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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
Address:College of Life Sciences, Sichuan University, No.29, Wangjiang Road, Chengdu, Sichuan Province, 610064, China
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Distribution patterns of microsatellites in the genome of the Chinese monal (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, Sichuan, China
Key Words:Lophophorus lhuysii, genome, microsatellite
Abstract:This study analyzes the quantity and distribution of genome-wide microsatellites in the Chinese monal (L. lhuysii) and annotated the coding genes containing microsatellites. The results showed that in the Chinese monal 1.01 Gb of whole genome, there are a total of 292430 perfect microsatellite sequences of bases 1 - 6 with the total length of 5465549 bp and total abundance of 290 loci / Mb, accounting for 0.54% of the whole genome sequences. The microsatellite sequence length is mainly among 10 ~ 43 bp. Amongst the different types of microsatellites, mononucleotide microsatellites (3535260, 71.75% ) are the most abundant simple sequence repeats (SSRs) and the length of other types of microsatellite are far smaller than that of mononucleotide type, followed by tetranucleotide (611568, 9.99% ), dinucleotide (376944, 7.07%), trinucleotide (335742, 6.38%), pentanucleotide (500615, 3.93% ) and hexanucleotide (105420, 0.88%). The top 10 dominant microsatellite in the Chinese monal genome are A, AT, AAT, AAAAC, CCG, AAGGG, AGAGG, AGC, ATAG, AAAAAG, totally accounting for 76.05% of SSRs and showing obvious A preference .The number of microsatellites located on the exon region is 2816, which was significantly less than that on the 101791 non-coding sequences and 187823 intergenic regions. We annotated those genes (1314) in which microsatellites are distributed in the exon region. GO annotation analysis found that these genes are mainly related to cellular components and the top 10 enriched terms mainly about and metabolism, synthesis process and transcription. The most enriched KEGG pathway is the environmental information processing. Those microsatellites in the exon are likely to cause genetic mutations. These genes in the Chinese monal are about environmental information processing, cellular basic component and metabolism. If they are mutations that may affect the ability to adapt to environmental signal processing of the Chinese monal and cause debilitating. This study provides adequate material for the further study of microsatellite and genetic diversity in the Chinese monal and useful information to Chinese monal protection.
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