Microbiology in Dairy Processing
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Biosynthesis in Vitro of Bacillamide Intermediate-Heterocyclic Alacysthiazole by Heterologous Expression of Nonribosomal Peptide Synthetase (NRPS) T
Journal of Biotechnology 292 (2019) 5–11 Contents lists available at ScienceDirect Journal of Biotechnology journal homepage: www.elsevier.com/locate/jbiotec Biosynthesis in vitro of bacillamide intermediate-heterocyclic AlaCysthiazole by heterologous expression of nonribosomal peptide synthetase (NRPS) T Fengli Zhang, Nayila Mulati, Yukun Wang, Yingxin Li, Sanqiang Gong, Loganathan Karthik, ⁎ Wei Sun, Zhiyong Li Marine Biotechnology Laboratory, State Key Laboratory of Microbial Metabolism and School of Life Sciences & Biotechnology, Shanghai Jiao Tong University, Shanghai, China ARTICLE INFO ABSTRACT Keywords: Bacillamide C, a potential natural antialgae active compound, is produced by Bacillus atrophaeus C89 derived Bacillus atrophaeus from marine sponge Dysidea avara. A nonribosomal peptide synthetase (NRPS) cluster is hypothesized to be Bacillamides involved in the biosynthesis of bacillamide C. The NRPS with a domain string of A1-PCP1-Cy-A2-PCP2-C can be Heterologous expression divided into three functional modules. After heterologous expression and purification of module A1-PCP1 and Nonribosomal peptide synthetase (NRPS) module Cy-A2-PCP2, their catalytic activities were biochemically proven in vitro by the reaction with the apo- Thiazole PCP domain transformed to the holo-PCP domain through a phosphopantetheinyl transferase, ATP, and substrate amino acids. Five– membered heterocyclic AlaCysthiazole with molecular weight of 172.0389 was detected. This proved the formation of the heterocyclic dipeptide AlaCysthiazole, which is considered to be a building block for the biosynthesis of bacillamide. This study provides a basis for further biosynthesis of bacillamides. 1. Introduction et al., 2017). Even though the biosynthesis of bacillamide C was opti- mized, the yield was very low (Jin et al., 2011; Yu et al., 2015). -
Towards Managing and Controlling Aflatoxin Producers Within
OPEN ACCESS Freely available online Applied Microbiology Open Access Research Article Profile of Nitrification and Denitrification Bacteria in the Different Layers of Filter Media in a Rhizofiltration System Mmasefako Lettie Mmammule Sikhosana1, Botha A2, Mpenyana-Monyatsi L1, Coetzee MAA1 1Department of Environmental, Water & Earth Sciences, Tshwane University of Technology, Pretoria, South Africa, 2Department of Microbiology, Stellenbosch University, Private Bag X1, Matieland, South Africa ABSTRACT The presence of nitrifying and denitrifying bacteria demonstrated the ability to remove nitrogen from the simulated urban runoff. The bacteria were isolated from the filter layers of the planted and unplanted sides of a constructed wetland. The system was operated with simulated urban runoff twice a week and was fed manually with a mixture of settled municipal wastewater. Culture-based methods and molecular techniques were applied to determine and identify the bacterial isolates sampled once in autumn from the different types of filter media used (three-layered filter). The 16S rDNA sequence analysis of the isolates recovered from the media revealed that the isolates were similar to the genus Pseudomonas, such as Pseudomonas yamanorum, Pseudomonas rhodesiae, and Pseudomonas extremaustralis. Isolates similar to Pseudomonas yamanorum were observed to be present in most filter layers of the planted side of the system and were also recovered in the second (middle) layer of the unplanted side of the system. Phylogenetic analysis confirmed the evolutionary relationship of isolates recovered in the layers of both the planted and unplanted sides of the systems to share similarities ranging between 95.6% and 100% with reference strains. The isolates were noted to possibly have nitrification abilities. -
