Diversity of bacteria associated with corn roots inoculated with Canadian woodland soils, and description of Pseudomonas aylmerense sp. nov.
Bacteria associated with corn roots inoculated with soils collected from the Canadian woodlands were isolated and characterized. Genus-level identification based on 16S rRNA sequence analysis classified the 161 isolates in 19 genera. The majority (64%) of the isolates were affiliated with the genus...
Main Authors: | , , , , , , , , |
---|---|
Format: | Article |
Language: | English |
Published: |
Elsevier
2018-08-01
|
Series: | Heliyon |
Subjects: | |
Online Access: | http://www.sciencedirect.com/science/article/pii/S2405844018336922 |
id |
doaj-d6e356e5c5d94e04a6746ed64fdf7b6e |
---|---|
record_format |
Article |
spelling |
doaj-d6e356e5c5d94e04a6746ed64fdf7b6e2020-11-25T02:54:55ZengElsevierHeliyon2405-84402018-08-0148e00761Diversity of bacteria associated with corn roots inoculated with Canadian woodland soils, and description of Pseudomonas aylmerense sp. nov.Caetanie F. Tchagang0Renlin Xu1David Overy2Barbara Blackwell3Denise Chabot4Keith Hubbard5Cyr Lézin Doumbou6Eden S.P. Bromfield7James T. Tambong8Ottawa Research and Development Centre, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, Canada; Institut des sciences de la santé et de la vie, Collège La Cité, 801 Aviation Parkway, Ottawa, Ontario, CanadaOttawa Research and Development Centre, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, CanadaOttawa Research and Development Centre, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, CanadaOttawa Research and Development Centre, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, CanadaOttawa Research and Development Centre, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, CanadaOttawa Research and Development Centre, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, CanadaInstitut des sciences de la santé et de la vie, Collège La Cité, 801 Aviation Parkway, Ottawa, Ontario, CanadaOttawa Research and Development Centre, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, CanadaOttawa Research and Development Centre, 960 Carling Avenue, Ottawa, Ontario K1A 0C6, Canada; Corresponding author.Bacteria associated with corn roots inoculated with soils collected from the Canadian woodlands were isolated and characterized. Genus-level identification based on 16S rRNA sequence analysis classified the 161 isolates in 19 genera. The majority (64%) of the isolates were affiliated with the genus Pseudomonas. Further analysis of the Pseudomonas isolates based on BLASTn and rpoD-rpoB-gyrB concatenated gene phylogeny revealed three unique clusters that could not be assigned to known species. This study reports the taxonomic description of one of the distinct lineages represented by two strains (S1E40T and S1E44) with P. lurida LMG 21995T, P. costantinii LMG 22119T, P. palleroniana LMG 23076T, P. simiae CCUG 50988T and P. extremorientalis LMG 19695T as the closest taxa. Both strains showed low ANIm (<90%) and genome-based DNA-DNA hybridization (<50%) values, which unequivocally delineated the new strains from the closest relatives. These findings were supported by multilocus sequence analysis (MLSA) and DNA fingerprinting. In addition, growth characteristics and biochemical tests revealed patterns that differed from the related species. Strains S1E40T and S1E44 are Gram-negative, aerobic, rod-shaped and motile by at least one flagellum; and grew optimally at 30 °C. The predominant polar lipid is phosphatidylethanolamine while the major respiratory quinone is ubiquinone-9. Based on phenotypic and genotypic data presented here, strains S1E40T and S1E44 represent a novel species for which the name Pseudomonas aylmerense sp. nov. is proposed. The type strain is S1E40T (= LMG 30784T = DOAB 703T = HAMI 3696T) with a G + C content of 61.6%.http://www.sciencedirect.com/science/article/pii/S2405844018336922SystematicsMicrobiology |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Caetanie F. Tchagang Renlin Xu David Overy Barbara Blackwell Denise Chabot Keith Hubbard Cyr Lézin Doumbou Eden S.P. Bromfield James T. Tambong |
