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do Prado-Silva L, Godoy AT, Câmara AA, Oteiza JM, Brusa V, Maffei DF, Eberlin MN, Sant'Ana AS, Franco BDGM. Alicyclobacillus spp. in fruit-based products: Isolation, identification, quantitative assessment (SPME/GC-MS) of spoilage compounds and spore's resistance to thermal shocks. Int J Food Microbiol 2024; 418:110731. [PMID: 38733637 DOI: 10.1016/j.ijfoodmicro.2024.110731] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2024] [Revised: 04/07/2024] [Accepted: 04/30/2024] [Indexed: 05/13/2024]
Abstract
Alicyclobacillus spp. is the cause of great concern for the food industry due to their spores' resistance (thermal and chemical) and the spoilage potential of some species. Despite this, not all Alicyclobacillus strains can spoil fruit juices. Thus, this study aimed to identify Alicyclobacillus spp. strains isolated from fruit-based products produced in Argentina, Brazil, and Italy by DNA sequencing. All Alicyclobacillus isolates were tested for guaiacol production by the peroxidase method. Positive strains for guaiacol production were individually inoculated at concentration of 103 CFU/mL in 10 mL of orange (pH 3.90) and apple (pH 3.50) juices adjusted to 11°Brix, following incubation at 45 °C for at least 5 days to induce the production of the following spoilage compounds: Guaiacol, 2,6-dichlorophenol (2,6-DCP) and 2,6-dibromophenol (2,6-DBP). The techniques of micro-solid phase extraction by headspace (HS-SPME) and gas-chromatography with mass spectrometry (GC-MS) were used to identify and quantify the spoilage compounds. All GC-MS data was analyzed by principal component analysis (PCA). The effects of different thermal shock conditions on the recovery of Alicyclobacillus spores inoculated in orange and apple juice (11°Brix) were also tested. A total of 484 strains were isolated from 48 brands, and the species A. acidocaldarius and A. acidoterrestris were the most found among all samples analyzed. In some samples from Argentina, the species A. vulcanalis and A. mali were also identified. The incidence of these two main species of Alicyclobacillus in this study was mainly in products from pear (n = 108; 22.3 %), peach (n = 99; 20.5 %), apple (n = 86; 17.8 %), and tomato (n = 63; 13 %). The results indicated that from the total isolates from Argentina (n = 414), Brazil (n = 54) and Italy (n = 16) were able to produce guaiacol: 107 (25.8 %), 33 (61.1 %) and 13 (81.2 %) isolates from each country, respectively. The PCA score plot indicated that the Argentina and Brazil isolates correlate with higher production of guaiacol and 2,6-DCP/2,6-DBP, respectively. Heatmaps of cell survival after heat shock demonstrated that strains with different levels of guaiacol production present different resistances according to spoilage ability. None of the Alicyclobacillus isolates survived heat shocks at 120 °C for 3 min. This work provides insights into the incidence, spoilage potential, and thermal shock resistance of Alicyclobacillus strains isolated from fruit-based products.
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Affiliation(s)
- Leonardo do Prado-Silva
- Department of Food Science and Nutrition, Faculty of Food Engineering, University of Campinas, Campinas, SP, Brazil
| | - Adriana T Godoy
- Department of Analytical Chemistry, Institute of Chemistry, University of Campinas, 13083-970 Campinas, SP, Brazil
| | - Antonio A Câmara
- Department of Food Science and Nutrition, Faculty of Food Engineering, University of Campinas, Campinas, SP, Brazil
| | - Juan M Oteiza
- Centro de Investigación y Asistencia Técnica a la Industria Agroalimentaria (CIATI), Neuquén, Argentina
| | - Victoria Brusa
- IGEVET - Instituto de Genética Veterinaria "Ing. Fernando N. Dulout" (UNLP-CONICET LA PLATA), Facultad de Ciencias Veterinarias UNLP, Buenos Aires, Argentina
| | - Daniele F Maffei
- Department of Food Science and Technology, 'Luiz de Queiroz' College of Agriculture, University of Sao Paulo, Piracicaba, Brazil; Food Research Center (FoRC-CEPID), Sao Paulo, Brazil
| | - Marcos N Eberlin
- Mackenzie Presbyterian University, MackMass Laboratory, School of Engineering, 01302-907 São Paulo, SP, Brazil
| | - Anderson S Sant'Ana
- Department of Food Science and Nutrition, Faculty of Food Engineering, University of Campinas, Campinas, SP, Brazil.
| | - Bernadette D G M Franco
- Food Research Center (FoRC-CEPID), Sao Paulo, Brazil; Department of Food and Experimental Nutrition, Faculty of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil
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Jiang Z, Li X, Liang Z, Tan Z, Zhou N, Liu Y, Liu Z, Yin H, Luo K, Ingsriswang S, Liu S, Jiang C. Fodinisporobacter ferrooxydans gen. nov., sp. nov.-A Spore-Forming Ferrous-Oxidizing Bacterium Isolated from a Polymetallic Mine. Microorganisms 2024; 12:853. [PMID: 38792683 PMCID: PMC11123200 DOI: 10.3390/microorganisms12050853] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Revised: 04/17/2024] [Accepted: 04/17/2024] [Indexed: 05/26/2024] Open
Abstract
A novel acidophilic, aerobic bacterium strain, MYW30-H2T, was isolated from a heap of polymetallic mine. Cells of strain MYW30-H2T were Gram-stain-positive, endospore-forming, motile, and rod-shaped. Strain MYW30-H2T grew at a temperature range of 30-45 °C (optimum 40 °C) and a pH range of 3.5-6.0 (optimum 4.0) in the presence of 0-0.5% (w/v) NaCl. Strain MYW30-H2T could grow heterotrophically on yeast extract and glucose, and grow mixotrophically using ferrous iron as an electron donor with yeast extract. Menaquinone-7 (MK-7) was the sole respiratory quinone of the strain. Iso-C15:0 and anteiso-C15:0 were the major cellular fatty acids. The 16S rRNA gene sequence analysis showed that MYW30-H2T was phylogenetically affiliated with the family Alicyclobacillaceae, and the sequence similarity with other Alicyclobacillaceae genera species was below 91.51%. The average amino acid identity value of the strain with its phylogenetically related species was 52.3-62.1%, which fell into the genus boundary range. The DNA G+C content of the strain was 44.2%. Based on physiological and phylogenetic analyses, strain MYW30-H2T represents a novel species of a new genus of the family Alicyclobacillaceae, for which the name Fodinisporobacter ferrooxydans gen. nov., sp. nov. is proposed. The type strain is MYW30-H2T (=CGMCC 1.17422T = KCTC 43278T).
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Affiliation(s)
- Zhen Jiang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiutong Li
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Zonglin Liang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Zebao Tan
- College of Plant Protection, Hunan Agricultural University, Changsha 410128, China
| | - Nan Zhou
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Ying Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Zhenghua Liu
- Key Laboratory of Biometallurgy of Ministry of Education, School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China
| | - Huaqun Yin
- Key Laboratory of Biometallurgy of Ministry of Education, School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China
| | - Kun Luo
- College of Plant Protection, Hunan Agricultural University, Changsha 410128, China
| | - Supawadee Ingsriswang
- Thailand Bioresource Research Center (TBRC), National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency (NSTDA), Pathum Thani 12120, Thailand
| | - Shuangjiang Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
- State Key Laboratory of Microbial Biotechnology, Shandong University, Qingdao 266237, China
| | - Chengying Jiang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
- University of Chinese Academy of Sciences, Beijing 100049, China
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3
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Wang Y, Yu M, Xie Y, Ma W, Sun S, Li Q, Yang Y, Li X, Jia H, Zhao R. Mechanism of inactivation of Aspergillus flavus spores by dielectric barrier discharge plasma. Toxicon 2024; 239:107615. [PMID: 38219915 DOI: 10.1016/j.toxicon.2024.107615] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2023] [Revised: 01/02/2024] [Accepted: 01/10/2024] [Indexed: 01/16/2024]
Abstract
Dielectric barrier discharge plasma (DBDP) displays strong against fungal spores, while its precise mechanism of spore inactivation remains inadequately understood. In this study, we applied morphological, in vivo and in vitro experiments, transcriptomics, and physicochemical detection to unveil the potential molecular pathways underlying the inactivation of Aspergillus flavus spores by DBDP. Our findings suggested that mycelium growth was inhibited as observed by SEM after 30 s treatment at 70 kV, meanwhile spore germination ceased and clustering occurred. It led to the release of cellular contents and subsequent spore demise by disrupting the integrity of spore membrane. Additionally, based on the transcriptomic data, we hypothesized that the induction of spore inactivation by DBDP might be associated with downregulation of genes related to cell membranes, organelles (mitochondria), oxidative phosphorylation, and the tricarboxylic acid cycle. Subsequently, we validated our transcriptomic findings by measuring the levels of relevant enzymes in metabolic pathways, such as superoxide dismutase, acetyl-CoA, total dehydrogenase, and ATP. These physicochemical indicators revealed that DBDP treatment resulted in mitochondrial dysfunction, redox imbalance, and inhibited energy metabolism pathways. These findings were consistent with the transcriptomic results. Hence, we concluded that DBDP accelerated spore rupture and death via ROS-mediated mitochondrial dysfunction, which does not depend on cell membranes.
