Methanocalculus pumilus sp. nov., a heavy-metal-tolerant methanogen isolated from a waste-disposal site.

Mori, Koji; Yamamoto, Hiroyuki; Kamagata, Yoichi; Hatsu, Masahiro; Takamizawa, Kazuhiro

doi:10.1099/00207713-50-5-1723

Cited by 83 publications

(42 citation statements)

References 23 publications

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“…Comparison of morphological and physiological characteristics of strain SANAE T , and the families and a genus within the orders Methanomicrobiales and Methanosarcinales Data for strain SANAE T is from this study. Data for other taxa were taken from the following studies: Methanomicrobiaceae (Boone et al, 1993(Boone et al, , 2001aChong et al, 2002;Dianou et al, 2001;Mikucki et al, 2003;Lai & Chen, 2001;Wu et al, 2005); Methanospirillaceae (Boone et al, 2001a); Methanocorpusculaceae (Boone et al, 1993(Boone et al, , 2001a; Methanocalculus (Boone et al, 2001a;Lai et al, 2002Mori et al, 2000); Methanosaetaceae (Boone et al, 2001b;Ma et al, 2006); Methanosarcinaceae (Boone et al, 1993(Boone et al, , 2001bJiang et al, 2005;Lomans et al, 1999;Lyimo et al, 2000;Simankova et al, 2001;Singh et al, 2005;Sprenger et al, 2000;von Klein et al, 2002). Abbreviations, 2, Negative; +, positive; ; ±, dependent on the species; ND, not determined.…”

mentioning

confidence: 99%

Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov.

Sakai

Imachi

Hanada

et al. 2008

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

229

121

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Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov. A novel mesophilic, hydrogenotrophic methanogen, strain SANAE T , was isolated from an anaerobic, propionate-degrading enrichment culture, which was originally established from rice paddy soil. The cells were non-motile, Gram-negative and rod-shaped (1.8-2.4 mm long by 0.3-0.6 mm wide). Growth of strain SANAE T was observed at 25-40 6C, with an optimum temperature range for growth of 35-37 6C. The pH range for growth was 6.5-7.8, with an optimum at pH 7.0. The salinity range for growth was 0-1 g NaCl l "1 (0-17 mM). The isolate was able to utilize H 2 /CO 2 and formate for growth and methane production. The G+C content of the genomic DNA was 56.6 mol%. Based on comparative 16S rRNA gene sequence analysis, strain SANAE T was affiliated with a clone lineage of the Archaea, Rice Cluster I (RC-I), placing it between the orders Methanosarcinales and Methanomicrobiales within the class 'Methanomicrobia'. 16S rRNA gene sequence similarities between strain SANAE T and members of Methanosarcinales were in the range 80.0-82.8 %, and those between the strain and members of Methanomicrobiales ranged from 77.5 to 82.4 %. In addition to 16S rRNA gene analysis, sequence analysis of the mcrA gene (encoding the a subunit of methyl-coenzyme M reductase, a key enzyme in the methane production pathway) also showed that strain SANAE T was affiliated with the RC-I lineage. Here, we propose the name Methanocella paludicola gen. nov., sp. nov. for the isolate, the first of the RC-I lineage. The type strain is SANAE T (5JCM 13418 T 5NBRC 101707 T 5DSM 17711 T ). In addition, we also propose the status of order for the RC-I lineage, for which we propose the name Methanocellales ord. nov.

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mentioning

confidence: 99%

Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov.

