Journal Article

Autozygome and high throughput confirmation of disease genes candidacy

Abdulwahab, Firdous, Al-Owain, Mohammed, Alfadhel, Majid, Monies, Dorota, Maddirevula, Sateesh, Alzaidan, Hamad I., Goljan, Ewa, Patel, Nisha, Shaheen, Ranad, Al Muhaizea, Mohammad A., Alabbasi, Bashair Hamza, Almogarri, Ibrahim, Shamseldin, Hanan E., Al-Otaibi, Maha, Alhomaidi, Suzan, Samira, Menasria, Yamani, Suad Al, Ben-Omran, Tawfeg, Bubshait, Dalal K., Rahbeeni, Zuhair, Meyer, Brian F., Al-Qattan, Mohammad M., Abouelhoda, Mohamed, AlHashem, Amal, Tabarki, Brahim, AlShahwan, Saad, Jasser, Abdulla Al, Kayyali, Husam R., Seidahmed, Mohammed Zain, Alluhaydan, Iram, Al-Mureikhi, Mariam, Alameer, Seham, Al Tala, Saeed M., Alzahrani, Fatema, Salih, Mustafa A., Alkuraya, Fowzan S., Faden, Maha, Hashem, Mais, Alsaif, Hessa S., Balobaid, Ameera, Kurdi, Wesam, Chedrawi, Aziza, Kentab, Amal Y., El Khashab, Heba Y., Qari, Alya, Dabbagh, Omar, Ibrahim, Niema, Akleh, Hana

2019

Overview

Purpose Establishing links between Mendelian phenotypes and genes enables the proper interpretation of variants therein. Autozygome, a rich source of homozygous variants, has been successfully utilized for the high throughput identification of novel autosomal recessive disease genes. Here, we highlight the utility of the autozygome for the high throughput confirmation of previously published tentative links to diseases. Methods Autozygome and exome analysis of patients with suspected Mendelian phenotypes. All variants were classified according to the American College of Medical Genetics and Genomics guidelines. Results We highlight 30 published candidate genes ( ACTL6B , ADAM22 , AGTPBP1 , APC , C12orf4 , C3orf17 (NEPRO) , CENPF , CNPY3 , COL27A1 , DMBX1 , FUT8 , GOLGA2 , KIAA0556 , LENG8 , MCIDAS , MTMR9 , MYH11 , QRSL1 , RUBCN , SLC25A42 , SLC9A1 , TBXT , TFG , THUMPD1 , TRAF3IP2 , UFC1 , UFM1 , WDR81 , XRCC2 , ZAK ) in which we identified homozygous likely deleterious variants in patients with compatible phenotypes. We also identified homozygous likely deleterious variants in 18 published candidate genes ( ABCA2 , ARL6IP1 , ATP8A2 , CDK9 , CNKSR1 , DGAT1 , DMXL2 , GEMIN4 , HCN2 , HCRT , MYO9A , PARS2 , PLOD3 , PREPL , SCLT1 , STX3 , TXNRD2 , WIPI2 ) although the associated phenotypes are sufficiently different from the original reports that they represent phenotypic expansion or potentially distinct allelic disorders. Conclusions Our results should facilitate the timely relabeling of these candidate disease genes in relevant databases to improve the yield of clinical genomic sequencing.

• Publisher: Nature Publishing Group US,Elsevier Limited
• Subject: Biological Variation, Population - genetics / Biomedical and Life Sciences / Biomedicine / Child / Child, Preschool / Diagnosis / Diagnostic Techniques and Procedures / Disease / Disease - genetics / Female / Genetic Testing - standards / Genetic Variation / Genomics / Genomics - methods / Genotype / Heredity - genetics / High-Throughput Nucleotide Sequencing - methods / Homozygote / Human Genetics / Humans / Infant / Infant, Newborn / Laboratory Medicine / Male / Mutation / Phenotype / Sequence Analysis, DNA - methods / Whole genome sequencing