Journal articles: 'Acidocella'

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Kimoto, Ken-ichiro, Tomoko Aizawa, Makoto Urai, Nguyen Bao Ve, Ken-ichiro Suzuki, Mutsuyasu Nakajima, and Michio Sunairi. "Acidocella aluminiidurans sp. nov., an aluminium-tolerant bacterium isolated from Panicum repens grown in a highly acidic swamp in actual acid sulfate soil area of Vietnam." International Journal of Systematic and Evolutionary Microbiology 60, no. 4 (April 1, 2010): 764–68. http://dx.doi.org/10.1099/ijs.0.011569-0.

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An aluminium-tolerant bacterium, strain AL46T, was isolated from a waterweed, Panicum repens, grown in a highly acidic swamp (pH 3) at an actual acid sulfate soil area of Vietnam. Cells were Gram-negative, aerobic, non-spore-forming, non-motile rods (0.3 μm wide and 1.2–1.6 μm long). 16S rRNA gene sequence analysis indicated that strain AL46T belongs to the genus Acidocella, class Alphaproteobacteria. Strain AL46T was related most closely to the type strains of Acidocella facilis and Acidocella aminolytica (99.4 and 97.8 % 16S rRNA gene sequence similarity, respectively). Levels of DNA–DNA relatedness between strain AL46T and the above type strains were 40 %. The results of physiological and biochemical tests allowed the novel strain to be differentiated phenotypically from the two recognized Acidocella species. Data for predominant cellular fatty acids (cyclopropyl C19 : 0 and C18 : 1), major isoprenoid quinone (Q-10) and DNA G+C content (65.6 mol%) were in accordance with those reported for the genus Acidocella. Therefore, strain AL46T is considered to represent a novel species of the genus Acidocella, for which the name Acidocella aluminiidurans sp. nov. is proposed. The type strain is AL46T (=NBRC 104303T =VTCC-D9-1T).

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Yeung, C. William, Monica Woo, Kenneth Lee, and Charles W. Greer. "Characterization of the bacterial community structure of Sydney Tar Ponds sediment." Canadian Journal of Microbiology 57, no. 6 (June 2011): 493–503. http://dx.doi.org/10.1139/w11-032.

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The Sydney Tar Ponds is one of the largest toxic waste sites in Canada. The bacterial diversity and abundance in the Sydney Tar Ponds sediment was examined using a 16S rRNA gene clone library and denaturing gradient gel electrophoresis (DGGE) with four different primer sets. The clone library was grouped into 19 phylotypes that could be divided into five phyla: Proteobacteria (56.9%), Actinobacteria (35%), Acidobacteria (4.9%), Firmicutes (2.4%), and Verrucomicrobia (0.8%). Members of the phyla Actinobacteria (represented mainly by Mycobacterium spp.) and Alphaproteobacteria (represented by Acidocella spp.) comprised the majority of the clone library. This study also revealed that the phylogenetic results obtained from clone library analysis and from DGGE analysis, with all the primer sets, showed some variability. However, similar Mycobacterium spp. and Acidocella spp. were found in all the different DGGE analyses, again suggesting that these two genera are dominant in the Sydney Tar Ponds sediment. In addition, DGGE analysis indicated that primer sets targeting the V3 region produced results that were the most similar to those obtained with the clone library.

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Okibe, Naoko, Masashi Maki, Daisuke Nakayama, and Keiko Sasaki. "Microbial recovery of vanadium by the acidophilic bacterium, Acidocella aromatica." Biotechnology Letters 38, no. 9 (May 26, 2016): 1475–81. http://dx.doi.org/10.1007/s10529-016-2131-2.

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., Ajanta Saha, Samarendra K. Singh ., Anil K. Ghosh ., and Pataki C. Banerjee . "Detection of Insertion Sequences in the Chromosome of an Acidocella Strain." Research Journal of Microbiology 2, no. 10 (October 1, 2007): 756–62. http://dx.doi.org/10.3923/jm.2007.756.762.

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., Rajdeep Chakravarty, Sanjukta Manna ., Anil K. Ghosh ., and Pataki C. Banerjee . "Morphological Changes in an Acidocella Strain in Response to Heavy Metal Stress." Research Journal of Microbiology 2, no. 10 (October 1, 2007): 742–48. http://dx.doi.org/10.3923/jm.2007.742.748.

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Jones, Rose M., Sabrina Hedrich, and D. Barrie Johnson. "Acidocella aromatica sp. nov.: an acidophilic heterotrophic alphaproteobacterium with unusual phenotypic traits." Extremophiles 17, no. 5 (July 25, 2013): 841–50. http://dx.doi.org/10.1007/s00792-013-0566-0.

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Xu, Zhifen, Hongrui Ma, Areeb Hassan, Chengtao Li, and Xihuai Qiang. "Impact of Non-Metallic Organic Tanning Agents with a Double-Triazine Structure on the Microbial Community Structure in Wastewater." Water 13, no. 17 (September 4, 2021): 2438. http://dx.doi.org/10.3390/w13172438.

