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Open Access Research article

A BAC based physical map and genome survey of the rice false smut fungus Villosiclava virens

Xiaoming Wang12, Qingli Liu12, Hao Wang2, Chao-Xi Luo3, Gejiao Wang1 and Meizhong Luo2*

Author Affiliations

1 State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China

2 College of Life Sciences and Technology, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China

3 College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China

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BMC Genomics 2013, 14:883  doi:10.1186/1471-2164-14-883

Published: 16 December 2013

Additional files

Additional file 1: Figure S1:

Neighbor-joining phylogenetic tree of 18S rRNA gene sequences. Phylogenetic tree showing the phylogenetic position of the strain UV-8b and the strains of the genera Villosiclava, Trichoderma, Metarhizium, Cordyceps and Torrubiella. Percentages at nodes are bootstrap values based on 1,000 replications. The scale bar represents 0.01 substitutions per nucleotide position. The 18S rRNA gene sequences of the strains UV-8b and UV-2 were generated in our laboratory. The 18S rRNA gene sequence of T. reesei QM6a was obtained by the draft genome sequence in BLAST. The 18S rRNA gene sequences of other strains were obtained from GenBank.

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Additional file 2: Figure S2:

Insert size analysis of randomly selected UV-8b BAC clones. The plasmid DNA of 180 randomly selected BAC clones from the UV-8b BAC library were digested with I-SceI, and the DNA fragments were separated on 1% CHEF agarose gel. Lane 21 was the MidRange PFG marker I (NEB). V is vector.

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Additional file 3:

Contig quality evaluation. The primers have been designed from repeat sequence masked BAC end sequences and were used to verify the overlap between clones in PhaseIA contig.

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Additional file 4: Table S1:

Information about the SSRs and the primers. With the SSRs and their flanking sequences as input, a total of 836 pairs primers were designed for SSR loci by Primer3 program.

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Additional file 5: Table S2:

GO annotations of gene products predicted from UV-8b BESs. GO annotations and terms at level 3.

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