Surface Characteristics of Bacillus Spores
Virginia Commonwealth University VCU Scholars Compass Theses and Dissertations Graduate School 2004 Surface Characteristics of Bacillus Spores Darlene Danette Sabio Virginia Commonwealth University Follow this and additional works at: https://scholarscompass.vcu.edu/etd Part of the Biology Commons © The Author Downloaded from https://scholarscompass.vcu.edu/etd/1056 This Thesis is brought to you for free and open access by the Graduate School at VCU Scholars Compass. It has been accepted for inclusion in Theses and Dissertations by an authorized administrator of VCU Scholars Compass. For more information, please contact [email protected]. College of Humanities and Sciences Virginia Commonwealth University This is to certify that the thesis prepared by Darlene Sabio entitled Surface Characteristics of Bacillus Spores has been approved by her committee as satisfactory completion of the thesis requirement for the degree of Master of Science. Dr. Stanley R. Webb, Department of Biology, Director of Thesis Dr. John E. Anderson, Department of Biology Dr. Gregory C. Garman, Director, Center for Environmental Studies Dr. Joseph H. Porter, Department of Psychology Dr. Leonard A. Smock, Chairman, Department of Biology Dr. Stephen D. Gottfredson, Dean, College of Humanities and Sciences Dr. F. Douglas Boudinot, Dean, School of Graduate Studies Date Surface Characteristics of Bacillus Spores A thesis submitted in partial fulfillment of the requirements for the degree of Master of Science at Virginia Commonwealth University. by Darlene Danette Sabio B.S. Eastern Mennonite University, 2002 B.A. University of South Florida, 1990 Director: Dr. Stanley R. Webb Associate Professor Department of Biology Virginia Commonwealth University Richmond, Virginia May, 2004 ii Acknowledgement First I would like to thank the LORD for giving me the strength to bring this to fruition. -
Detection and Differentiation of Bacterial Spores in a Mineral Matrix by Fourier Transform Infrared Spectroscopy (FTIR) and Chem
Detection and differentiation of bacterial spores in a mineral matrix by Fourier transform infrared spectroscopy (FTIR) and chemometrical data treatment Brandes Ammann and Brandl Brandes Ammann and Brandl BMC Biophysics 2011, 4:14 http://www.biomedcentral.com/2046-1682/4/14 (14 July 2011) Brandes Ammann and Brandl BMC Biophysics 2011, 4:14 http://www.biomedcentral.com/2046-1682/4/14 METHODOLOGY ARTICLE Open Access Detection and differentiation of bacterial spores in a mineral matrix by Fourier transform infrared spectroscopy (FTIR) and chemometrical data treatment Andrea Brandes Ammann and Helmut Brandl* Abstract Background: Fourier transform infrared spectroscopy (FTIR) has been used as analytical tool in chemistry for many years. In addition, FTIR can also be applied as a rapid and non-invasive method to detect and identify microorganisms. The specific and fingerprint-like spectra allow - under optimal conditions - discrimination down to the species level. The aim of this study was to develop a fast and reproducible non-molecular method to differentiate pure samples of Bacillus spores originating from different species as well as to identify spores in a simple matrix, such as the clay mineral, bentonite. Results: We investigated spores from pure cultures of seven different Bacillus species by FTIR in reflection or transmission mode followed by chemometrical data treatment. All species investigated (B. atrophaeus, B. brevis, B. circulans, B. lentus, B. megaterium, B. subtilis, B. thuringiensis) are typical aerobic soil-borne spore formers. Additionally, a solid matrix (bentonite) and mixtures of benonite with spores of B. megaterium at various wt/wt ratios were included in the study. Both hierarchical cluster analysis and principal component analysis of the spectra along with multidimensional scaling allowed the discrimination of different species and spore-matrix-mixtures. -
