CiteULike

Delicious

Connotea

Citation for Study 18337

Citation title: "Reclassification of Paenibacillus riograndensis as a genomovar of Paenibacillus sonchi: genome-based metrics improve bacterial taxonomic classification ".

Study name: "Reclassification of Paenibacillus riograndensis as a genomovar of Paenibacillus sonchi: genome-based metrics improve bacterial taxonomic classification ".

This study is part of submission 18337 (Status: Published).

Citation

Sant'anna F.H., Ambrosini A., Souza R., Fernandes G.C., Bach E., Balsanelli E., Baura V.A., Brito L.F., Wendisch V.F., Pedrosa F.O., Souza E.M., & Passaglia L.M. 2017. Reclassification of Paenibacillus riograndensis as a genomovar of Paenibacillus sonchi: genome-based metrics improve bacterial taxonomic classification. Frontiers in Microbiology, 8(1849).

Authors

• Sant'anna F.H. (submitter) 55 51 96457208
• Ambrosini A.
• Souza R.
• Fernandes G.C.
• Bach E.
• Balsanelli E.
• Baura V.A.
• Brito L.F.
• Wendisch V.F.
• Pedrosa F.O.
• Souza E.M.
• Passaglia L.M.

Abstract

Species from the genus Paenibacillus are widely studied due to their biotechnological relevance. Dozens of novel species descriptions of this genus were published in the last couple of years, but few utilized genomic data as classification criteria. Here we demonstrate the importance of using genome-based metrics and phylogenetic analyses to identify and classify Paenibacillus strains. For this purpose, Paenibacillus riograndensis SBR5T, Paenibacillus sonchi X19-5T, and their close relatives were compared through phenotypic, genotypic and genomic approaches. With respect to P. sonchi X19-5T, P. riograndensis SBR5T, Paenibacillus sp. CAR114, and Paenibacillus sp. CAS34 presented ANI (average nucleotide identity) values ranging from 95.61% to 96.32%, gANI (whole-genome average nucleotide identity) values ranging from 96.78% to 97.31%, and dDDH (digital DNA-DNA hybridization) values ranging from 68.2% to 73.2%. Phylogenetic analyses of 16S rRNA, gyrB, recA, recN, and rpoB genes and concatenated proteins supported the monophyletic origin of these Paenibacillus strains. Therefore, we propose to assign Paenibacillus sp. CAR114 and Paenibacillus sp. CAS34 to P. sonchi species, and reclassify P. riograndensis SBR5T as a later heterotypic synonym of P. sonchi (type strain X19-5T), with the creation of three novel genomovars, Paenibacillus sonchi genomovar Sonchi (type strain X19-5T), Paenibacillus sonchi genomovar Riograndensis (type strain SBR5T), Paenibacillus sonchi genomovar Oryzarum (type strain CAS34T = DSM 102041T; = BR10511T).

Keywords

paenibacillus; riograndensis; sonchi; graminis; jilunlii; taxonomy; ANI; phylogeny

External links

• DOI: 10.3389/fmicb.2017.01849
• Other URL: http://journal.frontiersin.org/article/10.3389/fmicb.2017.01849/