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Affiliation(s)
- Yaxin Wang
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China.
| | - Mingming Yu
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China
| | - Yanli Xie
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China.
| | - Weibin Ma
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China
| | - Shumin Sun
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China
| | - Qian Li
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China
| | - Yuhui Yang
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China
| | - Xiao Li
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China
| | - Hang Jia
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China
| | - Renyong Zhao
- College of Food Science and Engineering, Henan University of Technology, Zhengzhou, 450001, PR China; Henan Key Laboratory of Cereal and Oil Food Safety Inspection and Control, Zhengzhou, Henan, 450001, PR China.
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Huynh D, Haferburg G, Bunk B, Kaschabek SR, Sand W, Schlömann M. Alicyclobacillus sp. SO9, a novel halophilic acidophilic iron-oxidizing bacterium isolated from a tailings-contaminated beach, and its effect on copper extraction from chalcopyrite in the presence of high chloride concentration. Res Microbiol 2024; 175:104150. [PMID: 37926348 DOI: 10.1016/j.resmic.2023.104150] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2023] [Revised: 10/26/2023] [Accepted: 10/30/2023] [Indexed: 11/07/2023]
Abstract
Many acidophilic iron-oxidizing bacteria used in the mining industry for the bioleaching of sulfidic minerals are intolerant to high chloride concentrations, resulting in problems where chloride occurs in the deposit at high concentrations or only seawater is available. In search for strains tolerating such conditions a tetrathionate- and iron-oxidizing bacterium was isolated from a tailings-contaminated beach sample at Portman Bay, Cartagena-La Union mining district, Spain, in the presence of 20 g l-1 (0.34 M) sodium chloride. The isolate was able to form spores, did not grow in the absence of NaCl, and oxidized ferrous iron in the presence of up to 1.5 M (∼87 g l-1) NaCl. Genome sequencing based on a combination of Illumina and PacBio reads revealed two contigs, a circular bacterial chromosome of 5.2 Mbp and a plasmid of 90 kbp, respectively. The chromosome comprised seven different 16S rRNA genes. Submission of the chromosome to the Type (Strain) Genome Server (TYGS) without preselection of similar sequences revealed exclusively type strains of the genus Alicyclobacillus. In the TYGS analyses the respective most similar species were dependent on whether the final tree was derived from just 16S rRNA, from the genomes, or from the proteomes. Thus, TYGS analysis clearly showed that isolate SO9 represents a novel species of the genus Alicyclobacillus. In the presence of artificial seawater with almost 0.6 M chloride, the addition of Alicyclobacillus sp. SO9 improved copper dissolution from chalcopyrite (CuFeS2) compared to abiotic leaching without bacteria. The new isolate SO9, therefore, has potential for bioleaching at elevated chloride concentrations.
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Affiliation(s)
- Dieu Huynh
- Environmental Microbiology, Institute of Biosciences, TU Bergakademie Freiberg, Leipziger Str. 29, 09599 Freiberg, Germany
| | - Götz Haferburg
- Environmental Microbiology, Institute of Biosciences, TU Bergakademie Freiberg, Leipziger Str. 29, 09599 Freiberg, Germany
| | - Boyke Bunk
- Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures GmbH Dept. Bioinformatics, IT and Databases, Inhoffenstraße 7B, 38124 Braunschweig, Germany
| | - Stefan R Kaschabek
- Environmental Microbiology, Institute of Biosciences, TU Bergakademie Freiberg, Leipziger Str. 29, 09599 Freiberg, Germany
| | - Wolfgang Sand
- Environmental Microbiology, Institute of Biosciences, TU Bergakademie Freiberg, Leipziger Str. 29, 09599 Freiberg, Germany
| | - Michael Schlömann
- Environmental Microbiology, Institute of Biosciences, TU Bergakademie Freiberg, Leipziger Str. 29, 09599 Freiberg, Germany.
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5
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Meng L, Tomita R, Yoshida T, Yoshida N. Soil organic matter and nutrient availability affect the applicability of low-carbon energy source in Dehalococcoides-augmented soil. JOURNAL OF HAZARDOUS MATERIALS 2023; 459:132251. [PMID: 37591166 DOI: 10.1016/j.jhazmat.2023.132251] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2023] [Revised: 08/02/2023] [Accepted: 08/06/2023] [Indexed: 08/19/2023]
Abstract
Dehalococcoides is a functional microorganism that completely dechlorinates trichloroethene (TCE). Augmentation with pure Dehalococcoides is important for reducing environmental disturbances that accompany bioaugmentation. However, the applicability of Dehalococcoides-bioaugmentation to contaminated soils is unclear. In this study, seven low-carbon energy sources (methanol, formate, acetate, ethanol, lactate, citrate, and benzoate) were used as electron donors for Dehalococcides to evaluate its applicability in remediating TCE-contaminated soils. Soil microcosms supplemented with ethanol, formate, or lactate showed relatively high dechlorination activity within 111-180 days. The functional gene profiles predicted by PICRUSt2 from 16 S rRNA gene sequences were similar in the proportions of dehydrogenases, which initiate electron donor oxidation, in all soils and did not seem to reflect Dehalococcoides-bioaugmentation applicability. Soils with higher organic matter content (>3.2%; dry weight base) and protein concentration (>1.6 µg/mL) supported complete dechlorination. These results suggest that organic matter and nutrient availability mainly affect successful TCE dechlorination in Dehalococcoides-augmented soils. The study offers significant experimental support for comprehending the suitability of low-carbon energy sources in successful bioaugmentation, aiming to mitigate environmental disturbances associated with the process.
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Affiliation(s)
- Lingyu Meng
- Department of Civil Engineering, Nagoya Institute of Technology (Nitech), Nagoya 466-8555, Japan.
| | - Ryuya Tomita
- Department of Civil Engineering, Nagoya Institute of Technology (Nitech), Nagoya 466-8555, Japan.
| | - Tomoki Yoshida
- Department of Civil Engineering, Nagoya Institute of Technology (Nitech), Nagoya 466-8555, Japan.
| | - Naoko Yoshida
- Department of Civil Engineering, Nagoya Institute of Technology (Nitech), Nagoya 466-8555, Japan.
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6
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Goto K, Fujii T, Yasui K, Mochida K, Kato-Tanaka Y, Morohoshi S, An SY, Kasai H, Yokota A. Proposal of a novel subspecies: Alicyclobacillus hesperidum subspecies aegles. Int J Syst Evol Microbiol 2023; 73. [PMID: 37787393 DOI: 10.1099/ijsem.0.006067] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/04/2023] Open
Abstract
Alicyclobacillus sp. DSM 11985T was isolated from geothermal soil but had not yet been classified at the species level. The strain produced guaiacol, which is of interest from the viewpoint of food spoilage in the food industry. 16S rRNA gene sequence analysis revealed that strain DSM 11985T was closely related (99.6 % similarity) to Alicyclobacillus hesperidum DSM 12489T. However, strains of A. hesperidum did not produce guaiacol; therefore, we performed the taxonomic characterization of strain DSM 11985T. The results showed that strain DSM 11985T and strains of A. hesperidum showed different phenotypic characteristics in biochemical/physiological tests including guaiacol production. Average nucleotide identity values between strain DSM 11985T and strain DSM 12489T were 95.4-95.9 %, and the in silico DNA-DNA hybridization value using the Genome-to-Genome Distance Calculator between strains DSM 11985T and DSM 12489T was 65.5 %. These values showed that strain DSM 11985T was genetically closely related but separated from strains of A. heparidum. From the above results, a novel subspecies of A. hesperidum, named Alicyclobacillus hesperidum subsp. aegles subsp. nov. is proposed. The type strain is DSM 11985T (=FR-12T=NBRC 113041T).
