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Overweight condition and waist circumference and a candidate gene within the 12q24 locus.
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PMID:  23282078     Owner:  NLM     Status:  Publisher    
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ABSTRACT: AIMS: Obesity and obesity-associated phenotypes are linked to the chromosome12q24 locus, the non-insulin-dependent-diabetes 2 (NIDDM2) locus. The gene of proteasome modulator 9 (PSMD9) lies in the NIDDM2 region and is linked to type 2 diabetes (T2D) and microvascular and macrovascular complications of T2D.We aimed at studying whether the PSMD9 T2D risk single nucleotide polymorphisms (SNPs) IVS3+nt460, IVS3+nt437, and 197G are linked to obesity, overweight status and waist circumference.Methods and results: We screened 200 Italians T2D siblings/families for PSMD9 variants. Using Merlin software, we performed non-parametric linkage analysis to test for linkage with obesity and overweight condition and variance component analysis to test for linkage with waist circumference in our T2D siblings/families dataset.Our study shows that the PSMD9 SNP IVS3+nt460, IVS3+nt437, and 197G are in linkage with overweight condition and waist circumference in Italians. The statistical power tests performed via simulations on real data confirm that the results are not due to random chance. CONCLUSIONS: In summary, the linkage strategy using a homogeneous family/subject dataset can identify a gene contributing to a complex trait. PMSD9 may be at least one of the genes responsible for the linkage to obesity and obesity-associated phenotypes at the locus 12q24 in other populations.
Authors:
Claudia Gragnoli
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Publication Detail:
Type:  JOURNAL ARTICLE     Date:  2013-1-3
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Title:  Cardiovascular diabetology     Volume:  12     ISSN:  1475-2840     ISO Abbreviation:  Cardiovasc Diabetol     Publication Date:  2013 Jan 
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Created Date:  2013-1-3     Completed Date:  -     Revised Date:  -    
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Journal ID (nlm-ta): Cardiovasc Diabetol
Journal ID (iso-abbrev): Cardiovasc Diabetol
ISSN: 1475-2840
Publisher: BioMed Central
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Received Day: 19 Month: 12 Year: 2012
Accepted Day: 28 Month: 12 Year: 2012
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Electronic publication date: Day: 3 Month: 1 Year: 2013
Volume: 12First Page: 2 Last Page: 2
PubMed Id: 23282078
ID: 3583708
Publisher Id: 1475-2840-12-2
DOI: 10.1186/1475-2840-12-2

Overweight condition and waist circumference and a candidate gene within the 12q24 locus
Claudia Gragnoli123 Email: claudia.gragnoli@gmail.com
1Laboratory of Molecular Genetics of Complex and Monogenic Disorders, Department of Medicine and Cellular & Molecular Physiology and Biostatistics, M. S. Hershey Medical Center, Penn State University College of Medicine, Hershey, PA, USA
2Center for Biotechnology and Department of Biology, Temple University’s College of Science & Technology, Philadelphia, PA, USA
3Molecular Biology Laboratory, Bios Biotech Multi-Diagnostic Health Center, Rome, Italy

Introduction

Several groups reported linkage within the NIDDM2 (non-insulin-dependent diabetes mellitus) locus at chromosome 12q24 to T2D, obesity, central fat mass and waist circumference [1-8]. Within the 12q24 locus lies the gene of proteasome modulator 9 (PSMD9), a transcriptional regulator of the insulin gene, highly expressed in pancreatic islets [9]. PSMD9 is a ubiquitous protein of eukaryotic cells and part of the 26S proteasome complex, contributing to intracellular proteins degradation into antigenic peptides in the immune response to antigen presentation by MHC class I cells (http://www.genecards.org/cgi-bin/carddisp.pl?gene=PSMD9). PSMD9 may play a role in inflammation as part of the autoimmune process [10]. Further, PSMD9 regulates the transcription of the ligand-dependent retinoid-target genes (http://www.millipore.com/pathways/pathviewer.do?pathwayId=76). Since PSMD9 is a coactivator of insulin gene transcription [9], and in pancreatic overexpression of transgenic mice cause diabetes [11], PSMD9 variants may contribute to T2D as well as to obesity, overweight status and visceral obesity.