Identification of Beneficial Microbial Consortia and Bioactive
microorganisms Article Identification of Beneficial Microbial Consortia and Bioactive Compounds with Potential as Plant Biostimulants for a Sustainable Agriculture Silvia Tabacchioni 1,†, Stefania Passato 2, Patrizia Ambrosino 2, Liren Huang 3, Marina Caldara 4 , Cristina Cantale 1,†, Jonas Hett 5, Antonella Del Fiore 1, Alessia Fiore 1, Andreas Schlüter 3 , Alexander Sczyrba 3 , Elena Maestri 4 , Nelson Marmiroli 4, Daniel Neuhoff 5 , Joseph Nesme 6 , Søren Johannes Sørensen 6 , Giuseppe Aprea 1, Chiara Nobili 1 , Ombretta Presenti 1, Giusto Giovannetti 7, Caterina Giovannetti 7, Anne Pihlanto 8, Andrea Brunori 1 and Annamaria Bevivino 1,* 1 Department for Sustainability, ENEA, Italian National Agency for New Technologies, Energy and Sustainable Economic Development, Casaccia Research Center, 00123 Rome, Italy; [email protected] (S.T.); [email protected] (C.C.); antonella.delfi[email protected] (A.D.F.); alessia.fi[email protected] (A.F.); [email protected] (G.A.); [email protected] (C.N.); [email protected] (O.P.); [email protected] (A.B.) 2 AGRIGES srl, 82035 San Salvatore Telesino, Italy; [email protected] (S.P.); [email protected] (P.A.) 3 Center for Biotechnology (CeBiTec), Bielefeld University, 33615 Bielefeld, Germany; [email protected] (L.H.); [email protected] (A.S.); [email protected] (A.S.) 4 SITEIA.PARMA, Interdepartmental Centre for Food Safety, Technologies and Innovation for Agri-Food and Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, Citation: Tabacchioni, S.; Passato, S.; 43124 Parma, Italy; [email protected] (M.C.); [email protected] (E.M.); [email protected] (N.M.) Ambrosino, P.; Huang, L.; Caldara, 5 Department of Agroecology & Organic Farming, Rheinische Friedrich-Wilhelms-Universität Bonn, M.; Cantale, C.; Hett, J.; Del Fiore, A.; 53121 Bonn, Germany; [email protected] (J.H.); [email protected] (D.N.) Fiore, A.; Schlüter, A.; et al. -
Bacillus Subtilis
The ISME Journal (2020) 14:2703–2714 https://doi.org/10.1038/s41396-020-0721-4 ARTICLE A spore quality–quantity tradeoff favors diverse sporulation strategies in Bacillus subtilis 1,2,3 1,2 2,4 1,2,3 Alper Mutlu ● Charlotte Kaspar ● Nils Becker ● Ilka B. Bischofs Received: 4 September 2019 / Revised: 5 July 2020 / Accepted: 15 July 2020 / Published online: 28 July 2020 © The Author(s) 2020. This article is published with open access Abstract Quality–quantity tradeoffs govern the production of propagules across taxa and can explain variability in life-history traits in higher organisms. A quality–quantity tradeoff was recently discovered in spore forming bacteria, but whether it impacts fitness is unclear. Here we show both theoretically and experimentally that the nutrient supply during spore revival determines the fitness advantage associated with different sporulation behaviors in Bacillus subtilis. By tuning sporulation rates we generate spore-yield and spore-quality strategists that compete with each other in a microscopic life-cycle assay. The quality (yield) strategist is favored when spore revival is triggered by poor (rich) nutrients. We also show that natural isolates from the gut and soil employ different life-cycle strategies that result from genomic variations in the number of – 1234567890();,: 1234567890();,: rap-phr signaling systems. Taken together, our results suggest that a spore quality quantity tradeoff contributes to the evolutionary adaptation of sporulating bacteria. Introduction variable [4, 7, 8]. This suggests that sporulation timing is an evolvable and highly variable life-cycle trait. Endospores of the model organism Bacillus subtilis have By making spores, B. -
Helicobacter Pylori-Derived Extracellular Vesicles Increased In
