Mechanism of Bacterial Adaptation to Low Temperature
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Viable but Non-Culturable Bacteria: Clinical Practice and Future Perspective
Editorial Article 2017, Vol: 5, Issue: 2, Pages: 1-2 DOI: 10.18869/acadpub.rmm.5.2.1 Research in Molecular Medicine Viable but Non-culturable Bacteria: Clinical Practice and Future Perspective Amin Talebi Bezmin Abadi Department of Bacteriology, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran. Phone: +98-2182884883, E-mail: [email protected] Received: 20 Feb 2017 Revised: 19 Mar 2017 Accepted: 30 Mar 2017 Please cite this article as: Talebi Bezmin Abadi A. Viable but Non-culturable Bacteria: Clinical Practice and Future Perspective. Res Mol Med. 2017; 5 (2): 1-2 Due to intolerable environmental conditions, bacteria learnt to mechanisms to survive VBNC cells in human and environment are adopt a useful strategy to survive longer which these organisms welcomed. generally is termed "viable but non-culturable". In the case of exposure to certain stresses (e.g., antibiotics, low metabolites, Current debate heavy metal and high pH environment, etc.), bacteria enter into the In clinical practices, we should examine possible molecular VBNC stage. In similar, having the starvation mode of physiology approaches for rapid detection of those crucial infectious agents. can be called VBNC model. In fact, viable but non-culturable cells Recently, the potential of microorganisms to enter into the VBNC (VBNC) are live bacteria, however, they are unable to be phase raised the cautious attention of microbiologists and also cultivated on conventional culture media (1). Because of clinicians to rethink about current strategies in hospitals and complexities in culture, observation of normal colonies on solid environmental hygiene. The raised central scientific issue is about and broth media is almost impossible for VBNCs. -
Deinococcus Radiodurans : La Recombinaison Entre S´Equencesr´Ep´Et´Eeset La Transformation Naturelle Solenne Ithurbide
Variabilit´eg´en´etiquechez la bact´erieradior´esistante Deinococcus radiodurans : la recombinaison entre s´equencesr´ep´et´eeset la transformation naturelle Solenne Ithurbide To cite this version: Solenne Ithurbide. Variabilit´eg´en´etiquechez la bact´erieradior´esistante Deinococcus radio- durans : la recombinaison entre s´equencesr´ep´et´eeset la transformation naturelle. Biologie mol´eculaire.Universit´eParis Sud - Paris XI, 2015. Fran¸cais. <NNT : 2015PA112193>. <tel- 01374867> HAL Id: tel-01374867 https://tel.archives-ouvertes.fr/tel-01374867 Submitted on 2 Oct 2016 HAL is a multi-disciplinary open access L'archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destin´eeau d´ep^otet `ala diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publi´esou non, lished or not. The documents may come from ´emanant des ´etablissements d'enseignement et de teaching and research institutions in France or recherche fran¸caisou ´etrangers,des laboratoires abroad, or from public or private research centers. publics ou priv´es. UNIVERSITÉ PARIS-SUD ÉCOLE DOCTORALE 426 GÈNES GÉNOMES CELLULES Institut de Biologie Intégrative de la Cellule THÈSE DE DOCTORAT SCIENCES DE LA VIE ET DE LA SANTÉ par Solenne ITHURBIDE Variabilité génétique chez la bactérie radiorésistante Deinococcus radiodurans : La recombinaison entre séquences répétées et la transformation naturelle Soutenue le 23 Septembre 2015 Composition du jury : Directeur de thèse : Suzanne SOMMER Professeur -
Bacterial Dormancy: a Subpopulation of Viable but Non-Culturable Cells Demonstrates Better Fitness for Revival
bioRxiv preprint doi: https://doi.org/10.1101/2020.07.23.216283; this version posted July 23, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Bacterial dormancy: a subpopulation of viable but non-culturable cells demonstrates better fitness for revival. Sariqa Wagley1*, Helen Morcrette1, Andrea Kovacs-Simon1, Zheng R. Yang1, Ann Power2, Richard K. Tennant2, John Love2, Neil Murray3, Richard W. Titball1 and Clive S. Butler1* 1 Biosciences, College of Life and Environmental Sciences, University of Exeter, Exeter, Devon, EX4 4QD, UK 2 BioEconomy Centre, The Henry Wellcome Building for BioCatalysis, Biosciences, Stocker Road, Exeter, Devon, EX4 4QD, UK 3 Lyons Seafoods, Fairfield House, Fairfield Road, Warminster, Wiltshire, BA12 9DA. *Corresponding authors: [email protected]; [email protected] Key words: Viable but non culturable cells, Vibrio parahaemolyticus, FACS, IFC, Proteomics Running title: characterisation of subpopulations of VBNC cells bioRxiv preprint doi: https://doi.org/10.1101/2020.07.23.216283; this version posted July 23, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Abstract: The viable but non culturable (VBNC) state is a condition in which bacterial cells are viable and metabolically active, but resistant to cultivation using a routine growth medium. -
