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Issue:ISSN 1000-7083
          CN 51-1193/Q
Director:Sichuan Association for Science and Technology
Sponsored by:Sichuan Society of Zoologists; Chengdu Giant Panda Breeding Research Foundation; Sichuan Association of Wildlife Conservation; Sichuan University
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Your Position :Home->Past Journals Catalog->2018 Vol.37 No.5

Distribution Patterns of Microsatellites in the Genome of Lophophorus lhuysii
Author of the article:CUI Kai, YUE Bisong*
Author's Workplace:Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China
Key Words:Lophophorus lhuysii; genome; microsatellite
Abstract:In this study, the quantity and distribution of genome-wide microsatellites in the Chinese monal (Lophophorus lhuysii) were analyzed, and the coding genes containing microsatellites were annotated. The results showed that in the whole genome of L. lhuysii (1.01 Gb), there were 29·2 430 perfect microsatellite sequences of bases 1-6 with a total length of 5 465 549 bp and relative abundance of 290.47 loci/Mb, accounting for 0.54% of the whole genome sequence. The microsatellite sequence length was mainly between 10-43 bp. Among the different types of microsatellites, mononucleotide microsatellites (3 535 260 bp, 71.75%) were the most abundant simple sequence repeats (SSRs), and the lengths of other types of microsatellites were much smaller than the mononucleotide type. The other microsatellites were tetranucleotide (611 568 bp, 9.99%), dinucleotide (376 944 bp, 7.07%), trinucleotide (335 742 bp, 6.38%), pentanucleotide (500 615 bp, 3.93%) and hexanucleotide (105 420 bp, 0.88%). The top 10 dominant microsatellites in L. lhuysii genome were A, C, AAAC, AT, AAAT, AC, AAT, AAC, AG and AAAAC, accounting for 90.20% of the SSRs and showing an obvious A bias. The number of microsatellites located on the exon region was 2 816, and was significantly less than that on the 101 791 non-coding sequences and 187 823 intergenic regions. The genes (n=1 314) in which the microsatellites were distributed in the exon region were annotated. GO annotation analysis showed that these genes were mainly related to cellular components and the top 10 enriched terms were predominantly related to metabolism, synthesis process and transcription. The most enriched KEGG pathway was related to adherens junction. The microsatellites in the exon likely cause genetic mutations. The microsatellites distributed in the exon region were found to be associated with environmental information processing, cellular basic component and metabolism. Any mutations in this location might affect the ability of L. lhuysii to adapt to environmental stimulation and fluctuations. This study provides basic data for the further study of microsatellite and genetic diversity in L. lhuysii, and provides useful information for the protection of L. lhuysii.
2018,37(5): 533-540 收稿日期:2018-03-22
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