Initiation of Intracellular Offspring in Epulopiscium
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Sporulation Evolution and Specialization in Bacillus
bioRxiv preprint doi: https://doi.org/10.1101/473793; this version posted March 11, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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 4.0 International license. Research article From root to tips: sporulation evolution and specialization in Bacillus subtilis and the intestinal pathogen Clostridioides difficile Paula Ramos-Silva1*, Mónica Serrano2, Adriano O. Henriques2 1Instituto Gulbenkian de Ciência, Oeiras, Portugal 2Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Oeiras, Portugal *Corresponding author: Present address: Naturalis Biodiversity Center, Marine Biodiversity, Leiden, The Netherlands Phone: 0031 717519283 Email: [email protected] (Paula Ramos-Silva) Running title: Sporulation from root to tips Keywords: sporulation, bacterial genome evolution, horizontal gene transfer, taxon- specific genes, Bacillus subtilis, Clostridioides difficile 1 bioRxiv preprint doi: https://doi.org/10.1101/473793; this version posted March 11, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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 4.0 International license. Abstract Bacteria of the Firmicutes phylum are able to enter a developmental pathway that culminates with the formation of a highly resistant, dormant spore. Spores allow environmental persistence, dissemination and for pathogens, are infection vehicles. In both the model Bacillus subtilis, an aerobic species, and in the intestinal pathogen Clostridioides difficile, an obligate anaerobe, sporulation mobilizes hundreds of genes. -
Nocturnal Production of Endospores in Natural Populations of Epulopiscium-Like Surgeonfish Symbionts Joseph F
JOURNAL OF BACTERIOLOGY, Nov. 2005, p. 7460–7470 Vol. 187, No. 21 0021-9193/05/$08.00ϩ0 doi:10.1128/JB.187.21.7460–7470.2005 Copyright © 2005, American Society for Microbiology. All Rights Reserved. Nocturnal Production of Endospores in Natural Populations of Epulopiscium-Like Surgeonfish Symbionts Joseph F. Flint,1 Dan Drzymalski,1 W. Linn Montgomery,2 Gordon Southam,3 and Esther R. Angert1* Department of Microbiology, Cornell University, Ithaca, New York 148531; Department of Biological Sciences, Downloaded from Northern Arizona University, Flagstaff, Arizona 860112; and Department of Earth Sciences, University of Western Ontario, London, Ontario N6A 5B7, Canada3 Received 27 April 2005/Accepted 19 August 2005 Prior studies have described a morphologically diverse group of intestinal microorganisms associated with surgeonfish. Despite their diversity of form, 16S rRNA gene surveys and fluorescent in situ hybridizations indicate that these bacteria are low-G؉C gram-positive bacteria related to Epulopiscium spp. Many of these bacteria exhibit an unusual mode of reproduction, developing multiple offspring intracellularly. Previous http://jb.asm.org/ reports have suggested that some Epulopiscium-like symbionts produce dormant or phase-bright intracellular offspring. Close relatives of Epulopiscium, such as Metabacterium polyspora and Clostridium lentocellum, are endospore-forming bacteria, which raises the possibility that the phase-bright offspring are endospores. Structural evidence and the presence of dipicolinic acid demonstrate that phase-bright offspring of Epulopis- cium-like bacteria are true endospores. In addition, endospores are formed as part of the normal daily life cycle of these bacteria. In the populations studied, mature endospores were seen only at night and the majority of cells in a given population produced one or two endospores per mother cell. -
Draft Acanthurus Achilles