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Affiliation(s)
- Keiichi Goto
- Tokai University,, School of Marine Science and Technology, 3-20-1 Orido, Shimizu-ku, Shizuoka-shi, Shizuoka 424-8610, Japan
| | - Taichi Fujii
- Tokai University,, School of Marine Science and Technology, 3-20-1 Orido, Shimizu-ku, Shizuoka-shi, Shizuoka 424-8610, Japan
| | - Kazuki Yasui
- Tokai University,, School of Marine Science and Technology, 3-20-1 Orido, Shimizu-ku, Shizuoka-shi, Shizuoka 424-8610, Japan
| | - Kaoru Mochida
- Mitsui Norin Co., Ltd., R&D Unit, 223-1 Miyahara Fujieda-shi, Shizuoka 426-0133, Japan
| | - Yuko Kato-Tanaka
- Mitsui Norin Co., Ltd., R&D Unit, 223-1 Miyahara Fujieda-shi, Shizuoka 426-0133, Japan
| | - Sho Morohoshi
- TechnoSuruga Laboratory Co., Ltd., 388-1 Nagasaki Shimizu-ku, Shizuoka-shi, Shizuoka 424-0065, Japan
| | - Sun-Young An
- Institute of Molecular and Cellular Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-0032, Japan
| | - Hiroaki Kasai
- School of Marine Bioscience, Kitasato University, 1-15-1 Kitazato, Minami-ku, Sagamihara-shi, Kanagawa 252-0373, Japan
| | - Akira Yokota
- Institute of Molecular and Cellular Biosciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-0032, Japan
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7
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Kim HW, Kim NK, Phillips APR, Parker DA, Liu P, Whitaker RJ, Rao CV, Mackie RI. Genomic insight and physiological characterization of thermoacidophilic Alicyclobacillus isolated from Yellowstone National Park. Front Microbiol 2023; 14:1232587. [PMID: 37822751 PMCID: PMC10562698 DOI: 10.3389/fmicb.2023.1232587] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Accepted: 09/14/2023] [Indexed: 10/13/2023] Open
Abstract
Introduction Alicyclobacillus has been isolated from extreme environments such as hot springs, volcanoes, as well as pasteurized acidic beverages, because it can tolerate extreme temperatures and acidity. In our previous study, Alicyclobacillus was isolated during the enrichment of methane oxidizing bacteria from Yellowstone Hot Spring samples. Methods Physiological characterization and genomic exploration of two new Alicyclobacillus isolates, AL01A and AL05G, are the main focus of this study to identify their potential relationships with a thermoacidophilic methanotroph (Methylacidiphilum) isolated from the same hot spring sediments. Results and discussion In the present study, both Alicyclobacillus isolates showed optimal growth at pH 3.5 and 55°C, and contain ω-alicyclic fatty acids as a major lipid (ca. 60%) in the bacterial membrane. Genomic analysis of these strains revealed specific genes and pathways that the methanotroph genome does not have in the intermediary carbon metabolism pathway such as serC (phosphoserine aminotransferase), comA (phosphosulfolactate synthase), and DAK (glycerone kinase). Both Alicyclobacillus strains were also found to contain transporter systems for extracellular sulfate (ABC transporter), suggesting that they could play an important role in sulfur metabolism in this extreme environment. Genomic analysis of vitamin metabolism revealed Alicyclobacillus and Methylacidiphilum are able to complement each other's nutritional deficiencies, resulting in a mutually beneficial relationship, especially in vitamin B1(thiamin), B3 (niacin), and B7 (biotin) metabolism. These findings provide insights into the role of Alicyclobacillus isolates in geothermal environments and their unique metabolic adaptations to these environments.
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Affiliation(s)
- Hye Won Kim
- Department of Animal Sciences, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Materials Research Laboratory, Energy and Biosciences Institute, University of Illinois at Urbana-Champaign, Champaign, IL, United States
| | - Na Kyung Kim
- Department of Animal Sciences, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Materials Research Laboratory, Energy and Biosciences Institute, University of Illinois at Urbana-Champaign, Champaign, IL, United States
| | - Alex P. R. Phillips
- Department of Microbiology, University of Illinois at Urbana-Champaign, Champaign, IL, United States
| | - David A. Parker
- Materials Research Laboratory, Energy and Biosciences Institute, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Westhollow Technology Center, Shell Exploration and Production Inc., Houston, TX, United States
| | - Ping Liu
- Materials Research Laboratory, Energy and Biosciences Institute, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Westhollow Technology Center, Shell Exploration and Production Inc., Houston, TX, United States
| | - Rachel J. Whitaker
- Department of Microbiology, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Champaign, IL, United States
| | - Christopher V. Rao
- Materials Research Laboratory, Energy and Biosciences Institute, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Champaign, IL, United States
| | - Roderick I. Mackie
- Department of Animal Sciences, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Materials Research Laboratory, Energy and Biosciences Institute, University of Illinois at Urbana-Champaign, Champaign, IL, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Champaign, IL, United States
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Roth K, Tran D, Joelsson A, Green S, Snyder AB. Detection of Alicyclobacillus spp. and Identification of Guaiacol Production Using the GENE-UP® PRO ACB, IFU Method No. 12, and Cosmo Bio Assays. J Food Prot 2023; 86:100114. [PMID: 37295499 DOI: 10.1016/j.jfp.2023.100114] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2023] [Revised: 05/31/2023] [Accepted: 06/02/2023] [Indexed: 06/12/2023]
Abstract
Some species of Alicyclobacillus spoil beverages by producing guaiacol. Current culture-based methods detect the presence of Alicyclobacillus spp. and a subsequent peroxidase assay determines if the isolate can produce guaiacol. However, these methods are time-consuming and can yield false negatives due to differences in growth optima among species. The purpose of this study was to compare a RT-PCR-based method, the GENE-UP® PRO ACB assay, to the IFU Method No. 12 Enumeration and Enrichment methods. Ten species of Alicyclobacillus were detected using the tested RT-PCR assay, while A. dauci and A. kakegewensis were not detected using either IFU protocol. Low concentrations (1-10, 10-100, and 100-1,000 CFU/10 mL) of A. acidoterrestris, A. suci, and A. acidocaldarius were tested in five matrices. The proportion of positive samples identified using the tested RT-PCR assay (62/84) or the IFU Enrichment protocol (62/84) did not differ significantly from the proportion of inoculated samples (63/84). However, the IFU Enumeration method (32/84) detected statistically fewer positives. Additionally, methods identifying guaiacol production were compared. The proportion of correctly identified guaiacol producers using the tested RT-PCR assay (51/63) was not significantly different than those identified using the 3 h Cosmo Bio assay (54/63). Finally, four commercial samples of orange juice and sucrose solution were tested. Alicyclobacillus spp. were identified in all four samples using the IFU Enrichment method and in two samples using the tested RT-PCR assay. However, Alicyclobacillus was not detected in any sample using the IFU Enumeration method. Overall, this study showed consistent detection of Alicyclobacillus spp. using either the IFU Enrichment protocol or the tested RT-PCR assay, which both outperformed the IFU Enumeration protocol. Both the 3 h guaiacol bioassay and the tested RT-PCR assays consistently differentiated guaiacol-producing and nonproducing strains.
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Affiliation(s)
- Katerina Roth
- Department of Food Science, Cornell University, Ithaca, NY 14853, USA
| | - Derrick Tran
- Department of Food Science, Cornell University, Ithaca, NY 14853, USA
| | | | | | - Abigail B Snyder
- Department of Food Science, Cornell University, Ithaca, NY 14853, USA.
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9
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Sourri P, Tassou CC, Nychas GJE, Panagou EZ. Fruit Juice Spoilage by Alicyclobacillus: Detection and Control Methods—A Comprehensive Review. Foods 2022; 11:foods11050747. [PMID: 35267380 PMCID: PMC8909780 DOI: 10.3390/foods11050747] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2022] [Revised: 02/22/2022] [Accepted: 03/02/2022] [Indexed: 12/03/2022] Open
Abstract
Fruit juices have an important place in humans’ healthy diet. They are considered to be shelf stable products due to their low pH that prevents the growth of most bacteria. However thermo-acidophilic endospore forming bacteria of the genus Alicyclobacillus have the potential to cause spoilage of commercially pasteurized fruit juices. The flat sour type spoilage, with absence of gas production but presence of chemical spoilage compounds (mostly guaiacol) and the ability of Alicyclobacillus spores to survive after pasteurization and germinate under favorable conditions make them a major concern for the fruit juice industry worldwide. Their special characteristics and presence in the fruit juice industry has resulted in the development of many isolation and identification methods based on cell detection (plating methods, ELISA, flow cytometry), nucleic acid analysis (PCR, RAPD-PCR, ERIC-PCR, DGGE-PCR, RT-PCR, RFLP-PCR, IMS-PCR, qPCR, and 16S rRNA sequencing) and measurement of their metabolites (HPLC, GC, GC-MS, GC-O, GC-SPME, Electronic nose, and FTIR). Early detection is a big challenge that can reduce economic loss in the industry while the development of control methods targeting the inactivation of Alicyclobacillus is of paramount importance as well. This review includes a discussion of the various chemical (oxidants, natural compounds of microbial, animal and plant origin), physical (thermal pasteurization), and non-thermal (High Hydrostatic Pressure, High Pressure Homogenization, ultrasound, microwaves, UV-C light, irradiation, ohmic heating and Pulse Electric Field) treatments to control Alicyclobacillus growth in order to ensure the quality and the extended shelf life of fruit juices.
