TY - JOUR
T1 - Whole-exome sequencing reveals genetic variants associated with chronic kidney disease characterized by tubulointerstitial damages in North Central Region, Sri Lanka
AU - Nanayakkara, Shanika
AU - Senevirathna, Lalantha
AU - Parahitiyawa, Nipuna B
AU - Abeysekera, Tilak
AU - Chandrajith, Rohana
AU - Ratnatunga, Neelakanthi
AU - Hitomi, Toshiaki
AU - Kobayashi, Hatasu
AU - Harada, Kouji H
AU - Koizumi, Akio
N1 - Includes bibliographical references.
PY - 2015/6
Y1 - 2015/6
N2 - Objectives: The familial clustering observed in chronic kidney disease of uncertain etiology (CKDu) characterized by tubulointerstitial damages in the North Central Region of Sri Lanka strongly suggests the involvement of genetic factors in its pathogenesis. The objective of the present study is to use whole-exome sequencing to identify the genetic variants associated with CKDu. Methods: Whole-exome sequencing of eight CKDu cases and eight controls was performed, followed by direct sequencing of candidate loci in 301 CKDu cases and 276 controls. Results: Association study revealed rs34970857 (c.658G > A/p.V220M) located in the KCNA10 gene encoding a voltage-gated K channel as the most promising SNP with the highest odds ratio of 1.74. Four rare variants were identified in gene encoding Laminin beta2 (LAMB2) which is known to cause congenital nephrotic syndrome. Three out of four variants in LAMB2 were novel variants found exclusively in cases. Conclusion: Genetic investigations provide strong evidence on the presence of genetic susceptibility for CKDu. Possibility of presence of several rare variants associated with CKDu in this population is also suggested.
AB - Objectives: The familial clustering observed in chronic kidney disease of uncertain etiology (CKDu) characterized by tubulointerstitial damages in the North Central Region of Sri Lanka strongly suggests the involvement of genetic factors in its pathogenesis. The objective of the present study is to use whole-exome sequencing to identify the genetic variants associated with CKDu. Methods: Whole-exome sequencing of eight CKDu cases and eight controls was performed, followed by direct sequencing of candidate loci in 301 CKDu cases and 276 controls. Results: Association study revealed rs34970857 (c.658G > A/p.V220M) located in the KCNA10 gene encoding a voltage-gated K channel as the most promising SNP with the highest odds ratio of 1.74. Four rare variants were identified in gene encoding Laminin beta2 (LAMB2) which is known to cause congenital nephrotic syndrome. Three out of four variants in LAMB2 were novel variants found exclusively in cases. Conclusion: Genetic investigations provide strong evidence on the presence of genetic susceptibility for CKDu. Possibility of presence of several rare variants associated with CKDu in this population is also suggested.
KW - Chronic kidney disease
KW - Genetic susceptibility
KW - KCNA10
KW - LAMB2
KW - Sri Lanka
U2 - 10.1007/s12199-015-0475-1
DO - 10.1007/s12199-015-0475-1
M3 - Article
C2 - 26108971
SN - 1342-078X
VL - 20
SP - 354
EP - 359
JO - Environmental Health and Preventive Medicine
JF - Environmental Health and Preventive Medicine
IS - 5
ER -