OPEN Experimental & Molecular Medicine (2017) 49, e330; doi:10.1038/emm.2017.47 & 2017 KSBMB. All rights reserved 2092-6413/17 www.nature.com/emm ORIGINAL ARTICLE Helicobacter pylori-derived extracellular vesicles increased in the gastric juices of gastric adenocarcinoma patients and induced inflammation mainly via specific targeting of gastric epithelial cells Hyun-Il Choi1, Jun-Pyo Choi2, Jiwon Seo3, Beom Jin Kim3, Mina Rho4, Jin Kwan Han1 and Jae Gyu Kim3 Evidence indicates that Helicobacter pylori is the causative agent of chronic gastritis and perhaps gastric malignancy. Extracellular vesicles (EVs) play an important role in the evolutional process of malignancy due to their genetic material cargo. We aimed to evaluate the clinical significance and biological mechanism of H. pylori EVs on the pathogenesis of gastric malignancy. We performed 16S rDNA-based metagenomic analysis of gastric juices either from endoscopic or surgical patients. From each sample of gastric juices, the bacteria and EVs were isolated. We evaluated the role of H. pylori EVs on the development of gastric inflammation in vitro and in vivo. IVIS spectrum and confocal microscopy were used to examine the distribution of EVs. The metagenomic analyses of the bacteria and EVs showed that Helicobacter and Streptococcus are the two major bacterial genera, and they were significantly increased in abundance in gastric cancer (GC) patients. H. pylori EVs are spherical and contain CagA and VacA. They can induce the production of tumor necrosis factor-α, interleukin (IL)-6 and IL-1β by macrophages, and IL-8 by gastric epithelial cells. Also, EVs induce the expression of interferon gamma, IL-17 and EV-specific immunoglobulin Gs in vivo in mice. -
Identification and Classification of Known and Putative Antimicrobial Compounds Produced by a Wide Variety of Bacillales Species Xin Zhao1,2 and Oscar P
Zhao and Kuipers BMC Genomics (2016) 17:882 DOI 10.1186/s12864-016-3224-y RESEARCH ARTICLE Open Access Identification and classification of known and putative antimicrobial compounds produced by a wide variety of Bacillales species Xin Zhao1,2 and Oscar P. Kuipers1* Abstract Background: Gram-positive bacteria of the Bacillales are important producers of antimicrobial compounds that might be utilized for medical, food or agricultural applications. Thanks to the wide availability of whole genome sequence data and the development of specific genome mining tools, novel antimicrobial compounds, either ribosomally- or non-ribosomally produced, of various Bacillales species can be predicted and classified. Here, we provide a classification scheme of known and putative antimicrobial compounds in the specific context of Bacillales species. Results: We identify and describe known and putative bacteriocins, non-ribosomally synthesized peptides (NRPs), polyketides (PKs) and other antimicrobials from 328 whole-genome sequenced strains of 57 species of Bacillales by using web based genome-mining prediction tools. We provide a classification scheme for these bacteriocins, update the findings of NRPs and PKs and investigate their characteristics and suitability for biocontrol by describing per class their genetic organization and structure. Moreover, we highlight the potential of several known and novel antimicrobials from various species of Bacillales. Conclusions: Our extended classification of antimicrobial compounds demonstrates that Bacillales provide a rich source of novel antimicrobials that can now readily be tapped experimentally, since many new gene clusters are identified. Keywords: Antimicrobials, Bacillales, Bacillus, Genome-mining, Lanthipeptides, Sactipeptides, Thiopeptides, NRPs, PKs Background (bacteriocins) [4], as well as non-ribosomally synthesized Most of the species of the genus Bacillus and related peptides (NRPs) and polyketides (PKs) [5]. -
