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Shigeaki Harayama - One of the best experts on this subject based on the ideXlab platform.

  • molecular characterization of bacterial populations in petroleum contaminated groundwater discharged from underground crude oil storage cavities
    Applied and Environmental Microbiology, 2000
    Co-Authors: Kazuya Watanabe, Kazuaki Syutsubo, Yumiko Kodama, Kanako Watanabe, Shigeaki Harayama
    Abstract:

    Petroleum-contaminated groundwater discharged from underground crude oil storage cavities (cavity groundwater) harbored more than 106 microorganisms ml−1, a density 100 times higher than the densities in groundwater around the cavities (control groundwater). To characterize bacterial populations growing in the cavity groundwater, 46 PCR-amplified almost full-length 16S ribosomal DNA (rDNA) fragments were cloned and sequenced, and 28 different sequences were obtained. All of the sequences were affiliated with the Proteobacteria; 25 sequences (43 clones) were affiliated with the epsilon subclass, 2 were affiliated with the beta subclass, and 1 was affiliated with the delta subclass. Two major clusters (designated clusters 1 and 2) were found for the epsilon subclass proteobacterial clones; cluster 1 (25 clones) was most closely related to Thiomicrospira denitrificans (88% identical in nucleotide sequence), while cluster 2 (11 clones) was closely related to Arcobacterspp. Denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rDNA fragments showed that one band was detected most strongly in cavity groundwater profiles independent of storage oil type and season. The sequence of this major band was identical to the sequences of most of the cluster 1 clones. Fluorescence in situ hybridization (FISH) indicated that the cluster 1 population accounted for 12 to 24% of the total bacterial population. This phylotype was not detected in the control groundwater by DGGE and FISH analyses. These results indicate that the novel members of the epsilon subclass of the Proteobacteria grow as major populations in the petroleum-contaminated cavity groundwater.

  • molecular characterization of bacterial populations in petroleum contaminated groundwater discharged from underground crude oil storage cavities
    Applied and Environmental Microbiology, 2000
    Co-Authors: Kazuya Watanabe, Kazuaki Syutsubo, Yumiko Kodama, Kanako Watanabe, Shigeaki Harayama
    Abstract:

    water) harbored more than 10 6 microorganisms ml 21 , a density 100 times higher than the densities in groundwater around the cavities (control groundwater). To characterize bacterial populations growing in the cavity groundwater, 46 PCR-amplified almost full-length 16S ribosomal DNA (rDNA) fragments were cloned and sequenced, and 28 different sequences were obtained. All of the sequences were affiliated with the Proteobacteria; 25 sequences (43 clones) were affiliated with the epsilon subclass, 2 were affiliated with the beta subclass, and 1 was affiliated with the delta subclass. Two major clusters (designated clusters 1 and 2) were found for the epsilon subclass proteobacterial clones; cluster 1 (25 clones) was most closely related to Thiomicrospira denitrificans (88% identical in nucleotide sequence), while cluster 2 (11 clones) was closely related to Arcobacter spp. Denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rDNA fragments showed that one band was detected most strongly in cavity groundwater profiles independent of storage oil type and season. The sequence of this major band was identical to the sequences of most of the cluster 1 clones. Fluorescence in situ hybridization (FISH) indicated that the cluster 1 population accounted for 12 to 24% of the total bacterial population. This phylotype was not detected in the control groundwater by DGGE and FISH analyses. These results indicate that the novel members of the epsilon subclass of the Proteobacteria grow as major populations in the petroleum-contaminated cavity groundwater. Underground cavities have been used for long-term storage of crude oil in several countries, such as Japan, Korea, and Norway, and are constructed in groundwater-rich rocky strata where high groundwater pressure confines the stored oil in the cavities (Fig. 1). Consequently, groundwater migrates into and accumulates at the bottom of a cavity (cavity groundwater), and this cavity groundwater is discharged to maintain the oil storage capacity of the cavity. The discharged groundwater, which is contaminated with petroleum hydrocarbons, is then purified by using water clarifiers before release into the sea. Some of the purified water is also injected back into the rock surrounding the cavity to maintain the groundwater pressure. This flow of groundwater may establish a continuous culture in which microorganisms grow on petroleum hydrocarbons. The habitat in the cavity groundwater can be characterized by (i) immediate contact with a large quantity of crude oil and (ii) an excess of electron donors (i.e., hydrocarbons) but a shortage of

Kazuya Watanabe - One of the best experts on this subject based on the ideXlab platform.