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This study examined the correlation between non-metallic organic tanning agents (NOTAs) and wastewater containing double-triazine (bistriazine). Specifically, high-throughput sequencing was used to analyze how the physical and chemical properties of the bistriazine-containing wastewater affected the microbial community. In total, 9995 operating taxonomy units (OTUs) were detected at a similarity level of 97%. According to the taxonomy results and relative bacterial richness, the non-metallic organic tanning agent (NOTA) wastewater communities showed significant differences. Clostridium sensu stricto and Turicibacter bacteria were dominant in NOTA T2, T3, and the blank control (KB) wastewater; Trichococcus and Aeromonas were dominant in NOTA T4; and Pseudomonas was dominant in T2, T4, and the blank control (KB). Thus, the addition of bistriazine ring derivatives altered the composition of the bacterial community. Furthermore, Spearman’s correlation analysis revealed a substantial correlation in the composition of the communities and the physicochemical properties of the wastewater. Acidocella and norank c Cyanobacteria correlated positively with Total Phosphorus (TP) (p ≤ 0.001) and Mycobacterium showed a positively held correlation with pH (p ≤ 0.05). Conversely, norank_f__Elev-16S-1332 indicated a negative correlation with TP, Total Nitrogen (TN), and Total Organic Carbon (TOC) (p ≤ 0.05), whereas Zoogloea correlated negatively with NH3–N, TOC, and TN (p ≤ 0.05). Regarding water quality, a significant correlation between microbial communities and the physicochemical properties of bistriazine wastewater was also observed (p ≤ 0.05). We concluded that Trichococcus, Clostridium sensu stricto, Turicibacter, Pseudomonas, Intestinibacter, Acidocella, Bacillus, and Tolumonas showed a high tolerance for bistriazine wastewater, which could offer insight into its bioremediation.

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Lu, Shipeng, Stefan Gischkat, Marco Reiche, Denise M. Akob, Kevin B. Hallberg, and Kirsten Küsel. "Ecophysiology of Fe-Cycling Bacteria in Acidic Sediments." Applied and Environmental Microbiology 76, no. 24 (October 22, 2010): 8174–83. http://dx.doi.org/10.1128/aem.01931-10.

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ABSTRACT Using a combination of cultivation-dependent and -independent methods, this study aimed to elucidate the diversity of microorganisms involved in iron cycling and to resolve their in situ functional links in sediments of an acidic lignite mine lake. Using six different media with pH values ranging from 2.5 to 4.3, 117 isolates were obtained that grouped into 38 different strains, including 27 putative new species with respect to the closest characterized strains. Among the isolated strains, 22 strains were able to oxidize Fe(II), 34 were able to reduce Fe(III) in schwertmannite, the dominant iron oxide in this lake, and 21 could do both. All isolates falling into the Gammaproteobacteria (an unknown Dyella-like genus and Acidithiobacillus-related strains) were obtained from the top acidic sediment zones (pH 2.8). Firmicutes strains (related to Bacillus and Alicyclobacillus) were only isolated from deep, moderately acidic sediment zones (pH 4 to 5). Of the Alphaproteobacteria, Acidocella-related strains were only isolated from acidic zones, whereas Acidiphilium-related strains were isolated from all sediment depths. Bacterial clone libraries generally supported and complemented these patterns. Geobacter-related clone sequences were only obtained from deep sediment zones, and Geobacter-specific quantitative PCR yielded 8 × 105 gene copy numbers. Isolates related to the Acidobacterium, Acidocella, and Alicyclobacillus genera and to the unknown Dyella-like genus showed a broad pH tolerance, ranging from 2.5 to 5.0, and preferred schwertmannite to goethite for Fe(III) reduction. This study highlighted the variety of acidophilic microorganisms that are responsible for iron cycling in acidic environments, extending the results of recent laboratory-based studies that showed this trait to be widespread among acidophiles.

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Nagarajan, Viji, Hsin-Chi Tsai, Jung-Sheng Chen, Bashir Hussain, Cheng-Wei Fan, Aslia Asif, and Bing-Mu Hsu. "The Evaluation of Bacterial Abundance and Functional Potentials in the Three Major Watersheds, Located in the Hot Spring Zone of the Tatun Volcano Group Basin, Taiwan." Microorganisms 10, no. 3 (February 23, 2022): 500. http://dx.doi.org/10.3390/microorganisms10030500.

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The Tatun Volcanic Group (TVG), located in northern Taiwan, is characterized by acidic hot springs where the outflow of the hot springs may affect the properties of the associated lotic water bodies. We investigated the bacterial diversity and functional profiles of the Peihuang (PHC), HuangGang (HGC), and Nanhuang Creeks (NHC) located in the TVG basin using 16S rRNA gene sequencing coupled with statistical analyses. Water samples were collected from various streams of the creeks for two months of the year. The NHC showed the highest diversity, richness, and a unique number of phyla, which was followed by the HGC. A reduced number of phyla and a lower diversity was noticed in the PHC. The NHC was found to be abundant in the genera Armatimonas, Prosthecobacter, Pirellula, and Bdellovibrio, whereas the HGC was rich in Thiomonas, Acidiphilium, Prevotella, Acidocella, Acidithiobacillus, and Metallibacterium. The PHC was abundant in Thiomonsa, Legionella, Acidocella, and Sulfuriferula. The samples did not show any strong seasonal variations with the bacterial diversity and abundance; however, the relative abundance of each sampling site varied within the sampling months. The iron transport protein- and the sulfur metabolism-related pathways were predicted to be the key functions in all the creeks, whereas the heavy metal-related functions, such as the cobalt/nickel transport protein and the cobalt–zinc–cadmium efflux system were found to be abundant in the HGC and PHC, respectively. The abundance of Bdellovibrio in the NHC, Diplorickettsia in the HGC, and Legionella in the PHC samples indicated a higher anthropogenic impact over the creek water quality. This study provides the data to understand the distinct bacterial community structure, as well as the functional potentials of the three major watersheds, and helps the knowledge of the impact of the physicochemical properties of the TVG hot springs upon the watersheds.

