Aya Miura’s research while affiliated with Hokkaido University and other places

What is this page?


This page lists works of an author who doesn't have a ResearchGate profile or hasn't added the works to their profile yet. It is automatically generated from public (personal) data to further our legitimate goal of comprehensive and accurate scientific recordkeeping. If you are this author and want this page removed, please let us know.

Publications (3)


Dominance of Sulfuritalea species in nitrate-depleted water of a stratified freshwater lake and arsenate respiration ability within the genus
  • Article

June 2017

·

64 Reads

·

32 Citations

·

Aya Miura

·

·

[...]

·

Facultatively autotrophs of the genus Sulfuritalea within the class Betaproteobacteria have been predicted to be an important bacterial population in stratified freshwater lakes based on previous PCR-based studies. Here, we designed a new probe specific for the genus Sulfuritalea and performed catalyzed reporter deposition-fluorescence in situ hybridization to enumerate cells of Sulfuritalea species throughout the water column in a stratified freshwater lake. The cells stained with the Sulfuritalea-specific probe were detected in all hypoxic water samples collected in different seasons and years. Their abundance ranged from 1.4 × 10(4) -2.1 × 10(5) cells ml(-1) , corresponding to 0.5 - 5.5% of the total DAPI-stained cells and 2.3 - 15% of the total bacterial cells. A high abundance of Sulfuritalea species was recorded in hypoxic water samples without nitrate, which is the only known anaerobic electron acceptor for Sulfuritalea. Nitrate-independent anaerobic respiration was further investigated using a single cultured representative of this genus, and its growth via arsenate respiration was experimentally demonstrated. In conclusion, Sulfuritalea species were found to be a major component of the planktonic bacterial community in nitrate-depleted hypoxic water, where arsenate respiration is one of the possible energy metabolisms of Sulfuritalea. This article is protected by copyright. All rights reserved.


Figure 1: Phase-contrast micrographs of Sulfurifustis variabilis skN76T (a) and Sulfuricaulis limicola HA5T (b), grown with thiosulfate at 45 and 28 °C, respectively. Bars, 5 μm
Table 1 Classification and general features of Sulfurifustis variabilis skN76 T and Sulfuricaulis limicola HA5 T according to MIGS recommendations
Figure 2: Phylogenetic tree showing the relationships of Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T with other members of the class Gammaproteobacteria based on 16S rRNA gene sequences aligned by using CLUSTAL W. Desulfatitalea tepidiphila S28bFT was used as an outgroup. This tree was reconstructed using 1412 sites with the neighbor-joining method by using MEGA6 [27]. Percentage values of 1000 bootstrap resamplings are shown at nodes; values below 50 % were not shown
Table 2 Project information
Figure 3: Neighbor-joining tree showing the phylogenetic positions of RuBisCO amino acid sequences coded in the genomes of Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T. The sequences aligned by using CLUSTAL W. This tree was reconstructed using 421 sites with MEGA6 [27]. Percentage values of 1000 bootstrap resamplings are shown at nodes; values below 50 % were not shown. The sequences shown in box have six-amino-acid inserts at the same position

+3

The complete genome sequences of sulfur-oxidizing Gammaproteobacteria Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T
  • Article
  • Full-text available

December 2016

·

354 Reads

·

40 Citations

Standards in Genomic Sciences

Sulfurifustis variabilis and Sulfuricaulis limicola are autotrophic sulfur-oxidizing bacteria belonging to the family Acidiferrobacteraceae in the order Acidiferrobacterales. The type strains of these species, strain skN76T and strain HA5T, were isolated from lakes in Japan. Here we describe the complete genome sequences of Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T. The genome of Sulfurifustis variabilis skN76T consists of one circular chromosome with size of 4.0 Mbp including 3864 protein-coding sequences. The genome of Sulfuricaulis limicola HA5T is 2.9 Mbp chromosome with 2763 protein-coding sequences. In both genomes, 46 transfer RNA-coding genes and one ribosomal RNA operon were identified. In the genomes, redundancies of the genes involved in sulfur oxidation and inorganic carbon fixation pathways were observed. This is the first report to show the complete genome sequences of bacteria belonging to the order Acidiferrobacterales in the class Gammaproteobacteria.

