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Lignocellulose degradation by the isolate of Streptomyces griseorubens JSD-1

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Abstract

Streptomyces griseorubens JSD-1 is an isolate that can utilize lignocellulose (straw) as its sole carbon source for growth, and these lignocellulolytic genes involved in this biotransformation are expected to be crucial. However, little is known about the genetic basis related to this process. To further investigate the lignocellulose-degrading mechanisms, genome sequencing was carried out using MiSeq platform. After obtaining its draft genome, the key lignocellulolytic genes such as multicopper oxidase, exo-1, 4-β-glucanase, endo-1,4-β-glucanase, and β-xylosidase were identified and characterized. Multiple sequence alignments were performed to find out the identities of these analyzed proteins to those of their similar species. Signal peptide cleavage sites were predicted by SignalP 4.1 to reflect the cellular localization of their mature proteins. Besides, predicted 3D structures of these proteins were modeled by Phyre2, which showed to be highly identical to the templates in the PDB database. Finally, quantitative real-time PCR revealed that expression levels of all analyzed enzymes were significantly and generally up-regulated during the whole cultivation, indicating that they all contributed to the biodegradation.

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Acknowledgments

The research work was supported by the National High Technology Research and Development Program of China (2012AA101405) and Special Fund for Agro-scientific Research in the Public Interest of China (200903056). We are also thankful for the sequencing service provided by Personal Biotechnology Co., Ltd. Shanghai, China.

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Authors and Affiliations

  1. School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, China

    Haiwei Feng, Yujing Sun, Yuee Zhi, Liang Mao, Yanqing Luo, Xing Wei & Pei Zhou

  2. Key Laboratory of Urban Agriculture (South), Ministry of Agriculture, Shanghai Jiao Tong University, Shanghai, 200240, China

    Haiwei Feng, Yuee Zhi, Liang Mao, Yanqing Luo & Xing Wei

  3. Bor S. Luh Food Safety Research Center, Shanghai Jiao Tong University, Shanghai, 200240, China

    Haiwei Feng, Yuee Zhi, Liang Mao, Yanqing Luo, Xing Wei & Pei Zhou

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  1. Haiwei Feng
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  2. Yujing Sun
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  3. Yuee Zhi
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  4. Liang Mao
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Correspondence to Pei Zhou.

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Feng, H., Sun, Y., Zhi, Y. et al. Lignocellulose degradation by the isolate of Streptomyces griseorubens JSD-1. Funct Integr Genomics 15, 163–173 (2015). https://doi.org/10.1007/s10142-014-0425-9

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  • DOI: https://doi.org/10.1007/s10142-014-0425-9

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