Sakai

Imachi

Hanada

et al. 2008

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

229

121

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“…After the extraction and purification of genomic DNA (Mori et al, 2000), the 16S rRNA gene was amplified with primers 25e (forward) and 1525 (reverse) (Achenbach & Woese, 1995). The PCR product was sequenced by using the PCR primers as well as the following: Ar700R, 59-ACTACCCGGGTATCTAATC-39; Ar1000F, 59-AGTCA-GGCAACGAGCGAGA-39; Ar1000R, 59-TCTCGCTCGT-TGCCTGACT-39 (Hattori et al, 2000).…”

mentioning

confidence: 99%

Archaeoglobus infectus sp. nov., a novel thermophilic, chemolithoheterotrophic archaeon isolated from a deep-sea rock collected at Suiyo Seamount, Izu-Bonin Arc, western Pacific Ocean

Mori

Maruyama

Urabe

et al. 2008

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

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A novel thermophilic, strictly anaerobic archaeon, designated strain Arc51 T , was isolated from a rock sample collected from a deep-sea hydrothermal field in Suiyo Seamount, Izu-Bonin Arc, western Pacific Ocean. Cells of the isolate were irregular cocci with single flagella and exhibited blue-green fluorescence at 436 nm. The optimum temperature, pH and NaCl concentration for growth were 70 6C, pH 6.5 and 3 % (w/v), respectively. Strain Arc51 T could grow on thiosulfate or sulfite as an electron acceptor in the presence of hydrogen. This strain required acetate as a carbon source for its growth, suggesting that the reductive acetyl CoA pathway for CO 2 fixation was incomplete. In addition, coenzyme M (2-mercaptoethanesulfonic acid), which is a known methyl carrier in methanogenesis, was also a requirement for growth of the strain. Analysis of the 16S rRNA gene sequence revealed that the isolate was similar to members of the genus Archaeoglobus, with sequence similarities of 93.6-97.2 %; the closest relative was Archaeoglobus veneficus. Phylogenetic analyses of the dsrAB and apsA genes, encoding the alpha and beta subunits of dissimilatory sulfite reductase and the alpha subunit of adenosine-59-phosphosulfate reductase, respectively, produced results similar to those inferred from comparisons based on the 16S rRNA gene sequence. On the basis of phenotypic and phylogenetic data, strain Arc51 T represents a novel species of the genus Archaeoglobus, for which the name Archaeoglobus infectus sp. nov. is proposed. The type strain is Arc51 T (5NBRC 100649 T 5DSM 18877 T ).

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“…Based on the sequencing data from the clones containing the gene responsible for methane production in methanogens, the corresponding nucleotide sequence was obtained and later compared with the previously identified nucleotide sequences by means of the NCBI BLASTN 2.2.25 application (Mori et al 2000). Similarity between the obtained sequences was explored using this tool, which resulted in the elimination of identical nucleotide sequences.…”

Section: Molecular Analysis Of Sediment From Puck Baymentioning

confidence: 99%

Methanogenic microbial communities in sediment from the coastal area of puck bay (Southern Baltic)

Reindl

Bolałek

2012

Oceanological and Hydrobiological Studies

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In this work, data on methanogenic Archaea communities in sediment from the coastal area of Puck Bay were investigated. Sediments were collected along the Hel Peninsula from areas characterized by the occurrence of gas bubbles. Based on the analysis of molecular markers, the presence of a specific methanogenic Archaea gene was detected at all stations. Further research involved the cloning and sequencing of methanogenic DNA. Based on the comparison of obtained genetic sequences with existing genetic databases, it was confirmed that all of the nucleotide sequences belonged to the domain Archaea. Furthermore, in the investigated sediment certain sequences had certain similarities to the sequences of organisms from the families Methanosarcinaceae, Methanospirillaceae and Methanocorpusculaceae.

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Methanocalculus pumilus sp. nov., a heavy-metal-tolerant methanogen isolated from a waste-disposal site.

Cited by 83 publications

References 23 publications

Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov.

Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov.

Archaeoglobus infectus sp. nov., a novel thermophilic, chemolithoheterotrophic archaeon isolated from a deep-sea rock collected at Suiyo Seamount, Izu-Bonin Arc, western Pacific Ocean

Methanogenic microbial communities in sediment from the coastal area of puck bay (Southern Baltic)

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