Tình Hình Nghiên Cứu Phát Hiện Các Loài Vi Khuẩn Mới Trong Đất Trồng Nhân Sâm (Panax L.) Trên Thế Giới
Tạp chí Công nghệ Sinh học 15(3): 403-422, 2017 TỔNG QUAN TÌNH HÌNH NGHIÊN CỨU PHÁT HIỆN CÁC LOÀI VI KHUẨN MỚI TRONG ĐẤT TRỒNG NHÂN SÂM (PANAX L.) TRÊN THẾ GIỚI Trần Bảo Trâm1, *, Nguyễn Ngọc Lan2, Phạm Hương Sơn1, Phạm Thế Hải3, Lê Thị Thu Hiền2, Nguyễn Thị Hiền1, Nguyễn Thị Thanh Mai1, Trương Thị Chiên1 1Viện Ứng dụng Công nghệ, Bộ Khoa học và Công nghệ 2Viện Nghiên cứu hệ gen, Viện Hàn lâm Khoa học và Công nghệ Việt Nam 3Trường Đại học Khoa học tự nhiên, Đại học Quốc gia Hà Nội * Người chịu trách nhiệm liên lạc. E-mail: [email protected] Ngày nhận bài: 21.11.2016 Ngày nhận đăng: 25.5.2017 TÓM TẮT Với hàm lượng mùn cao (2-10%), độ ẩm tốt (40-60%), pH hơi chua (khoảng 5-6), đất trồng sâm được coi là một trong những môi trường thích hợp cho vi khuẩn phát triển. Quần xã vi khuẩn trong đất trồng sâm rất đa dạng với nhiều loài mới đã được phát hiện và phân loại. Cho đến nay đã có 152 loài vi khuẩn mới được phân lập từ đất trồng sâm được công bố, chủ yếu ở Hàn Quốc (141 loài), tiếp theo là Trung Quốc (09 loài) và Việt Nam (02 loài). Các loài mới phát hiện được phân loại và xếp nhóm vào 5 ngành lớn gồm: Proteobacteria (48 loài), Bacteroidetes (49 loài), Actinobacteria (34 loài), Firmicutes (20 loài) và Armatimonadetes (01 loài). Ngoài tính mới, những loài được phát hiện còn có tiềm năng ứng dụng trong việc hạn chế các bệnh cây do nấm gây ra, tăng hàm lượng hoạt chất trong củ sâm hay sản xuất chất kích thích sinh trưởng thực vật...Trong đó các nghiên cứu đặc biệt quan tâm đến những loài có đặc tính chuyển hóa các ginsenoside chính (Rb1, Rb2, Rc, Re, Rg1) - chiếm tới 80% tổng số ginsenoside trong củ sâm sang dạng các ginsenoside chiếm lượng nhỏ (Rd, Rg3, Rh2, CK, F2) nhưng lại có hoạt tính dược học cao hơn. -
Biodiversity of Bacillus Subtilis Group and Beneficial Traits of Bacillus Species Useful in Plant Protection
Romanian Biotechnological Letters Vol. 20, No. 5, 2015 Copyright © 2015 University of Bucharest Printed in Romania. All rights reserved REVIEW Biodiversity of Bacillus subtilis group and beneficial traits of Bacillus species useful in plant protection Received for publication, June 10, 2015 Accepted, September 10, 2015 SICUIA OANA ALINA1,2, FLORICA CONSTANTINSCU2, CORNEA CĂLINA PETRUŢA1,* 1Faculty of Biotechnologies, University of Agronomic Sciences and Veterinary Medicine Bucharest, 59 Mărăşti Blvd, 011464 Bucharest, Romania 2Research and Development Institute for Plant Protection, 8 Ion Ionescu de la Brad Blvd., 013813 Bucharest, Romania *Corresponding author: Călina Petruţa Cornea, Faculty of Biotechnologies, University of Agronomic Sciences and Veterinary Medicine Bucharest, 59 Mărăşti Blvd, 011464 Bucharest, Romania, phone. 004-021-318.36.40, fax. 004-021-318.25.88, e-mail: [email protected] Abstract Biological control of plant pathogens and plant growth promotion by biological means is the late tendency in biotechnological approaches for agricultural improvement. Such an approach is considering the environmental protection issues without neglecting crop needs. In the present study, we are reviewing Bacillus spp. biocontrol and plant growth promoting activity. As Bacillus genus is a large bacterial taxon, with grate physiological biodiversity, we are describing some inter-grouping, differences and similarities between Bacillus species, especially related to Bacillus subtilis. Keywords: Bacillus subtilis group, beneficial bacteria 1. Introduction Bacillus genus is a heterogeneous taxon, with ubiquitous spread in nature. Bacillus species, such as Bacillus cereus, B. megaterium, B. subtilis, B.circulans and B. brevis group are widely exploited for biotechnological and industrial applications [1, 2]. Their beneficial traits for plant protection and growth promotion comprise the synthesis of broad-spectrum active metabolites, easily adaptation in various environmental conditions, benefic plant- bacterial interaction and advantageous formulation process [3]. -