Discovery and Control of Culturable and Viable but Non-Culturable Cells
www.nature.com/scientificreports OPEN Discovery and control of culturable and viable but non-culturable cells of a distinctive Lactobacillus Received: 20 February 2018 Accepted: 2 July 2018 harbinensis strain from spoiled beer Published: xx xx xxxx Junyan Liu1,3, Yang Deng4, Lin Li1,2,5, Bing Li1,5, Yanyan Li6, Shishui Zhou7, Mark E. Shirtlif8, Zhenbo Xu 1,4,8 & Brian M. Peters3, Occasional beer spoilage incidents caused by false-negative isolation of lactic acid bacteria (LAB) in the viable but non-culturable (VBNC) state, result in signifcant proft loss and pose a major concern in the brewing industry. In this study, both culturable and VBNC cells of an individual Lactobacillus harbinensis strain BM-LH14723 were identifed in one spoiled beer sample by genome sequencing, with the induction and resuscitation of VBNC state for this strain further investigated. Formation of the VBNC state was triggered by low-temperature storage in beer (175 ± 1.4 days) and beer subculturing (25 ± 0.8 subcultures), respectively, and identifed by both traditional staining method and PMA-PCR. Resuscitated cells from the VBNC state were obtained by addition of catalase rather than temperature upshift, changing medium concentration, and adding other chemicals, and both VBNC and resuscitated cells retained similar beer-spoilage capability as exponentially growing cells. In addition to the frst identifcation of both culturable and VBNC cells of an individual L. harbinensis strain from spoiled beer, this study also for the frst time reported the VBNC induction and resuscitation, as well as verifcation of beer-spoilage capability of VBNC and resuscitated cells for the L. -
Horizontal Gene Transfer Elements: Plasmids in Antarctic Microorganisms
Chapter 5 Horizontal Gene Transfer Elements: Plasmids in Antarctic Microorganisms Matías Giménez, Gastón Azziz, Paul R. Gill, and Silvia Batista Abstract Plasmids play an important role in the evolution of microbial communi- ties. These mobile genetic elements can improve host survival and may also be involved in horizontal gene transfer (HGT) events between individuals. Diverse culture-dependent and culture-independent approaches have been used to character- ize these mobile elements. Culture-dependent methods are usually associated with classical microbiological techniques. In the second approach, development of spe- cific protocols for analysis of metagenomes involves many challenges, including assembly of sequences and availability of a reliable database, which are crucial. In addition, alternative strategies have been developed for the characterization of plas- mid DNA in a sample, generically referred to as plasmidome. The Antarctic continent has environments with diverse characteristics, including some with very low temperatures, humidity levels, and nutrients. The presence of microorganisms and genetic elements capable of being transferred horizontally has been confirmed in these environments, and it is generally accepted that some of these elements, such as plasmids, actively participate in adaptation mechanisms of host microorganisms. Information related to structure and function of HGT elements in Antarctic bac- teria is very limited compared to what is known about HGT in bacteria from temper- ate/tropical environments. Some studies are done with biotechnological objectives. The search for mobile elements, such as plasmids, may be related to improve the expression of heterologous genes in host organisms growing at very low tempera- tures. More recently, however, additional studies have been done to detect plasmids in isolates, associated or not with specific phenotypes such as drug resistance. -
Isolation and Characterization of a Biosurfactant from Deinococcus Caeni PO5 Using Jackfruit Seed Powder As a Substrate