We reported that PSMD9 may rarely cause T2D by unique mutations [12] and that is linked to T2D [13], maturity-onset diabetes of the young 3 (MODY3) [14], T2D-microvascular [15-18] and T2D-macrovascular complications [19], hypercholesterolemia [20], hypertension [21], carpal tunnel syndrome [22], and depression [23]. Of note, the 12q24 locus is not only linked to T2D [24], macrovascular [25,26] and microvascular disease [27], but also to dyslipidemia [28], hypertension, obesity, [2], body mass index and C-reactive protein jointly [29], cat-specific IgE and total IgE in asthma [30], and most interestingly to bipolar disorder [31] and depression [32]. Also a recent study has reported that a deletion at the locus 12q24.33 is significantly correlated with height, suggesting that this locus is important in determining height and may contribute to height variation in human populations [33].

The aim of the present study is to identify whether PSMD9 IVS3+nt460, IVS3+nt437, and 197G single nucleotide polymorphisms (SNPs) may be linked to maximum lifetime obesity, maximum lifetime overweight status and visceral obesity measured by waist circumference in an Italian family dataset.


Methods
Ethics statement

The subjects were all recruited from center Italy following the Helsinki declaration guidelines. Subjects gave written informed consent and the Penn State College of Medicine Ethical Committee approved the study.

Families

We recruited 200 Italian T2D affected siblings and families. We excluded all families with identical twins and confirmed that at least three generations were Italian. Italians are a homogeneous population living in a peninsula and they are suitable for genetic studies due to lack of genetic admixture. This family dataset has helped studying and identifying T2D and MODY genes contributing to disease [34-48].

Clinical phenotyping

We characterized the Italian families for maximum lifetime body mass index [BMI=weight in Kg/(height in m)2], indicating as overweight those with maximum lifetime BMI ≥25 and as obese those with maximum lifetime BMI ≥30. We measured also the waist circumference in cm. BMI and waist circumference during pregnancy in females were not considered. Phenotypes are described as unknown if diagnosis is unclear because data are lacking. In our 200 Italian families, data are less than 100% for each phenotype.

Sequencing

Via PCR, we amplified with specific primers in the affected and unaffected family members the IVS3 PSMD9 region containing the +nt460 A/G and +nt437 C/T SNPs and the exon 5 coding region containing the E197G A/G SNP. We directly sequenced the PCR products, status post-purification via EXOSAP-IT on an automated ABI 3730 Sequencer.

Linkage analysis

We tested in the 200 Italians families for linkage of the PSMD9 SNPs with maximum lifetime obesity, maximum lifetime overweight condition and waist circumference.

The non-parametric linkage analysis for the qualitative phenotypes and the variance component analysis for the quantitative trait were performed by using Merlin software [49], calculating the allelic frequency from the total 200 genotyped families. Merlin analyzed all the informative families within this dataset. All results are reported as LOD scores calculated by Merlin.

Simulations

For each test performed, to exclude the presence of any results due to random chance, we calculated how many times similar P-values were expected by chance in 1,000 replicates of simulations by using the gene dropping method: this analysis replaces real data with simulated data, while maintaining the pedigree structure, allele frequencies and recombination fraction. These datasets are generated under the null hypothesis of no linkage.


Results

The results (LOD score, P-value and empirical P-value) of the non-parametric linkage analysis performed for the qualitative phenotypes overweight status and obesity are shown in Table 1.

The results of the variance component analysis performed for the quantitative trait waist circumference in cm with the LOD score, P-value, empirical P-value, trait heritability and trait heritability attributable to the SNPs under study are reported in Table 2.


Discussion

Our analyses show that the PSMD9 IVS3+nt460, IVS3+nt437, and 197G SNPs are in linkage with maximum lifetime overweight and with waist circumference, representing visceral obesity. Further, there is a trend towards linkage with obesity. The reduced number of families meeting the criteria for obesity may have reduced the power to detect linkage.

