Reclassification of Lactobacillus kefirgranum Takizawa et al. 1994 as Lactobacillus kefiranofaciens subsp. kefirgranum subsp. nov. and emended description of L. kefiranofaciens Fujisawa et al. 1988

Vancanneyt, Marc; Mengaud, J; Cleenwerck, Ilse; Vanhonacker, Katrien; Hoste, Bart; Dawyndt, Peter; Degivry, Mc; Ringuet, D; Janssens, Daniëlle; Swings, Jean

doi:10.1099/ijs.0.02912-0

Cited by 82 publications

(67 citation statements)

References 17 publications

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“…The 16S rRNA gene was sequenced using the protocol described previously by Vancanneyt et al (2004). High quality partial sequences (262e490 bp) were submitted to a FASTA search using the EMBL nucleotide sequence database to find related species or genera (Pearson, 1990).…”

Section: Sequence Analysis Of 16s Rrna Gene and Ribosomal Database Prmentioning

confidence: 99%

A large diversity of non-rhizobial endophytes found in legume root nodules in Flanders (Belgium)

Meyer

Beuf

Vekeman

et al. 2015

Soil Biology and Biochemistry

120

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Statistical analysis grouped the investigated plant species into six clusters according to the presence of particular NRE. However, no correlations could be found within these six clusters towards plant tribes or ecoregions the plants had been sampled from. Cluster analysis of the ecoregions according to the presence of NRE, revealed correlations between bacterial genera and those areas. However, groups present in the ecoregions did not correlate with the groups present in the different plant clusters. When combining our previous study on rhizobial diversity recovered from the same sampling campaign (De Meyer et al., 2011) with the current study, 84.1% of the isolates belonged to the traditional rhizobia groups and only 15.9% were NRE. The Loamy ecoregion yielded the lowest number of culturable NRE (8.04%) and the Campine ecoregion the highest number (24.19%). The present study highlights the frequent presence of these NRE in root nodules. The occurrence of certain rhizobia was correlated with the presence of particular NRE, suggesting their presence may not be accidental, however their functions remain unclear at this point.

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Section: Sequence Analysis Of 16s Rrna Gene and Ribosomal Database Prmentioning

confidence: 99%

A large diversity of non-rhizobial endophytes found in legume root nodules in Flanders (Belgium)

Meyer

Beuf

Vekeman

et al. 2015

Soil Biology and Biochemistry

120

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“…Nearly full length amplicons for the 16S rRNA gene were obtained for our strains using the primers and conditions described previously by Vancanneyt et al (2004). All sequences from this study and the appropriate reference strains were aligned using the MEGA 5 software package (Tamura et al, 2011).…”

Section: 3dna Extraction and 16s Rrna Gene Sequence Analysismentioning

confidence: 99%

Novel Burkholderia bacteria isolated from Lebeckia ambigua – A perennial suffrutescent legume of the fynbos

Howieson

Meyer

Vivas-Marfisi

et al. 2013

Soil Biology and Biochemistry

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“…The taxonomic positions of strain 215 T and strain 194B were first investigated by means of 16S rRNA gene sequence analysis, as described by Vancanneyt et al (2004) but with the following modification: the PCRamplified 16S rRNA gene was purified using a NucleoFast 96 PCR Clean-up kit (Macherey-Nagel). Sequencing reactions were purified using a Montage SEQ96 Sequencing Reaction Clean-up kit (Millipore).…”

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confidence: 99%

Weissella ghanensis sp. nov., isolated from a Ghanaian cocoa fermentation

Bruyne

Camu

Lefebvre

et al. 2008

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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During a study on lactic acid bacteria (and their species diversity) in spontaneous heap fermentations of Ghanaian cocoa beans, two strains, designated 215 T and 194B, were isolated. A phylogenetic analysis based on 16S rRNA gene sequences demonstrated that these strains represented a distinct lineage close to the genus Weissella and showing only 92.1 % 16S rRNA gene sequence similarity with respect to their closest neighbour, Weissella soli LMG 20113 T . Whole-cell protein electrophoresis, fluorescent amplified fragment length polymorphism fingerprinting of whole genomes and physiological and biochemical tests confirmed the unique taxonomic position of the two novel isolates. On the basis of the results of the morphological and biochemical tests and 16S rRNA gene sequence analysis, strains 215 T and 194B represent the most peripheral lineage of the genus Weissella, for which we propose the name Weissella ghanensis sp. nov. The type strain is 215 T (5LMG 24286 T 5DSM 19935 T ).The genus Weissella was created by Collins et al. (1993), in the course of a phylogenetic analysis of some unknown Leuconostoc-like lactic acid bacteria, to accommodate five heterofermentative Lactobacillus species and a species formerly classified as Leuconostoc paramesenteroides. Novel species of the genus Weissella have mainly been isolated from fermented foods: Weissella hellenica strains were isolated from fermented sausages (Collins et al., 1993), Weissella kimchii (a later heterotypic synonym of Weissella cibaria) (Ennahar & Cai, 2004) and Weissella koreensis strains were isolated from kimchi (Choi et al., 2002;Lee et al., 2002), and Weissella thailandensis strains were isolated from fermented fish (Tanasupawat et al., 2000). The exceptions are Weissella soli strains, which were isolated from soil (Magnusson et al., 2002), and some W. cibaria strains that were detected in both fermented food and clinical samples (Björkroth et al., 2002).The population dynamics of spontaneous heap fermentations of cocoa beans in Ghana during the main cropping season of 2005 (October-December) were studied by Camu et al. (2007). The levels of lactic acid bacteria species diversity of different fermentation heaps and different fermentation times were signalled by the relative intensities of bands obtained using a culture-independent technique, namely 16S rRNA gene sequence-based PCRdenaturing gradient gel electrophoresis. This analysis detected an unidentified bacterium that appeared in five of the seven heap fermentations studied, from the beginning of the fermentation up to 48 h after the start of the fermentation process. The 16S rRNA gene sequence of this bacterium was determined. Only three isolates (215 T , 194B and 225) that had 16S rRNA gene sequences identical to that of the unidentified bacterium were obtained (and subsequently cultivated) from the same fermenting cocoa bean heap in New Tafo, Ghana (Camu et al., 2007). Isolate 225 lost viability during subsequent cultivation. To check clonality using randomly amplified polymorphic DNA (RAPD; ...

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Reclassification of Lactobacillus kefirgranum Takizawa et al. 1994 as Lactobacillus kefiranofaciens subsp. kefirgranum subsp. nov. and emended description of L. kefiranofaciens Fujisawa et al. 1988

Cited by 82 publications

References 17 publications

A large diversity of non-rhizobial endophytes found in legume root nodules in Flanders (Belgium)

A large diversity of non-rhizobial endophytes found in legume root nodules in Flanders (Belgium)

Novel Burkholderia bacteria isolated from Lebeckia ambigua – A perennial suffrutescent legume of the fynbos

Weissella ghanensis sp. nov., isolated from a Ghanaian cocoa fermentation

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