Siderophores of Halophilic Archaea and Their Chemical Characterization
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Marine-Derived Fungal Siderophores: a Perception
Indian Journal of Geo-Marine Science Vol. 45(3) March 2016, pp. 431-439 Marine-derived Fungal Siderophores: A Perception Hiral B. Trivedi, Anjana K. Vala, Jaykishan H. Dhrangadhriya & Bharti P. Dave* Department of Life Sciences, Maharaja Krishnakumarsinhji Bhavnagar University, Sardar Vallabhbhai Patel Campus, Bhavnagar-364 001, Gujarat, India [E-mail: [email protected]] Received 25August 2014; revised 01 October 2014 Siderophores play crucial role in biogeochemical cycle in terrestrial as well as marine environment. Siderophores of bacteria from marine habitats have been extensively studied, however, comparatively less information is available on their fungal counter parts. This review focuses on siderophores of marine-derived fungi, molecular mechanism of siderophore biosynthesis and their uptake. Their chemical nature and applications are also discussed. Data so far available on marine fungal siderophores are found to be very interesting. Though less explored, the information available reveals novelty in chemical nature of siderophores of marine-derived fungi, i.e. occurrence of catecholates in fungi and carboxylates in non- mucoraceous fungi, which is the first-ever report. Further investigations on marine-derived fungal siderophores would be an interesting area of research. [Key words: Siderophore, Marine-derived fungi, Catecholate, Carboxylate, Hydroxamate] Introduction low iron concentration affecting the primary production. Marine microorganisms affected by Iron is an essential macronutrient for the growth this critical situation cope up with this stressing of microorganisms. It plays crucial role in condition by producing siderophores to gain iron various cellular processes like DNA/RNA in HNLC regions [9-19]. While much work is synthesis, ATP synthesis, respiration and also as done on bacterial siderophores from marine [1] a cofactor of numerous enzymes . -
Acquisition of 1,000 Eubacterial Genes Physiologically Transformed a Methanogen at the Origin of Haloarchaea
Acquisition of 1,000 eubacterial genes physiologically transformed a methanogen at the origin of Haloarchaea Shijulal Nelson-Sathia, Tal Daganb, Giddy Landana,b, Arnold Janssenc, Mike Steeld, James O. McInerneye, Uwe Deppenmeierf, and William F. Martina,1 aInstitute of Molecular Evolution, bInstitute of Genomic Microbiology, cMathematisches Institut, Heinrich Heine University, 40225 Düsseldorf, Germany; dBiomathematics Research Centre, University of Canterbury, Private Bag 4800, Christchurch, New Zealand; eDepartment of Biology, National University of Ireland, Maynooth, Co. Kildare, Ireland; and fInstitute of Microbiology and Biotechnology, University of Bonn, 53115 Bonn, Germany Edited* by W. Ford Doolittle, Dalhousie University, Halifax, NS, Canada, and approved October 25, 2012 (received for review May 29, 2012) Archaebacterial halophiles (Haloarchaea) are oxygen-respiring involved in the assembly of FeS clusters (19). The sequencing of heterotrophs that derive from methanogens—strictly anaerobic, the first haloarchaeal genome over a decade ago identified some hydrogen-dependent autotrophs. Haloarchaeal genomes are known eubacterial genes that possibly could have been acquired by lat- to have acquired, via lateral gene transfer (LGT), several genes eral gene transfer (11, 20), and whereas substantial data that from eubacteria, but it is yet unknown how many genes the Hal- would illuminate the origin of haloarchaeal physiology have ac- oarchaea acquired in total and, more importantly, whether inde- cumulated since then, those data have -
Screening and Characterization of Siderophore Producing Endophytic Bacteria from Cicer Arietinum and Pisum Sativum Plants
