BioTRY: A Comprehensive Knowledge Base for Titer, Rate, and Yield of Biosynthesis.

Journal: ACS synthetic biology
PMID: 39423319

Abstract

Synthetic biology is rapidly evolving into a data-intensive science that increasingly relies on massive data sets; one of its applications is the evaluation of the economic viability of fermentation processes. However, the key economic indicators, namely titer, rate, and yield (TRY), which respectively reflect the downstream processing, reactor size, and raw material costs, are not well captured in bioinformatics databases. In this paper, we present BioTRY, an intuitive and user-friendly tool that contains >5,000 biochemicals and >3,800 strains, along with over 52,000 corresponding TRY entries with original references. It is freely available at http://www.synbiohealth.cn/biotry. To our knowledge, BioTRY is the first available database on biosynthesis TRY data from original research. We anticipate that BioTRY will become a useful tool that aids researchers and decision-makers in understanding the current development state of biosynthesis and allows them to foresee potential prospects and applications for biosynthesis.

Authors

  • Yu Tian
    Key Laboratory of Development and Maternal and Child Diseases of Sichuan Province, Department of Pediatrics, Sichuan University, Chengdu, China.
  • Liwen Yang
    Department of Chemical and Biomolecular Engineering, School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China.
  • Shaozhen Ding
    Department of Chemical and Biomolecular Engineering, School of Life Science and Technology, Wuhan Polytechnic University, Wuhan 430023, China.
  • Dachuan Zhang
    School of Information Science and Technology, Fudan University, Shanghai, China.
  • Le Yuan
    University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.
  • Zhiguo Liu
    School of Life Science and Technology, Wuhan Polytechnic University, Wuhan, China.
  • Qian-Nan Hu
    CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200333, P.R. China.

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