24497712
Background:
Defects either in phenylalanine hydroxylase (PheOH) or in the production and recycling of its cofactor (tetrahydrobiopterin [BH4]) are the causes of primary hyperphenylalaninemia (HPA). The aim of our study was to investigate the current status of different variants of HPA Kurdish patients in Kermanshah province, Iran.
Materials and Methods:
From 33 cases enrolled in our study, 32 were identified as HPA patients. Reassessing of pre-treatment phenylalanine concentrations and the analysis of urinary pterins was done by high-performance liquid chromatography method.
Results:
A total of 30 patients showed PAH deficiency and two patients were diagnosed with BH4 deficiency (BH4/HPA ratio = 6.25%). Both of these two BH4-deficient patients were assigned to severe variant of dihydropteridine reductase (DHPR) deficiency. More than 75% of patients with PAH deficiency classified as classic phenylketonuria (PKU) according their levels of pre-treatment phenylalanine concentrations.
Conclusion:
Based on the performed study, we think that the frequency of milder forms of PKU is higher than those was estimated before and/or our findings here. Furthermore, the frequency of DHPR deficiency seems to be relatively high in our province. Since the clinical symptoms of DHPR deficiency are confusingly similar to that of classic PKU and its prognosis are much worse than classical PKU and cannot be solely treated with the PKU regime, our pilot study support that it is crucial to set up screening for BH4 deficiency, along with PAH deficiency, among all HPA patients diagnosed with HPA.
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Msx1 Gene Variant - its Association in Isolated Hypodontia: A Case Control Genetic study!!!
p. 459
Naveen Admala Reddy, Gopinath Adusumilli, Raghu Devanna, Rohra G Mayur, Saravanan Pichai, Sharmila Arujnan
DOI
:10.4103/0971-6866.124376
PMID
:24497713
Introduction:
Non-syndromic tooth agenesis is a congenital anomaly with significant medical, psychological, and social ramifications. There is sufficient evidence to hypothesize that locus for this condition can be identified by candidate genes.
Aim of the Study:
The aim of this study was to test whether MSX1 671 T > C gene variant was involved in etiology of non-syndromic tooth agenesis in Raichur patients.
Materials and Methods:
Blood samples were collected with informed consent from 50 subjects having non-syndromic tooth agenesis and 50 controls. Genomic deoxyribonucleic acid (DNA) was extracted from the blood samples, polymerase chain reaction (PCR) was performed, and restriction fragment length polymorphism (RFLP) was performed for digestion products that were evaluated.
Results:
The results showed positive correlation between MSX1671 T > C gene variant and non-syndromic tooth agenesis in Raichur patients.
Conclusion:
MSX1 671 T > C gene variant may be a good screening marker for non-syndromic tooth agenesis in Raichur patients.
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Analysis of association of TaqI VDR gene polymorphism with the chronic periodontitis in Dravidian ethnicity
p. 465
Gurumoorthy Kaarthikeyan, ND Jayakumar, O Padmalatha, Sheeja Varghese, B Anand
DOI
:10.4103/0971-6866.124377
PMID
:24497714
Aim:
The aim of this study is to analyze the association of TaqI vitamin D receptor (VDR) gene polymorphism with the chronic periodontitis (CP) in Dravidian ethnicity.
Materials and Methods:
A total of 120 subjects were recruited for this study, which included 60 CP and 60 healthy controls. TaqI VDR gene polymorphism was analyzed using specific primers and amplified by polymerase chain reaction (PCR) and visualized under 2% agarose gel.
Results:
Our study results showed that Tt and tt genotype had a higher frequency of occurrence in CP compared with controls. Similarly, t allele was found to be associated with CP.
Conclusion:
Our study concludes that TaqI VDR gene polymorphism is associated with CP in Dravidian ethnicity.
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CASE REPORTS
A rare anomaly of the foot presented as polydactyly
p. 469
Vikram Jeet Singh Dhingra, Ashish Kumar, Amit Mittal, Samita Gupta, Rikki Singal, Bir Singh, Chetan Dua
DOI
:10.4103/0971-6866.124378
PMID
:24497715
Presence of one or more digit is called as polydactyly and may manifest singly or with other genetic disorders. The frequency of polydactyly varies widely among populations. It can occur as an isolated condition or as a feature of a congenital condition. Polydactyly is a rare condition, but still rare is in form of triple great toes. We describe a case in a 4-year-old child diagnosed as triphalangism foot with no other obvious visible anomaly. Osteoplasty-combined surgery, which was ideal for anatomical reconstruction. In a 16-month follow-up period child recovered very well.