Journal of Applied Biology & Biotechnology Vol. 7(05), pp. 7-14, Sep-Oct, 2019 Available online at http://www.jabonline.in DOI: 10.7324/JABB.2019.70502 Screening and characterization of siderophore producing endophytic bacteria from Cicer arietinum and Pisum sativum plants Rajat Maheshwari, Namita Bhutani, Pooja Suneja* Department of Microbiology, Maharshi Dayanand University, Rohtak 124001, India ARTICLE INFO ABSTRACT Article history: Siderophores are low molecular weight iron chelating secondary metabolites synthesized by various groups Received on: March 10, 2019 of microorganisms help in scavenging iron-limited conditions. Siderophores produced by endophytic bacteria Accepted on: April 26, 2019 facilitate the plant growth by providing iron to plants. The objective of this study was to isolate and screen Available online: September 10, 2019 the siderophore producing endophytes from nodules and roots of Cicer arietinum and Pisum sativum plants. Out of total 84 isolates, only 14 endophytes produced siderophore and quantitative analysis was also done. Ten best siderophore producers (above 65% siderophore units) were characterized for the type of siderophore Key words: produced. Most of them were producing hydroxamate and carboxylate type of siderophores. These 10 isolates Endophytes, plant growth were evaluated for other plant growth promoting (PGP) traits in vitro. All of them were producing ammonia promotion, siderophore, CAS and indole-3-acetic acid (IAA). Isolate CPFR10 was found to be positive for all the PGP traits viz. ammonia, assay, tetrazolium, hydroxamate organic acid, HCN, and IAA production. Diversity analysis of these 10 isolates using Amplified rDNA Restriction Analysis profile revealed nine genotypes at 90% similarity. 1. INTRODUCTION in acquiring mineral nutrients, function as virulence factors to Iron is the fourth most abundant element in the Earth’s crust, vital protect them from pathogens [6,7]. -
Diversity of Halophilic Archaea in Fermented Foods and Human Intestines and Their Application Han-Seung Lee1,2*
J. Microbiol. Biotechnol. (2013), 23(12), 1645–1653 http://dx.doi.org/10.4014/jmb.1308.08015 Research Article Minireview jmb Diversity of Halophilic Archaea in Fermented Foods and Human Intestines and Their Application Han-Seung Lee1,2* 1Department of Bio-Food Materials, College of Medical and Life Sciences, Silla University, Busan 617-736, Republic of Korea 2Research Center for Extremophiles, Silla University, Busan 617-736, Republic of Korea Received: August 8, 2013 Revised: September 6, 2013 Archaea are prokaryotic organisms distinct from bacteria in the structural and molecular Accepted: September 9, 2013 biological sense, and these microorganisms are known to thrive mostly at extreme environments. In particular, most studies on halophilic archaea have been focused on environmental and ecological researches. However, new species of halophilic archaea are First published online being isolated and identified from high salt-fermented foods consumed by humans, and it has September 10, 2013 been found that various types of halophilic archaea exist in food products by culture- *Corresponding author independent molecular biological methods. In addition, even if the numbers are not quite Phone: +82-51-999-6308; high, DNAs of various halophilic archaea are being detected in human intestines and much Fax: +82-51-999-5458; interest is given to their possible roles. This review aims to summarize the types and E-mail: [email protected] characteristics of halophilic archaea reported to be present in foods and human intestines and pISSN 1017-7825, eISSN 1738-8872 to discuss their application as well. Copyright© 2013 by The Korean Society for Microbiology Keywords: Halophilic archaea, fermented foods, microbiome, human intestine, Halorubrum and Biotechnology Introduction Depending on the optimal salt concentration needed for the growth of strains, halophilic microorganisms can be Archaea refer to prokaryotes that used to be categorized classified as halotolerant (~0.3 M), halophilic (0.2~2.0 M), as archaeabacteria, a type of bacteria, in the past. -
The Effects of Iron Supplementation and Fortification on the Gut Microbiota: a Review
Review The Effects of Iron Supplementation and Fortification on the Gut Microbiota: A Review Emma CL Finlayson-Trick 1 , Jordie AJ Fischer 2,3 , David M Goldfarb 1,3,4 and Crystal D Karakochuk 2,3,* 1 Faculty of Medicine, University of British Columbia, Vancouver, BC V6T 1Z3, Canada; efi[email protected] (E.C.F.