Draft Acanthurus achilles - Shaw, 1803 ANIMALIA - CHORDATA - ACTINOPTERYGII - PERCIFORMES - ACANTHURIDAE - Acanthurus - achilles Common Names: Achilles Tang (English), Akilles' Kirurgfisk (Danish), Bir (Marshallese), Chirurgien à Tache Rouge (French), Chiurgien d'Achille (French), Cirujano (Spanish; Castilian), Cirujano Encendido (Spanish; Castilian), Indangan (Filipino; Pilipino), Kolala (Niuean), Kolama (Samoan), Meha (Tahitian), Navajón de Aguiles (Spanish; Castilian), Pāku'iku'i (Hawaiian), Red-spotted Surgeonfish (English), Redspot Surgeonfish (English), Redtail Surgeonfish (English) Synonyms: Acanthurus Shaw, 1803; Hepatus (Shaw, 1803); Teuthis (Shaw, 1803); Taxonomic Note: This species is a member of the Acanthurus achilles species complex known for their propensity to hybridize (Randall and Frische 2000). The four species in this complex (A. achilles Shaw, A. japonicus Schmidt, A. leucosternon Bennett, and A. nigricans Linnaeus) are thought to hybridize when their distributional ranges overlap (Craig 2008). Red List Status LC - Least Concern, (IUCN version 3.1) Red List Assessment Assessment Information Reviewed? Date of Review: Status: Reasons for Rejection: Improvements Needed: true 2011-02-11 Passed - - Assessor(s): Choat, J.H., Russell, B., Stockwell, B., Rocha, L.A., Myers, R., Clements, K.D., McIlwain, J., Abesamis, R. & Nanola, C. Reviewers: Davidson, L., Edgar, G. & Kulbicki, M. Contributor(s): (Not specified) Facilitators/Compilers: (Not specified) Assessment Rationale Acanthurus achilles is widespread and abundant throughout its range. It is found in isolated oceanic islands and is caught only incidentally for food in parts of its distribution. It is a major component of the aquarium trade and is a popular food fish in West Hawaii. There is evidence of declines from collection and concern for the sustained abundance of this species. -
Sporulation in Bacteria: Beyond the Standard Model
SUNY Geneseo KnightScholar Biology Faculty/Staff Works Department of Biology 2014 Sporulation in Bacteria: Beyond the Standard Model Elizabeth Hutchison SUNY Geneseo, [email protected] Follow this and additional works at: https://knightscholar.geneseo.edu/biology Part of the Bacteriology Commons Recommended Citation Hutchison, E. A., Miller, D. A., & Angert, E. R. (2014). Sporulation in Bacteria: Beyond the Standard Model. Microbiology Spectrum, 2(5). This Article is brought to you for free and open access by the Department of Biology at KnightScholar. It has been accepted for inclusion in Biology Faculty/Staff Works by an authorized administrator of KnightScholar. For more information, please contact [email protected]. SporulationinBacteria: Beyond the Standard Model ELIZABETH A. HUTCHISON,1 DAVID A. MILLER,2 and ESTHER R. ANGERT3 1Department of Biology, SUNY Geneseo, Geneseo, NY 14454; 2Department of Microbiology, Medical Instill Development, New Milford, CT 06776; 3Department of Microbiology, Cornell University, Ithaca, NY 14853 ABSTRACT Endospore formation follows a complex, highly in nature (1). These highly resistant, dormant cells can regulated developmental pathway that occurs in a broad range withstand a variety of stresses, including exposure to Firmicutes Bacillus subtilis of . Although has served as a powerful temperature extremes, DNA-damaging agents, and hy- model system to study the morphological, biochemical, and drolytic enzymes (2). The ability to form endospores genetic determinants of sporulation, fundamental aspects of the program remain mysterious for other genera. For example, appears restricted to the Firmicutes (3), one of the ear- it is entirely unknown how most lineages within the Firmicutes liest branching bacterial phyla (4). Endospore formation regulate entry into sporulation. -
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toxins Review Critical Review and Conceptual and Quantitative Models for the Transfer and Depuration of Ciguatoxins in Fishes Michael J. Holmes 1, Bill Venables 2 and Richard J. Lewis 3,* 1 Queensland Department of Environment and Science, Brisbane 4102, Australia; [email protected] 2 CSIRO Data61, Brisbane 4102, Australia; [email protected] 3 Institute for Molecular Bioscience, The University of Queensland, Brisbane 4072, Australia * Correspondence: [email protected] Abstract: We review and develop conceptual models for the bio-transfer of ciguatoxins in food chains for Platypus Bay and the Great Barrier Reef on the east coast of Australia. Platypus Bay is unique in repeatedly producing ciguateric fishes in Australia, with ciguatoxins produced by benthic dinoflagellates (Gambierdiscus spp.) growing epiphytically on free-living, benthic macroalgae. The Gambierdiscus are consumed by invertebrates living within the macroalgae, which are preyed upon by small carnivorous fishes, which are then preyed upon by Spanish mackerel (Scomberomorus commerson). We hypothesise that Gambierdiscus and/or Fukuyoa species growing on turf algae are the