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Okamoto, Rei, Hisaya Kojima, and Manabu Fukui. "Acidocella aquatica sp. nov., a novel acidophilic heterotrophic bacterium isolated from a freshwater lake." International Journal of Systematic and Evolutionary Microbiology 67, no. 11 (November 1, 2017): 4773–76. http://dx.doi.org/10.1099/ijsem.0.002376.

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11

Wakao, Norio, Tsuyoshi Yasuda, Yasuko Jojima, Shigeru Yamanaka, and Akira Hiraishi. "Enhanced Growth of Acidocella facilis and Related Acidophilic Bacteria at High Concentrations of Aluminum." Microbes and Environments 17, no. 2 (2002): 98–104. http://dx.doi.org/10.1264/jsme2.2002.98.

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Sindi, Abrar, Md Bahadur Badsha, and Gülhan Ünlü. "Bacterial Populations in International Artisanal Kefirs." Microorganisms 8, no. 9 (August 29, 2020): 1318. http://dx.doi.org/10.3390/microorganisms8091318.

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Artisanal kefir is a traditional fermented dairy product made using kefir grains. Kefir has documented natural antimicrobial activity and health benefits. A typical kefir microbial community includes lactic acid bacteria (LAB), acetic acid bacteria, and yeast among other species in a symbiotic matrix. In the presented work, the 16S rRNA gene sequencing was used to reveal bacterial populations and elucidate the diversity and abundance of LAB species in international artisanal kefirs from Fusion Tea, Britain, the Caucuses region, Ireland, Lithuania, and South Korea. Bacterial species found in high abundance in most artisanal kefirs included Lactobacillus kefiranofaciens, Lentilactobacillus kefiri,Lactobacillus ultunensis, Lactobacillus apis, Lactobacillus gigeriorum, Gluconobacter morbifer, Acetobacter orleanensis, Acetobacter pasteurianus, Acidocella aluminiidurans, and Lactobacillus helveticus. Some of these bacterial species are LAB that have been reported for their bacteriocin production capabilities and/or health promoting properties.

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Rizki, Intan, and Naoko Okibe. "Size-Controlled Production of Gold Bionanoparticles Using the Extremely Acidophilic Fe(III)-Reducing Bacterium, Acidocella aromatica." Minerals 8, no. 3 (February 26, 2018): 81. http://dx.doi.org/10.3390/min8030081.

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Vardanyan, A., P. Achilleos, N. Kafa, M. Papadopoulou, N. Vardanyan, and I. Vyrides. "Effect of Cell Lysis (CLs) Products on Acidophilic Chemolithotrophic Microorganisms and the Role of Acidocella Species." Geomicrobiology Journal 34, no. 10 (May 4, 2017): 916–22. http://dx.doi.org/10.1080/01490451.2017.1300203.

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Ghosh, S., N. R. Mahapatra, and P. C. Banerjee. "Metal resistance in Acidocella strains and plasmid-mediated transfer of this characteristic to Acidiphilium multivorum and Escherichia coli." Applied and environmental microbiology 63, no. 11 (1997): 4523–27. http://dx.doi.org/10.1128/aem.63.11.4523-4527.1997.

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Masaki, Yusei, Tsuyoshi Hirajima, Keiko Sasaki, and Naoko Okibe. "Bioreduction and immobilization of hexavalent chromium by the extremely acidophilic Fe(III)-reducing bacterium Acidocella aromatica strain PFBC." Extremophiles 19, no. 2 (February 5, 2015): 495–503. http://dx.doi.org/10.1007/s00792-015-0733-6.

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Eze, Michael O. "Metagenome Analysis of a Hydrocarbon-Degrading Bacterial Consortium Reveals the Specific Roles of BTEX Biodegraders." Genes 12, no. 1 (January 14, 2021): 98. http://dx.doi.org/10.3390/genes12010098.

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Environmental contamination by petroleum hydrocarbons is of concern due to the carcinogenicity and neurotoxicity of these compounds. Successful bioremediation of organic contaminants requires bacterial populations with degradative capacity for these contaminants. Through successive enrichment of microorganisms from a petroleum-contaminated soil using diesel fuel as the sole carbon and energy source, we successfully isolated a bacterial consortium that can degrade diesel fuel hydrocarbons. Metagenome analysis revealed the specific roles of different microbial populations involved in the degradation of benzene, toluene, ethylbenzene and xylene (BTEX), and the metabolic pathways involved in these reactions. One hundred and five putative coding DNA sequences were identified as responsible for both the activation of BTEX and central metabolism (ring-cleavage) of catechol and alkylcatechols during BTEX degradation. The majority of the Coding DNA sequences (CDSs) were affiliated to Acidocella, which was also the dominant bacterial genus in the consortium. The inoculation of diesel fuel contaminated soils with the consortium resulted in approximately 70% hydrocarbon biodegradation, indicating the potential of the consortium for environmental remediation of petroleum hydrocarbons.