INACTIVATION of Bacillus Atrophaeus SPORES in HEALTHCARE WASTE by UV LIGHT COUPLED with H2O2
Brazilian Journal of Chemical ISSN 0104-6632 Printed in Brazil Engineering www.abeq.org.br/bjche Vol. 30, No. 03, pp. 507 - 519, July - September, 2013 INACTIVATION OF Bacillus atrophaeus SPORES IN HEALTHCARE WASTE BY UV LIGHT COUPLED WITH H2O2 M. T. Iannotti and R. Pisani Jr.* University of Ribeirão Preto, Postgraduate Program in Environmental Technology, Phone: + (55) (16) 9111-0776, Fax: + (55) (16) 3603-6718, Avenida Costabile Romano 2201, 14096-900, Ribeirânia, Ribeirão Preto - SP, Brazil. E-mail: [email protected] (Submitted: April 24, 2012 ; Revised: July 25, 2012 ; Accepted: August 8, 2012) Abstract - Healthcare waste inoculated with B. atropheaus spores was used to evaluate a treatment process using UV light in combination with H2O2. First, the influence of the waste mass on the spore inactivation fraction was investigated for a constant radiation exposure time of 10 min and power per unit mass of waste (44-237 W/kg). The degree of inactivation of the spores was then determined as a function of exposure time (5-30 min) and power per mass unit (67-178 W/kg) for a constant waste mass. The experimental results were adjusted according to four kinetic models. The Hom and power law models were the most appropriate for the description of the disinfection process. The maximum experimental inactivation fraction (95%) achieved was obtained with 178 W/kg irradiation for 30 min. Keywords: B. atrophaeus spore; Disinfection, Healthcare waste; Ultraviolet; H2O2. INTRODUCTION The thermal treatment of wastes is considered to be one of the most effective methods for inactivating Improper waste disposal has produced environ- microorganisms, and it is one of the most used mental passives that may jeopardize natural resources methods. -
Sparus Aurata) and Sea Bass (Dicentrarchus Labrax)
Gut bacterial communities in geographically distant populations of farmed sea bream (Sparus aurata) and sea bass (Dicentrarchus labrax) Eleni Nikouli1, Alexandra Meziti1, Efthimia Antonopoulou2, Eleni Mente1, Konstantinos Ar. Kormas1* 1 Department of Ichthyology and Aquatic Environment, School of Agricultural Sciences, University of Thessaly, 384 46 Volos, Greece 2 Laboratory of Animal Physiology, Department of Zoology, School of Biology, Aristotle University of Thessaloniki, 541 24 Thessaloniki, Greece * Corresponding author; Tel.: +30-242-109-3082, Fax: +30-242109-3157, E-mail: [email protected], [email protected] Supplementary material 1 Table S1. Body weight of the Sparus aurata and Dicentrarchus labrax individuals used in this study. Chania Chios Igoumenitsa Yaltra Atalanti Sample Body weight S. aurata D. labrax S. aurata D. labrax S. aurata D. labrax S. aurata D. labrax S. aurata D. labrax (g) 1 359 378 558 420 433 448 481 346 260 785 2 355 294 579 442 493 556 516 397 240 340 3 376 275 468 554 450 464 540 415 440 500 4 392 395 530 460 440 483 492 493 365 860 5 420 362 483 479 542 492 406 995 6 521 505 506 461 Mean 380.40 340.80 523.17 476.67 471.60 487.75 504.50 419.67 326.25 696.00 SEs 11.89 23.76 17.36 19.56 20.46 23.85 8.68 21.00 46.79 120.29 2 Table S2. Ingredients of the diets used at the time of sampling. Ingredient Sparus aurata Dicentrarchus labrax (6 mm; 350-450 g)** (6 mm; 450-800 g)** Crude proteins (%) 42 – 44 37 – 39 Crude lipids (%) 19 – 21 20 – 22 Nitrogen free extract (NFE) (%) 20 – 26 19 – 25 Crude cellulose (%) 1 – 3 2 – 4 Ash (%) 5.8 – 7.8 6.2 – 8.2 Total P (%) 0.7 – 0.9 0.8 – 1.0 Gross energy (MJ/Kg) 21.5 – 23.5 20.6 – 22.6 Classical digestible energy* (MJ/Kg) 19.5 18.9 Added vitamin D3 (I.U./Kg) 500 500 Added vitamin E (I.U./Kg) 180 100 Added vitamin C (I.U./Kg) 250 100 Feeding rate (%), i.e.