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Affiliation(s)
- Patra Sourri
- Institute of Technology of Agricultural Products, Hellenic Agricultural Organization DIMITRA, Sofokli Venizelou 1, 14123 Lycovrissi, Greece;
| | - Chrysoula C. Tassou
- Institute of Technology of Agricultural Products, Hellenic Agricultural Organization DIMITRA, Sofokli Venizelou 1, 14123 Lycovrissi, Greece;
- Correspondence: (C.C.T.); (E.Z.P.)
| | - George-John E. Nychas
- Laboratory of Microbiology and Biotechnology of Foods, Department of Food Science and Human Nutrition, School of Food and Nutritional Sciences, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece;
| | - Efstathios Z. Panagou
- Laboratory of Microbiology and Biotechnology of Foods, Department of Food Science and Human Nutrition, School of Food and Nutritional Sciences, Agricultural University of Athens, Iera Odos 75, 11855 Athens, Greece;
- Correspondence: (C.C.T.); (E.Z.P.)
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10
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Roth K, Rana YS, Daeschel D, Kovac J, Worobo R, Snyder AB. Alicyclobacillus mali sp. nov., Alicyclobacillus suci sp. nov. and Alicyclobacillus fructus sp. nov., thermoacidophilic sporeforming bacteria isolated from fruit beverages. Int J Syst Evol Microbiol 2021; 71. [PMID: 34550062 DOI: 10.1099/ijsem.0.005016] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Six thermo-acidophilic, spore-forming strains were isolated from a variety of juice products and were characterized genetically and phenotypically. According to 16S rRNA and rpoB gene phylogenetic analyses and average nucleotide identity comparisons against the species demarcation cutoff at <95 %, these six strains were determined to represent three novel species of Alicyclobacillus. The isolates were designated FSL-W10-0018T, FSL-W10-0037, FSL-W10-0048, VF-FSL-W10-0049T, FSL-W10-0057 and FSL-W10-0059T. All six isolates were Gram-positive, motile, rod shaped, contained menaquinone 7 as the major respiratory quinone and had ω-cyclohexane C17 : 0 as a major fatty acid. They were all able to grow aerobically in a range of acidic and moderate thermal conditions. Only isolates FSL-W10-0048 and VF-FSL-W10-0049T were able to produce guaiacol. The following names are proposed for the three new species: Alicyclobacillus mali sp. nov. (type strain FSL-W10-0018T =DSM 112016T=NCIMB 15266T); Alicyclobacillus suci sp. nov (VF-FSL-W10-0049T=DSM 112017T=NCIMB 15265T); and Alicyclobacillus fructus sp. nov. (FSL-W10-0059T=DSM 112018T=NCIMB 15264T).
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Affiliation(s)
- Katerina Roth
- Department of Food Science, Cornell University, Ithaca, NY 14853, USA
| | | | - Devin Daeschel
- Department of Food Science, Cornell University, Ithaca, NY 14853, USA
| | - Jasna Kovac
- Department of Food Science, The Pennsylvania State University, University Park, PA 16802, USA
| | - Randy Worobo
- Department of Food Science, Cornell University, Ithaca, NY 14853, USA
| | - Abigail B Snyder
- Department of Food Science, Cornell University, Ithaca, NY 14853, USA
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11
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Evaluation of temperature, pH and nutrient conditions in bacterial growth and extracellular hydrolytic activities of two Alicyclobacillus spp. strains. Arch Microbiol 2021; 203:4557-4570. [PMID: 34159433 DOI: 10.1007/s00203-021-02332-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Revised: 04/08/2021] [Accepted: 04/11/2021] [Indexed: 12/16/2022]
Abstract
Extremophile bacteria have developed the metabolic machinery for living in extreme temperatures, pH, and high-salt content. Two novel bacterium strains Alicyclobacillus sp. PA1 and Alicyclobacillus sp. PA2, were isolated from crater lake El Chichon in Chiapas, Mexico. Phylogenetic tree analysis based on the 16SrRNA gene sequence revealed that the strain Alicyclobacillus sp. PA1 and Alicyclobacillus sp. PA2 were closely related to Alicyclobacillus species (98% identity and 94.73% identity, respectively). Both strains were Gram variable, and colonies were circular, smooth and creamy. Electron microscopy showed than Alicyclobacillus sp. PA1 has a daisy-like form and Alicyclobacillus sp. PA2 is a regular rod. Both strains can use diverse carbohydrates and triglycerides as carbon source and they also can use organic and inorganic nitrogen source. But, the two strains can grow without any carbon or nitrogen sources in the culture medium. Temperature, pH and nutrition condition affect bacterial growth. Maximum growth was produced at 65 °C for Alicyclobacillus sp. PA1 (0.732 DO600) at pH 3 and Alicyclobacillus sp. PA2 (0.725 DO600) at pH 5. Inducible extracellular extremozyme activities were determined for β-galactosidase (Alicyclobacillus sp. PA1: 88.07 ± 0.252 U/mg, Alicyclobacillus sp. PA2: 51.57 ± 0.308 U/mg), cellulose (Alicyclobacillus sp. PA1: 141.20 ± 0.585 U/mg, Alicyclobacillus sp. PA2: 51.57 ± 0.308 U/mg), lipase (Alicyclobacillus sp. PA1: 138.25 ± 0.600 U/mg, Alicyclobacillus sp. PA2: 175.75 ± 1.387 U/mg), xylanase (Alicyclobacillus sp. PA1: 174.72 ± 1.746 U/mg, Alicyclobacillus sp. PA2: 172.69 ± 0.855U/mg), and protease (Alicyclobacillus sp. PA1: 15.12 ± 0.121 U/mg, Alicyclobacillus sp. PA2: 15.33 ± 0.284 U/mg). These results provide new insights on extreme enzymatic production on Alicyclobacillus species.
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12
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Gebbie L, Dam TT, Ainscough R, Palfreyman R, Cao L, Harrison M, O'Hara I, Speight R. A snapshot of microbial diversity and function in an undisturbed sugarcane bagasse pile. BMC Biotechnol 2020; 20:12. [PMID: 32111201 PMCID: PMC7049217 DOI: 10.1186/s12896-020-00609-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2019] [Accepted: 02/24/2020] [Indexed: 02/07/2023] Open
Abstract
BACKGROUND Sugarcane bagasse is a major source of lignocellulosic biomass, yet its economic potential is not fully realised. To add value to bagasse, processing is needed to gain access to the embodied recalcitrant biomaterials. When bagasse is stored in piles in the open for long periods it is colonised by microbes originating from the sugarcane, the soil nearby or spores in the environment. For these microorganisms to proliferate they must digest the bagasse to access carbon for growth. The microbial community in bagasse piles is thus a potential resource for the discovery of useful and novel microbes and industrial enzymes. We used culturing and metabarcoding to understand the diversity of microorganisms found in a uniquely undisturbed bagasse storage pile and screened the cultured organisms for fibre-degrading enzymes. RESULTS Samples collected from 60 to 80 cm deep in the bagasse pile showed hemicellulose and partial lignin degradation. One hundred and four microbes were cultured from different layers and included a high proportion of oleaginous yeast and biomass-degrading fungi. Overall, 70, 67, 70 and 57% of the microbes showed carboxy-methyl cellulase, xylanase, laccase and peroxidase activity, respectively. These percentages were higher in microbes selectively cultured from deep layers, with all four activities found for 44% of these organisms. Culturing and amplicon sequencing showed that there was less diversity and therefore more selection in the deeper layers, which were dominated by thermophiles and acid tolerant organisms, compared with the top of pile. Amplicon sequencing indicated that novel fungi were present in the pile. CONCLUSIONS A combination of culture-dependent and independent methods was successful in exploring the diversity in the bagasse pile. The variety of species that was found and that are known for biomass degradation shows that the bagasse pile was a valuable selective environment for the identification of new microbes and enzymes with biotechnological potential. In particular, lignin-modifying activities have not been reported previously for many of the species that were identified, suggesting future studies are warranted.
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Affiliation(s)
- Leigh Gebbie
- Queensland University of Technology, 2 George St, Brisbane, QLD, 4000, Australia
| | - Tuan Tu Dam
- Queensland University of Technology, 2 George St, Brisbane, QLD, 4000, Australia
| | - Rebecca Ainscough
- Queensland University of Technology, 2 George St, Brisbane, QLD, 4000, Australia
| | - Robin Palfreyman
- Metabolomics Australia, Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland, St. Lucia, QLD, 4072, Australia
| | - Li Cao
- Queensland University of Technology, 2 George St, Brisbane, QLD, 4000, Australia
| | - Mark Harrison
- Queensland University of Technology, 2 George St, Brisbane, QLD, 4000, Australia
| | - Ian O'Hara
- Queensland University of Technology, 2 George St, Brisbane, QLD, 4000, Australia
| | - Robert Speight
- Queensland University of Technology, 2 George St, Brisbane, QLD, 4000, Australia.