Ann Microbiol (2014) 64:1007–1020 DOI 10.1007/s13213-013-0738-2 ORIGINAL ARTICLE Isolation and characterization of a biosurfactant from Deinococcus caeni PO5 using jackfruit seed powder as a substrate Chanika Saenge Chooklin & Sirirat Petmeaun & Suppasil Maneerat & Atipan Saimmai Received: 15 April 2013 /Accepted: 18 October 2013 /Published online: 22 January 2014 # Springer-Verlag Berlin Heidelberg and the University of Milan 2014 Abstract Biosurfactant-producing bacteria were isolated Keywords Deinococcus caeni . Isolation . Jackfruit seed from various sources in the south of Thailand. Isolates were powder . Surface tension . Biosurfactant . Polyaromatic screened for biosurfactant production using jackfruit seed hydrocarbons . Microbial oil recovery powder (JSP) as a novel and promising substrate. The highest biosurfactant activity was obtained with a bacterial strain which was identified by 16S rRNA gene sequence analysis Introduction as Deinococcus caeni PO5. D. caeni PO5 was able to grow and reduce the surface tension of the culture supernatant from Biosurfactants are a diverse group of surface-active agents 67.0 to 25.0 mN/m after 87 h of cultivation when 40 g/l of JSP with both hydrophilic and hydrophobic moieties and are pro- and 1 g/l of commercial monosodium glutamate were used as duced by many living microorganisms, such as bacteria and carbon and nitrogen sources, respectively. The biosurfactant fungi (Desai and Banat 1997). Biosurfactants have many obtained by ethyl acetate extraction showed high surface advantages over synthetic surfactants. These include a lower tension reduction (47.0 mN/m), a small critical micelle con- toxicity and higher biodegradability, which makes them more centration value (8 mg/l), thermal and pH stability with re- environmentally friendly, better foaming properties, milder spect to surface tension reduction and emulsification activity, production conditions, lower critical micelle concentration, and a high level of salt tolerance. -
The Viable but Nonculturable State and Cellular Resuscitation
To Grow or Not to Grow: Nonculturability Revisited The viable but nonculturable state and cellular resuscitation J.D. Oliver University of North Carolina, Charlotte, NC 28223 USA ABSTRACT Aquatic microbial ecologists have long recognized that portions of bacterial populations seem to disappear from natural water bodies during certain times of the year, only to reappear at other times. In the case of V. vulnificus, numerous studies have documented the difficulty researchers experience in culturing this bacterium during cold months, presumably due to “die-off” of the population. This decrease in culturability is thought to be due to the entrance of the cells into a viable but nonculturable (VBNC) state, reported to occur in at east 30 other bacterial species. It is thought that the VBNC state may represent a survival response of bacteria exposed to stressful environmental conditions and, in the case of V. vulnificus, is induced by temperatures below 10 oC. The ability of any bacterium to resuscitate from this dormant state would appear to be essential if the VBNC state were truly a survival strategy. Whether the culturable cells, which appear following stress removal, are a result of true resuscitation, or from re-growth of a few residual culturable cells, has long been debated. Our research, including dilution studies, time required for resuscitation to occur, and the effects of nutrient on recovery, indicates that, at least for V. vulnificus, true resuscitation does occur. Our studies have further suggested that nutrient is in some way inhibitory to the resuscitation of cells in the VBNC state, and that studies which add nutrient in an attempt to detect resuscitation are only able to detect culturable cells which might be present. -
Deinococcus Antarcticus Sp. Nov., Isolated from Soil