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Aromatase excess syndrome presenting with prepubertal gynecomastia in an Egyptian child with type 1 neurofibromatosis
p. 472
Kotb Abbass Metwalley, Hekma Saad Farghaly
DOI
:10.4103/0971-6866.124379
PMID
:24497716
A romatase excess syndrome (AEXS) is a rare autosomal dominant disorder characterized by prepubertal gynecomastia, it responds well to medical treatment. In the absence of prompt suspicion, it can expose the patient to the risk of unnecessary surgical intervention. Up to our best knowledge, the association between AEXS and neurofibromatosis type 1 (NF1) was not reported before. Here, we describe a AEXS presenting with prepubertal gynecomastia in an Egyptian child with NF1 that improved with aromatase inhibitors.
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Molecular characterization in a case of isolated growth hormone deficiency and further prenatal diagnosis of an unborn sibling
p. 475
Ruchi Nadar, Kavita Khatod, Nikhil Phadke, Chaitanya Datar, Sujata Vaidya, Anuradha Khadilkar, Vaman Khadilkar
DOI
:10.4103/0971-6866.124380
PMID
:24497717
Familial isolated growth hormone deficiency (GHD) type 1 is characterized by an autosomal recessive pattern of inheritance with varying degrees of phenotypic severity. We report a proband, with isolated GHD (IGHD) with very early growth arrest and undetectable levels of GH. Homozygous complete deletion of the
GH1
gene was identified by real-time/quantitative polymerase chain reaction (RT/q-PCR) and confirmed by an independent molecular genetic method; the multiplex ligation-dependent probe amplification (MLPA) technique. Prenatal diagnosis was offered for the subsequent pregnancy in the mother of our proband. Identical heterozygous deletion of the
GH1
gene was detected in both parents. The fetus had a similar homozygous deletion of the
GH1
gene. We thus report a unique case with a confirmed mutation in
GH1
gene in the proband followed by prenatal detection of the same mutation in the amniotic fluid which to our knowledge hitherto has not been documented from India.
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Double heterozygous hemoglobin Q India/hemoglobin D Punjab hemoglobinopathy: Report of two rare cases
p. 479
Deepti Mutreja, Seema Tyagi, Narender Tejwani, Jasmita Dass
DOI
:10.4103/0971-6866.124381
PMID
:24497718
Cation exchange high performance liquid chromatography (CE HPLC) provides an excellent tool for accurate and reliable diagnosis of various hemoglobin (Hb) disorders. HbQ India is a rare alpha chain variant that usually presents in the heterozygous state. Its presence in double heterozygous state with HbD Punjab is extremely rare. The double heterozygosity for α and β chain variants leads to formation of abnormal heterodimer hybrids, which can lead to diagnostic dilemmas. We report two rare cases of double heterozygous HbQ India/HbD Punjab where the hybrid Hb was seen to elute at retention time similar to HbC on CE HPLC. The first case had unconjugated hyperbilirubinemia at presentation; while, the second case was asymptomatic.
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An incidental case of dihydropyrimidine dehydrogenase deficiency: One case, multiple challenges
p. 483
Hamoud H Al Khallaf, Miao He, Angela Wittenauer, Elizabeth E Woolley, Mariagrazia Cunto, Muhammad Ali Pervaiz
DOI
:10.4103/0971-6866.124382
PMID
:24497719
Dihydropyrimidine dehydrogenase (DPD) deficiency is an autosomal recessive disorder that shows large phenotypical variability, ranging from no symptoms to intellectual disability, motor retardation, and convulsions. In addition, homozygous and heterozygous mutation carriers can develop severe 5-fluorouracil (5-FU) toxicity. The lack of genotype-phenotype correlation and the possibility of other factors playing a role in the manifestation of the neurological abnormalities, make the management and education of asymptomatic DPD individuals more challenging. We describe a 3-month-old baby who was incidentally found by urine organic acid testing (done as part of positive newborn screen) to have very high level of thymine and uracil, consistent with DPD deficiency. Since the prevalence of asymptomatic DPD deficiency in the general population is fairly significant (1 in 10,000), we emphasize in this case study the importance of developing a guideline in genetic counseling and patient education for this condition as well as other incidental laboratory findings.
