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Open Access Research article

Genomic and transcriptomic insights into the thermo-regulated biosynthesis of validamycin in Streptomyces hygroscopicus 5008

Hang Wu1, Shuang Qu1, Chenyang Lu1, Huajun Zheng2, Xiufen Zhou1, Linquan Bai1* and Zixin Deng1

Author Affiliations

1 State Key Laboratory of Microbial Metabolism, and School of Life Sciences & Biotechnology, Shanghai Jiao Tong University, Shanghai, 200030, China

2 Shanghai-MOST Key Laboratory of Disease and Health Genomics, Chinese National Human Genome Center at Shanghai, Shanghai, 201203, China

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BMC Genomics 2012, 13:337  doi:10.1186/1471-2164-13-337

Published: 24 July 2012

Additional files

Additional file 1:

Figure S1. Confirmation of the two plasmids from S. hygroscopicus 5008.

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Additional file 2:

Figure S2. Telomeres of S. hygroscopicus 5008.

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Additional file 3:

Figure S3. Comparative analyses of the chromosomes of S. hygroscopicus 5008 with that of other six Streptomyces species.

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Additional file 4:

Table S1. COG categories of conserved and specific proteins in the seven Streptomyces chromosomes.

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Additional file 5:

Table S2. Selected genes for aerial mycelium and spore formation in S. hygroscopicus 5008 and other sequenced Streptomyces genomes.

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Additional file 6:

Table S3. Putative gene or gene clusters for secondary metabolites in S. hygroscopicus 5008.

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Additional file 7:

Table S4. Central carbon metabolic pathways and corresponding gene copy numbers in S. hygroscopicus 5008.

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Additional file 8:

Table S5. Protein families in S. hygroscopicus 5008 and other six Streptomyces chromosomes completed.

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Additional file 9:

Table S6. Selected genes encoding hydrolases, and regulators as mentioned in the main text.

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Additional file 10:

Table S7. Alignment between ArpA/AfsA from S. griseus and S. hygroscopicus 5008 genome with BLASTP program (e value = 1e-10).

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Additional file 11:

Table S8. Detailed transcriptomic analysis in S. hygroscopicus 5008 and S. avermitilis NRRL8165.

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Additional file 12:

Figure S4. Constructions of other knock-out mutants of S. hygroscopicus 5008.

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Additional file 13:

Method SI. Constructions of other knock-out mutants of S. hygroscopicus 5008 described in this study.

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Additional file 14:

Table S9. Quality-control parameters of DNA microarray data set in S. hygroscopicus 5008 and S. avermitilis NRRL8165.

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Additional file 15:

Table S10. Quantitative RT-PCR analysis of selected genes in S. hygroscopicus 5008.

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Additional file 16:

Table S11. Sequences of primer pairs for qRT-PCR assay.

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