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S18337
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref25159,
  	 author = {Fernando Hayashi Sant'Anna and Adriana  Ambrosini and Rocheli  Souza and Gabriela C Fernandes and Evelise  Bach and Eduardo  Balsanelli and Valter A Baura and Luciana F. Brito and Volker F. Wendisch and F?bio O Pedrosa and Emanuel M Souza and Luciane MP Passaglia},
  	 title = {Reclassification of Paenibacillus riograndensis as a genomovar of Paenibacillus sonchi: genome-based metrics improve bacterial taxonomic classification },
  	 year = {2017},
  	 keywords = {paenibacillus; riograndensis; sonchi; graminis; jilunlii; taxonomy; ANI; phylogeny},
  	 doi = {10.3389/fmicb.2017.01849 },
  	 url = {http://journal.frontiersin.org/article/10.3389/fmicb.2017.01849/},
  	 pmid = {},
  	 journal = {Frontiers in Microbiology},
  	 volume = {8},
  	 number = {1849},
  	 pages = {},
  	 abstract = {Species from the genus Paenibacillus are widely studied due to their biotechnological relevance. Dozens of novel species descriptions of this genus were published in the last couple of years, but few utilized genomic data as classification criteria. Here we demonstrate the importance of using genome-based metrics and phylogenetic analyses to identify and classify Paenibacillus strains. For this purpose, Paenibacillus riograndensis SBR5T, Paenibacillus sonchi X19-5T, and their close relatives were compared through phenotypic, genotypic and genomic approaches. With respect to P. sonchi X19-5T, P. riograndensis SBR5T, Paenibacillus sp. CAR114, and Paenibacillus sp. CAS34 presented ANI (average nucleotide identity) values ranging from 95.61% to 96.32%, gANI (whole-genome average nucleotide identity) values ranging from 96.78% to 97.31%, and dDDH (digital DNA-DNA hybridization) values ranging from 68.2% to 73.2%. Phylogenetic analyses of 16S rRNA, gyrB, recA, recN, and rpoB genes and concatenated proteins supported the monophyletic origin of these Paenibacillus strains. Therefore, we propose to assign Paenibacillus sp. CAR114 and Paenibacillus sp. CAS34 to P. sonchi species, and reclassify P. riograndensis SBR5T as a later heterotypic synonym of P. sonchi (type strain X19-5T), with the creation of three novel genomovars, Paenibacillus sonchi genomovar Sonchi (type strain X19-5T), Paenibacillus sonchi genomovar Riograndensis (type strain SBR5T), Paenibacillus sonchi genomovar Oryzarum (type strain CAS34T = DSM 102041T; = BR10511T). }
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 25159
  AU  - Sant'Anna,Fernando Hayashi
  AU  - Ambrosini,Adriana 
  AU  - Souza,Rocheli 
  AU  - Fernandes,Gabriela C
  AU  - Bach,Evelise 
  AU  - Balsanelli,Eduardo 
  AU  - Baura,Valter A
  AU  - Brito,Luciana F.
  AU  - Wendisch,Volker F.
  AU  - Pedrosa,F?bio O
  AU  - Souza,Emanuel M
  AU  - Passaglia,Luciane MP
  T1  - Reclassification of Paenibacillus riograndensis as a genomovar of Paenibacillus sonchi: genome-based metrics improve bacterial taxonomic classification 
  PY  - 2017
  KW  - paenibacillus; riograndensis; sonchi; graminis; jilunlii; taxonomy; ANI; phylogeny
  UR  - http://journal.frontiersin.org/article/10.3389/fmicb.2017.01849/
  N2  - Species from the genus Paenibacillus are widely studied due to their biotechnological relevance. Dozens of novel species descriptions of this genus were published in the last couple of years, but few utilized genomic data as classification criteria. Here we demonstrate the importance of using genome-based metrics and phylogenetic analyses to identify and classify Paenibacillus strains. For this purpose, Paenibacillus riograndensis SBR5T, Paenibacillus sonchi X19-5T, and their close relatives were compared through phenotypic, genotypic and genomic approaches. With respect to P. sonchi X19-5T, P. riograndensis SBR5T, Paenibacillus sp. CAR114, and Paenibacillus sp. CAS34 presented ANI (average nucleotide identity) values ranging from 95.61% to 96.32%, gANI (whole-genome average nucleotide identity) values ranging from 96.78% to 97.31%, and dDDH (digital DNA-DNA hybridization) values ranging from 68.2% to 73.2%. Phylogenetic analyses of 16S rRNA, gyrB, recA, recN, and rpoB genes and concatenated proteins supported the monophyletic origin of these Paenibacillus strains. Therefore, we propose to assign Paenibacillus sp. CAR114 and Paenibacillus sp. CAS34 to P. sonchi species, and reclassify P. riograndensis SBR5T as a later heterotypic synonym of P. sonchi (type strain X19-5T), with the creation of three novel genomovars, Paenibacillus sonchi genomovar Sonchi (type strain X19-5T), Paenibacillus sonchi genomovar Riograndensis (type strain SBR5T), Paenibacillus sonchi genomovar Oryzarum (type strain CAS34T = DSM 102041T; = BR10511T). 
  L3  - 10.3389/fmicb.2017.01849 
  JF  - Frontiers in Microbiology
  VL  - 8
  IS  - 1849
  ER  -