  • molecular characterization of bacterial populations in petroleum contaminated groundwater discharged from underground crude oil storage cavities
    Applied and Environmental Microbiology, 2000
    Co-Authors: Kazuya Watanabe, Kazuaki Syutsubo, Yumiko Kodama, Kanako Watanabe, Shigeaki Harayama
    Abstract:

    Petroleum-contaminated groundwater discharged from underground crude oil storage cavities (cavity groundwater) harbored more than 106 microorganisms ml−1, a density 100 times higher than the densities in groundwater around the cavities (control groundwater). To characterize bacterial populations growing in the cavity groundwater, 46 PCR-amplified almost full-length 16S ribosomal DNA (rDNA) fragments were cloned and sequenced, and 28 different sequences were obtained. All of the sequences were affiliated with the Proteobacteria; 25 sequences (43 clones) were affiliated with the epsilon subclass, 2 were affiliated with the beta subclass, and 1 was affiliated with the delta subclass. Two major clusters (designated clusters 1 and 2) were found for the epsilon subclass proteobacterial clones; cluster 1 (25 clones) was most closely related to Thiomicrospira denitrificans (88% identical in nucleotide sequence), while cluster 2 (11 clones) was closely related to Arcobacterspp. Denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rDNA fragments showed that one band was detected most strongly in cavity groundwater profiles independent of storage oil type and season. The sequence of this major band was identical to the sequences of most of the cluster 1 clones. Fluorescence in situ hybridization (FISH) indicated that the cluster 1 population accounted for 12 to 24% of the total bacterial population. This phylotype was not detected in the control groundwater by DGGE and FISH analyses. These results indicate that the novel members of the epsilon subclass of the Proteobacteria grow as major populations in the petroleum-contaminated cavity groundwater.

  • molecular characterization of bacterial populations in petroleum contaminated groundwater discharged from underground crude oil storage cavities
    Applied and Environmental Microbiology, 2000
    Co-Authors: Kazuya Watanabe, Kazuaki Syutsubo, Yumiko Kodama, Kanako Watanabe, Shigeaki Harayama
    Abstract:

    water) harbored more than 10 6 microorganisms ml 21 , a density 100 times higher than the densities in groundwater around the cavities (control groundwater). To characterize bacterial populations growing in the cavity groundwater, 46 PCR-amplified almost full-length 16S ribosomal DNA (rDNA) fragments were cloned and sequenced, and 28 different sequences were obtained. All of the sequences were affiliated with the Proteobacteria; 25 sequences (43 clones) were affiliated with the epsilon subclass, 2 were affiliated with the beta subclass, and 1 was affiliated with the delta subclass. Two major clusters (designated clusters 1 and 2) were found for the epsilon subclass proteobacterial clones; cluster 1 (25 clones) was most closely related to Thiomicrospira denitrificans (88% identical in nucleotide sequence), while cluster 2 (11 clones) was closely related to Arcobacter spp. Denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rDNA fragments showed that one band was detected most strongly in cavity groundwater profiles independent of storage oil type and season. The sequence of this major band was identical to the sequences of most of the cluster 1 clones. Fluorescence in situ hybridization (FISH) indicated that the cluster 1 population accounted for 12 to 24% of the total bacterial population. This phylotype was not detected in the control groundwater by DGGE and FISH analyses. These results indicate that the novel members of the epsilon subclass of the Proteobacteria grow as major populations in the petroleum-contaminated cavity groundwater. Underground cavities have been used for long-term storage of crude oil in several countries, such as Japan, Korea, and Norway, and are constructed in groundwater-rich rocky strata where high groundwater pressure confines the stored oil in the cavities (Fig. 1). Consequently, groundwater migrates into and accumulates at the bottom of a cavity (cavity groundwater), and this cavity groundwater is discharged to maintain the oil storage capacity of the cavity. The discharged groundwater, which is contaminated with petroleum hydrocarbons, is then purified by using water clarifiers before release into the sea. Some of the purified water is also injected back into the rock surrounding the cavity to maintain the groundwater pressure. This flow of groundwater may establish a continuous culture in which microorganisms grow on petroleum hydrocarbons. The habitat in the cavity groundwater can be characterized by (i) immediate contact with a large quantity of crude oil and (ii) an excess of electron donors (i.e., hydrocarbons) but a shortage of

Antonio Correia - One of the best experts on this subject based on the ideXlab platform.

  • seasonal and spatial variability of free living bacterial community composition along an estuarine gradient ria de aveiro portugal
    Estuarine Coastal and Shelf Science, 2006
    Co-Authors: Isabel Henriques, Artur Alves, Marta Tacao, Adelaide Almeida, ângela Cunha, Antonio Correia
    Abstract:

