burkholderia cepacia  (ATCC)

Journal:

Article Title: Development of a recA Gene-Based Identification Approach for the Entire Burkholderia Genus

doi: 10.1128/AEM.71.7.3917-3927.2005

Figure Lengend Snippet: Bacterial strains used for recA PCR primer development and evaluation

Article Snippet: Bacterial strains used for recA PCR primer development and evaluation table ft1 table-wrap mode="anchored" t5 TABLE 2. caption a7 Species ( recA phylogenetic cluster) Strain name (other strain designations) Source and relevant information Reference(s) B. cepacia (genomovar I type strain cluster) ATCC 49709 Grass seed biological control strain 11 B. cepacia (genomovar I group K) SAR-1 Burkholderia species metagenomic strain from Sargasso Sea 40 B. cepacia (genomovar I group K) 383 (ATCC 17660; LMG 6991) Forest soil, Trinidad; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur94/bur94.home.html ) 32 B. cepacia (genomovar I type strain cluster) ATCC 25416 T (LMG 1222) Onion rot; B. cepacia type strain 32 , 37 B. cepacia (genomovar I type strain cluster) J1050 Clinical infection, USA 28 B. cepacia (genomovar I type strain cluster) ATCC 17759 (LMG 2161) Forest soil, Trinidad 32 B. cepacia (genomovar I type strain cluster) LMG 14087 Wound swab, UK 37 B. cenocepacia (III-B) M36 Corn rhizosphere, USA; registered biopesticide withdrawn from commercial use; type Wisconsin strain; encodes B. cenocepacia pathogenicity island 27 B. cenocepacia (III-B) BC-1 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. cenocepacia (III-B) BC-2 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. stabilis a HI-2482 Veterinary shampoo contaminant, USA This study B. stabilis a LMG 14294 Cystic fibrosis patient, Belgium 38 B. vietnamiensis a G4 (ATCC 53617; R-1808) Waste water, USA; capable of trichloroethylene degradation; derivative strain ENV435 effective in commercial field test on a contaminated aquifer; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur08/bur08.home.html ) 29 , 33 B. ambifaria a M54 (R-5142) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antifungal properties 27 B. ambifaria a J82 (R-5140) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antinematodal properties 27 B. ambifaria a BC-F Corn rhizosphere, USA; U.S. Department of Agriculture biological control strain; production of antifungal agents 43 B. ambifaria a AMMD T (LMG 19182 T ) Pea rhizosphere, USA; biological control strain and species type strain 4 , 27 B. ambifaria a AU212 (LMG 19466) Cystic fibrosis strain isolated from a patient in Wisconsin, USA 4 B. pyrrocinia a BC11 Soil; antifungal-producing biological control strain 12 B. pyrrocinia a ATCC 39277 Corn field soil; production of antifungal agents 25 Open in a separate window a Species group and recA cluster are identical.

Techniques:

Journal:

Article Title: Development of a recA Gene-Based Identification Approach for the Entire Burkholderia Genus

doi: 10.1128/AEM.71.7.3917-3927.2005

Figure Lengend Snippet: Characteristics of selected B. cepacia complex strains

Article Snippet: Bacterial strains used for recA PCR primer development and evaluation table ft1 table-wrap mode="anchored" t5 TABLE 2. caption a7 Species ( recA phylogenetic cluster) Strain name (other strain designations) Source and relevant information Reference(s) B. cepacia (genomovar I type strain cluster) ATCC 49709 Grass seed biological control strain 11 B. cepacia (genomovar I group K) SAR-1 Burkholderia species metagenomic strain from Sargasso Sea 40 B. cepacia (genomovar I group K) 383 (ATCC 17660; LMG 6991) Forest soil, Trinidad; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur94/bur94.home.html ) 32 B. cepacia (genomovar I type strain cluster) ATCC 25416 T (LMG 1222) Onion rot; B. cepacia type strain 32 , 37 B. cepacia (genomovar I type strain cluster) J1050 Clinical infection, USA 28 B. cepacia (genomovar I type strain cluster) ATCC 17759 (LMG 2161) Forest soil, Trinidad 32 B. cepacia (genomovar I type strain cluster) LMG 14087 Wound swab, UK 37 B. cenocepacia (III-B) M36 Corn rhizosphere, USA; registered biopesticide withdrawn from commercial use; type Wisconsin strain; encodes B. cenocepacia pathogenicity island 27 B. cenocepacia (III-B) BC-1 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. cenocepacia (III-B) BC-2 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. stabilis a HI-2482 Veterinary shampoo contaminant, USA This study B. stabilis a LMG 14294 Cystic fibrosis patient, Belgium 38 B. vietnamiensis a G4 (ATCC 53617; R-1808) Waste water, USA; capable of trichloroethylene degradation; derivative strain ENV435 effective in commercial field test on a contaminated aquifer; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur08/bur08.home.html ) 29 , 33 B. ambifaria a M54 (R-5142) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antifungal properties 27 B. ambifaria a J82 (R-5140) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antinematodal properties 27 B. ambifaria a BC-F Corn rhizosphere, USA; U.S. Department of Agriculture biological control strain; production of antifungal agents 43 B. ambifaria a AMMD T (LMG 19182 T ) Pea rhizosphere, USA; biological control strain and species type strain 4 , 27 B. ambifaria a AU212 (LMG 19466) Cystic fibrosis strain isolated from a patient in Wisconsin, USA 4 B. pyrrocinia a BC11 Soil; antifungal-producing biological control strain 12 B. pyrrocinia a ATCC 39277 Corn field soil; production of antifungal agents 25 Open in a separate window a Species group and recA cluster are identical.

