RT Journal Article
SR Electronic
T1 Hierarchical dinucleotide distribution in genome along evolution and its effect on chromatin packing
JF Life Science Alliance
JO Life Sci. Alliance
FD Life Science Alliance LLC
SP e202101028
DO 10.26508/lsa.202101028
VO 4
IS 8
A1 Zhicheng Cai
A1 Yueying He
A1 Sirui Liu
A1 Yue Xue
A1 Hui Quan
A1 Ling Zhang
A1 Yi Qin Gao
YR 2021
UL https://www.life-science-alliance.org/content/4/8/e202101028.abstract
AB Dinucleotide densities and their distribution patterns vary significantly among species. Previous studies revealed that CpG is susceptible to methylation, enriched at topologically associating domain boundaries and its distribution along the genome correlates with chromatin compartmentalization. However, the multi-scale organizations of CpG in the linear genome, their role in chromatin organization, and how they change along the evolution are only partially understood. By comparing the CpG distribution at different genomic length scales, we quantify the difference between the CpG distributions of different species and evaluate how the hierarchical uneven CpG distribution appears in evolution. The clustering of species based on the CpG distribution is consistent with the phylogenetic tree. Interestingly, we found the CpG distribution and chromatin structure to be correlated in many different length scales, especially for mammals and avians, consistent with the mosaic CpG distribution in the genomes of these species.