main source of ciguatoxins entering marine food chains to cause ciguatera on the Great Barrier Reef. The abundance of surgeonfish that feed on turf algae may act as a feedback mechanism controlling the flow of ciguatoxins through this marine food chain. If this hypothesis is broadly applicable, then a reduction in herbivory from overharvesting of herbivores could lead to increases in ciguatera by concentrating ciguatoxins through the remaining, smaller population of herbivores. Modelling the dilution of ciguatoxins by somatic growth in Spanish mackerel and coral trout (Plectropomus leopardus) revealed that growth could not significantly reduce the toxicity of fish flesh, except in young fast- Citation: Holmes, M.J.; Venables, B.; growing fishes or legal-sized fishes contaminated with low levels of ciguatoxins. -
Bacterial Symbiont Subpopulations Have Different Roles in a Deep-Sea
RESEARCH ARTICLE Bacterial symbiont subpopulations have different roles in a deep-sea symbiosis Tjorven Hinzke1,2,3, Manuel Kleiner4, Mareike Meister5,6, Rabea Schlu¨ ter7, Christian Hentschker8, Jan Pane´ -Farre´ 9, Petra Hildebrandt8, Horst Felbeck10, Stefan M Sievert11, Florian Bonn12, Uwe Vo¨ lker8, Do¨ rte Becher5, Thomas Schweder1,2, Stephanie Markert1,2* 1Institute of Pharmacy, University of Greifswald, Greifswald, Germany; 2Institute of Marine Biotechnology, Greifswald, Germany; 3Energy Bioengineering Group, University of Calgary, Calgary, Canada; 4Department of Plant and Microbial Biology, North Carolina State University, Raleigh, United States; 5Institute of Microbiology, University of Greifswald, Greifswald, Germany; 6Leibniz Institute for Plasma Science and Technology, Greifswald, Germany; 7Imaging Center of the Department of Biology, University of Greifswald, Greifswald, Germany; 8Interfaculty Institute for Genetics and Functional Genomics, University Medicine Greifswald, Greifswald, Germany; 9Center for Synthetic Microbiology (SYNMIKRO), Philipps-University Marburg, Marburg, Germany; 10Scripps Institution of Oceanography, University of California San Diego, San Diego, United States; 11Biology Department, Woods Hole Oceanographic Institution, Woods Hole, United States; 12Institute of Biochemistry, University Hospital, Goethe University School of Medicine Frankfurt, Frankfurt, Germany Abstract The hydrothermal vent tubeworm Riftia pachyptila hosts a single 16S rRNA phylotype of intracellular sulfur-oxidizing symbionts, which -
Recombination Contributes to Population Diversification in The
The ISME Journal (2019) 13:1084–1097 https://doi.org/10.1038/s41396-018-0339-y ARTICLE Recombination contributes to population diversification in the polyploid intestinal symbiont Epulopiscium sp. type B 1 2 3 4 1 Francine A. Arroyo ● Teresa E. Pawlowska ● J. Howard Choat ● Kendall D. Clements ● Esther R. Angert Received: 18 May 2018 / Revised: 15 November 2018 / Accepted: 13 December 2018 / Published online: 14 January 2019 © International Society for Microbial Ecology 2019 Abstract Epulopiscium sp. type B (Lachnospiraceae) is an exceptionally large, highly polyploid, intestinal symbiont of the coral reef dwelling surgeonfish Naso tonganus. These obligate anaerobes do not form mature endospores and reproduce solely through the production of multiple intracellular offspring. This likely makes them dependent on immediate transfer to a receptive host for dispersal. During reproduction, only a small proportion of Epulopiscium mother-cell DNA is inherited. To explore the impact of this unusual viviparous lifestyle on symbiont population dynamics, we investigated Epulopiscium sp. type B and their fish hosts collected over the course of two decades, at island and reef habitats near Lizard Island, Australia. Using multi-locus sequence analysis, we found that recombination plays an important role in maintaining diversity of these 1234567890();,: 1234567890();,: symbionts and yet populations exhibit linkage disequilibrium (LD). Symbiont populations showed spatial but not temporal partitioning. Surgeonfish are long-lived and capable of traveling long distances, yet the population structures of Epulopiscium suggest that adult fish tend to not roam beyond a limited locale. Codiversification analyses and traits of this partnership suggest that while symbionts are obligately dependent on their host, the host has a facultative association with Epulopiscium. -
