A Rhodopseudomonas strain with a substantially smaller genome retains the core metabolic versatility of its genus

Oda, Yasuhiro; Nelson, William C.; Alexander, William G.; Nguyen, Stella; Egbert, Robert G.; Harwood, Caroline S.

doi:10.1128/aem.02056-24

Title: A Rhodopseudomonas strain with a substantially smaller genome retains the core metabolic versatility of its genus

Journal Article · 09 March 2025 · Applied and Environmental Microbiology

DOI: https://doi.org/10.1128/aem.02056-24 · OSTI ID:2562214

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Univ. of Washington, Seattle, WA (United States)
Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)
Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Rhodopseudomonas are a group of phototrophic microbes with a marked metabolic versatility and flexibility that underpins their potential use in the production of value-added products, bioremediation, and plant growth promotion. Members of this group have an average genome size of about 5.5 Mb, but two closely related strains have genome sizes of about 4.0 Mb. To identify the types of genes missing in a reduced genome strain, we compared strain DSM127 with other Rhodopseudomonas isolates at the genomic and phenotypic levels. We found that DSM127 can grow as well as other members of the Rhodopseudomonas genus and retains most of their metabolic versatility, but it has many fewer genes associated with high-affinity transport of nutrients, iron uptake, nitrogen metabolism, and biodegradation of aromatic compounds. This analysis indicates genes that can be deleted in genome reduction campaigns and suggests that DSM127 could be a favorable choice for biotechnology applications using Rhodopseudomonas or as a strain that can be engineered further to reside in a specialized natural environment.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States); Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)

Sponsoring Organization:: USDOE; USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC05-00OR22725; AC05-76RL01830

OSTI ID:: 2562214

Report Number(s):: PNNL-SA--205550

Journal Information:: Applied and Environmental Microbiology, Journal Name: Applied and Environmental Microbiology Journal Issue: 4 Vol. 91; ISSN 1098-5336; ISSN 0099-2240

Publisher:: American Society for MicrobiologyCopyright Statement

Country of Publication:: United States

Language:: English

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59 BASIC BIOLOGICAL SCIENCES
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Title: A Rhodopseudomonas strain with a substantially smaller genome retains the core metabolic versatility of its genus

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