The 12q24.2 chromosome bears the NIDDM2 locus, the MODY3 gene HNF-1α, cause of T2D and MODY3, respectively. We previously reported that unique rare PSMD9 mutations contribute to T2D and that the IVS3+nt460, IVS3+nt437, and 197G SNPs are linked to T2D and MODY3 in our Italian dataset [12-14]. Of note, PSMD9 linkage to micro- and macro-vascular disease of T2D [15-19], hypercolesterolemia [20], hypertension [21] and depression [23] suggest a potential role in mediating an inflammatory response, which could explain the presence of linkage to the obesity-associated phenotypes.

Our results demonstrating the presence of linkage to overweight condition as well as to waist circumference are encouraging as the same locus is in linkage in other populations with obesity, central fat mass and waist circumference [1,2,8]. The data should be replicable in other ethnic groups and are of high interest to the groups who revealed linkage in the same locus, which may be explained by the PSMD9 variants.

In addition, we again prove the strength and validity of the linkage approach in identifying genes in complex disorders. In fact, family-based linkage studies are safer in their statistical nature compared to association studies. Also, we consider that the use of microsatellites as markers in the past may have negatively affected the results of the linkage, especially in polygenic diseases and with the use of affected siblings, as these markers may undergo duplications and mutations in vivo. In fact, previously we could not identify linkage with T2D at 12q24 using multiple highly informative and polymorphic microsatellites within the same family dataset (data not shown) in which the linkage was identified using SNPs [13]. Hence, SNP-based linkage studies are more reliable. Also, the family dataset should be ethnically homogenous to allow results to be revealed.

PSMD9 should be screened in other populations for mutations and common variants in families with obesity, overweight condition and visceral obesity.

Interestingly, the reported 12q24 locus linkage to cat-specific IgE and total IgE in asthma [30] could offer a possible explanation of the pleiotropic effects of such locus. In fact, the identified 12q24 linkage to multiple disorders including T2D [24], micro- and macrovascular disease [25-27], hypertension [2], body mass index and C-reactive protein [29], dyslipidemia [28], depression [32] and bipolar disorder [31] supports the idea that there could be a common underlying pathogenetic factor triggering the above-mentioned multiple disorders, such as an exaggerated inflammatory response or a deregulated autoimmune response leading to disease status. And this hypothesis fits well with the role of PSMD9 in the proteasome complex 26S processing the antigens for the immune response (http://www.genecards.org/cgi-bin/carddisp.pl?gene=PSMD9). PSMD9 may play an inflammatory role in autoimmunity [10] with pleiotropic effects. Of note, the finding that 12q24.33 deletion affects height [33] could represent an outcome of the inheritance of factors predisposing to pre-disease states and thus affecting adult final growth. In fact, height is inversely associated with cardiovascular disease [50] and cardiovascular risk factors, such as insulin resistance [51]. Thus, the 12q24 locus could bear the gene or genes contributing to waist circumference, insulin resistance, cardiovascular disease, depression and height determination. It would be of interest to study the role of PSMD9 in asthma and IgE-mediated disorders as well as in final adult height.


Competing interest

The author has not conflict of interest to declare.


Acknowledgments

Special thanks go to the Molecular Biology staff of Bios Biotech Multi-Diagnostic Health Center (Rome, Italy), which has provided technical as well as financial support for this study.

Funding

This work was supported by Penn State College of Medicine.