Techniques: Infection, Isolation

Journal:

Article Title: Development of a recA Gene-Based Identification Approach for the Entire Burkholderia Genus

doi: 10.1128/AEM.71.7.3917-3927.2005

Figure Lengend Snippet: Burkholderia and Pandoraea isolates found to possess matching recA RFLP types

Article Snippet: Bacterial strains used for recA PCR primer development and evaluation table ft1 table-wrap mode="anchored" t5 TABLE 2. caption a7 Species ( recA phylogenetic cluster) Strain name (other strain designations) Source and relevant information Reference(s) B. cepacia (genomovar I type strain cluster) ATCC 49709 Grass seed biological control strain 11 B. cepacia (genomovar I group K) SAR-1 Burkholderia species metagenomic strain from Sargasso Sea 40 B. cepacia (genomovar I group K) 383 (ATCC 17660; LMG 6991) Forest soil, Trinidad; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur94/bur94.home.html ) 32 B. cepacia (genomovar I type strain cluster) ATCC 25416 T (LMG 1222) Onion rot; B. cepacia type strain 32 , 37 B. cepacia (genomovar I type strain cluster) J1050 Clinical infection, USA 28 B. cepacia (genomovar I type strain cluster) ATCC 17759 (LMG 2161) Forest soil, Trinidad 32 B. cepacia (genomovar I type strain cluster) LMG 14087 Wound swab, UK 37 B. cenocepacia (III-B) M36 Corn rhizosphere, USA; registered biopesticide withdrawn from commercial use; type Wisconsin strain; encodes B. cenocepacia pathogenicity island 27 B. cenocepacia (III-B) BC-1 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. cenocepacia (III-B) BC-2 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. stabilis a HI-2482 Veterinary shampoo contaminant, USA This study B. stabilis a LMG 14294 Cystic fibrosis patient, Belgium 38 B. vietnamiensis a G4 (ATCC 53617; R-1808) Waste water, USA; capable of trichloroethylene degradation; derivative strain ENV435 effective in commercial field test on a contaminated aquifer; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur08/bur08.home.html ) 29 , 33 B. ambifaria a M54 (R-5142) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antifungal properties 27 B. ambifaria a J82 (R-5140) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antinematodal properties 27 B. ambifaria a BC-F Corn rhizosphere, USA; U.S. Department of Agriculture biological control strain; production of antifungal agents 43 B. ambifaria a AMMD T (LMG 19182 T ) Pea rhizosphere, USA; biological control strain and species type strain 4 , 27 B. ambifaria a AU212 (LMG 19466) Cystic fibrosis strain isolated from a patient in Wisconsin, USA 4 B. pyrrocinia a BC11 Soil; antifungal-producing biological control strain 12 B. pyrrocinia a ATCC 39277 Corn field soil; production of antifungal agents 25 Open in a separate window a Species group and recA cluster are identical.

Techniques:

Journal:

Article Title: Development of a recA Gene-Based Identification Approach for the Entire Burkholderia Genus

doi: 10.1128/AEM.71.7.3917-3927.2005

Figure Lengend Snippet: Phylogenetic analysis of the Burkholderia genus using novel Burkholderia recA sequences. A phylogenetic tree comparing representatives from each species is shown; 27 novel Burkholderia recA genes and four novel Pandoraea recA genes are highlighted. Bootstrap values over 70% and genetic distance scale are indicated. The species name and strain number are shown, with the accession number in brackets. The tree was rooted with the P. aeruginosa PAO1 recA gene taken from the complete genome sequence as a representative member of a species outside the betaproteobacteria group. The following recA sequences were also included in the phylogenetic analysis as indicators of the ability of the analysis to differentiate among genera closely related to Burkholderia: Ralstonia eutropha JMP135, Bordetella avium AY124330, Bordetella hinzii AY124331, Bordetella parapertussis AF399659, Bordetella pertussis X53457, Xanthomonas axonopodis AE011806, and Neisseria meningitidis NC_0031112. Sequences from the species comprising the B. cepacia complex were included.