International Journal of Systematic and Evolutionary Microbiology (2015), 65, 331–335 DOI 10.1099/ijs.0.066324-0 Deinococcus antarcticus sp. nov., isolated from soil Ning Dong,1,2 Hui-Rong Li,1 Meng Yuan,1,2 Xiao-Hua Zhang2 and Yong Yu1 Correspondence 1SOA Key Laboratory for Polar Science, Polar Research Institute of China, Shanghai 200136, Yong Yu PR China [email protected] 2College of Marine Life Sciences, Ocean University of China, Qingdao 266003, PR China A pink-pigmented, non-motile, coccoid bacterial strain, designated G3-6-20T, was isolated from a soil sample collected in the Grove Mountains, East Antarctica. This strain was resistant to UV irradiation (810 J m”2) and slightly more sensitive to desiccation as compared with Deinococcus radiodurans. Phylogenetic analyses based on the 16S rRNA gene sequence of the isolate indicated that the organism belongs to the genus Deinococcus. Highest sequence similarities were with Deinococcus ficus CC-FR2-10T (93.5 %), Deinococcus xinjiangensis X-82T (92.8 %), Deinococcus indicus Wt/1aT (92.5 %), Deinococcus daejeonensis MJ27T (92.3 %), Deinococcus wulumuqiensis R-12T (92.3 %), Deinococcus aquaticus PB314T (92.2 %) and T Deinococcus radiodurans DSM 20539 (92.2 %). Major fatty acids were C18 : 1v7c, summed feature 3 (C16 : 1v7c and/or C16 : 1v6c), anteiso-C15 : 0 and C16 : 0. The G+C content of the genomic DNA of strain G3-6-20T was 63.1 mol%. Menaquinone 8 (MK-8) was the predominant respiratory quinone. Based on its phylogenetic position, and chemotaxonomic and phenotypic characteristics, strain G3-6-20T represents a novel species of the genus Deinococcus, for which the name Deinococcus antarcticus sp. -
Access to Electronic Thesis
Access to Electronic Thesis Author: Khalid Salim Al-Abri Thesis title: USE OF MOLECULAR APPROACHES TO STUDY THE OCCURRENCE OF EXTREMOPHILES AND EXTREMODURES IN NON-EXTREME ENVIRONMENTS Qualification: PhD This electronic thesis is protected by the Copyright, Designs and Patents Act 1988. No reproduction is permitted without consent of the author. It is also protected by the Creative Commons Licence allowing Attributions-Non-commercial-No derivatives. If this electronic thesis has been edited by the author it will be indicated as such on the title page and in the text. USE OF MOLECULAR APPROACHES TO STUDY THE OCCURRENCE OF EXTREMOPHILES AND EXTREMODURES IN NON-EXTREME ENVIRONMENTS By Khalid Salim Al-Abri Msc., University of Sultan Qaboos, Muscat, Oman Mphil, University of Sheffield, England Thesis submitted in partial fulfillment for the requirements of the Degree of Doctor of Philosophy in the Department of Molecular Biology and Biotechnology, University of Sheffield, England 2011 Introductory Pages I DEDICATION To the memory of my father, loving mother, wife “Muneera” and son “Anas”, brothers and sisters. Introductory Pages II ACKNOWLEDGEMENTS Above all, I thank Allah for helping me in completing this project. I wish to express my thanks to my supervisor Professor Milton Wainwright, for his guidance, supervision, support, understanding and help in this project. In addition, he also stood beside me in all difficulties that faced me during study. My thanks are due to Dr. D. J. Gilmour for his co-supervision, technical assistance, his time and understanding that made some of my laboratory work easier. In the Ministry of Regional Municipalities and Water Resources, I am particularly grateful to Engineer Said Al Alawi, Director General of Health Control, for allowing me to carry out my PhD study at the University of Sheffield. -
The Puzzle of Coccoid Forms of Helicobacter Pylori: Beyond Basic Science
antibiotics Review The Puzzle of Coccoid Forms of Helicobacter pylori: Beyond Basic Science 1, , 1,2, 1 1 3 Enzo Ierardi * y , Giuseppe Losurdo y , Alessia Mileti , Rosa Paolillo , Floriana Giorgio , Mariabeatrice Principi 1 and Alfredo Di Leo 1 1 Section of Gastroenterology, Department of Emergency and Organ Transplantation, University “Aldo Moro” of Bari, 70124 Bari, Italy; [email protected] (G.L.); [email protected] (A.M.); [email protected] (R.P.); [email protected] (M.P.); [email protected] (A.D.L.) 2 Ph.D. Course in Organs and Tissues Transplantation and Cellular Therapies, Department of Emergency and Organ Transplantation, University “Aldo Moro” of Bari, 70124 Bari, Italy 3 THD S.p.A., 42015 Correggio (RE), Italy; fl[email protected] * Correspondence: [email protected]; Tel.: +39-08-05-593-452; Fax: +39-08-0559-3088 G.L. and E.I. contributed equally and are co-first Authors. y Academic Editor: Nicholas Dixon Received: 20 April 2020; Accepted: 29 May 2020; Published: 31 May 2020 Abstract: Helicobacter pylori (H. pylori) may enter a non-replicative, non-culturable, low metabolically active state, the so-called coccoid form, to survive in extreme environmental conditions. Since coccoid forms are not susceptible to antibiotics, they could represent a cause of therapy failure even in the absence of antibiotic resistance, i.e., relapse within one year. Furthermore, coccoid forms may colonize and infect the gastric mucosa in animal models and induce specific antibodies in animals and humans. Their detection is hard, since they are not culturable. Techniques, such as electron microscopy, polymerase chain reaction, loop-mediated isothermal amplification, flow cytometry and metagenomics, are promising even if current evidence is limited. -
