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Citation for Study 18090

Citation title: "Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp.".

Study name: "Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp.".

This study is part of submission 18090 (Status: Published).

Citation

Endo A., Tanizawa Y., Tanaka N., Maeno S., Kumar H., Shiwa Y., Okada S., Yoshikawa H., Dicks L., Nakagawa J., & Arita M. 2015. Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp. BMC genomics, .

Authors

• Endo A.
• Tanizawa Y. (submitter)
• Tanaka N.
• Maeno S.
• Kumar H.
• Shiwa Y.
• Okada S.
• Yoshikawa H.
• Dicks L.
• Nakagawa J.
• Arita M.

Abstract

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 genome level. Here we studied four draft genome sequences of Fructobacillus spp. and compared their metabolic properties against those of Leuconostoc spp. Fructobacillus species have significantly less protein coding sequences in their small genomes. The significantly small number was prominent 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, coding for bifunctional acetaldehyde/alcohol dehydrogenase, and genes coding 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. The present genome characteristics in Fructobacillus spp. is a clearly indication of reductive evolution that took place to adapt to a specific niche.

Keywords

Fructobacillus, lactic acid bacteria

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S18090
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref24953,
  	 author = {Akihito  Endo and Yasuhiro  Tanizawa and Naoto  Tanaka and Shintaro  Maeno and Himanshu  Kumar and Yuh  Shiwa and Sanae  Okada and Hirofumi  Yoshikawa and Leon  Dicks and Junichi  Nakagawa and Masanori  Arita},
  	 title = {Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp.},
  	 year = {2015},
  	 keywords = {Fructobacillus, lactic acid bacteria},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {BMC genomics},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {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 genome level. Here we studied four draft genome sequences of Fructobacillus spp. and compared their metabolic properties against those of Leuconostoc spp. 
  Fructobacillus species have significantly less protein coding sequences in their small genomes. The significantly small number was prominent 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, coding for bifunctional acetaldehyde/alcohol dehydrogenase, and genes coding 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. 
  The present genome characteristics in Fructobacillus spp. is a clearly indication of reductive evolution that took place to adapt to a specific niche.
  }
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 24953
  AU  - Endo,Akihito 
  AU  - Tanizawa,Yasuhiro 
  AU  - Tanaka,Naoto 
  AU  - Maeno,Shintaro 
  AU  - Kumar,Himanshu 
  AU  - Shiwa,Yuh 
  AU  - Okada,Sanae 
  AU  - Yoshikawa,Hirofumi 
  AU  - Dicks,Leon 
  AU  - Nakagawa,Junichi 
  AU  - Arita,Masanori 
  T1  - Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp.
  PY  - 2015
  KW  - Fructobacillus
  KW  - lactic acid bacteria
  UR  - http://dx.doi.org/
  N2  - 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 genome level. Here we studied four draft genome sequences of Fructobacillus spp. and compared their metabolic properties against those of Leuconostoc spp. 
  Fructobacillus species have significantly less protein coding sequences in their small genomes. The significantly small number was prominent 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, coding for bifunctional acetaldehyde/alcohol dehydrogenase, and genes coding 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. 
  The present genome characteristics in Fructobacillus spp. is a clearly indication of reductive evolution that took place to adapt to a specific niche.
  
  L3  - 
  JF  - BMC genomics
  VL  - 
  IS  - 
  ER  -