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13
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Prado DBD, Szczerepa MMDA, Capeloto OA, Astrath NGC, Santos NCAD, Previdelli ITS, Nakamura CV, Mikcha JMG, Abreu Filho BAD. Effect of ultraviolet (UV-C) radiation on spores and biofilms of Alicyclobacillus spp. in industrialized orange juice. Int J Food Microbiol 2019; 305:108238. [DOI: 10.1016/j.ijfoodmicro.2019.108238] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2019] [Revised: 04/23/2019] [Accepted: 05/27/2019] [Indexed: 11/28/2022]
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14
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Dekowska A, Niezgoda J, Sokołowska B. Genetic Heterogeneity of Alicyclobacillus Strains Revealed by RFLP Analysis of vdc Region and rpoB Gene. BIOMED RESEARCH INTERNATIONAL 2018; 2018:9608756. [PMID: 30515419 PMCID: PMC6236696 DOI: 10.1155/2018/9608756] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/03/2018] [Accepted: 09/27/2018] [Indexed: 11/23/2022]
Abstract
PCR-RFLP targeting of the 16S rDNA and rpoB genes, as well as the vdc region, was applied to identify and differentiate between the spoilage and non-spoilage Alicyclobacillus species. Eight reference strains and 75 strains isolated from spoiled juices, juice concentrates, drinks, its intermediates, and fresh apples were subject to study. Hin6I restriction patterns of the 16S rDNA gene enabled distinguishing between all the species analyzed, while the rpoB gene and vdc gene cluster analysis also revealed that there were two major types among the A. acidoterrestris isolates, one similar to the reference strain A. acidoterrestris DSM 2498, and the other similar to the reference strain A. acidoterrestris ATCC 49025. Heterogeneity was also observed among the A. acidocaldarius isolates. RFLP analysis of the 16S rDNA and rpoB genes, as well as vdc region, can be used successfully in the identification and research of intraspecies heterogeneity of the Alicyclobacillus species.
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Affiliation(s)
- Agnieszka Dekowska
- Prof. Waclaw Dabrowski Institute of Agricultural and Food Biotechnology, 36 Rakowiecka Street, 02-532 Warsaw, Poland
| | - Jolanta Niezgoda
- Prof. Waclaw Dabrowski Institute of Agricultural and Food Biotechnology, 36 Rakowiecka Street, 02-532 Warsaw, Poland
| | - Barbara Sokołowska
- Prof. Waclaw Dabrowski Institute of Agricultural and Food Biotechnology, 36 Rakowiecka Street, 02-532 Warsaw, Poland
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15
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López G, Díaz-Cárdenas C, David Alzate J, Gonzalez LN, Shapiro N, Woyke T, Kyrpides NC, Restrepo S, Baena S. Description of Alicyclobacillus montanus sp. nov., a mixotrophic bacterium isolated from acidic hot springs. Int J Syst Evol Microbiol 2018; 68:1608-1615. [PMID: 29557767 DOI: 10.1099/ijsem.0.002718] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Three morphologically similar thermo-acidophilic strains, USBA-GBX-501, USBA-GBX-502 and USBA-GBX-503T, were isolated from acidic thermal springs at the National Natural Park Los Nevados (Colombia). All isolates were spore-forming, Gram-stain-positive and motile, growing aerobically at 25-55 °C (optimum ~45 °C) and at pH 1.5-4.5 (optimum pH ~3.0). Phylogenetic analysis of the 16S rRNA gene sequences of these isolates showed an almost identical sequence (99.0 % similarity) and they formed a robust cluster with the closest relative Alicyclobacillus tolerans DSM 16297T with a sequence similarity of 99.0 %. Average similarity to other species of the genus Alicyclobacillus was 93.0 % and average similarity to species of the genus Effusibacillus was 90 %. In addition, the level of DNA-DNA hybridization between strain USBA-GBX-503T and Alicyclobacillus tolerans DSM 16297T was 31.7 %. The genomic DNA G+C content of strain USBA-GBX-503T was 44.6 mol%. The only menaquinone was MK-7 (100.0 %). No ω-alicyclic fatty acids were detected in strain USBA-GBX-503T, and the major cellular fatty acids were C18 : 1ω7c, anteiso-C17 : 0 and iso-C17 : 0. Based on phenotypic and chemotaxonomic characteristics, phylogenetic analysis and DNA-DNA relatedness values, along with low levels of identity at the whole genome level (ANIb and ANIm values of <67.0 and <91.0 %, respectively), it can be concluded that strain USBA-GBX-503T represents a novel species of the genus Alicyclobacillus, for which the name Alicyclobacillus montanus sp. nov. is proposed. The type strain is USBA-GBX-503T (=CMPUJ UGB U503T=CBMAI1927T).
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Affiliation(s)
- G López
- Unidad de Saneamiento y Biotecnología Ambiental (USBA), Departamento de Biología, Pontificia Universidad Javeriana, POB 56710, Bogotá DC, Colombia.,Colombian Center for Genomics and Bioinformatics of Extreme Environments - GeBiX, Bogotá, DC, Colombia
| | - C Díaz-Cárdenas
- Unidad de Saneamiento y Biotecnología Ambiental (USBA), Departamento de Biología, Pontificia Universidad Javeriana, POB 56710, Bogotá DC, Colombia
| | - J David Alzate
- Biological Sciences Department, Universidad de los Andes, Cra 1 No. 18A-12, Bogotá DC, Colombia
| | - L N Gonzalez
- Biological Sciences Department, Universidad de los Andes, Cra 1 No. 18A-12, Bogotá DC, Colombia
| | - N Shapiro
- Genome Biology Program, Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA
| | - T Woyke
- Genome Biology Program, Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA
| | - N C Kyrpides
- Genome Biology Program, Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA
| | - S Restrepo
- Biological Sciences Department, Universidad de los Andes, Cra 1 No. 18A-12, Bogotá DC, Colombia
| | - S Baena
- Unidad de Saneamiento y Biotecnología Ambiental (USBA), Departamento de Biología, Pontificia Universidad Javeriana, POB 56710, Bogotá DC, Colombia.,Colombian Center for Genomics and Bioinformatics of Extreme Environments - GeBiX, Bogotá, DC, Colombia
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16
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Bergwall C. New microbiological challenges for the sugar industry with focus on thermophilic acidophilic bacteria. SUGAR INDUSTRY 2018. [DOI: 10.36961/si19117] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
The potential occurrence of guaiacol producing Alicyclobacillus in sugar products and in the sugar production process was evaluated. Final product testing revealed that granulated sugar products showed random background contamination while liquid sugar products were free from guaiacol producing bacteria. Contamination tracing in the sugar factory process showed that beet soil is a primary contamination route to a sugar factory. The bacteria were completely eliminated in the juice purification at all evaluated factories. Random re-contamination was observed in wash syrups from the A-station. Environmental contamination from air and surfaces could not be observed while 20% of human test subjects showed skin contamination of guaiacol producing bacteria. A successful elimination of guaiacol producing bacteria from sugar products was concluded to be unfeasible due to random re-contamination events in the sugar production process. It is suggested that the goal must be to evaluate realistic technical solutions located at the last step of the supply chain. Thermal and non-thermal treatment techniques are available and among those UV-treatment appears to be a promising elimination technique for TAB (thermophilic acidophilic bacteria) and GP-TAB.
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17
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Miletto M, Lindow SE. Relative and contextual contribution of different sources to the composition and abundance of indoor air bacteria in residences. MICROBIOME 2015; 3:61. [PMID: 26653310 PMCID: PMC4674937 DOI: 10.1186/s40168-015-0128-z] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2015] [Accepted: 10/29/2015] [Indexed: 05/10/2023]
Abstract
BACKGROUND The study of the microbial communities in the built environment is of critical importance as humans spend the majority of their time indoors. While the microorganisms in living spaces, especially those in the air, can impact health and well-being, little is known of their identity and the processes that determine their assembly. We investigated the source-sink relationships of airborne bacteria in 29 homes in the San Francisco Bay Area. Samples taken in the sites expected to be source habitats for indoor air microbes were analyzed by 16S rRNA-based pyrosequencing and quantitative PCR. The community composition was related to the characteristics of the household collected at the time of sampling, including the number of residents and pets, activity levels, frequency of cooking and vacuum cleaning, extent of natural ventilation, and abundance and type of vegetation surrounding the building. RESULTS Indoor air harbored a diverse bacterial community dominated by Diaphorobacter sp., Propionibacterium sp., Sphingomonas sp., and Alicyclobacillus sp. Source-sink analysis suggested that outdoor air was the primary source of indoor air microbes in most homes. Bacterial phylogenetic diversity and relative abundance in indoor air did not differ statistically from that in outdoor air. Moreover, the abundance of bacteria in outdoor air was positively correlated with that in indoor air, as would be expected if outdoor air was the main contributor to the bacterial community in indoor bioaerosols. The number of residents, presence of pets, and local tap water also influenced the diversity and size of indoor air microbes. The bacterial load in air increased with the number of residents, activity, and frequency of natural ventilation, and the proportion of bacteria putatively derived from skin increased with the number of residents. Vacuum cleaning increased the signature of pet- and floor-derived bacteria in indoor air, while the frequency of natural ventilation decreased the relative abundance of tap water-derived microorganisms in air. CONCLUSIONS Indoor air in residences harbors a diverse bacterial community originating from both outdoor and indoor sources and is strongly influenced by household characteristics.