Induction and Resuscitation of Viable but Nonculturable Corynebacterium Diphtheriae
microorganisms Communication Induction and Resuscitation of Viable but Nonculturable Corynebacterium diphtheriae Takashi Hamabata 1, Mitsutoshi Senoh 2,*, Masaaki Iwaki 3, Ayae Nishiyama 1, Akihiko Yamamoto 3 and Keigo Shibayama 2 1 Research Institute, National Center for Global Health and Medicine, Tokyo 162-8655, Japan; [email protected] (T.H.); [email protected] (A.N.) 2 Department of Bacteriology II, National Institute of Infectious Diseases, Tokyo 208-0011, Japan; [email protected] 3 Management Department of Biosafety and Laboratory Animal, National Institute of Infectious Diseases, Tokyo 208-0011, Japan; [email protected] (M.I.); [email protected] (A.Y.) * Correspondence: [email protected]; Tel.: +81-42-561-0771 Abstract: Many pathogenic bacteria, including Escherichia coli and Vibrio cholerae, can become vi- able but nonculturable (VBNC) following exposure to specific stress conditions. Corynebacterium diphtheriae, a known human pathogen causing diphtheria, has not previously been shown to enter the VBNC state. Here, we report that C. diphtheriae can become VBNC when exposed to low tem- peratures. Morphological differences in culturable and VBNC C. diphtheriae were examined using scanning electron microscopy. Culturable cells presented with a typical rod-shape, whereas VBNC cells showed a distorted shape with an expanded center. Cells could be transitioned from VBNC to culturable following treatment with catalase. This was further evaluated via RNA sequence-based transcriptomic analysis and reverse-transcription quantitative PCR of culturable, VBNC, and resusci- Citation: Hamabata, T.; Senoh, M.; tated VBNC cells following catalase treatment. As expected, many genes showed different behavior Iwaki, M.; Nishiyama, A.; Yamamoto, A.; Shibayama, K. -
Bacterial Diversity Assessment in Antarctic Terrestrial and Aquatic Microbial Mats: a Comparison Between Bidirectional Pyrosequencing and Cultivation
Bacterial Diversity Assessment in Antarctic Terrestrial and Aquatic Microbial Mats: A Comparison between Bidirectional Pyrosequencing and Cultivation Bjorn Tytgat1*, Elie Verleyen2, Dagmar Obbels2, Karolien Peeters1¤a, Aaike De Wever2¤b, Sofie D’hondt2, Tim De Meyer3, Wim Van Criekinge3, Wim Vyverman2, Anne Willems1 1 Laboratory for Microbiology, Department of Biochemistry and Microbiology, Ghent University, Ghent, Belgium, 2 Laboratory of Protistology and Aquatic Ecology, Department of Biology, Ghent University, Ghent, Belgium, 3 Laboratory of Bioinformatics and Computational Genomics, Department of Mathematical Modelling, Statistics and Bioinformatics, Ghent University, Ghent, Belgium Abstract The application of high-throughput sequencing of the 16S rRNA gene has increased the size of microbial diversity datasets by several orders of magnitude, providing improved access to the rare biosphere compared with cultivation-based approaches and more established cultivation-independent techniques. By contrast, cultivation-based approaches allow the retrieval of both common and uncommon bacteria that can grow in the conditions used and provide access to strains for biotechnological applications. We performed bidirectional pyrosequencing of the bacterial 16S rRNA gene diversity in two terrestrial and seven aquatic Antarctic microbial mat samples previously studied by heterotrophic cultivation. While, not unexpectedly, 77.5% of genera recovered by pyrosequencing were not among the isolates, 25.6% of the genera picked up by cultivation were not detected by pyrosequencing. To allow comparison between both techniques, we focused on the five phyla (Proteobacteria, Actinobacteria, Bacteroidetes, Firmicutes and Deinococcus-Thermus) recovered by heterotrophic cultivation. Four of these phyla were among the most abundantly recovered by pyrosequencing. Strikingly, there was relatively little overlap between cultivation and the forward and reverse pyrosequencing-based datasets at the genus (17.1– 22.2%) and OTU (3.5–3.6%) level (defined on a 97% similarity cut-off level).