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Bulaev, Aleksander, Nikolay V. Pimenov, Denis A. Ivasenko, and Olga V. Karnachuk. "Enrichment and Isolation of Acidophilic Microorganisms from Sediments of Gold Mine Waste Leachate." Advanced Materials Research 1130 (November 2015): 581–84. http://dx.doi.org/10.4028/www.scientific.net/amr.1130.581.

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Microorganisms living in acidic environments associated with various types of mining wastes can be used for bioremediation of acid mine drainage (AMD) and related waste streams. We studied microbial diversity of the acidic sediments of a leachate puddle at the basement of a waste rock pile from gold mining in abandoned gold deposit in Martiga (Kemerovo region, West Siberia, Russia). The enrichments were established from four sediment samples with a pH ranging from 2.29 to 6.16. The enrichments cultures were set up at aerobic and anaerobic conditions. Pure cultures of bacteria involved in iron and sulfur oxidation were isolated. The isolated iron- and sulfur-oxidizing cultures were affiliated with Acidithiobacillus and Acidocella genera as was revealed by 16S rRNA gene sequencing. Strains of Desulfosporosinus-like spore-forming bacteria were isolated under anaerobic conditions. The pure culture isolates physiological and biochemical characterization is underway, which will provide new knowledge of AMD formation and natural processes of metal attenuation. The strains can also be prospective agents for use in bioleaching and bioremediation processes.

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Kishimoto, Noriaki, Yoshimasa Kosako, Norio Wakao, Tatsuo Tano, and Akira Hiraishi. "Transfer of Acidiphilium facilis and Acidiphilium aminolytica to the Genus Acidocella gen. nov., and Emendation of the Genus Acidiphilium." Systematic and Applied Microbiology 18, no. 1 (January 1995): 85–91. http://dx.doi.org/10.1016/s0723-2020(11)80453-4.

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Ghosh, Sajalendu, Nitish R. Mahapatra, Suvobroto Nandi, and Pataki C. Banerjee. "Integration of Metal-Resistant Determinants from the Plasmid of an Acidocella Strain into the Chromosome of Escherichia coli DH5?*." Current Microbiology 50, no. 1 (January 2005): 28–32. http://dx.doi.org/10.1007/s00284-004-4370-z.

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Dean, Courtney, Yeyuan Xiao, and Deborah J. Roberts. "Enriching acid rock drainage related microbial communities from surface-deposited oil sands tailings." Canadian Journal of Microbiology 62, no. 10 (October 2016): 870–79. http://dx.doi.org/10.1139/cjm-2016-0137.

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Little is known about the microbial communities native to surface-deposited pyritic oil sands tailings, an environment where acid rock drainage (ARD) could occur. The goal of this study was to enrich sulfur-oxidizing organisms from these tailings and determine whether different populations exist at pH levels 7, 4.5, and 2.5. Using growth-based methods provides model organisms for use in the future to predict potential activities and limitations of these organisms and to develop possible control methods. Thiosulfate-fed enrichment cultures were monitored for approximately 1 year. The results showed that the enrichments at pH 4.5 and 7 were established quicker than at pH 2.5. Different microbial community structures were found among the 3 pH environments. The sulfur-oxidizing microorganisms identified were most closely related to Halothiobacillus neapolitanus, Achromobacter spp., and Curtobacterium spp. While microorganisms related to Chitinophagaceae and Acidocella spp. were identified as the only possible iron-oxidizing and -reducing microbes. These results contribute to the general knowledge of the relatively understudied microbial communities that exist in pyritic oil sands tailings and indicate these communities may have a potential role in ARD generation, which may have implications for future tailings management.

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Li, Qianqian, Rebecca E. Cooper, Carl-Eric Wegner, Martin Taubert, Nico Jehmlich, Martin von Bergen, and Kirsten Küsel. "Insights into Autotrophic Activities and Carbon Flow in Iron-Rich Pelagic Aggregates (Iron Snow)." Microorganisms 9, no. 7 (June 23, 2021): 1368. http://dx.doi.org/10.3390/microorganisms9071368.

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Pelagic aggregates function as biological carbon pumps for transporting fixed organic carbon to sediments. In iron-rich (ferruginous) lakes, photoferrotrophic and chemolithoautotrophic bacteria contribute to CO2 fixation by oxidizing reduced iron, leading to the formation of iron-rich pelagic aggregates (iron snow). The significance of iron oxidizers in carbon fixation, their general role in iron snow functioning and the flow of carbon within iron snow is still unclear. Here, we combined a two-year metatranscriptome analysis of iron snow collected from an acidic lake with protein-based stable isotope probing to determine general metabolic activities and to trace 13CO2 incorporation in iron snow over time under oxic and anoxic conditions. mRNA-derived metatranscriptome of iron snow identified four key players (Leptospirillum, Ferrovum, Acidithrix, Acidiphilium) with relative abundances (59.6–85.7%) encoding ecologically relevant pathways, including carbon fixation and polysaccharide biosynthesis. No transcriptional activity for carbon fixation from archaea or eukaryotes was detected. 13CO2 incorporation studies identified active chemolithoautotroph Ferrovum under both conditions. Only 1.0–5.3% relative 13C abundances were found in heterotrophic Acidiphilium and Acidocella under oxic conditions. These data show that iron oxidizers play an important role in CO2 fixation, but the majority of fixed C will be directly transported to the sediment without feeding heterotrophs in the water column in acidic ferruginous lakes.