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Dyschromatosis universalis hereditaria: Infrequent genodermatoses in India
p. 487
Hari Kishan Kumar Yadalla, Srivalli Pinninti, Anagha Ramesh Babu
DOI
:10.4103/0971-6866.124383
PMID
:24497720
Dyschromatosis universalis hereditaria (DUH) is a rare genodermatosis reported initially and mainly in Japan. However, subsequent cases have been reported from other countries. We report a case of DUH in a south Indian woman with a positive family history with cosmetic disfigurement and severe psychological impairment.
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A case report of ectopia cordis and omphalocele
p. 491
Amar M Taksande, Krishna Y Vilhekar
DOI
:10.4103/0971-6866.124384
PMID
:24497721
A rare congenital defect in fusion of the anterior chest wall resulting in an extrathoracic location of the heart. Cantrell's pentalogy is a congenital anomaly resulting from embryologic development defect and consists of the following: A deficiency of the anterior diaphragm, a midline supraumbilical abdominal wall defect, a defect in the diaphragmatic pericardium, congenital intracardiac abnormalities, and a defect of the lower sternum. Here we report a rare case of ectopic cordis with omphalocele.
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META ANALYSIS
Deoxyribonucleic acid repair gene X-ray repair cross-complementing group 1 polymorphisms and non-carcinogenic disease risk in different populations: A meta-analysis
p. 494
Bagher Larijani, Javad Mohammadi Asl, Abbas Keshtkar, Najmaldin Saki, Fatemeh Ardeshir Larijani, Fakher Rahim
PMID
:24497722
Purpose:
This study aims to assess a meta-analysis of the association of X-ray repair cross-complementing group 1 (XRCC1) polymorphisms with the risk of various non-carcinogenic diseases in different population.
Materials and Methods:
This meta-analysis was performed by critically reviewing reveals 38 studies involving 10043 cases and 11037 controls. Among all the eligible studies, 14 focused on Arg194Trp polymorphism, 33 described the Arg399Gln and three articles investigated on Arg280His. Populations were divided into three different ethnic subgroups include Caucasians, Asians and other (Turkish and Iranian).
Results:
Pooled results showed no correlation between Arg194Trp and non-carcinogenic disease. There was only weak relation in the recessive (odds ratio [OR] =1.11, 95% confidence interval [CI]: 0.86-1.44) model in Asian population and dominant (OR = 1.04, 95% CI: 0.66-1.63) model of other populations. In Arg399Gln polymorphism, there was no relation with diseases of interest generally. In the pooled analysis, there were weak relation in the dominant (OR = 1.08, 95% CI: 0.86-1.35) model of Asian population and quite well-correlation with recessive (OR = 1.49, 95% CI: 1.19-1.88), dominant (OR = 1.23, 95% CI: 0.94-1.62), and additive (OR = 1.23, 95% CI: 0.94-1.62) models of other subgroup. For Arg280His, there was a weak relation only in the dominant model (OR = 1.06, 95% CI: 0.74-1.51).
Conclusion:
The present meta-analysis correspondingly shows that Arg399Gln variant to be associated with increased non-carcinogenic diseases risk through dominant and recessive modes among Iranian and Turkish population. It also suggests a trend of dominant and recessive effect of Arg280His variant in all population and its possible protective effect on non-carcinogenic diseases.
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LETTERS TO THE EDITOR
Influenza A H1N1 hemagglutinin and human axon guidance proteins: Peptide sharing but not same epitopes
p. 512
Somsri Wiwanitkit, Viroj Wiwanitkit
DOI
:10.4103/0971-6866.124386
PMID
:24497723
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Deoxyribonucleic acid profiling in forensic dental identification
p. 513
Thorakkal Shamim
DOI
:10.4103/0971-6866.124387
PMID
:24497724
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© 2006 - Indian Journal of Human Genetics | Published by Wolters Kluwer -
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Online since 1
st
February, 2006