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Genome –Scale Reconstruction of Metabolic Networks of Lactobacillus casei ATCC 334 and 12A

Journal Article · · PLoS ONE
 [1];  [2];  [3];  [4];  [2];  [2]
  1. University of Wisconsin, Madison, WI (United States); Univ. of Wisconsin, Madison, WI (United States)
  2. University of Wisconsin, Madison, WI (United States)
  3. DuPont Nutrition and Health, Madison, WI (United States)
  4. Utah State University, Logan, UT (United States)
+ Show Author Affiliations

Lactobacillus casei strains are widely used in industry and the utility of this organism in these industrial applications is strain dependent. Hence, tools capable of predicting strain specific phenotypes would have utility in the selection of strains for specific industrial processes. Genome-scale metabolic models can be utilized to better understand genotype-phenotype relationships and to compare different organisms. To assist in the selection and development of strains with enhanced industrial utility, genome-scale models for L. casei ATCC 334, a well characterized strain, and strain 12A, a corn silage isolate, were constructed. Draft models were generated from RAST genome annotations using the Model SEED database and refined by evaluating ATP generating cycles, mass-and-charge-balances of reactions, and growth phenotypes. After the validation process was finished, we compared the metabolic networks of these two strains to identify metabolic, genetic and ortholog differences that may lead to different phenotypic behaviors. We conclude that the metabolic capabilities of the two networks are highly similar. The L. casei ATCC 334 model accounts for 1,040 reactions, 959 metabolites and 548 genes, while the L. casei 12A model accounts for 1,076 reactions, 979 metabolites and 640 genes. The developed L. casei ATCC 334 and 12A metabolic models will enable better understanding of the physiology of these organisms and be valuable tools in the development and selection of strains with enhanced utility in a variety of industrial applications.

Research Organization:
University of Wisconsin, Madison, WI (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER); National Research Initiative Competitive Grant; National Institute of Food and Agriculture; National Science Foundation (NSF)
Grant/Contract Number:
FC02-07ER64494
OSTI ID:
1904713
Journal Information:
PLoS ONE, Journal Name: PLoS ONE Journal Issue: 11 Vol. 9; ISSN 1932-6203
Publisher:
Public Library of ScienceCopyright Statement
Country of Publication:
United States
Language:
English

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Cited By (6)

Comparative genomics and functional analysis of a highly adhesive dairy Lactobacillus paracasei subsp. paracasei IBB3423 strain journal July 2019
Genome-scale modeling and transcriptome analysis of Leuconostoc mesenteroides unravel the redox governed metabolic states in obligate heterofermentative lactic acid bacteria journal November 2017
Constraint-based modeling in microbial food biotechnology journal March 2018
Comparative genomic and metabolic analysis of three Lactobacillus paracasei cheese isolates reveals considerable genomic differences in strains from the same niche journal March 2018
Additional file 1 of Genome-scale insights into the metabolic versatility of Limosilactobacillus reuteri dataset January 2021
Additional file 3 of Genome-scale insights into the metabolic versatility of Limosilactobacillus reuteri dataset January 2021

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Related Subjects

59 BASIC BIOLOGICAL SCIENCES
carbohydrate metabolism
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genome annotation
genomics
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