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Affiliation(s)
- Marzia Miletto
- Plant & Microbial Biology, University of California Berkeley, 331 Koshland Hall, Berkeley, CA, 94720, USA.
| | - Steven E Lindow
- Plant & Microbial Biology, University of California Berkeley, 331 Koshland Hall, Berkeley, CA, 94720, USA.
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18
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Zhang B, Wu YF, Song JL, Huang ZS, Wang BJ, Liu SJ, Jiang CY. Alicyclobacillus fodiniaquatilis sp. nov., isolated from acid mine water. Int J Syst Evol Microbiol 2015; 65:4915-4920. [DOI: 10.1099/ijsem.0.000695] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Two novel, Gram-stain-variable, moderately thermophilic, acidophilic, rod-shaped, endospore-forming bacteria, G45-16T and G45-17, were isolated from acid mine water of Zijin copper mine in Fujian Province, China. Phylogenetic analysis of 16S rRNA gene sequences showed that they were closely related to Alicyclobacillus acidoterrestris ATCC 49025T with sequence similarities of 96.8 %. Cells grew aerobically at 20–45 °C (optimum, 40 °C), at pH 2.5–5.5 (optimum, pH 3.5) and in the presence of 0–4.0 % (w/v) NaCl. Strains contained MK-7 as the major menaquinone and the major cellular fatty acids were ω-cyclohexane C19 : 0 and ω-cyclohexane C17 : 0. The DNA G+C content was 51.3 and 49.8 mol% (T
m) for G45-16T and G45-17, respectively. On the basis of phenotypic, chemotaxonomic and phylogenetic comparisons with their relatives and DNA–DNA relatedness values, it is concluded that strains G45-16T and G45-17 represent a novel species within the genus Alicyclobacillus, for which the name Alicyclobacillus fodiniaquatilis sp. nov. is proposed; the type strain is G45-16T ( = CGMCC 1.15049T = NBRC 111483T).
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Affiliation(s)
- Bo Zhang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, PR China
- Graduate School of Chinese Academy of Science, Beijing 100049, PR China
| | - Yu-Fan Wu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, PR China
- Graduate School of Chinese Academy of Science, Beijing 100049, PR China
| | - Jin-Long Song
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, PR China
| | - Zhong-Sheng Huang
- State Key Laboratory of Comprehensive Utilization of Low-Grade Refractory Gold Ores (Zijin Mining Group Co., Ltd), , Fujian 364200, PR China
| | - Bao-Jun Wang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, PR China
| | - Shuang-Jiang Liu
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, PR China
| | - Cheng-Ying Jiang
- State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, 100101, PR China
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19
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Bevilacqua A, Mischitelli M, Pietropaolo V, Ciuffreda E, Sinigaglia M, Corbo MR. Genotypic and Phenotypic Heterogeneity in Alicyclobacillus acidoterrestris: A Contribution to Species Characterization. PLoS One 2015; 10:e0141228. [PMID: 26484547 PMCID: PMC4618475 DOI: 10.1371/journal.pone.0141228] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2015] [Accepted: 10/05/2015] [Indexed: 01/02/2023] Open
Abstract
Alicyclobacillus acidoterrestris is the main cause of most spoilage problems in fruit juices and acidic products. Since soil borne species often contaminate fruit juices and do not need strict extreme requirements for survival, it is a great concern to investigate whether and how soil species could evolve from their ecological niches in microbial community to new environments as fruit juices. In this study, 23 isolates of thermo-acidophilic, spore-forming bacteria from soil were characterized by cultural and molecular methods. In addition, 2 strains isolated from a spoilage incident in pear juice were typed. Strains phenotyping showed that they could be grouped into 3 different clusters, and some isolates showed identical or quite similar patterns. Analyzing pH and temperature ranges for growth, the majority of strains were able to grow at values described for many species of Alicyclobacillus. Qualitative utilization of lysine, arginine and indole production from tryptophan revealed, for the first time, deamination of lysine and decarboxylation of arginine. Resistance to 5% NaCl as well as the ability to hydrolyze starch and gelatin, nitrate reduction, catalase and oxidase activities confirmed literature evidences. Examining of 16S rRNA, showed that isolates were divided into three blocks represented by effectively soil species and strains that are moving from soil to other possible growing source characterized by parameters that could strongly influence bacterial survival. RAPD PCR technique evidenced a great variability in banding patterns and, although it was not possible to obtain genotypically well-distinguished groups, it was feasible to appreciate genetic similarity between some strains. In conclusion, the investigation of a microbial community entails a combination of metagenomic and classic culture-dependent approaches to expand our knowledge about Alicyclobacillus and to look for new subspecies.
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Affiliation(s)
- Antonio Bevilacqua
- Department of the Science of Agriculture, Food and Environment (SAFE), University of Foggia, Via Napoli, 25, 71122, Foggia, Italy
| | - Monica Mischitelli
- Department of Public Health and Infectious Diseases, Sapienza University of Rome, P.le Aldo Moro, 5, 00185, Rome, Italy
| | - Valeria Pietropaolo
- Department of Public Health and Infectious Diseases, Sapienza University of Rome, P.le Aldo Moro, 5, 00185, Rome, Italy
| | - Emanuela Ciuffreda
- Department of the Science of Agriculture, Food and Environment (SAFE), University of Foggia, Via Napoli, 25, 71122, Foggia, Italy
| | - Milena Sinigaglia
- Department of the Science of Agriculture, Food and Environment (SAFE), University of Foggia, Via Napoli, 25, 71122, Foggia, Italy
| | - Maria Rosaria Corbo
- Department of the Science of Agriculture, Food and Environment (SAFE), University of Foggia, Via Napoli, 25, 71122, Foggia, Italy
- * E-mail:
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20
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Ciuffreda E, Bevilacqua A, Sinigaglia M, Corbo MR. Alicyclobacillus spp.: New Insights on Ecology and Preserving Food Quality through New Approaches. Microorganisms 2015; 3:625-40. [PMID: 27682109 PMCID: PMC5023266 DOI: 10.3390/microorganisms3040625] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2015] [Accepted: 09/29/2015] [Indexed: 12/22/2022] Open
Abstract
Alicyclobacillus spp. includes spore-forming and thermo-acidophilic microorganisms, usually recovered from soil, acidic drinks, orchards and equipment from juice producers. The description of the genus is generally based on the presence of ω-fatty acids in the membrane, although some newly described species do not possess them. The genus includes different species and sub-species, but A. acidoterrestris is generally regarded as the most important spoiler for acidic drinks and juices. The main goal of this review is a focus on the ecology of the genus, mainly on the species A. acidoterrestris, with a special emphasis on the different phenotypic properties and genetic traits, along with the correlation among them and with the primary source of isolation. Finally, the last section of the review reports on some alternative approaches to heat treatments (natural compounds and other chemical treatments) to control and/or reduce the contamination of food by Alicyclobacillus.
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Affiliation(s)
- Emanuela Ciuffreda
- Department of the Science of Agriculture, Food and Environment, University of Foggia, Via Napoli 15, 71122 Foggia, Italy.
| | - Antonio Bevilacqua
- Department of the Science of Agriculture, Food and Environment, University of Foggia, Via Napoli 15, 71122 Foggia, Italy.
| | - Milena Sinigaglia
- Department of the Science of Agriculture, Food and Environment, University of Foggia, Via Napoli 15, 71122 Foggia, Italy.
| | - Maria Rosaria Corbo
- Department of the Science of Agriculture, Food and Environment, University of Foggia, Via Napoli 15, 71122 Foggia, Italy.
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Nakano C, Takahashi N, Tanaka N, Okada S. Alicyclobacillus dauci sp. nov., a slightly thermophilic, acidophilic bacterium isolated from a spoiled mixed vegetable and fruit juice product. Int J Syst Evol Microbiol 2015; 65:716-722. [DOI: 10.1099/ijs.0.068957-0] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel, moderately thermophilic, acidophilic, Gram-variable, rod-shaped, endospore-forming bacterium was isolated from a spoiled mixed vegetable and fruit juice product that had the off-flavour of guaiacol. The bacterium, strain 4FT, grew aerobically at 20–50 °C (optimum 40 °C) and pH 3.0–6.0 (optimum pH 4.0) and produced acid from glycerol, d-galactose and d-glucose. It contained menaquinone-7 (MK-7) as the major isoprenoid quinone and the DNA G+C content was 49.6 mol%. The predominant cellular fatty acids of strain 4FT were ω-alicyclic (ω-cyclohexane fatty acids), which are characteristic of the genus
Alicyclobacillus
. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain belongs to the
Alicyclobacillus
cluster, and is related most closely to the type strains of
Alicyclobacillus acidoterrestris
(97.4 % similarity) and
Alicyclobacillus fastidiosus
(97.3 %). Strain 4FT produced guaiacol from vanillic acid. It can be distinguished from related species by its acid production type and guaiacol production. On the basis of phenotypic characteristics, phylogenetic analysis and DNA–DNA relatedness values, it can be concluded that the strain represents a novel species of the genus
Alicyclobacillus
, for which the name Alicyclobacillus dauci sp. nov. is proposed; the type strain is 4FT ( = DSM 28700T = NBRC 108949T = NRIC 0938T).