References
Cornes BK,Medland SE,Ferreira MA,Morley KI,Duffy DL,Heijmans BT,Montgomery GW,Martin NG,Sex-limited genome-wide linkage scan for body mass index in an unselected sample of 933 Australian twin familiesTwin Res Hum GenetYear: 2005861610.1375/twin.8.6.61616363087
Wilson SG,Adam G,Langdown M,Reneland R,Braun A,Andrew T,Surdulescu GL,Norberg M,Dudbridge F,Reed PW,Sambrook PN,Kleyn PW,Spector TD,Linkage and potential association of obesity-related phenotypes with two genes on chromosome 12q24 in a female dizygous twin cohortEur J Hum GenetYear: 20061434010.1038/sj.ejhg.520155116391564
Demenais F,Kanninen T,Lindgren CM,Wiltshire S,Gaget S,Dandrieux C,Almgren P,Sjogren M,Hattersley A,Dina C,Tuomi T,McCarthy MI,Froguel P,Groop LC,A meta-analysis of four European genome screens (GIFT Consortium) shows evidence for a novel region on chromosome 17p11.2-q22 linked to type 2 diabetesHum Mol GenetYear: 200312186510.1093/hmg/ddg19512874106
Shaw JT,Lovelock PK,Kesting JB,Cardinal J,Duffy D,Wainwright B,Cameron DP,Novel susceptibility gene for late-onset NIDDM is localized to human chromosome 12qDiabetesYear: 199847179310.2337/diabetes.47.11.17939792550
Wiltshire S,Frayling TM,Groves CJ,Levy JC,Hitman GA,Sampson M,Walker M,Menzel S,Hattersley AT,Cardon LR,McCarthy MI,Evidence from a large U.K. family collection that genes influencing age of onset of type 2 diabetes map to chromosome 12p and to the MODY3/NIDDM2 locus on 12q24DiabetesYear: 20045385510.2337/diabetes.53.3.85514988275
Reynisdottir I,Thorleifsson G,Benediktsson R,Sigurdsson G,Emilsson V,Einarsdottir AS,Hjorleifsdottir EE,Orlygsdottir GT,Bjornsdottir GT,Saemundsdottir J,Halldorsson S,Hrafnkelsdottir S,Sigurjonsdottir SB,Steinsdottir S,Martin M,Kochan JP,Rhees BK,Grant SF,Frigge ML,Kong A,Gudnason V,Stefansson K,Gulcher JR,Localization of a susceptibility gene for type 2 diabetes to chromosome 5q34-q35.2Am J Hum GenetYear: 20037332310.1086/37713912851856
Bowden DW,Sale M,Howard TD,Qadri A,Spray BJ,Rothschild CB,Akots G,Rich SS,Freedman BI,Linkage of genetic markers on human chromosomes 20 and 12 to NIDDM in Caucasian sib pairs with a history of diabetic nephropathyDiabetesYear: 19974688210.2337/diabetes.46.5.8829133559
Dong C,Li WD,Geller F,Lei L,Li D,Gorlova OY,Hebebrand J,Amos CI,Nicholls RD,Price RA,Possible genomic imprinting of three human obesity-related genetic lociAm J Hum GenetYear: 20057642710.1086/42843815647995
Thomas MKYK,Tenser MS,Wong GG,Habener JF,Bridge-1, a novel PDZ-domain coactivator of E2A-mediated regulation of insulin gene transcriptionMol Cell BiolYear: 199919849210567574
Wick G,Millonig G,Xu Q,The autoimmune pathogenesis of atherosclerosis-an evolutionary-Darwinian conceptAtherosclerosis and AutoimmunityYear: 2001Section V5
Volinic JL,Lee JH,Eto K,Kaur V,Thomas MK,Overexpression of the coactivator bridge-1 results in insulin deficiency and diabetesMol EndocrinolYear: 20062016716099819
Gragnoli C,Cronsell J,PSMD9 gene variants within NIDDM2 may rarely contribute to type 2 diabetesJ Cell PhysiolYear: 200721256857110.1002/jcp.2112717516568
Gragnoli C,PSMD9 gene in the NIDDM2 locus is linked to type 2 diabetes in ItaliansJ Cell PhysiolYear: 201022226510.1002/jcp.2195419877155
Gragnoli C,PSMD9 is linked to MODY3J Cell PhysiolYear: 2010223120069546
Gragnoli C,Proteasome modulator 9 is linked to microvascular pathology of T2DJ Cell PhysiolYear: 201222783116311810.1002/jcp.2306322015693
Gragnoli C,Proteasome Modulator 9 Gene is Linked to Diabetic and Non-Diabetic Retinopathy in T2DOphthalmic GenetYear: 2011 2011 Jul 5. [Epub ahead of print].
Gragnoli C,PSMD9 is linked to type 2 diabetes neuropathyJ Diabetes ComplicationsYear: 20112532910.1016/j.jdiacomp.2011.06.00321813292
Gragnoli C,T2D-nephropathy linkage within 12q24 locusDiabetes Res Clin PractYear: 201192e7310.1016/j.diabres.2011.02.02621439668
Gragnoli C,Proteasome modulator 9 and macrovascular pathology of T2DCardiovasc DiabetolYear: 2011103210.1186/1475-2840-10-3221496327
