原创力文档unique profile of ordered arrangements of repetitive elements in the c57bl6j mouse genome implicating their functional roles独特的命令安排c57bl6j老鼠基因组中的重复元素暗示他们的功能角色.pdfVIP
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unique profile of ordered arrangements of repetitive elements in the c57bl6j mouse genome implicating their functional roles独特的命令安排c57bl6j老鼠基因组中的重复元素暗示他们的功能角色
Unique Profile of Ordered Arrangements of Repetitive
Elements in the C57BL/6J Mouse Genome Implicating
Their Functional Roles
Young-Kwan Lee., Kang-Hoon Lee., Seon-Gyu Kim, Ramzi Melhem, Chang-Suk Moon, Sicong Liu,
David G. Greenhalgh, Kiho Cho*
Department of Surgery, University of California Davis, Shriners Hospitals for Children Northern California, Sacramento, California, United States of America
Abstract
The entirety of all protein coding sequences is reported to represent a small fraction ( ,2%) of the mouse and human
genomes; the vast majority of the rest of the genome is presumed to be repetitive elements (REs). In this study, the C57BL/
6J mouse reference genome was subjected to an unbiased RE mining to establish a whole-genome profile of RE occurrence
and arrangement. The C57BL/6J mouse genome was fragmented into an initial set of 5,321 units of 0.5 Mb, and surveyed
for REs using unbiased self-alignment and dot-matrix protocols. The survey revealed that individual chromosomes had
unique profiles of RE arrangement structures, named RE arrays. The RE populations in certain genomic regions were
arranged into various forms of complexly organized structures using combinations of direct and/or inverse repeats. Some of
these RE arrays spanned stretches of over 2 Mb, which may contribute to the structural configuration of the respective
genomic regions. There were substantial differences in RE density among the 21 chromosomes, with chromosome Y being
the most densely populated. In addition, the RE array population in the mouse chromosomes X and Y was substantially
different from those of the reference human chromosomes. Conversion of the dot-matrix data pertaining to a tandem 13-
repeat structure within the Ch7.032 genome unit into a line map of known REs revealed a repeat unit of ,11.3 Kb as a
mosaic of six dif
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