-T.); [email protected] (D.M.G.) 2 Department of Food, Nutrition and Health, University of British Columbia, Vancouver, BC V6T 1Z4, Canada; jordie.fi[email protected] 3 British Columbia Children’s Hospital Research Institute, Vancouver, BC V5Z 4H4, Canada 4 Department of Pathology and Laboratory Medicine, BC Children’s and Women’s Hospital and University of British Columbia, Vancouver, BC V6T 1Z7, Canada * Correspondence: [email protected] Received: 30 August 2020; Accepted: 24 September 2020; Published: 26 September 2020 Abstract: Iron supplementation and fortification are used to treat iron deficiency, which is often associated with gastrointestinal conditions, such as inflammatory bowel disease and colorectal cancer. Within the gut, commensal bacteria contribute to maintaining systemic iron homeostasis. Disturbances that lead to excess iron promote the replication and virulence of enteric pathogens. Consequently, research has been interested in better understanding the effects of iron supplementation and fortification on gut bacterial composition and overall gut health. While animal and human trials have shown seemingly conflicting results, these studies emphasize how numerous factors influence gut microbial composition. Understanding how different iron formulations and doses impact specific bacteria will improve the outcomes of iron supplementation and fortification in humans. Furthermore, discerning the nuances of iron supplementation and fortification will benefit subpopulations that currently do not respond well to treatment. -
Investigating the Effects of Simulated Martian Ultraviolet Radiation on Halococcus Dombrowskii and Other Extremely Halophilic Archaebacteria
ASTROBIOLOGY Volume 9, Number 1, 2009 © Mary Ann Liebert, Inc. DOI: 10.1089/ast.2007.0234 Special Paper Investigating the Effects of Simulated Martian Ultraviolet Radiation on Halococcus dombrowskii and Other Extremely Halophilic Archaebacteria Sergiu Fendrihan,1 Attila Bérces,2 Helmut Lammer,3 Maurizio Musso,4 György Rontó,2 Tatjana K. Polacsek,1 Anita Holzinger,1 Christoph Kolb,3,5 and Helga Stan-Lotter1 Abstract The isolation of viable extremely halophilic archaea from 250-million-year-old rock salt suggests the possibil- ity of their long-term survival under desiccation. Since halite has been found on Mars and in meteorites, haloar- chaeal survival of martian surface conditions is being explored. Halococcus dombrowskii H4 DSM 14522T was ex- posed to UV doses over a wavelength range of 200–400 nm to simulate martian UV flux. Cells embedded in a thin layer of laboratory-grown halite were found to accumulate preferentially within fluid inclusions. Survival was assessed by staining with the LIVE/DEAD kit dyes, determining colony-forming units, and using growth tests. Halite-embedded cells showed no loss of viability after exposure to about 21 kJ/m2, and they resumed growth in liquid medium with lag phases of 12 days or more after exposure up to 148 kJ/m2. The estimated Ն 2 D37 (dose of 37 % survival) for Hcc. dombrowskii was 400 kJ/m . However, exposure of cells to UV flux while 2 in liquid culture reduced D37 by 2 orders of magnitude (to about 1 kJ/m ); similar results were obtained with Halobacterium salinarum NRC-1 and Haloarcula japonica. -
Siderophores from Marine Bacteria with Special Emphasis on Vibrionaceae
Archana et al Int. J. Pure App. Biosci. 7 (3): 58-66 (2019) ISSN: 2320 – 7051 Available online at www.ijpab.com DOI: http://dx.doi.org/10.18782/2320-7051.7492 ISSN: 2320 – 7051 Int. J. Pure App. Biosci. 7 (3): 58-66 (2019) Review Article Siderophores from Marine Bacteria with Special Emphasis on Vibrionaceae Archana V.1, K. Revathi2*, V. P. Limna Mol3, R. Kirubagaran3 1Department of Advanced Zoology and Biotechnology, Madras University, Chennai- 600005 2MAHER University, Chennai, Tamil Nadu – 600078 3Ocean Science and Technology for Islands, National Institute of Ocean Technology (NIOT), Ministry of Earth Sciences, Government of India, Pallikaranai, Chennai- 600100 *Corresponding Author E-mail: [email protected] Received: 11.04.2019 | Revised: 18.05.2019 | Accepted: 25.05.2019 ABSTRACT More than 500 siderophores have been isolated from a huge number of marine bacteria till date. With mankind’s ever-increasing search for novel molecules towards industrial and medical applications, siderophores have gained high importance. These chelating ligands have immense potential in promoting plant growth, drug-delivery, treatment of iron-overload, etc. Many of the potential siderophores have been isolated from bacteria like Pseudomonas, Bacillus, Nocardia, etc. Bacteria belonging to the family Vibrionaceae have recently gained focus owing to their rich potential in secreting siderophores. Many of the vibrionales, viz. Vibrio harveyii, V. anguillarium, V. campbellii. etc. are aquatic pathogens. These bacteria require iron for their growth and virulence, and hence produce a wide variety of siderophores. The genetic basis of siderophore production by Vibrio sp. has also been largely studied. Further detailed genetic analysis of the mode of siderophore production by Vibrionaceae would be highly effective to treat aquaculture diseases caused by these pathogenic organisms. -