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Li, Qianqian, Rebecca E. Cooper, Carl-Eric Wegner, and Kirsten Küsel. "Molecular Mechanisms Underpinning Aggregation in Acidiphilium sp. C61 Isolated from Iron-Rich Pelagic Aggregates." Microorganisms 8, no. 3 (February 25, 2020): 314. http://dx.doi.org/10.3390/microorganisms8030314.

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Iron-rich pelagic aggregates (iron snow) are hot spots for microbial interactions. Using iron snow isolates, we previously demonstrated that the iron-oxidizer Acidithrix sp. C25 triggers Acidiphilium sp. C61 aggregation by producing the infochemical 2-phenethylamine (PEA). Here, we showed slightly enhanced aggregate formation in the presence of PEA on different Acidiphilium spp. but not other iron-snow microorganisms, including Acidocella sp. C78 and Ferrovum sp. PN-J47. Next, we sequenced the Acidiphilium sp. C61 genome to reconstruct its metabolic potential. Pangenome analyses of Acidiphilium spp. genomes revealed the core genome contained 65 gene clusters associated with aggregation, including autoaggregation, motility, and biofilm formation. Screening the Acidiphilium sp. C61 genome revealed the presence of autotransporter, flagellar, and extracellular polymeric substances (EPS) production genes. RNA-seq analyses of Acidiphilium sp. C61 incubations (+/− 10 µM PEA) indicated genes involved in energy production, respiration, and genetic processing were the most upregulated differentially expressed genes in the presence of PEA. Additionally, genes involved in flagellar basal body synthesis were highly upregulated, whereas the expression pattern of biofilm formation-related genes was inconclusive. Our data shows aggregation is a common trait among Acidiphilium spp. and PEA stimulates the central cellular metabolism, potentially advantageous in aggregates rapidly falling through the water column.

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Zhou, Baohua, Zhaowen Liu, Guo Yang, Hui He, and Haijun Liu. "Microbial activity and diversity in the rhizosphere soil of the invasive species Zizania latifolia in the wetland of Wuchang Lake, China." Marine and Freshwater Research 71, no. 12 (2020): 1702. http://dx.doi.org/10.1071/mf19192.

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Information about the consequences of invasive species overgrowing freshwater wetlands is limited. According to remote sensing data, the invasive species Zizania latifolia spreads at an annual rate of 1.78km2 in the freshwater wetland of Wuchang Lake, China, resulting in wetland loss and degradation due to the overgrowth. This species not only increases soil organic matter, total carbon, total nitrogen, total sulfate, available nitrogen and the C/N ratio in the rhizosphere soil, but also results in increased urease, sucrose and catalase activity, as well as fluorescein diacetate hydrolysis. In this study, we have analysed microbial diversity in rhizosphere soils among different habitat types of Z. latifolia. Microbial communities in different habitats invaded by Z. latifolia differed considerably at the genus level, although all soil samples were predominated by the phyla Proteobacteria, Acidobacteria and Chloroflexi. The dominant bacterial taxa in the rhizosphere soil from the floating blanket included Acidimicrobiales, Thiomonas, Alicyclobacillus, Acetobacteraceae and Acidocella, whereas those in rhizosphere soils from the lake sludge were Acidobacteria, Anaerolineaceae, Bacteroidetes and Nitrospirae. The bacterial community in the rhizosphere soil differed significantly from that in the non-rhizosphere soil. Z. latifolia potentially creates suitable habitats and provides substrate for a unique set of microbes, further facilitating the succession of this species.

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Bernal, Luisa Fernanda, Gina Lopez, Monica Ruiz, Ricardo Vera-Bravo, Alejandro Reyes, and Sandra Baena. "Response Surface Methodology (RSM) for analysing culture conditions of Acidocella facilis strain USBA-GBX-505 and Partial Purification and Biochemical Characterization of Lipase 505 LIP." Universitas Scientiarum 22, no. 1 (February 20, 2017): 45. http://dx.doi.org/10.11144/javeriana.sc22-1.rsmr.

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Using Response Surface Methodology (RSM) we evaluated the culture conditions (nitrogen source, carbon source, pH and agitation rate) that increase the biomass of Acidocella facilis strain USBA-GBX-505 and therefore enhance the production of its lipolytic enzyme, 505 LIP. RSM results revealed that yeast extract and agitation were key culture factors that increased the growth-associated lipolytic activity by 4.5-fold (from 0.13 U.mg-1 to 0.6 U.mg-1). The 505 LIP lipase was partially purified using size-exclusion chromatography and ion-exchange chromatography. Its molecular weight was >77 kDa. The enzyme shows its optimum catalytic activity at 55 °C and pH 7.5. EDTA, PMSF, 1-butanol and DMSO inhibited enzymatic activity, whereas Tween 20, acetone, glycerol and methanol increased it. Metallic ions are not required for the activity of 505 LIP, and even have an inhibitory effect on the enzyme. This study shows the potential use of A. facilis strain USBA-GBX-505 for the production of a newly identified lipolytic enzyme, 505 LIP, which is stable at moderate temperatures and in the presence of organic solvents. These are important characteristics for the synthesis of many useful products.

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Matsumoto, Takahiro, Idol Phann, and Naoko Okibe. "Biogenic Platinum Nanoparticles’ Production by Extremely Acidophilic Fe(III)-Reducing Bacteria." Minerals 11, no. 11 (October 22, 2021): 1175. http://dx.doi.org/10.3390/min11111175.

