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Comparative genomics and transcriptome analysis of Lactobacillus rhamnosus ATCC 11443 and the mutant strain SCT-10-10-60 with enhanced l-lactic acid production capacity

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Abstract

Mechanisms for high l-lactic acid production remain unclear in many bacteria. Lactobacillus rhamnosus SCT-10-10-60 was previously obtained from L. rhamnosus ATCC 11443 via mutagenesis and showed improved l-lactic acid production. In this study, the genomes of strains SCT-10-10-60 and ATCC 11443 were sequenced. Both genomes are a circular chromosome, 2.99 Mb in length with a GC content of approximately 46.8%. Eight split genes were identified in strain SCT-10-10-60, including two LytR family transcriptional regulators, two Rex redox-sensing transcriptional repressors, and four ABC transporters. In total, 60 significantly up-regulated genes (log2fold-change ≥ 2) and 39 significantly down-regulated genes (log2fold-change ≤ − 2) were identified by a transcriptome comparison between strains SCT-10-10-60 and ATCC 11443. KEGG pathway enrichment analysis revealed that “pyruvate metabolism” was significantly different (P < 0.05) between the two strains. The split genes and the differentially expressed genes involved in the “pyruvate metabolism” pathway are probably responsible for the increased l-lactic acid production by SCT-10-10-60. The genome and transcriptome sequencing information and comparison of SCT-10-10-60 with ATCC 11443 provide insights into the anabolism of l-lactic acid and a reference for improving l-lactic acid production using genetic engineering.

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Authors and Affiliations

  1. College of Life Science and Technology, Guangxi University, Nanning, Guangxi, 530004, China

    Liang Sun, Zhilong Lu, Jianxiu Li & Ribo Huang

  2. State Key Laboratory of Non-Food Biomass and Enzyme Technology, National Engineering Research Center for Non-Food Biorefinery, Guangxi Key Laboratory of Biorefinery, Guangxi Academy of Sciences, Nanning, Guangxi, 530007, China

    Liang Sun, Zhilong Lu, Jianxiu Li, Feifei Sun & Ribo Huang

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  1. Liang Sun
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Correspondence to Ribo Huang.

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This research was supported jointly by the National High Technology Research and Development Program (“863” Program) of China (No. 2013AA050701) and Basic Science and Research Funding Program of Guangxi Academy of Science (No. 12YJ25SW06).

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Liang Sun declares that he/she has no conflict of interest. Zhilong Lu declares that he/she has no conflict of interest. Jianxiu Li declares that he/she has no conflict of interest. Feifei Sun declares that he/she has no conflict of interest. Ribo Huang declares that he/she has no conflict of interest.

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Sun, L., Lu, Z., Li, J. et al. Comparative genomics and transcriptome analysis of Lactobacillus rhamnosus ATCC 11443 and the mutant strain SCT-10-10-60 with enhanced l-lactic acid production capacity. Mol Genet Genomics 293, 265–276 (2018). https://doi.org/10.1007/s00438-017-1379-0

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