Genome Sequence and Description of Haloferax Massiliense Sp. Nov., a New Halophilic Archaeon Isolated from the Human Gut
Extremophiles (2018) 22:485–498 https://doi.org/10.1007/s00792-018-1011-1 ORIGINAL PAPER Genome sequence and description of Haloferax massiliense sp. nov., a new halophilic archaeon isolated from the human gut Saber Khelaifa1 · Aurelia Caputo1 · Claudia Andrieu1 · Frederique Cadoret1 · Nicholas Armstrong1 · Caroline Michelle1 · Jean‑Christophe Lagier1 · Felix Djossou2 · Pierre‑Edouard Fournier1 · Didier Raoult1,3 Received: 14 November 2017 / Accepted: 5 February 2018 / Published online: 12 February 2018 © The Author(s) 2018. This article is an open access publication Abstract By applying the culturomics concept and using culture conditions containing a high salt concentration, we herein isolated the frst known halophilic archaeon colonizing the human gut. Here we described its phenotypic and biochemical characteriza- tion as well as its genome annotation. Strain Arc-HrT (= CSUR P0974 = CECT 9307) was mesophile and grew optimally at 37 °C and pH 7. Strain Arc-HrT was also extremely halophilic with an optimal growth observed at 15% NaCl. It showed gram-negative cocci, was strictly aerobic, non-motile and non-spore-forming, and exhibited catalase and oxidase activities. The 4,015,175 bp long genome exhibits a G + C% content of 65.36% and contains 3911 protein-coding and 64 predicted RNA genes. PCR-amplifed 16S rRNA gene of strain Arc-HrT yielded a 99.2% sequence similarity with Haloferax prahovense, the phylogenetically closest validly published species in the Haloferax genus. The DDH was of 50.70 ± 5.2% with H. prahovense, 53.70 ± 2.69% with H. volcanii, 50.90 ± 2.64% with H. alexandrinus, 52.90 ± 2.67% with H. -
Seasonal Fluctuations in Ionic Concentrations Drive Microbial Succession in a Hypersaline Lake Community
The ISME Journal (2014) 8, 979–990 & 2014 International Society for Microbial Ecology All rights reserved 1751-7362/14 www.nature.com/ismej ORIGINAL ARTICLE Seasonal fluctuations in ionic concentrations drive microbial succession in a hypersaline lake community Sheila Podell1, Joanne B Emerson2,3, Claudia M Jones2, Juan A Ugalde1, Sue Welch4, Karla B Heidelberg5, Jillian F Banfield2,6 and Eric E Allen1,7 1Marine Biology Research Division, Scripps Institution of Oceanography, University of California, San Diego, La Jolla, CA, USA; 2Department of Earth and Planetary Sciences, University of California, Berkeley, CA, USA; 3Cooperative Institute for Research in Environmental Sciences, University of Colorado, Boulder, CO, USA; 4School of Earth Sciences, Byrd Polar Research Center, Ohio State University, Columbus, OH, USA; 5Department of Biological Sciences, University of Southern California, Los Angeles, CA, USA; 6Department of Environmental Science, Policy, and Management, University of California, Berkeley, CA, USA and 7Division of Biological Sciences, University of California, San Diego, La Jolla, CA, USA Microbial community succession was examined over a two-year period using spatially and temporally coordinated water chemistry measurements, metagenomic sequencing, phylogenetic binning and de novo metagenomic assembly in the extreme hypersaline habitat of Lake Tyrrell, Victoria, Australia. Relative abundances of Haloquadratum-related sequences were positively correlated with co-varying concentrations of potassium, magnesium and sulfate, -
Emended Descriptions of Genera of the Family Halobacteriaceae
International Journal of Systematic and Evolutionary Microbiology (2009), 59, 637–642 DOI 10.1099/ijs.0.008904-0 Taxonomic Emended descriptions of genera of the family Note Halobacteriaceae Aharon Oren,1 David R. Arahal2 and Antonio Ventosa3 Correspondence 1Institute of Life Sciences, and the Moshe Shilo Minerva Center for Marine Biogeochemistry, Aharon Oren The Hebrew University of Jerusalem, Jerusalem 91904, Israel [email protected] 2Departamento de Microbiologı´a y Ecologı´a and Coleccio´n Espan˜ola de Cultivos Tipo (CECT), Universidad de Valencia, 46100 Burjassot, Valencia, Spain 3Department of Microbiology and Parasitology, Faculty of Pharmacy, University of Sevilla, 41012 Sevilla, Spain The family Halobacteriaceae currently contains 96 species whose names have been validly published, classified in 27 genera (as of September 2008). In recent years, many novel species have been added to the established genera but, in many cases, one or more properties of the novel species do not agree with the published descriptions