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Platinum nanoparticles (Pt(0)NPs) are expected to play a vital role in future technologies as high-performance catalysts. The microbiological route for Pt(0)NPs’ production is considered a greener and simpler alternative to conventional methods. In order to explore the potential utility of extreme acidophiles, Fe(III)-reducing acidophilic bacteria, Acidocella aromatica and Acidiphilium crytpum, were tested for the production of bio-Pt(0)NPs from an acidic solution. Bio-Pt(0)NPs were successfully formed via a simple one-step reaction with the difference in the size and location between the two strains. Intact enzymatic activity was essential to exhibit the site for Pt(0) crystal nucleation, which enables the formation of well-dispersed, fine bio-Pt(0)NPs. Active Ac. aromatica cells produced the finest bio-Pt(0)NPs of mean and median size of 16.1 and 8.5 nm, respectively. The catalytic activity of bio-Pt(0)NPs was assessed using the Cr(VI) reduction reaction, which was shown to be in a negative linear correlation with the mean particle size under the conditions tested. This is the first study reporting the recruitment of acidophilic extremophiles for the production of Pt(0)NPs. Acidophilic extremophiles often inhabit metal-rich acidic liquors in nature and are expected to become the promising tool for metal nanotechnology.

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Min, Kyoungseon, Young Joo Yeon, Youngsoon Um, and Yong Hwan Kim. "Novel NAD-independent d-lactate dehydrogenases from Acetobacter aceti and Acidocella species MX-AZ02 as potential candidates for in vitro biocatalytic pyruvate production." Biochemical Engineering Journal 105 (January 2016): 358–63. http://dx.doi.org/10.1016/j.bej.2015.10.008.

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Ñancucheo, Ivan, and D. Barrie Johnson. "Production of Glycolic Acid by Chemolithotrophic Iron- and Sulfur-Oxidizing Bacteria and Its Role in Delineating and Sustaining Acidophilic Sulfide Mineral-Oxidizing Consortia." Applied and Environmental Microbiology 76, no. 2 (November 20, 2009): 461–67. http://dx.doi.org/10.1128/aem.01832-09.

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ABSTRACT Glycolic acid was detected as an exudate in actively growing cultures of three chemolithotrophic acidophiles that are important in biomining operations, Leptospirillum ferriphilum, Acidithiobacillus (At.) ferrooxidans, and At. caldus. Although similar concentrations of glycolic acid were found in all cases, the concentrations corresponded to ca. 24% of the total dissolved organic carbon (DOC) in cultures of L. ferriphilum but only ca. 5% of the total DOC in cultures of the two Acidithiobacillus spp. Rapid acidification (to pH 1.0) of the culture medium of At. caldus resulted in a large increase in the level of DOC, although the concentration of glycolic acid did not change in proportion. The archaeon Ferroplasma acidiphilum grew in the cell-free spent medium of At. caldus; glycolic acid was not metabolized, although other unidentified compounds in the DOC pool were metabolized. Glycolic acid exhibited levels of toxicity with 21 strains of acidophiles screened similar to those of acetic acid. The most sensitive species were chemolithotrophs (L. ferriphilum and At. ferrivorans), while the most tolerant species were chemoorganotrophs (Acidocella, Acidobacterium, and Ferroplasma species), and the ability to metabolize glycolic acid appeared to be restricted (among acidophiles) to Firmicutes (chiefly Sulfobacillus spp.). Results of this study help explain why Sulfobacillus spp. rather than other acidophiles are the main organic carbon-degrading bacteria in continuously fed stirred tanks used to bioprocess sulfide mineral concentrates and also why temporary cessation of pH control in these systems, resulting in rapid acidification, often results in a plume of the archaeon Ferroplasma.

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Zhang, Qianqian, Zhenbing Wu, Juan Zhao, Guojie Wang, Jingwen Hao, Shuyi Wang, Yaoyao Lin, et al. "Composition and Functional Characteristics and Influencing Factors of Bacterioplankton Community in the Huangshui River, China." Microorganisms 9, no. 11 (October 29, 2021): 2260. http://dx.doi.org/10.3390/microorganisms9112260.

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Bacterial community plays a key role in environmental and ecological processes of river ecosystems. Given the special climatic and geographical conditions, studying the compositional characteristics of microorganisms in highland rivers and the relationship between such microorganisms and water physicochemical factors is important for an in-depth understanding of microbial ecological mechanisms. In the present study, high-throughput sequencing was used to investigate and study the bacterioplankton community of the Huangshui River in the ecotone zone of the Qinghai Plateau and Loess Plateau. The results showed that the Huangshui River had significantly lower alpha diversity than the plain rivers. Despite the similarity in their environmental conditions, the main taxonomic compositions of the bacterial communities were distinct between the Huangshui River and polar regions (the Arctic and Antarctica). Proteobacteria accounted for the largest proportion (30.79–99.98%) of all the sequences, followed by Firmicutes (0–49.38%). Acidiphilium was the most numerous genera, which accounted for 0.03–86.16% of the assigned 16S reads, followed by Acidocella (0–95.9%), both belonging to Alphaproteobacteria. The diverse taxa of potential pathogens, such as Acinetobacter, Pseudomonas, and Aeromonas, were also identified. A principal coordinates analysis, coupled with a canonical correspondence analysis, showed spatial variations in the bacterial community composition. The water physical properties (e.g., Cr6+, total phosphorus, and CODMn); altitude; and land use (e.g., urban land cover and aquaculture) determined the distribution of the bacterioplankton composition. PICRUSt2 revealed that the overall functional profiles of the bacterial communities in different samples were similar, and our results suggested the potential health risks of water sources in this area. This work provided valuable insight into the composition of the plankton bacterial community and its relationship with the environmental factors in the Huangshui River in the ecotone zone of the Qinghai Plateau and Loess Plateau and a theoretical foundation for ecological health management.