Article Snippet: Bacterial strains used for recA PCR primer development and evaluation table ft1 table-wrap mode="anchored" t5 TABLE 2. caption a7 Species ( recA phylogenetic cluster) Strain name (other strain designations) Source and relevant information Reference(s) B. cepacia (genomovar I type strain cluster) ATCC 49709 Grass seed biological control strain 11 B. cepacia (genomovar I group K) SAR-1 Burkholderia species metagenomic strain from Sargasso Sea 40 B. cepacia (genomovar I group K) 383 (ATCC 17660; LMG 6991) Forest soil, Trinidad; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur94/bur94.home.html ) 32 B. cepacia (genomovar I type strain cluster) ATCC 25416 T (LMG 1222) Onion rot; B. cepacia type strain 32 , 37 B. cepacia (genomovar I type strain cluster) J1050 Clinical infection, USA 28 B. cepacia (genomovar I type strain cluster) ATCC 17759 (LMG 2161) Forest soil, Trinidad 32 B. cepacia (genomovar I type strain cluster) LMG 14087 Wound swab, UK 37 B. cenocepacia (III-B) M36 Corn rhizosphere, USA; registered biopesticide withdrawn from commercial use; type Wisconsin strain; encodes B. cenocepacia pathogenicity island 27 B. cenocepacia (III-B) BC-1 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. cenocepacia (III-B) BC-2 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. stabilis a HI-2482 Veterinary shampoo contaminant, USA This study B. stabilis a LMG 14294 Cystic fibrosis patient, Belgium 38 B. vietnamiensis a G4 (ATCC 53617; R-1808) Waste water, USA; capable of trichloroethylene degradation; derivative strain ENV435 effective in commercial field test on a contaminated aquifer; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur08/bur08.home.html ) 29 , 33 B. ambifaria a M54 (R-5142) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antifungal properties 27 B. ambifaria a J82 (R-5140) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antinematodal properties 27 B. ambifaria a BC-F Corn rhizosphere, USA; U.S. Department of Agriculture biological control strain; production of antifungal agents 43 B. ambifaria a AMMD T (LMG 19182 T ) Pea rhizosphere, USA; biological control strain and species type strain 4 , 27 B. ambifaria a AU212 (LMG 19466) Cystic fibrosis strain isolated from a patient in Wisconsin, USA 4 B. pyrrocinia a BC11 Soil; antifungal-producing biological control strain 12 B. pyrrocinia a ATCC 39277 Corn field soil; production of antifungal agents 25 Open in a separate window a Species group and recA cluster are identical.

Techniques: Sequencing

Journal:

Article Title: Development of a recA Gene-Based Identification Approach for the Entire Burkholderia Genus

doi: 10.1128/AEM.71.7.3917-3927.2005

Figure Lengend Snippet: Phylogenetic analysis of B. cepacia complex strains using novel Burkholderia recA sequences. A phylogenetic tree comparing 160 B. cepacia complex strains, 28 Burkholderia, and four Pandoraea recA sequences is shown as a composite of phylogenetically distinct sequence clusters. Bootstrap values and genetic distance scale are indicated. The species or group name for each cluster is shown in bold. Additional information for one or more reference or interesting strains within the group is also shown. The number of sequences deriving from environmental strains versus the total number of sequences in the group is shown in brackets.

Article Snippet: Bacterial strains used for recA PCR primer development and evaluation table ft1 table-wrap mode="anchored" t5 TABLE 2. caption a7 Species ( recA phylogenetic cluster) Strain name (other strain designations) Source and relevant information Reference(s) B. cepacia (genomovar I type strain cluster) ATCC 49709 Grass seed biological control strain 11 B. cepacia (genomovar I group K) SAR-1 Burkholderia species metagenomic strain from Sargasso Sea 40 B. cepacia (genomovar I group K) 383 (ATCC 17660; LMG 6991) Forest soil, Trinidad; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur94/bur94.home.html ) 32 B. cepacia (genomovar I type strain cluster) ATCC 25416 T (LMG 1222) Onion rot; B. cepacia type strain 32 , 37 B. cepacia (genomovar I type strain cluster) J1050 Clinical infection, USA 28 B. cepacia (genomovar I type strain cluster) ATCC 17759 (LMG 2161) Forest soil, Trinidad 32 B. cepacia (genomovar I type strain cluster) LMG 14087 Wound swab, UK 37 B. cenocepacia (III-B) M36 Corn rhizosphere, USA; registered biopesticide withdrawn from commercial use; type Wisconsin strain; encodes B. cenocepacia pathogenicity island 27 B. cenocepacia (III-B) BC-1 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. cenocepacia (III-B) BC-2 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. stabilis a HI-2482 Veterinary shampoo contaminant, USA This study B. stabilis a LMG 14294 Cystic fibrosis patient, Belgium 38 B. vietnamiensis a G4 (ATCC 53617; R-1808) Waste water, USA; capable of trichloroethylene degradation; derivative strain ENV435 effective in commercial field test on a contaminated aquifer; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur08/bur08.home.html ) 29 , 33 B. ambifaria a M54 (R-5142) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antifungal properties 27 B. ambifaria a J82 (R-5140) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antinematodal properties 27 B. ambifaria a BC-F Corn rhizosphere, USA; U.S. Department of Agriculture biological control strain; production of antifungal agents 43 B. ambifaria a AMMD T (LMG 19182 T ) Pea rhizosphere, USA; biological control strain and species type strain 4 , 27 B. ambifaria a AU212 (LMG 19466) Cystic fibrosis strain isolated from a patient in Wisconsin, USA 4 B. pyrrocinia a BC11 Soil; antifungal-producing biological control strain 12 B. pyrrocinia a ATCC 39277 Corn field soil; production of antifungal agents 25 Open in a separate window a Species group and recA cluster are identical.