Gragnoli C,Hypercholesterolemia and a candidate gene within the 12q24 locusCardiovasc DiabetolYear: 2011103810.1186/1475-2840-10-3821554682
Gragnoli C,Proteasome modulator 9 SNPs are linked to hypertension in type 2 diabetes familiesCardiovasc DiabetolYear: 2011107710.1186/1475-2840-10-7721871126
Gragnoli C,Proteasome modulator 9 and carpal tunnel syndromeDiabetes Res Clin PractYear: 201194e4710.1016/j.diabres.2011.07.04021862167
Gragnoli C,Proteasome modulator 9 and depressionCurr Med ChemYear: 201219305178518010.2174/09298671280353059322934761
Mahtani MM,Widen E,Lehto M,Thomas J,McCarthy M,Brayer J,Bryant B,Chan G,Daly M,Forsblom C,Kanninen T,Kirby A,Kruglyak L,Munnelly K,Parkkonen M,Reeve-Daly MP,Weaver A,Brettin T,Duyk G,Lander ES,Groop LC,Mapping of a gene for type 2 diabetes associated with an insulin secretion defect by a genome scan in Finnish families [see comments]Nat GenetYear: 1996149010.1038/ng0996-908782826
Erdmann J,Grosshennig A,Braund PS,Konig IR,Hengstenberg C,Hall AS,Linsel-Nitschke P,Kathiresan S,Wright B,Tregouet DA,Cambien F,Bruse P,Aherrahrou Z,Wagner AK,Stark K,Schwartz SM,Salomaa V,Elosua R,Melander O,Voight BF,O’Donnell CJ,Peltonen L,Siscovick DS,Altshuler D,Merlini PA,Peyvandi F,Bernardinelli L,Ardissino D,Schillert A,Blankenberg S,Zeller T,Wild P,Schwarz DF,Tiret L,Perret C,Schreiber S,El Mokhtari NE,Schafer A,Marz W,Renner W,Bugert P,Kluter H,Schrezenmeir J,Rubin D,Ball SG,Balmforth AJ,Wichmann HE,Meitinger T,Fischer M,Meisinger C,Baumert J,Peters A,Ouwehand WH,Deloukas P,Thompson JR,Ziegler A,Samani NJ,Schunkert H,New susceptibility locus for coronary artery disease on chromosome 3q22.3Nat GenetYear: 20094128010.1038/ng.30719198612
Sherva R,Miller MB,Pankow JS,Hunt SC,Boerwinkle E,Mosley TH,Weder AB,Curb JD,Luke A,Morrison AC,Fornage M,Arnett DK,A whole-genome scan for stroke or myocardial infarction in family blood pressure program familiesStrokeYear: 200839111510.1161/STROKEAHA.107.49043318323513
Ikram MK,Xueling S,Jensen RA,Cotch MF,Hewitt AW,Ikram MA,Wang JJ,Klein R,Klein BE,Breteler MM,Cheung N,Liew G,Mitchell P,Uitterlinden AG,Rivadeneira F,Hofman A,de Jong PT,van Duijn CM,Kao L,Cheng CY,Smith AV,Glazer NL,Lumley T,McKnight B,Psaty BM,Jonasson F,Eiriksdottir G,Aspelund T,Harris TB,Launer LJ,Taylor KD,Li X,Iyengar SK,Xi Q,Sivakumaran TA,Mackey DA,Macgregor S,Martin NG,Young TL,Bis JC,Wiggins KL,Heckbert SR,Hammond CJ,Andrew T,Fahy S,Attia J,Holliday EG,Scott RJ,Islam FM,Rotter JI,McAuley AK,Boerwinkle E,Tai ES,Gudnason V,Siscovick DS,Vingerling JR,Wong TY,Four novel Loci (19q13, 6q24, 12q24, and 5q14) influence the microcirculation in vivoPLoS GenetYear: 20106e100118410.1371/journal.pgen.100118421060863
Aberg K,Dai F,Sun G,Keighley E,Indugula SR,Bausserman L,Viali S,Tuitele J,Deka R,Weeks DE,McGarvey ST,A genome-wide linkage scan identifies multiple chromosomal regions influencing serum lipid levels in the population on the Samoan islandsJ Lipid ResYear: 200849216910.1194/jlr.M800194-JLR20018594117
Wu J,Pankow JS,Tracy RP,North KE,Myers RH,Feitosa ME,Province MA,Borecki IB,QTL on 12q influencing an inflammation marker and obesity in white women: the NHLBI family heart studyObesity (Silver Spring)Year: 20091752510.1038/oby.2008.55619238141
Gusareva ES,Bragina EJ,Buinova SN,Chernyak BA,Puzyrev VP,Ogorodova LM,Lipoldova M,Chromosome 12q24.3 controls sensitization to cat allergen in patients with asthma from Siberia, RussiaImmunol LettYear: 2009125110.1016/j.imlet.2009.05.00319450622
Cassidy F,Zhao C,Badger J,Claffey E,Dobrin S,Roche S,McKeon P,Genome-wide scan of bipolar disorder and investigation of population stratification effects on linkage: support for susceptibility loci at 4q21, 7q36, 9p21, 12q24, 14q24, and 16p13Am J Med Genet B Neuropsychiatr GenetYear: 2007144B79110.1002/ajmg.b.3052417455214
Christiansen L,Tan Q,Kruse TA,McGue M,Christensen K,Candidate region linkage analysis in twins discordant or concordant for depression symptomatologyAm J Med Genet B Neuropsychiatr GenetYear: 2009150B58110.1002/ajmg.b.3084118698577