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Aizawa, Tomoko, and Makoto Urai. "Structural analysis of an aluminum-binding capsular polysaccharide produced by Acidocella aluminiidurans strain AL46, an aluminum-tolerant bacterium isolated from plant roots in a highly acidic swamp in actual acid sulfate soil." Carbohydrate Research 498 (December 2020): 108163. http://dx.doi.org/10.1016/j.carres.2020.108163.

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Li, Qianqian, Rebecca E. Cooper, Carl-Eric Wegner, Shipeng Lu, and Kirsten Küsel. "Draft Genome Sequences of Acidithrix sp. Strain C25 and Acidocella sp. Strain C78, Acidophiles Isolated from Iron-Rich Pelagic Aggregates (Iron Snow)." Microbiology Resource Announcements 10, no. 25 (June 24, 2021). http://dx.doi.org/10.1128/mra.00102-21.

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We report the draft genome sequences of two acidophiles, the Fe-oxidizing bacterium Acidithrix sp. strain C25 and the putative Fe-reducing Acidocella sp. strain C78. Both strains were isolated from iron-rich pelagic aggregates (iron snow) collected below the redoxcline at a 5-m depth in an acidic pit lake located in Germany (51°31′8.2″N, 13°41′34.7″E).

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Eze, Michael O., Grant C. Hose, Simon C. George, and Rolf Daniel. "Diversity and metagenome analysis of a hydrocarbon-degrading bacterial consortium from asphalt lakes located in Wietze, Germany." AMB Express 11, no. 1 (June 14, 2021). http://dx.doi.org/10.1186/s13568-021-01250-4.

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AbstractThe pollution of terrestrial and aquatic environments by petroleum contaminants, especially diesel fuel, is a persistent environmental threat requiring cost-effective and environmentally sensitive remediation approaches. Bioremediation is one such approach, but is dependent on the availability of microorganisms with the necessary metabolic abilities and environmental adaptability. The aim of this study was to examine the microbial community in a petroleum contaminated site, and isolate organisms potentially able to degrade hydrocarbons. Through successive enrichment of soil microorganisms from samples of an historic petroleum contaminated site in Wietze, Germany, we isolated a bacterial consortium using diesel fuel hydrocarbons as sole carbon and energy source. The 16S rRNA gene analysis revealed the dominance of Alphaproteobacteria. We further reconstructed a total of 18 genomes from both the original soil sample and the isolated consortium. The analysis of both the metagenome of the consortium and the reconstructed metagenome-assembled genomes show that the most abundant bacterial genus in the consortium, Acidocella, possess many of the genes required for the degradation of diesel fuel aromatic hydrocarbons, which are often the most toxic component. This can explain why this genus proliferated in all the enrichment cultures. Therefore, this study reveals that the microbial consortium isolated in this study and its dominant genus, Acidocella, could potentially serve as an effective inoculum for the bioremediation of sites polluted with diesel fuel or other organic contaminants.

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Servin-Garciduenas, L. E., R. A. Garrett, R. Amils, and E. Martinez-Romero. "Genome Sequence of the Acidophilic Bacterium Acidocella sp. Strain MX-AZ02." Genome Announcements 1, no. 1 (January 11, 2013). http://dx.doi.org/10.1128/genomea.00041-12.

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Yu, Wen-Ying, Ming-Hui Peng, Jia-Jia Wang, Wen-Yu Ye, Ya-Ling Li, Tian Zhang, Ai-Rong Wang, et al. "Microbial community associated with ectomycorrhizal Russula symbiosis and dominated nature areas in southern China." FEMS Microbiology Letters 368, no. 6 (March 2021). http://dx.doi.org/10.1093/femsle/fnab028.

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ABSTRACT Russula griseocarnosa is one of the uncultivable important mycorrhizal edible fungi. Currently, there is a limited insight into the dynamic composition of the microbial communities associated with Russula. Here, the microbiota in the root and mycorrhizosphere from Russula-Fagaceae nature areas of Fujian province were identified by Illumina MiSeq high-throughput sequencing. First, we compared three types of fungal communities associated with Russula-Fagaceae root mycelia-running stage (stage-1), Russula sporocarping stage-2 (stage-2) and Russula-free Fagaceae root (stage-3). Fungal diversity negatively correlated with Russula. Russula, Tomentella and Lactarius were core EcM in Fagaceae roots. A total of eight genera, including Boletus, are likely a positive indicator of Russula sporocarp production in Russula-Fagaceae roots, while Tomentella and Elaphomyces for Russula symbiosis. Secondly, analysis of fungal and bacterial communities within rhizosphere soils from the three stages revealed six genera, including Dacryobolus and Acidocella, as possible indicator species associated with sporocarping in Russula. Elaphomyces, Tomentella, Sorangium, Acidicaldus, Acidobacterium and Haliangium occurred more frequently in the Russula rhizosphere. Furthermore, operational taxonomic unit (OTU) network analysis showed a positive correlation between Russula,Tomentella, Elaphomyces and Sorangium. Overall, our results revealed a relationship between micro-community and Russula, which may provide a new strategy for improving Russula symbiosis and sporocarp production.

