Open Access Highly Accessed Research article

Coevolution between simple sequence repeats (SSRs) and virus genome size

Xiangyan Zhao12, Yonglei Tian1, Ronghua Yang2, Haiping Feng2, Qingjian Ouyang2, You Tian2, Zhongyang Tan12*, Mingfu Li12*, Yile Niu3, Jianhui Jiang2, Guoli Shen2 and Ruqin Yu2

Author Affiliations

1 Chinese Academy of Inspection and Quarantine, Beijing, 100029, China

2 College of Biology, State Key Laboratory for Chemo/Biosensing and Chemometrics, Hunan University, Changsha, 410082, China

3 College of Environmental Science and Engineering, Hunan University, Changsha, 410082, China

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BMC Genomics 2012, 13:435  doi:10.1186/1471-2164-13-435

Published: 30 August 2012

Additional files

Additional file 1:

List of the basic information of all analyzed viruses.

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Additional file 2:

Occurrence of SSRs in analyzed virus genomes.

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Additional file 3:

Length (bp) of SSRs in analyzed virus genomes.

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Additional file 4:

Relative abundance of SSRs in analyzed virus genomes.

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Additional file 5:

Relative density of SSRs in analyzed virus genomes.

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Additional file 6:

Scatter plots of SSRs relative abundance versus genome size. (A)Scatter plot of SSRs relative abundances in all analyzed virus genomes. (B) Scatter plot of SSRs relative abundances in analyzed virus genomes with size of < 30000 bp. (C) Scatter plot of SSRs relative abundances in analyzed virus genomes with size of > 30000 bp.

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Additional file 7:

Scatter plots of SSRs relative density versus genome size. (A) Scatter plot of SSRs relative densities in all analyzed virus genomes. (B) Scatter plot of SSRs relative densities in analyzed virus genomes with size of < 30000 bp. (C) Scatter plot of SSRs relative densities in analyzed virus genomes with size of > 30000 bp.

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Additional file 8:

Descriptive statistics of SSRs variables.

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Additional file 9:

Matrix of correlation coefficients and 1-tailed tests between SSRs.

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Additional file 10:

Scree plot. It displays the "cliff" and the "screes" vividly, which can be visually proved that the applicability of PCA is very good to the current data set.

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Additional file 11:

Occurrence of mono- SSRs in analyzed virus genomes.

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Additional file 12:

Occurrence of di- SSRs in analyzed virus genomes.

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Additional file 13:

Occurrence of tri- SSRs in analyzed virus genomes.

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Additional file 14:

Occurrence of tetra-, penta- and hexa- SSRs in analyzed virus genomes.

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Additional file 15:

Hosts of analyzed virus genomes.

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