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Affiliation(s)
- Chisa Nakano
- Research & Development Division, Kagome Co., Ltd, 17 Nishitomoyama, Nasushiobarashi, Tochigi, 329-2762, Japan
| | - Naoto Takahashi
- Research & Development Division, Kagome Co., Ltd, 17 Nishitomoyama, Nasushiobarashi, Tochigi, 329-2762, Japan
| | - Naoto Tanaka
- NODAI Culture Collection Center (NRIC), Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya-ku, Tokyo 156-8502, Japan
| | - Sanae Okada
- Department of Applied Biology and Chemistry, Faculty of Applied Bioscience, Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya-ku, Tokyo 156-8502, Japan
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22
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Huang XC, Yuan YH, Guo CF, Gekas V, Yue TL. Alicyclobacillusin the Fruit Juice Industry: Spoilage, Detection, and Prevention/Control. FOOD REVIEWS INTERNATIONAL 2014. [DOI: 10.1080/87559129.2014.974266] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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23
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Aneja KR, Dhiman R, Aggarwal NK, Aneja A. Emerging preservation techniques for controlling spoilage and pathogenic microorganisms in fruit juices. Int J Microbiol 2014; 2014:758942. [PMID: 25332721 PMCID: PMC4190135 DOI: 10.1155/2014/758942] [Citation(s) in RCA: 79] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2014] [Accepted: 06/20/2014] [Indexed: 11/18/2022] Open
Abstract
Fruit juices are important commodities in the global market providing vast possibilities for new value added products to meet consumer demand for convenience, nutrition, and health. Fruit juices are spoiled primarily due to proliferation of acid tolerant and osmophilic microflora. There is also risk of food borne microbial infections which is associated with the consumption of fruit juices. In order to reduce the incidence of outbreaks, fruit juices are preserved by various techniques. Thermal pasteurization is used commercially by fruit juice industries for the preservation of fruit juices but results in losses of essential nutrients and changes in physicochemical and organoleptic properties. Nonthermal pasteurization methods such as high hydrostatic pressure, pulsed electric field, and ultrasound and irradiations have also been employed in fruit juices to overcome the negative effects of thermal pasteurization. Some of these techniques have already been commercialized. Some are still in research or pilot scale. Apart from these emerging techniques, preservatives from natural sources have also shown considerable promise for use in some food products. In this review article, spoilage, pathogenic microflora, and food borne outbreaks associated with fruit juices of last two decades are given in one section. In other sections various prevention methods to control the growth of spoilage and pathogenic microflora to increase the shelf life of fruit juices are discussed.
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Affiliation(s)
- Kamal Rai Aneja
- Vaidyanath Research, Training and Diagnostic Centre, Kurukshetra 136118, India
| | - Romika Dhiman
- Department of Microbiology, Kurukshetra University, Kurukshetra 136119, India
| | | | - Ashish Aneja
- University Health Centre, Kurukshetra University, Kurukshetra 136119, India
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24
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Tianli Y, Jiangbo Z, Yahong Y. Spoilage byAlicyclobacillusBacteria in Juice and Beverage Products: Chemical, Physical, and Combined Control Methods. Compr Rev Food Sci Food Saf 2014. [DOI: 10.1111/1541-4337.12093] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Yue Tianli
- College of Food Science and Engineering; Northwest A&F Univ; Yangling PR China
| | - Zhang Jiangbo
- College of Food Science and Engineering; Northwest A&F Univ; Yangling PR China
| | - Yuan Yahong
- College of Food Science and Engineering; Northwest A&F Univ; Yangling PR China
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25
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Kim MG, Lee JC, Park DJ, Li WJ, Kim CJ. Alicyclobacillus tengchongensis sp. nov., a thermo-acidophilic bacterium isolated from hot spring soil. J Microbiol 2014; 52:884-9. [DOI: 10.1007/s12275-014-3625-z] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2013] [Revised: 12/20/2013] [Accepted: 12/24/2013] [Indexed: 11/30/2022]
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Bevilacqua A, Ciuffreda E, Sinigaglia M, Corbo MR. Effects of lysozyme onAlicyclobacillus acidoterrestrisunder laboratory conditions. Int J Food Sci Technol 2013. [DOI: 10.1111/ijfs.12302] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Antonio Bevilacqua
- Department of the Science of Agriculture, Food and Environment; University of Foggia; Via Napoli 25 71122 Foggia Italy
| | - Emanuela Ciuffreda
- Department of the Science of Agriculture, Food and Environment; University of Foggia; Via Napoli 25 71122 Foggia Italy
| | - Milena Sinigaglia
- Department of the Science of Agriculture, Food and Environment; University of Foggia; Via Napoli 25 71122 Foggia Italy
| | - Maria R. Corbo
- Department of the Science of Agriculture, Food and Environment; University of Foggia; Via Napoli 25 71122 Foggia Italy
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27
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Glaeser SP, Falsen E, Martin K, Kämpfer P. Alicyclobacillus consociatus sp. nov., isolated from a human clinical specimen. Int J Syst Evol Microbiol 2013; 63:3623-3627. [PMID: 23606481 DOI: 10.1099/ijs.0.048173-0] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-positive, aerobic organism, isolated from a blood sample from a 51-year-old woman, was studied for its taxonomic position. Based on 16S rRNA gene sequence similarity comparisons, strain CCUG 53762(T) was grouped into the genus Alicyclobacillus, most closely related to the type strain of Alicyclobacillus pohliae (94.7 %). The 16S rRNA gene sequence similarity to other species of the genus Alicyclobacillus was ≤91 % and similarity to species of the genus Tumebacillus was 91.3-93 %. The occurrence of menaquinone MK-7 as the major respiratory quinone, meso-diaminopimelic acid as the diagnostic diamino acid of the cell wall and the fatty acid profile supported the allocation of the strain to the genus Alicyclobacillus. Major fatty acids were iso- and anteiso-branched fatty acids. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and three unknown phospholipids. The absence of the iso-branched fatty acids iso-C16 : 0 and iso-C17 : 0 allowed differentiation of strain CCUG 53762(T) from A. pohliae CIP 109385(T). In addition, the results of physiological and biochemical tests also allowed phenotypic differentiation of strain CCUG 53762(T) from this most closely related species. The G+C content of the DNA was 47 mol%. Strain CCUG 53762(T) therefore represents a novel species of the genus Alicyclobacillus, for which we propose the name Alicyclobacillus consociatus sp. nov., with CCUG 53762(T) ( = CCM 8439(T)) as the type strain.
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Affiliation(s)
- Stefanie P Glaeser
- Institut für Angewandte Mikrobiologie, Justus-Liebig-Universität Giessen, D-35392 Giessen, Germany
| | - Enevold Falsen
- Culture Collection University Göteborg, Dept of Clinical Bacteriology, S-41346 Göteborg, Sweden
| | - Karin Martin
- Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e.V., Hans-Knöll-Institut, D-07745 Jena, Germany
| | - Peter Kämpfer
- Institut für Angewandte Mikrobiologie, Justus-Liebig-Universität Giessen, D-35392 Giessen, Germany
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28
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Bruneel O, Volant A, Gallien S, Chaumande B, Casiot C, Carapito C, Bardil A, Morin G, Brown GE, Personné CJ, Le Paslier D, Schaeffer C, Van Dorsselaer A, Bertin PN, Elbaz-Poulichet F, Arsène-Ploetze F. Characterization of the active bacterial community involved in natural attenuation processes in arsenic-rich creek sediments. MICROBIAL ECOLOGY 2011; 61:793-810. [PMID: 21318282 DOI: 10.1007/s00248-011-9808-9] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/07/2010] [Accepted: 01/20/2011] [Indexed: 05/08/2023]
Abstract
Acid mine drainage of the Carnoulès mine (France) is characterized by acid waters containing high concentrations of arsenic and iron. In the first 30 m along the Reigous, a small creek draining the site, more than 38% of the dissolved arsenic was removed by co-precipitation with Fe(III), in agreement with previous studies, which suggest a role of microbial activities in the co-precipitation of As(III) and As(V) with Fe(III) and sulfate. To investigate how this particular ecosystem functions, the bacterial community was characterized in water and sediments by 16S rRNA encoding gene library analysis. Based on the results obtained using a metaproteomic approach on sediments combined with high-sensitivity HPLC-chip spectrometry, several GroEL orthologs expressed by the community were characterized, and the active members of the prokaryotic community inhabiting the creek sediments were identified. Many of these bacteria are β-proteobacteria such as Gallionella and Thiomonas, but γ-proteobacteria such as Acidithiobacillus ferrooxidans and α-proteobacteria such as Acidiphilium, Actinobacteria, and Firmicutes were also detected.