Kim YK,Moon S,Hwang MY,Kim DJ,Oh JH,Kim YJ,Han BG,Lee JY,Kim BJ,Gene-based copy number variation study reveals a microdeletion at 12q24 that influences height in the Korean populationGenomicsYear: 2012pii: S0888-754312002108
Gragnoli C,Cockburn BN,Chiaramonte F,Gorini A,Marietti G,Marozzi G,Signorini AM,Early-onset Type II diabetes mellitus in Italian families due to mutations in the genes encoding hepatic nuclear factor 1 alpha and glucokinaseDiabetologiaYear: 200144132610.1007/s00125010064411692182
Milord E,Gragnoli C,Chromosome 10 locus in linkage to type 2 diabetes in ItaliansObesity and MetabolismYear: 2007344
Godart F,Bellanne-Chantelot C,Clauin S,Gragnoli C,Abderrahmani A,Blanche H,Boutin P,Chevre JC,Froguel P,Bailleul B,Identification of seven novel nucleotide variants in the hepatocyte nuclear factor-1alpha (TCF1) promoter region in MODY patientsHum MutatYear: 20001517310.1002/(SICI)1098-1004(200002)15:2<173::AID-HUMU6>3.0.CO;2-W10649494
Gragnoli C,Menzinger Von Preussenthal G,Habener JF,Triple genetic variation in the HNF-4alpha gene is associated with early-onset type 2 diabetes mellitus in a philippino familyMetabolismYear: 20045395910.1016/j.metabol.2004.03.00315281001
Gragnoli C,Milord E,Habener JF,Linkage study of the glucagon receptor gene with type 2 diabetes mellitus in ItaliansMetabolismYear: 20055478610.1016/j.metabol.2005.01.02215931615
Gragnoli C,Stanojevic V,Gorini A,Von Preussenthal GM,Thomas MK,Habener JF,IPF-1/MODY4 gene missense mutation in an Italian family with type 2 and gestational diabetesMetabolismYear: 20055498310.1016/j.metabol.2005.01.03716092045
Milord E,Gragnoli C,NEUROG3 variants and type 2 diabetes in ItaliansMinerva MedYear: 20069737317146417
Meenakshisundaram R,Piumelli N,Pierpaoli L,Gragnoli C,CHOP 5′UTR-c.279 T>C and +nt30C>T variants are not associated with overweight condition or with tumors/cancer in Italians-a case-control studyJ Exp Clin Cancer ResYear: 2009289010.1186/1756-9966-28-9019558691
Meenakshisundaram R,Piumelli N,Pierpaoli L,Gragnoli C,CDK4 IVS4-nt40G–>A SNP and type 2 diabetes in ItaliansDiabetes Res Clin PractYear: 200986e2810.1016/j.diabres.2009.07.01219695727
Meenakshisundaram R,Gragnoli C,CDK4 IVS4-nt40G–>A and T2D-associated obesity in ItaliansJ Cell PhysiolYear: 200922127310.1002/jcp.2187419634152
Meenakshisundaram R,Gragnoli C,CDK4 IVS4-nt40 AA genotype and obesity-associated tumors/cancer in Italians - a case–control studyJ Exp Clin Cancer ResYear: 2009284210.1186/1756-9966-28-4219327170
Gragnoli C,CHOP T/C and C/T haplotypes contribute to early-onset type 2 diabetes in ItaliansJ Cell PhysiolYear: 200821729110.1002/jcp.2155318680108
Gragnoli C,Cronsell J,Meta-analysis of the IPF1 D76N polymorphism in a worldwide type 2 diabetes populationMinerva MedYear: 20079816317592437
Gragnoli C,Lindner T,Cockburn BN,Kaisaki PJ,Gragnoli F,Marozzi G,Bell GI,Maturity-onset diabetes of the young due to a mutation in the hepatocyte nuclear factor-4 alpha binding site in the promoter of the hepatocyte nuclear factor-1 alpha geneDiabetesYear: 199746164810.2337/diabetes.46.10.16489313764
Gragnoli C,Pierpaoli L,Piumelli N,Chiaramonte F,Linkage studies for T2D in Chop and C/EBPbeta chromosomal regions in ItaliansJ Cell PhysiolYear: 200721355210.1002/jcp.2113217620318
Abecasis GR,Cherny SS,Cookson WO,Cardon LR,Merlin–rapid analysis of dense genetic maps using sparse gene flow treesNat GenetYear: 2002309710.1038/ng78611731797
Williams SR,Jones E,Bell W,Davies B,Bourne MW,Body habitus and coronary heart disease in men. A review with reference to methods of body habitus assessmentEur Heart JYear: 19971837610.1093/oxfordjournals.eurheartj.a0152589076375
Smith GD,Greenwood R,Gunnell D,Sweetnam P,Yarnell J,Elwood P,Leg length, insulin resistance, and coronary heart disease risk: the Caerphilly StudyJ Epidemiol Community HealthYear: 20015586710.1136/jech.55.12.86711707479