of the genera. Authors have often failed to provide emended genus descriptions when necessary. Following discussions of the International Committee on Systematics of Prokaryotes Subcommittee on the Taxonomy of Halobacteriaceae, we here propose emended descriptions of the genera Halobacterium, Haloarcula, Halococcus, Haloferax, Halorubrum, Haloterrigena, Natrialba, Halobiforma and Natronorubrum. The family Halobacteriaceae was established by Gibbons rRNA gene sequence-based phylogenetic trees rather than (1974) to accommodate the genera Halobacterium and on true polyphasic taxonomy such as recommended for the Halococcus. At the time of writing (September 2008), the family (Oren et al., 1997). As a result, there are often few, if family contained 96 species whose names have been validly any, phenotypic properties that enable the discrimination published, classified in 27 genera. -
The Role of Stress Proteins in Haloarchaea and Their Adaptive Response to Environmental Shifts
biomolecules Review The Role of Stress Proteins in Haloarchaea and Their Adaptive Response to Environmental Shifts Laura Matarredona ,Mónica Camacho, Basilio Zafrilla , María-José Bonete and Julia Esclapez * Agrochemistry and Biochemistry Department, Biochemistry and Molecular Biology Area, Faculty of Science, University of Alicante, Ap 99, 03080 Alicante, Spain; [email protected] (L.M.); [email protected] (M.C.); [email protected] (B.Z.); [email protected] (M.-J.B.) * Correspondence: [email protected]; Tel.: +34-965-903-880 Received: 31 July 2020; Accepted: 24 September 2020; Published: 29 September 2020 Abstract: Over the years, in order to survive in their natural environment, microbial communities have acquired adaptations to nonoptimal growth conditions. These shifts are usually related to stress conditions such as low/high solar radiation, extreme temperatures, oxidative stress, pH variations, changes in salinity, or a high concentration of heavy metals. In addition, climate change is resulting in these stress conditions becoming more significant due to the frequency and intensity of extreme weather events. The most relevant damaging effect of these stressors is protein denaturation. To cope with this effect, organisms have developed different mechanisms, wherein the stress genes play an important role in deciding which of them survive. Each organism has different responses that involve the activation of many genes and molecules as well as downregulation of other genes and pathways. Focused on salinity stress, the archaeal domain encompasses the most significant extremophiles living in high-salinity environments. To have the capacity to withstand this high salinity without losing protein structure and function, the microorganisms have distinct adaptations. -
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Archebacterial Lysyl Oxidase 1 Expression and Properties of Lysyl Oxidase from Archeal Halophile 2 Haloterrigena turkmenica* 3 4 Nikolay B. Pestov1, Daniel V. Kalinovsky1, Tatyana D. Larionova1, Alia Z. Zakirova1, 5 Nikolay N. Modyanov2, Irina A. Okkelman1, Tatyana V. Korneenko1 6 7 1Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia 8 2 University of Toledo College of Medicine, Toledo, Ohio 9 * Running title: Archebacterial Lysyl Oxidase 10 To whom correspondence should be addressed: Shemyakin and Ovchinnikov Institute of 11 Bioorganic Chemistry, Miklukho-Maklaya 16/10, Moscow, 117997, Russia, Tel: +7(495) 330- 12 6556; Fax: +7(495) 330-6556; E-mail: [email protected] 13 Keywords: amine oxidase, horizontal gene transfer, protein cross-linking 14 ABSTRACT 15 Background: Lysyl oxidases (LOX) were studied mostly in mammals, whereas properties of 16 recently found homologs in prokaryotic genomes remain enigmatic. Methods: LOX gene from 17 Haloterrigena turkmenica has been cloned by PCR in a E. coli expression vector. Protein 18 purification has been done using metal affinity chromatography under denaturing conditions 19 followed by refolding. Catalytic activity has been fluorometrically a release of hydrogen 20 peroxide coupled with the oxidation of 10-acetyl-3,7-dihydroxyphenoxazine in the presence of 21 horseradish peroxidase. Rabbit polyclonal antibodies were obtained and used in western blotting. 22 Results: H. turkmenica LOX (HTU-LOX) may be successfully expressed in E. coli with a high 23 yield. However, full-length protein gives no catalytic activity. On the other hand, a deletion of 24 putative signal peptide allows the protein to be refolded into an active enzyme.