The tier system: a host development framework for bioengineering

Yeager, Chris M. [USDOE Agile BioFoundry, Emeryville, CA (United States); Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)] (ORCID:0000000196625811); Hillson, Nathan J. [USDOE Agile BioFoundry, Emeryville, CA (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)]; Wozniak, Katherine L. [USDOE Agile BioFoundry, Emeryville, CA (United States); Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)]; Mutalik, Vivek K [USDOE Agile BioFoundry, Emeryville, CA (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)] (ORCID:0000000179340400); Johnson, Christopher W. [USDOE Agile BioFoundry, Emeryville, CA (United States); National Renewable Energy Laboratory (NREL), Golden, CO (United States)]; Pomraning, Kyle R. [USDOE Agile BioFoundry, Emeryville, CA (United States); Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000323242881); Laible, Philip [USDOE Agile BioFoundry, Emeryville, CA (United States); Argonne National Laboratory (ANL), Argonne, IL (United States)]; Dale, Taraka [USDOE Agile BioFoundry, Emeryville, CA (United States); Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)]; Guss, Adam M. [USDOE Agile BioFoundry, Emeryville, CA (United States); Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)]

doi:10.1016/j.copbio.2025.103260

DOE OSTI · 2588273

The tier system: a host development framework for bioengineering

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Abstract

Development of microorganisms into mature bioproduction host strains has typically been a slow and circuitous process, wherein multiple groups apply disparate approaches with minimal coordination over decades. To help organize and streamline host development efforts, we introduce the Tier System for Host Development, a conceptual model and guide for developing microbial hosts that can ultimately lead to a systematic, standardized, less expensive, and more rapid workflow. The Tier System is made up of three Tiers, each consisting of a unique set of strain development Targets, including experimental tools, strain properties, experimental information, and process models. By introducing the Tier System, we hope to improve host development activities through standardization and systematization pertaining to nontraditional chassis organisms.

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Yeager, Chris M. [USDOE Agile BioFoundry, Emeryville, CA (United States); Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)] (ORCID:0000000196625811), Hillson, Nathan J. [USDOE Agile BioFoundry, Emeryville, CA (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)], Wozniak, Katherine L. [USDOE Agile BioFoundry, Emeryville, CA (United States); Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)], Mutalik, Vivek K [USDOE Agile BioFoundry, Emeryville, CA (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)] (ORCID:0000000179340400), Johnson, Christopher W. [USDOE Agile BioFoundry, Emeryville, CA (United States); National Renewable Energy Laboratory (NREL), Golden, CO (United States)], Pomraning, Kyle R. [USDOE Agile BioFoundry, Emeryville, CA (United States); Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000323242881), Laible, Philip [USDOE Agile BioFoundry, Emeryville, CA (United States); Argonne National Laboratory (ANL), Argonne, IL (United States)], Dale, Taraka [USDOE Agile BioFoundry, Emeryville, CA (United States); Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)], Guss, Adam M. [USDOE Agile BioFoundry, Emeryville, CA (United States); Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)]. 2025-02-10. The tier system: a host development framework for bioengineering. https://doi.org/10.1016/j.copbio.2025.103260

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