Complete genome sequences and comparative genome analysis of Lactobacillus plantarum strain 5-2 isolated from fermented soybean

Liu, Chen‐Jian; Wang, Rui; Gong, Fu-Ming; Liu, Xiaofeng; Zheng, Huajun; Luo, Yi‐Yong; Li, Xiaoran

doi:10.1016/j.ygeno.2015.07.007

Cited by 66 publications

(63 citation statements)

References 51 publications

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“…However, among these predicted prophages, many elements were lost. For example, a significant component integrase (a marker for mobile DNA elements and participating in bacteria pathopoiesis (Liu et al, ) was not predicted in any of the above prophages.…”

Section: Resultsmentioning

confidence: 99%

The antibiotic resistance and pathogenicity of a multidrug‐resistant Elizabethkingia anophelis isolate

et al. 2019

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Elizabethkingia anophelis 12012‐2 PRCM was isolated from a patient with multiple organ dysfunction syndrome and lower respiratory tract infection in China. Minimum inhibitory concentration (MIC) analysis demonstrated that it was resistant to 20 antibiotics including trimethoprim/sulfamethoxazole and ciprofloxacin, which were effective for the elimination of other Elizabethkingia infections. To investigate multidrug resistance and pathogenicity mechanisms, we analyzed genome features of 12012‐2 PRCM and compared them to the other Elizabethkingia species. The draft genome size was 4.02 Mb with a GC content of 32%, comparable to that of other E. anophelis strains. Phylogenetic analysis showed that E. anophelis 12012‐2 PRCM formed a sister group with E. anophelis 502, distinct from clades formed by other clinical and environmental E. anophelis isolates. E. anophelis 12012‐2 PRCM contained multiple copies of β‐lactamase genes as well as genes predicted to function in antimicrobial efflux. It also contained 92 genes that were potentially involved in virulence, disease, and defense, and were associated with resistance and pathogenicity. Comparative genomic analysis showed high homology among three clinical and two environmental E. anophelis strains having a variety of similar antibiotic resistance and virulence factor genes, and similar genomic structure. Applications of this analysis will contribute to understanding the antibiotic resistance and pathogenic mechanisms of E. anophelis infections, which will assist in the management of infections as it increases in prevalence.

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Section: Resultsmentioning

confidence: 99%

The antibiotic resistance and pathogenicity of a multidrug‐resistant Elizabethkingia anophelis isolate

et al. 2019

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“…The sodium/proton (Na + /H + ) reverse transporter on cytoplasma membrane is the main way of microbial efflux of Na + , which regulates intracellular pH homeostasis (Padan et al 2005). It has been reported that L. plantarum 5-2 genome contained eight genes encoding the Na + /H + antiporters (Liu et al 2015). In this study, comparative genomic analysis revealed at least ten, nine, and six genes encoding Na + /H + antiporters in L. plantarum D31, T9, and ST-III genomes, respectively.…”

Section: Strain-specific Genes In L Plantarum D31 and T9 Genomesmentioning

confidence: 99%

Identification of salt tolerance-related genes of Lactobacillus plantarum D31 and T9 strains by genomic analysis

et al. 2020

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Purpose: The aim of this study was to identify salt tolerance-related genes of Lactobacillus plantarum D31 and T9 strains, isolated from Chinese traditional fermented food, by genomic analysis. Methods: Tolerance of L. plantarum D31 and T9 strains was evaluated at different stress conditions (temperatures, acid, osmolality, and artificial gastrointestinal fluids). Draft genomes of the two strains were determined using the Illumina sequencing technique. Comparative genomic analysis and gene transcriptional analysis were performed to identify and validate the salt tolerance-related genes.Results: Both L. plantarum D31 and T9 strains were able to withstand high osmotic pressure caused by 5.0% NaCl, and L. plantarum D31 even to tolerate 8.0% NaCl. L. plantarum D31 genome contained 3,315,786 bp (44.5% GC content) with 3106 predicted protein-encoding genes, while L. plantarum T9 contained 3,388,070 bp (44.1% GC content) with 3223 genes. Comparative genomic analysis revealed a number of genes involved in the maintenance of intracellular ion balance, absorption or synthesis of compatible solutes, stress response, and modulation of membrane composition in L. plantarum D31 and or T9 genomes. Gene transcriptional analysis validated that most of these genes were coupled with the stress-resistance phenotypes of the two strains.Conclusions: L. plantarum D31 and T9 strains tolerated 5.0% NaCl, and D31 even tolerated 8.0% NaCl. The draft genomes of these two strains were determined, and comparative genomic analysis revealed multiple molecular coping strategies for the salt stress tolerance in L. plantarum D31 and T9 strains.

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“…This redundancy may contribute to its ability to grow in complex microbial ecosystems [173]. With regard to gene products, the L. sakei genome shares the highest level of conservation with Lactobacillus plantarum, which can be used as a starter in fermented meat, dairy, and vegetable products [144,174,175]. Genome analysis revealed a specialized metabolic repertoire to adapt and grow on meat products.…”

Section: Omics Of Meat Starter Culturesmentioning

confidence: 99%

The Use of Starter Cultures in Traditional Meat Products

Laranjo

Elías

Fraqueza

2017

Journal of Food Quality

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Starter cultures could play an essential role in the manufacture of traditional cured meat products. In order to achieve objectives related to meat products' quality and safety improvement, the selection of particular strains constituting a starter culture should be carried out in the context of its application, since its functionality will depend on the type of sausage and process conditions. Also, strain selection should comply with particular requirements to warrant safety. The aim of the current review is to update the knowledge on the use of starter cultures in traditional meat products, with focus on dry-fermented products. In this manuscript, we will try to give answers to some relevant questions: Which starter cultures are used and why? Why are LAB used? What are their role and their specific mode of action? Which other groups of microorganisms (bacteria and fungi) are used as starter cultures and how do they act? A particular revision of omics approach regarding starter cultures is made since the use of these techniques allows rapid screening of promising wild strains with desirable functional characteristics, enabling the development of starter cultures better adapted to the meat matrix.

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Complete genome sequences and comparative genome analysis of Lactobacillus plantarum strain 5-2 isolated from fermented soybean

Cited by 66 publications

References 51 publications

The antibiotic resistance and pathogenicity of a multidrug‐resistant Elizabethkingia anophelis isolate

The antibiotic resistance and pathogenicity of a multidrug‐resistant Elizabethkingia anophelis isolate

Identification of salt tolerance-related genes of Lactobacillus plantarum D31 and T9 strains by genomic analysis

The Use of Starter Cultures in Traditional Meat Products

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