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Chan, Elaine Wan Ling, Mei Yu Chin, Yi Hui Low, Hui Yin Tan, Yi Sing Ooi, and Chun Wie Chong. "The Antibacterial Agent Identified from Acidocella spp. in the Fluid of Nepenthes gracilis Against Multidrug-Resistant Klebsiella pneumoniae: A Functional Metagenomic Approach." Microbial Drug Resistance, December 16, 2020. http://dx.doi.org/10.1089/mdr.2020.0311.

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Melekhina, E. N., E. S. Belykh, M. Yu Markarova, A. A. Taskaeva, E. E. Rasova, O. A. Baturina, M. R. Kabilov, and I. O. Velegzhaninov. "Soil microbiota and microarthropod communities in oil contaminated sites in the European Subarctic." Scientific Reports 11, no. 1 (October 4, 2021). http://dx.doi.org/10.1038/s41598-021-98680-8.

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AbstractThe present comprehensive study aimed to estimate the aftermath of oil contamination and the efficacy of removing the upper level of polluted soil under the conditions of the extreme northern taiga of northeastern European Russia. Soil samples from three sites were studied. Two sites were contaminated with the contents of a nearby sludge collector five years prior to sampling. The highly contaminated upper soil level was removed from one of them. The other was left for self-restoration. A chemical analysis of the soils was conducted, and changes in the composition of the soil zoocoenosis and bacterial and fungal microbiota were investigated. At both contaminated sites, a decrease in the abundance and taxonomic diversity of indicator groups of soil fauna, oribatid mites and collembolans compared to the background site were found. The pioneer eurytopic species Oppiella nova, Proisotoma minima and Xenyllodes armatus formed the basis of the microarthropod populations in the contaminated soil. A complete change in the composition of dominant taxonomic units was observed in the microbiota, both the bacterial and fungal communities. There was an increase in the proportion of representatives of Proteobacteria and Actinobacteria in polluted soils compared to the background community. Hydrocarbon-degrading bacteria—Alcanivorax, Rhodanobacter ginsengisoli, Acidobacterium capsulatum, and Acidocella—and fungi—Amorphotheca resinae abundances greatly increased in oil-contaminated soil. Moreover, among both bacteria and fungi, a sharp increase in the abundance of uncultivated organisms that deserve additional attention as potential oil degraders or organisms with a high resistance to oil contamination were observed. The removal of the upper soil level was partly effective in terms of decreasing the oil product concentration (from approximately 21 to 2.6 g/kg of soil) and preventing a decrease in taxonomic richness but did not prevent alterations in the composition of the microbiota or zoocoenosis.

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Jin, Shulan, Yizong Huang, Chengxu Dong, Yijun Bai, Huahua Pan, and Zhongjun Hu. "Effects of different straw returning amounts and fertilizer conditions on bacteria of rice’s different part in rare earth mining area." Scientific Reports 13, no. 1 (January 9, 2023). http://dx.doi.org/10.1038/s41598-023-27553-z.

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AbstractPot experiments were conducted to explore the effects of different rice straw returning soil on the community structure and function of bacteria in rice root, rhizosphere, leaf and phyllosphere under 7 conditions of rice straw combined with different fertilizers respectively. The results showed that: rice straw returning in different ways increased the content of soil pH and K, and reduced the accumulation of N, P and organic matter in soil, and different rice straw returning ways had different effects; rice straw returning reduced dry weight of rice grain, 2% of rice straw returning reduced rice grain greater than that of 1% rice straw returning; The reduction of NP combined fertilization is greater than that of NK combined fertilization and NPK combined fertilization. Except for the decrease of chao_1 index in rice root at maturity, rice straw returning significantly improved the abundance, diversity and evenness of bacteria in rice root, rhizosphere, leaf and phyllosphere. Rice straw returning increased the content of REEs in rice, and 2% of rice straw returning soil increased rare earth element (REE) content in rice grain greater than that of 1% rice straw returning soil. Different ways of rice straw returning soil reduced the abundance of Bacillus, while the abundance of Exiguobacterium in rice leaves was hundreds of times higher than that of the control group, and the genus in leaves was dozens of times higher than that of the control group, 2% of rice straw returning soil increased the abundance of harmful bacteria and pathogens of Acidovorax, Clostridium sensu stricto, Citrobacter, Curtobacterium, and 1% of rice straw returning soil promoted the abundance of nitrogen fixing bacteria, plant growth-promoting bacteria, stress resistant bacteria such as Lactobacillus, Azospira, Acinetobacter, Bradyrhizobium and Acidocella; Environmental factors such as available P, organic matter, total nitrogen, nitrate nitrogen, rare earth element content in rice roots, available K and soil moisture are important factors affecting the community structure of bacteria in rice roots, rhizosphere, leaf and phyllosphere at tillering stage of the rice. pH, REE content in rice roots, shoots, organic matter, total nitrogen, nitrate nitrogen and soil moisture content are the main environmental factors affecting the community structure of bacteria in rice roots, rhizosphere, leaf and phyllosphere at maturity stage of rice. 2% rice straw returning soil promoted the formation of harmful bacteria, which may be an important reason for its significant reduction in the dry weight of rice grains.

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Journal articles on the topic 'Acidocella'

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