Tables
[TableWrap ID: T1] Table 1 

Non-parametric linkage analysis of phenotypes of the 200 Italian families by Merlin software


Phenotype Prevalence Families Lod score P-value Empirical P-value
Overweight
85.20%
112
1.22
0.009
0.004
Obesity 47.50% 42 0.62 0.050 0.053

Prevalence = phenotype prevalence among the family subjects studied; Families = families number analyzed; Lod score = derived from the non-parametric linkage analysis by Merlin; Empirical P-value = derived from 1000 replicates by using the gene dropping method; Overweight = presence of BMI ≥25; Obesity = presence of BMI ≥30.


[TableWrap ID: T2] Table 2 

Variance component linkage analysis of the waist circumference in cm of the 200 Italian families by Merlin software


Quantitative trait Families Trait heritability Gene trait heritability Lod score P-value Empirical P-value
Waist in cm 108 50.66% 49.17% 0.93 0.020 0.023

Families = families number analyzed; Lod score = derived from the quantitative trait analysis by Merlin; Empirical P-value = derived from 1000 replicates by using the gene dropping method; Trait Heritability = Heritability of the quantitative trait calculated by Merlin; Trait Heritability attributable to the PSMD9 SNPs.



Article Categories:
  • Original Investigation

Keywords: PSMD9, SNP, Linkage, 12q24, Overweight, Waist.

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