Download

Fig. 2. Phylogenetic position of strain wk12 T within the class Acidithiobacillia based on 16S rRNA gene sequences aligned by CLUSTAL W (1334 comparable sites). Mariprofundus ferrooxydans PV-1 T was used as an outgroup. Tree was reconstructed by the neighbour-joining method with 1000 bootstrap resamplings; bootstrap values $50 % are shown at the nodes. Bar, 0.02 substitutions per nucleotide position. 
Thermithiobacillus plumbiphilus sp. Nov., a sulfuroxidizing bacterium isolated from lead sulfide

February 2016

·

197 Reads

·

11 Citations

International Journal of Systematic and Evolutionary Microbiology

A novel sulfur oxidizer, strain wk12T, was isolated from an industrially-synthesized lead (II) sulfide. The G+C content of genomic DNA was around 58.5 mol%. The major components in the cellular fatty acid profile were summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c), C16 : 0 and summed feature 8 (C18:1ω7c and/or C18:1ω6c). As electron donor to support autotrophic growth, the strain oxidized lead sulfide, thiosulfate and tetrathionate. The cells were motile, rod-shaped (0.5-1.0 × 0.7-2.2 μm), and Gram-stain-negative. For growth, temperature range was 5-37°C, and optimum growth was observed at 28-32°C. The pH range for growth was 5.8-8.7, and optimum pH was 6.4-7.1. Optimum growth of the isolate was observed in medium without NaCl, and no growth was observed in the medium containing 0.5 M or more NaCl. Phylogenetic analysis based on 16S rRNA gene indicated that the isolate belongs to the class Acidithiobacillia. The closest relative was Thermithiobacillus tepidarius DSM 3134T, with sequence similarity of 96%. On the basis of its phylogenetic and phenotypic properties, the strain wk12T represents a novel species of the genus Thermithiobacillus, for which the name Thermithiobacillus plumbiphilus sp. nov. is proposed. The type strain is wk12T (=NBRC 111508T = DSM 101799T).

Citations (3)


... Other dominant taxa of hydrolytic acidifying bacteria, which belongs to Acidobacteria, are capable to degrade organics including saccharides (Feng et al. 2021). At genus level, the dominant groups at DO of 0.0 mg/L were Limnobacter and Sulfuritalea, which can grow autotrophically on hydrogen, thiosulfate and elemental sulfur, and heterotrophically on various organic substrates during denitrifying process (Watanabe et al. 2017). Acidovorax enables organics degradation in both nitrification and denitrification processes (Wu et al. 2022). ...

Reference:

Efficient and Sustainable Removal of Linear Alkylbenzene Sulfonate in a Membrane Biofilm: Oxygen Supply Dosage Impacts Mineralization Pathway
Dominance of Sulfuritalea species in nitrate-depleted water of a stratified freshwater lake and arsenate respiration ability within the genus
  • Citing Article
  • June 2017

... In contrast with these functions, both cores also comprised Thiobacillus, Rhodobacter, Sulfurovum, and Sulfuricaulis, which are sulfur-oxidizing bacteria. These bacteria oxidize reduced sulfur compounds using O 2 and NO 3 − as electron acceptors (Begmatov et al., 2021;Umezawa et al., 2016). Overall, we can infer that HS1 and HS2 are composed of all sets of microbes required for the sulfur cycle that mediates SO 4 2− reduction to S 2− and the nitrate-driven reverse oxidation of reduced sulfur compounds to SO 4 2− . ...

The complete genome sequences of sulfur-oxidizing Gammaproteobacteria Sulfurifustis variabilis skN76T and Sulfuricaulis limicola HA5T

Standards in Genomic Sciences

... Meanwhile, the use of molecular methods for identification since the end of the 20th century made it possible to show that representatives of the initial genus Thiobacillus should be transferred to many various genera, families, and orders [3,4], so the order Acidithiobacillales includes just two genera: acidophilic bacteria Acidithiobacillus and neutrophilic Thermithiobacillus. The latter genus received its name "Thermi-" after the first described thermophilic species of the genus, while later, a mesophilic strain was described as the second species of the genus: T. plumbiphillus [5]. Currently, this type of strain is the only representative of the species in official collections, although its presence has been found in many natural habitats (https://bacdive.dsmz.de/strain/132526 ...

Thermithiobacillus plumbiphilus sp. Nov., a sulfuroxidizing bacterium isolated from lead sulfide

International Journal of Systematic and Evolutionary Microbiology