spellingShingle |
Caetanie F. Tchagang Renlin Xu David Overy Barbara Blackwell Denise Chabot Keith Hubbard Cyr Lézin Doumbou Eden S.P. Bromfield James T. Tambong Diversity of bacteria associated with corn roots inoculated with Canadian woodland soils, and description of Pseudomonas aylmerense sp. nov. Heliyon Systematics Microbiology |
author_facet |
Caetanie F. Tchagang Renlin Xu David Overy Barbara Blackwell Denise Chabot Keith Hubbard Cyr Lézin Doumbou Eden S.P. Bromfield James T. Tambong |
author_sort |
Caetanie F. Tchagang |
title |
Diversity of bacteria associated with corn roots inoculated with Canadian woodland soils, and description of Pseudomonas aylmerense sp. nov. |
title_short |
Diversity of bacteria associated with corn roots inoculated with Canadian woodland soils, and description of Pseudomonas aylmerense sp. nov. |
title_full |
Diversity of bacteria associated with corn roots inoculated with Canadian woodland soils, and description of Pseudomonas aylmerense sp. nov. |
title_fullStr |
Diversity of bacteria associated with corn roots inoculated with Canadian woodland soils, and description of Pseudomonas aylmerense sp. nov. |
title_full_unstemmed |
Diversity of bacteria associated with corn roots inoculated with Canadian woodland soils, and description of Pseudomonas aylmerense sp. nov. |
title_sort |
diversity of bacteria associated with corn roots inoculated with canadian woodland soils, and description of pseudomonas aylmerense sp. nov. |
publisher |
Elsevier |
series |
Heliyon |
issn |
2405-8440 |
publishDate |
2018-08-01 |
description |
Bacteria associated with corn roots inoculated with soils collected from the Canadian woodlands were isolated and characterized. Genus-level identification based on 16S rRNA sequence analysis classified the 161 isolates in 19 genera. The majority (64%) of the isolates were affiliated with the genus Pseudomonas. Further analysis of the Pseudomonas isolates based on BLASTn and rpoD-rpoB-gyrB concatenated gene phylogeny revealed three unique clusters that could not be assigned to known species. This study reports the taxonomic description of one of the distinct lineages represented by two strains (S1E40T and S1E44) with P. lurida LMG 21995T, P. costantinii LMG 22119T, P. palleroniana LMG 23076T, P. simiae CCUG 50988T and P. extremorientalis LMG 19695T as the closest taxa. Both strains showed low ANIm (<90%) and genome-based DNA-DNA hybridization (<50%) values, which unequivocally delineated the new strains from the closest relatives. These findings were supported by multilocus sequence analysis (MLSA) and DNA fingerprinting. In addition, growth characteristics and biochemical tests revealed patterns that differed from the related species. Strains S1E40T and S1E44 are Gram-negative, aerobic, rod-shaped and motile by at least one flagellum; and grew optimally at 30 °C. The predominant polar lipid is phosphatidylethanolamine while the major respiratory quinone is ubiquinone-9. Based on phenotypic and genotypic data presented here, strains S1E40T and S1E44 represent a novel species for which the name Pseudomonas aylmerense sp. nov. is proposed. The type strain is S1E40T (= LMG 30784T = DOAB 703T = HAMI 3696T) with a G + C content of 61.6%. |
topic |
Systematics Microbiology |
url |
http://www.sciencedirect.com/science/article/pii/S2405844018336922 |
work_keys_str_mv |
AT caetanieftchagang diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov AT renlinxu diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov AT davidovery diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov AT barbarablackwell diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov AT denisechabot diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov AT keithhubbard diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov AT cyrlezindoumbou diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov AT edenspbromfield diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov AT jamesttambong diversityofbacteriaassociatedwithcornrootsinoculatedwithcanadianwoodlandsoilsanddescriptionofpseudomonasaylmerensespnov |
_version_ |
1724718956684509184 |