    We examined the dynamics of the free-living bacterial community in the Ria de Aveiro estuary (Portugal) using 16S rDNA PCRedenaturing gradient gel electrophoresis (DGGE). Samples were collected along the salinity gradient in April, July and October 2003 and January 2004. Analysis of DGGE profiles indicated that the compositional shifts within this community occurred between the brackish and freshwater sections. Those shifts were particularly evident in samples collected in April, October and January. Less pronounced changes were also detected along the salinity gradient in the marine and brackish sections. Seasonally driven changes in microbial community in this estuary also occur. Canonical correspondence analysis (CCA) revealed that salinity and temperature accounted for a significant amount of the variability in the bacterioplankton community composition (26%). Dominant phylotypes were identified either by direct sequencing or by cloning and sequencing DGGE bands. Analysis of DNA sequences revealed that the dominant bacterial groups changed from Bacteroidetes, Alpha-proteobacteria and Gamma-proteobacteria in the marine-brackish section to Bacteroidetes, Beta-proteobacteria, Delta-Proteobacteria and Epsilon-proteobacteria in the freshwater section of the estuary. 2006 Elsevier Ltd. All rights reserved.

Kanako Watanabe - One of the best experts on this subject based on the ideXlab platform.

  • molecular characterization of bacterial populations in petroleum contaminated groundwater discharged from underground crude oil storage cavities
    Applied and Environmental Microbiology, 2000
    Co-Authors: Kazuya Watanabe, Kazuaki Syutsubo, Yumiko Kodama, Kanako Watanabe, Shigeaki Harayama
    Abstract:

    Petroleum-contaminated groundwater discharged from underground crude oil storage cavities (cavity groundwater) harbored more than 106 microorganisms ml−1, a density 100 times higher than the densities in groundwater around the cavities (control groundwater). To characterize bacterial populations growing in the cavity groundwater, 46 PCR-amplified almost full-length 16S ribosomal DNA (rDNA) fragments were cloned and sequenced, and 28 different sequences were obtained. All of the sequences were affiliated with the Proteobacteria; 25 sequences (43 clones) were affiliated with the epsilon subclass, 2 were affiliated with the beta subclass, and 1 was affiliated with the delta subclass. Two major clusters (designated clusters 1 and 2) were found for the epsilon subclass proteobacterial clones; cluster 1 (25 clones) was most closely related to Thiomicrospira denitrificans (88% identical in nucleotide sequence), while cluster 2 (11 clones) was closely related to Arcobacterspp. Denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rDNA fragments showed that one band was detected most strongly in cavity groundwater profiles independent of storage oil type and season. The sequence of this major band was identical to the sequences of most of the cluster 1 clones. Fluorescence in situ hybridization (FISH) indicated that the cluster 1 population accounted for 12 to 24% of the total bacterial population. This phylotype was not detected in the control groundwater by DGGE and FISH analyses. These results indicate that the novel members of the epsilon subclass of the Proteobacteria grow as major populations in the petroleum-contaminated cavity groundwater.

  • molecular characterization of bacterial populations in petroleum contaminated groundwater discharged from underground crude oil storage cavities
    Applied and Environmental Microbiology, 2000
    Co-Authors: Kazuya Watanabe, Kazuaki Syutsubo, Yumiko Kodama, Kanako Watanabe, Shigeaki Harayama
    Abstract:

    water) harbored more than 10 6 microorganisms ml 21 , a density 100 times higher than the densities in groundwater around the cavities (control groundwater). To characterize bacterial populations growing in the cavity groundwater, 46 PCR-amplified almost full-length 16S ribosomal DNA (rDNA) fragments were cloned and sequenced, and 28 different sequences were obtained. All of the sequences were affiliated with the Proteobacteria; 25 sequences (43 clones) were affiliated with the epsilon subclass, 2 were affiliated with the beta subclass, and 1 was affiliated with the delta subclass. Two major clusters (designated clusters 1 and 2) were found for the epsilon subclass proteobacterial clones; cluster 1 (25 clones) was most closely related to Thiomicrospira denitrificans (88% identical in nucleotide sequence), while cluster 2 (11 clones) was closely related to Arcobacter spp. Denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rDNA fragments showed that one band was detected most strongly in cavity groundwater profiles independent of storage oil type and season. The sequence of this major band was identical to the sequences of most of the cluster 1 clones. Fluorescence in situ hybridization (FISH) indicated that the cluster 1 population accounted for 12 to 24% of the total bacterial population. This phylotype was not detected in the control groundwater by DGGE and FISH analyses. These results indicate that the novel members of the epsilon subclass of the Proteobacteria grow as major populations in the petroleum-contaminated cavity groundwater. Underground cavities have been used for long-term storage of crude oil in several countries, such as Japan, Korea, and Norway, and are constructed in groundwater-rich rocky strata where high groundwater pressure confines the stored oil in the cavities (Fig. 1). Consequently, groundwater migrates into and accumulates at the bottom of a cavity (cavity groundwater), and this cavity groundwater is discharged to maintain the oil storage capacity of the cavity. The discharged groundwater, which is contaminated with petroleum hydrocarbons, is then purified by using water clarifiers before release into the sea. Some of the purified water is also injected back into the rock surrounding the cavity to maintain the groundwater pressure. This flow of groundwater may establish a continuous culture in which microorganisms grow on petroleum hydrocarbons. The habitat in the cavity groundwater can be characterized by (i) immediate contact with a large quantity of crude oil and (ii) an excess of electron donors (i.e., hydrocarbons) but a shortage of

Yumiko Kodama - One of the best experts on this subject based on the ideXlab platform.

