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Title: Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp.

Journal Article · · BMC Genomics
 [1];  [2];  [3];  [4];  [5];  [6];  [3];  [7];  [8];  [4];  [9]
  1. Tokyo Univ. of Agriculture, Abashiri, Hokkaido (Japan). Dept. of Food and Cosmetic Science, Faculty of Bioindustry
  2. The Univ. of Tokyo Kashiwa, Chiba (Japan). Dept. of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences; Center for Information Biology, National Institute of Genetics, Mishima (Japan)
  3. Tokyo Univ. of Agriculture, Tokyo (Japan). NODAI Culture Collection Centre
  4. Tokyo Univ. of Agriculture, Tokyo (Japan). Dept. of Food and Cosmetic Science, Faculty of Bioindustry
  5. Univ. of Turku, Turku (Finland). Functional Foods Forum
  6. Tokyo Univ. of Agriculture, Tokyo (Japan). NODAI Culture Collection Centre, Genome Research Center
  7. Tokyo Univ. of Agriculture, Tokyo (Japan). NODAI Culture Collection Centre, Genome Research Center, Dept. of Bioscience
  8. Univ. of Stellenbosch, Stellenbosch (South Africa). Dept. of Microbiology
  9. Center for Information Biology, National Institute of Genetics Mishima (Japan); RIKEN Center for Sustainable Resource Science Yokohama (Japan)
+ Show Author Affiliations

In this study, Fructobacillus spp. in fructose-rich niches belong to the family Leuconostocaceae. They were originally classified as Leuconostoc spp., but were later grouped into a novel genus, Fructobacillus , based on their phylogenetic position, morphology and specific biochemical characteristics. The unique characters, so called fructophilic characteristics, had not been reported in the group of lactic acid bacteria, suggesting unique evolution at the genome level. Here we studied four draft genome sequences of Fructobacillus spp. and compared their metabolic properties against those of Leuconostoc spp. As a result, Fructobacillus species possess significantly less protein coding sequences in their small genomes. The number of genes was significantly smaller in carbohydrate transport and metabolism. Several other metabolic pathways, including TCA cycle, ubiquinone and other terpenoid-quinone biosynthesis and phosphotransferase systems, were characterized as discriminative pathways between the two genera. The adhE gene for bifunctional acetaldehyde/alcohol dehydrogenase, and genes for subunits of the pyruvate dehydrogenase complex were absent in Fructobacillus spp. The two genera also show different levels of GC contents, which are mainly due to the different GC contents at the third codon position. In conclusion, the present genome characteristics in Fructobacillus spp. suggest reductive evolution that took place to adapt to specific niches.

Research Organization:
Tokyo Univ. of Agriculture, Abashiri, Hokkaido (Japan)
Sponsoring Organization:
USDOE Office of Science (SC); MEXT; National Institute of Genetics (NIG)
OSTI ID:
1268306
Journal Information:
BMC Genomics, Vol. 16, Issue 1; ISSN 1471-2164
Publisher:
SpringerCopyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 42 works
Citation information provided by
Web of Science

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Cited By (6)

Isolation and characterization of a new fructophilic Lactobacillus plantarum FPL strain from honeydew journal June 2018
Fructose-rich niches traced the evolution of lactic acid bacteria toward fructophilic species journal January 2019
Abundance, diversity and plant‐specific adaptations of plant‐associated lactic acid bacteria journal October 2019
Fructophilic Lactic Acid Bacteria, a Unique Group of Fructose-Fermenting Microbes journal July 2018
Recent urbanization in China is correlated with a Westernized microbiome encoding increased virulence and antibiotic resistance genes journal September 2017
Safety of Novel Microbes for Human Consumption: Practical Examples of Assessment in the European Union journal September 2017

Linked Research (5)

Figures / Tables (10)

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Related Subjects

59 BASIC BIOLOGICAL SCIENCES
Fructobacillus
Leuconostoc
comparative genomics
Fructophilic lactic acid bacteria
niche-specific evolution
metabolism