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Affiliation(s)
- Odile Bruneel
- Laboratoire HydroSciences Montpellier, UMR5569 (CNRS-IRD-Universités Montpellier I et II), Université Montpellier II, CC MSE, Place Eugène Bataillon, 34095 Montpellier Cedex 05, France.
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29
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Steyn CE, Cameron M, Witthuhn RC. Occurrence of Alicyclobacillus in the fruit processing environment — A review. Int J Food Microbiol 2011; 147:1-11. [DOI: 10.1016/j.ijfoodmicro.2011.03.004] [Citation(s) in RCA: 71] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2010] [Revised: 02/11/2011] [Accepted: 03/02/2011] [Indexed: 10/18/2022]
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30
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Smit Y, Cameron M, Venter P, Witthuhn RC. Alicyclobacillus spoilage and isolation – A review. Food Microbiol 2011; 28:331-49. [DOI: 10.1016/j.fm.2010.11.008] [Citation(s) in RCA: 108] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2010] [Revised: 11/05/2010] [Accepted: 11/12/2010] [Indexed: 11/24/2022]
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Chen J, Ma X, Yuan Y, Zhang W. Sensitive and rapid detection of Alicyclobacillus acidoterrestris using loop-mediated isothermal amplification. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2011; 91:1070-1074. [PMID: 21337574 DOI: 10.1002/jsfa.4285] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2010] [Revised: 11/29/2010] [Accepted: 12/07/2010] [Indexed: 05/30/2023]
Abstract
BACKGROUND A loop-mediated isothermal amplification (LAMP) assay was developed for the rapid detection (within 2 h) of Alicyclobacillus acidoterrestris. The assay detected the species-specific DNA sequence of the 16S-23S rRNA internal transcribed spacer. RESULTS The eight strains of A. acidoterrestris were successfully amplified, but six strains of other bacillus Acidocaldarius and 13 bacterial species other than bacillus Acidocaldarius were not. The sensitivity of the LAMP assay was at 4.50 × 10(-2) cfu per tube. This sensitivity is greater than that obtained by polymerase chain reaction (PCR) assay. The LAMP assay was examined further for its ability to detect A. acidoterrestris in juice samples. The results were compared with those of conventional PCR detection. CONCLUSION Results indicate that the proposed LAMP assay is a rapid, specific and sensitive method for detecting A. acidoterrestris. As the amplification has been conducted under isothermal conditions, only a water bath or heating block is needed to maintain the required temperature. Thus, the method can be generalised and popularised easily in the future.
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Affiliation(s)
- Jing Chen
- College of Food Science and Technology, Agricultural University of Hebei, Baoding City, Hebei province, China
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32
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Isolation of Alicyclobacillus and the influence of different growth parameters. Int J Food Microbiol 2011; 146:63-8. [DOI: 10.1016/j.ijfoodmicro.2011.02.002] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2010] [Revised: 01/25/2011] [Accepted: 02/03/2011] [Indexed: 11/30/2022]
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33
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McKnight I, Eiroa M, Sant’Ana A, Massaguer P. Alicyclobacillus acidoterrestris in pasteurized exotic Brazilian fruit juices: Isolation, genotypic characterization and heat resistance. Food Microbiol 2010; 27:1016-22. [DOI: 10.1016/j.fm.2010.06.010] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2009] [Revised: 06/28/2010] [Accepted: 06/28/2010] [Indexed: 11/30/2022]
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Lu S, Gischkat S, Reiche M, Akob DM, Hallberg KB, Küsel K. Ecophysiology of Fe-cycling bacteria in acidic sediments. Appl Environ Microbiol 2010; 76:8174-83. [PMID: 20971876 PMCID: PMC3008266 DOI: 10.1128/aem.01931-10] [Citation(s) in RCA: 112] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2010] [Accepted: 10/13/2010] [Indexed: 02/01/2023] Open
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 × 10(5) 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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Affiliation(s)
- Shipeng Lu
- Institute of Ecology, Friedrich Schiller University Jena, Dornburger Strasse 159, D-07743 Jena, Germany, School of Biological Sciences, College of Natural Sciences, Bangor University, Bangor LL57 2UW, United Kingdom
| | - Stefan Gischkat
- Institute of Ecology, Friedrich Schiller University Jena, Dornburger Strasse 159, D-07743 Jena, Germany, School of Biological Sciences, College of Natural Sciences, Bangor University, Bangor LL57 2UW, United Kingdom
| | - Marco Reiche
- Institute of Ecology, Friedrich Schiller University Jena, Dornburger Strasse 159, D-07743 Jena, Germany, School of Biological Sciences, College of Natural Sciences, Bangor University, Bangor LL57 2UW, United Kingdom
| | - Denise M. Akob
- Institute of Ecology, Friedrich Schiller University Jena, Dornburger Strasse 159, D-07743 Jena, Germany, School of Biological Sciences, College of Natural Sciences, Bangor University, Bangor LL57 2UW, United Kingdom
| | - Kevin B. Hallberg
- Institute of Ecology, Friedrich Schiller University Jena, Dornburger Strasse 159, D-07743 Jena, Germany, School of Biological Sciences, College of Natural Sciences, Bangor University, Bangor LL57 2UW, United Kingdom
| | - Kirsten Küsel
- Institute of Ecology, Friedrich Schiller University Jena, Dornburger Strasse 159, D-07743 Jena, Germany, School of Biological Sciences, College of Natural Sciences, Bangor University, Bangor LL57 2UW, United Kingdom
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35
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Lima Tribst AA, de Souza Sant’Ana A, de Massaguer PR. Review: Microbiological quality and safety of fruit juices—past, present and future perspectives. Crit Rev Microbiol 2009; 35:310-39. [DOI: 10.3109/10408410903241428] [Citation(s) in RCA: 118] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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36
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Guo X, You XY, Liu LJ, Zhang JY, Liu SJ, Jiang CY. Alicyclobacillus aeris sp. nov., a novel ferrous- and sulfur-oxidizing bacterium isolated from a copper mine. Int J Syst Evol Microbiol 2009; 59:2415-20. [DOI: 10.1099/ijs.0.008870-0] [Citation(s) in RCA: 59] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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37
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Alicyclobacillus ferrooxydans sp. nov., a ferrous-oxidizing bacterium from solfataric soil. Int J Syst Evol Microbiol 2008; 58:2898-903. [DOI: 10.1099/ijs.0.2008/000562-0] [Citation(s) in RCA: 65] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
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38
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Steven B, Chen MQ, Greer CW, Whyte LG, Niederberger TD. Tumebacillus permanentifrigoris gen. nov., sp. nov., an aerobic, spore-forming bacterium isolated from Canadian high Arctic permafrost. Int J Syst Evol Microbiol 2008; 58:1497-501. [PMID: 18523202 DOI: 10.1099/ijs.0.65101-0] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-positive, aerobic, rod-shaped bacterium (strain Eur1 9.5(T)) was isolated from a 9-m-deep permafrost sample from the Canadian high Arctic. Strain Eur1 9.5(T) could not be cultivated in liquid medium and grew over the temperature range 5-37 degrees C; no growth was observed at 42 degrees C and only slow growth was observed at 5 degrees C following 1 month of incubation. Eur1 9.5(T) grew over the pH range 5.5-8.9 and tolerated NaCl concentrations of 0-0.5 % (w/v). Eur1 9.5(T) grew heterotrophically on complex carbon substrates and chemolithoautotrophically on inorganic sulfur compounds, as demonstrated by growth on sodium thiosulfate and sulfite as sole electron donors. Eur1 9.5(T) contained iso-C(15 : 0) as the major cellular fatty acid and menaquinone 7 (MK-7) as the major respiratory quinone. The cell-wall peptidoglycan was of type A1gamma. The DNA G+C content was 53.1 mol%. The 16S rRNA gene sequence of strain Eur1 9.5(T) was only distantly related (<or=87 % sequence similarity over 1407 bp) to any recognized bacterial species. Based on physiological and phylogenetic analyses, strain Eur1 9.5(T) is suggested to represent a novel species of a new genus, for which the name Tumebacillus permanentifrigoris gen. nov., sp. nov. is proposed. The type strain of Tumebacillus permanentifrigoris is Eur1 9.5(T) (=DSM 18773(T) =JCM 14557(T)).
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Affiliation(s)
- Blaire Steven
- Department of Natural Resource Sciences, McGill University, Ste-Anne de Bellevue, Quebec, Canada
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39
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Goto K, Nishibori A, Wasada Y, Furuhata K, Fukuyama M, Hara M. Identification of thermo-acidophilic bacteria isolated from the soil of several Japanese fruit orchards. Lett Appl Microbiol 2008; 46:289-94. [DOI: 10.1111/j.1472-765x.2007.02307.x] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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40
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Barrie Johnson D, Hallberg KB. Carbon, Iron and Sulfur Metabolism in Acidophilic Micro-Organisms. Adv Microb Physiol 2008; 54:201-55. [DOI: 10.1016/s0065-2911(08)00003-9] [Citation(s) in RCA: 137] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
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