  • molecular characterization of bacterial populations in petroleum contaminated groundwater discharged from underground crude oil storage cavities
    Applied and Environmental Microbiology, 2000
    Co-Authors: Kazuya Watanabe, Kazuaki Syutsubo, Yumiko Kodama, Kanako Watanabe, Shigeaki Harayama
    Abstract:

    Petroleum-contaminated groundwater discharged from underground crude oil storage cavities (cavity groundwater) harbored more than 106 microorganisms ml−1, a density 100 times higher than the densities in groundwater around the cavities (control groundwater). To characterize bacterial populations growing in the cavity groundwater, 46 PCR-amplified almost full-length 16S ribosomal DNA (rDNA) fragments were cloned and sequenced, and 28 different sequences were obtained. All of the sequences were affiliated with the Proteobacteria; 25 sequences (43 clones) were affiliated with the epsilon subclass, 2 were affiliated with the beta subclass, and 1 was affiliated with the delta subclass. Two major clusters (designated clusters 1 and 2) were found for the epsilon subclass proteobacterial clones; cluster 1 (25 clones) was most closely related to Thiomicrospira denitrificans (88% identical in nucleotide sequence), while cluster 2 (11 clones) was closely related to Arcobacterspp. Denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rDNA fragments showed that one band was detected most strongly in cavity groundwater profiles independent of storage oil type and season. The sequence of this major band was identical to the sequences of most of the cluster 1 clones. Fluorescence in situ hybridization (FISH) indicated that the cluster 1 population accounted for 12 to 24% of the total bacterial population. This phylotype was not detected in the control groundwater by DGGE and FISH analyses. These results indicate that the novel members of the epsilon subclass of the Proteobacteria grow as major populations in the petroleum-contaminated cavity groundwater.

  • molecular characterization of bacterial populations in petroleum contaminated groundwater discharged from underground crude oil storage cavities
    Applied and Environmental Microbiology, 2000
    Co-Authors: Kazuya Watanabe, Kazuaki Syutsubo, Yumiko Kodama, Kanako Watanabe, Shigeaki Harayama
    Abstract:

    water) harbored more than 10 6 microorganisms ml 21 , a density 100 times higher than the densities in groundwater around the cavities (control groundwater). To characterize bacterial populations growing in the cavity groundwater, 46 PCR-amplified almost full-length 16S ribosomal DNA (rDNA) fragments were cloned and sequenced, and 28 different sequences were obtained. All of the sequences were affiliated with the Proteobacteria; 25 sequences (43 clones) were affiliated with the epsilon subclass, 2 were affiliated with the beta subclass, and 1 was affiliated with the delta subclass. Two major clusters (designated clusters 1 and 2) were found for the epsilon subclass proteobacterial clones; cluster 1 (25 clones) was most closely related to Thiomicrospira denitrificans (88% identical in nucleotide sequence), while cluster 2 (11 clones) was closely related to Arcobacter spp. Denaturing gradient gel electrophoresis (DGGE) of PCR-amplified partial 16S rDNA fragments showed that one band was detected most strongly in cavity groundwater profiles independent of storage oil type and season. The sequence of this major band was identical to the sequences of most of the cluster 1 clones. Fluorescence in situ hybridization (FISH) indicated that the cluster 1 population accounted for 12 to 24% of the total bacterial population. This phylotype was not detected in the control groundwater by DGGE and FISH analyses. These results indicate that the novel members of the epsilon subclass of the Proteobacteria grow as major populations in the petroleum-contaminated cavity groundwater. Underground cavities have been used for long-term storage of crude oil in several countries, such as Japan, Korea, and Norway, and are constructed in groundwater-rich rocky strata where high groundwater pressure confines the stored oil in the cavities (Fig. 1). Consequently, groundwater migrates into and accumulates at the bottom of a cavity (cavity groundwater), and this cavity groundwater is discharged to maintain the oil storage capacity of the cavity. The discharged groundwater, which is contaminated with petroleum hydrocarbons, is then purified by using water clarifiers before release into the sea. Some of the purified water is also injected back into the rock surrounding the cavity to maintain the groundwater pressure. This flow of groundwater may establish a continuous culture in which microorganisms grow on petroleum hydrocarbons. The habitat in the cavity groundwater can be characterized by (i) immediate contact with a large quantity of crude oil and (ii) an excess of electron donors (i.e., hydrocarbons) but a shortage of