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绿尾虹雉全基因组微卫星分布规律的研究
Distribution patterns of microsatellites in the genome of the Chinese monal (Lophophorus lhuysii)
崔凯
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作者单位:四川大学生命科学学院生物资源与生态环境教育部重点实验室
中文关键字:绿尾虹雉,基因组,微卫星
英文关键字:Lophophorus lhuysii, genome, microsatellite
中文摘要:本文分析了绿尾虹雉全基因组中微卫星的数量和分布规律,并对外显子中含有微卫星的基因进行了注释分析。结果显示,在绿尾虹雉1.01 Gb的全基因组中,1-6个碱基重复类型的完美微卫星序列共有292430个,总长度5465549 bp,总丰度为290个/Mb,微卫星序列占全基因组的0.54%,微卫星序列长度主要在10~43 bp范围内。不同类型的微卫星中,单碱基重复类型的微卫星数量最多,占总数的71.75%,长度为3535260 bp,其他类型的微卫星数量都远小于单碱基类型,依次是四碱基(611568 bp,9.99%),二碱基(376944 bp, 7.07%),三碱基(335742 bp,6.38%),五碱基(500615 bp,3.93%)和六碱基(105420 bp,0.88%)类型,占比分别是9.99%,7.07%,6.38%,3.93%和0.88%。在绿尾虹雉基因组中,数目最多的10种优势微卫星分别是:A,AT,AAT,AAAAC,CCG,AAGGG,AGAGG,AGC,ATAG,AAAAAG占所有微卫星的76.05%,表现出明显A偏好。绿尾虹雉微卫星分布于外显子的有2816个,分布于内含子的有101791个,基因间区有187823个。外显子区域的微卫星分布于1314个编码基因中。GO注释这1314个编码基因分析发现主要与细胞组分有关,富集前十的条目主要与代谢,转录和合成过程有关。KEGG富集最显著的通路是环境信息处理通路。位于外显子中的微卫星也有可能会造成基因的突变,这些基因关于绿尾虹雉处理环境信息、细胞的基本组分和代谢,若受到突变可能会影响绿尾虹雉对于环境信号的处理引起适应能力上的衰弱。本研究为绿尾虹雉的微卫星筛选和进一步的遗传多样性、功能研究提供了数据基础,从分子角度为绿尾虹雉的保护提供有用信息。
英文摘要: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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国内统一连续出版物号:51-1193/Q |国际标准出版物号:1000-7083
主管单位:四川省科学技术协会  主办单位:四川省动物学会/成都大熊猫繁育研究基金会/四川省野生动植物保护协会/四川大学
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