Techniques: Sequencing

Journal:

Article Title: Development of a recA Gene-Based Identification Approach for the Entire Burkholderia Genus

doi: 10.1128/AEM.71.7.3917-3927.2005

Figure Lengend Snippet: PFGE fingerprinting of environmental and clinical B. cepacia complex strains. Macrorestriction analysis with SpeI of the following strains is shown in each lane as follows (given, respectively, for each strain pair): 1 and 2, B. cepacia strains ATCC 17759 and LMG 14087; 3 and 4, B. cepacia strains ATCC 25416T and J1050; 5 and 6, B. ambifaria strains AMMDT and AU0212; 7 and 8, B. ambifaria strains M54 and J82; 9, B. cenocepacia strain M36; 10 and 11, B. stabilis strains HI-2482 and LMG 14294. Molecular size markers were run in lane M, and the sizes of relevant fragments are indicated in kb.

Article Snippet: Bacterial strains used for recA PCR primer development and evaluation table ft1 table-wrap mode="anchored" t5 TABLE 2. caption a7 Species ( recA phylogenetic cluster) Strain name (other strain designations) Source and relevant information Reference(s) B. cepacia (genomovar I type strain cluster) ATCC 49709 Grass seed biological control strain 11 B. cepacia (genomovar I group K) SAR-1 Burkholderia species metagenomic strain from Sargasso Sea 40 B. cepacia (genomovar I group K) 383 (ATCC 17660; LMG 6991) Forest soil, Trinidad; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur94/bur94.home.html ) 32 B. cepacia (genomovar I type strain cluster) ATCC 25416 T (LMG 1222) Onion rot; B. cepacia type strain 32 , 37 B. cepacia (genomovar I type strain cluster) J1050 Clinical infection, USA 28 B. cepacia (genomovar I type strain cluster) ATCC 17759 (LMG 2161) Forest soil, Trinidad 32 B. cepacia (genomovar I type strain cluster) LMG 14087 Wound swab, UK 37 B. cenocepacia (III-B) M36 Corn rhizosphere, USA; registered biopesticide withdrawn from commercial use; type Wisconsin strain; encodes B. cenocepacia pathogenicity island 27 B. cenocepacia (III-B) BC-1 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. cenocepacia (III-B) BC-2 Corn rhizosphere, USA; biological control strain; encodes B. cenocepacia pathogenicity island 24 B. stabilis a HI-2482 Veterinary shampoo contaminant, USA This study B. stabilis a LMG 14294 Cystic fibrosis patient, Belgium 38 B. vietnamiensis a G4 (ATCC 53617; R-1808) Waste water, USA; capable of trichloroethylene degradation; derivative strain ENV435 effective in commercial field test on a contaminated aquifer; genome draft available ( http://genome.jgi-psf.org/draft_microbes/bur08/bur08.home.html ) 29 , 33 B. ambifaria a M54 (R-5142) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antifungal properties 27 B. ambifaria a J82 (R-5140) Corn rhizosphere, USA; registered biopesticide in commercial use; type Wisconsin strain with antinematodal properties 27 B. ambifaria a BC-F Corn rhizosphere, USA; U.S. Department of Agriculture biological control strain; production of antifungal agents 43 B. ambifaria a AMMD T (LMG 19182 T ) Pea rhizosphere, USA; biological control strain and species type strain 4 , 27 B. ambifaria a AU212 (LMG 19466) Cystic fibrosis strain isolated from a patient in Wisconsin, USA 4 B. pyrrocinia a BC11 Soil; antifungal-producing biological control strain 12 B. pyrrocinia a ATCC 39277 Corn field soil; production of antifungal agents 25 Open in a separate window a Species group and recA cluster are identical.

Techniques: