The properties of CpG islands in the putative promoter regions of human immunoglobulin (Ig) genes

Article


Liu, Guang B., Yan, Hong, Jiang, Ya F., Chen, Rong, Pettigrew, John D. and Zhao, Kong-Nan. 2005. "The properties of CpG islands in the putative promoter regions of human immunoglobulin (Ig) genes." Gene. 358 (1), pp. 127-138. https://doi.org/10.1016/j.gene.2005.06.002
Article Title

The properties of CpG islands in the putative promoter regions of human immunoglobulin (Ig) genes

ERA Journal ID2377
Article CategoryArticle
AuthorsLiu, Guang B. (Author), Yan, Hong (Author), Jiang, Ya F. (Author), Chen, Rong (Author), Pettigrew, John D. (Author) and Zhao, Kong-Nan (Author)
Journal TitleGene
Journal Citation358 (1), pp. 127-138
Number of Pages12
Year2005
Place of PublicationNetherlands
ISSN0378-1119
1879-0038
Digital Object Identifier (DOI)https://doi.org/10.1016/j.gene.2005.06.002
Abstract

[Abstract]; CpG island is a GC-rich motif occurred in gene promoter region, which can play important roles in gene silencing and imprinting. Here, we present a set of discriminant functions that can recognize the structural and compositional features of CpG islands in the putative promoter regions (PPRs) of human and mouse immunoglobulin (Ig) genes. We showed that the PPRs of both human and mouse Ig genes irrespective of gene chromosomal localization are apparently CpG island poor, with a low percentage of the CpG islands overlapped with the transcription start site (TSS). The human Ig genes that have CpG islands in the PPRs show a very narrow range of CpG densities. 47% of the
Ig genes fall in the range of 3.5–4 CpGs/100 bp. In contrast, the non-Ig genes examined have a wide range of the density of CpG island, with 10.5% having the density of 8.1–15 CpGs/100 bp. Meantime, five patterns of the CpG distributions within the CpG islands have been
classified: Pat A, B, C, D, and E. 21.6% and 10.8% of the Ig genes fall into the Pat B and Pat D groups, respectively, which were significantly higher than the non-Ig genes examined (8.2% and 3.8%). Moreover, the length of CpG islands is shorter in human Ig genes than in non-Ig
genes but is much longer than in mouse orthologues. These findings provide a clear picture of non-neutral and nonrandom occurrence of the CpG islands in the PPRs of human and mouse Ig genes, which facilitate rational recommendations regarding their nomenclature.
D 2005 Elsevier B.V. All rights reserved.

Keywordshuman genome; mouse genome; CpG density; CpG distribution pattern
ANZSRC Field of Research 2020310508. Genome structure and regulation
Public Notes

Copyright 2005 Elsevier. Author's version reproduced in accordance with the copyright policy of the publisher. First published in Gene. This journal is available online: use hypertext links above.

Byline AffiliationsUniversity of Queensland
Xi'an Jiaotong University, China
Peking Union Medical College, China
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