Supplemental Material
Supplemental Material: Deep metagenomics examines the oral microbiome during dental caries, revealing novel taxa and co-occurrences with host molecules Authors: Baker, J.L.1,*, Morton, J.T.2., Dinis, M.3, Alverez, R.3, Tran, N.C.3, Knight, R.4,5,6,7, Edlund, A.1,5,* 1 Genomic Medicine Group J. Craig Venter Institute 4120 Capricorn Lane La Jolla, CA 92037 2Systems Biology Group Flatiron Institute 162 5th Avenue New York, NY 10010 3Section of Pediatric Dentistry UCLA School of Dentistry 10833 Le Conte Ave. Los Angeles, CA 90095-1668 4Center for Microbiome Innovation University of California at San Diego La Jolla, CA 92023 5Department of Pediatrics University of California at San Diego La Jolla, CA 92023 6Department of Computer Science and Engineering University of California at San Diego 9500 Gilman Drive La Jolla, CA 92093 7Department of Bioengineering University of California at San Diego 9500 Gilman Drive La Jolla, CA 92093 *Corresponding AutHors: JLB: [email protected], AE: [email protected] ORCIDs: JLB: 0000-0001-5378-322X, AE: 0000-0002-3394-4804 SUPPLEMENTAL METHODS Study Design. Subjects were included in tHe study if tHe subject was 3 years old or older, in good general HealtH according to a medical History and clinical judgment of tHe clinical investigator, and Had at least 12 teetH. Subjects were excluded from tHe study if tHey Had generalized rampant dental caries, cHronic systemic disease, or medical conditions tHat would influence tHe ability to participate in tHe proposed study (i.e., cancer treatment, HIV, rHeumatic conditions, History of oral candidiasis). Subjects were also excluded it tHey Had open sores or ulceration in tHe moutH, radiation tHerapy to tHe Head and neck region of tHe body, significantly reduced saliva production or Had been treated by anti-inflammatory or antibiotic tHerapy in tHe past 6 montHs. -
Small but Mighty: Cell Size and Bacteria
Downloaded from http://cshperspectives.cshlp.org/ on October 4, 2021 - Published by Cold Spring Harbor Laboratory Press Small but Mighty: Cell Size and Bacteria Petra Anne Levin1 and Esther R. Angert2 1Department of Biology, Washington University, St. Louis, Missouri 63130 2Department of Microbiology, Cornell University, Ithaca, New York 14853 Correspondence: [email protected]; [email protected] Our view of bacteria is overwhelmingly shaped by their diminutive nature. The most ancient of organisms, their very presence was not appreciated until the 17th century with the inven- tion of the microscope. Initially, viewed as “bags of enzymes,” recent advances in imaging, molecular phylogeny,and, most recently,genomics have revealed incredible diversity within this previously invisible realm of life. Here, we review the impact of size on bacterial evo- lution, physiology, and morphogenesis. umanity has always experienced the im- bolic support. Although less than 1% of bacteria Hpact of microorganisms, most obviously canbeculturedreadily inthelaboratory(Amann through their ability to cause devastating dis- et al. 1995), the biochemical versatility among ease. For the vast majority of human history, these tiny creatures exceeds that of the plants, we were unaware of their presence, much less animals, and fungi combined (Pace 1997). the fundamental microbial processes to which Anton van Leeuwenhoek’s illustrations in a we owe our existence: from the production of letter to the Royal Society of London in the late energy by our ancient bacterial endosymbionts 17th century provide one of the earliest records (the mitochondria) to the generation of oxygen of bacterial cell form (Dobell 1960). Viewed in our atmosphere. Despite their astounding through a single lens, Leeuwenhoek pioneered global abundance (1030 cells) and their sub- studies of the human microbiome, describing stantial contribution to the total biomass of motile bacilli, cocci, and spirochetes he found planet earth (Whitman et al. -
Propagation by Sporulation in the Guinea Pig Symbiont Metabacterium Polyspora
Proc. Natl. Acad. Sci. USA Vol. 95, pp. 10218–10223, August 1998 Microbiology Propagation by sporulation in the guinea pig symbiont Metabacterium polyspora ESTHER R. ANGERT AND RICHARD M. LOSICK* Department of Molecular and Cellular Biology, Harvard University, The Biological Laboratories, 16 Divinity Avenue, Cambridge, MA 02138 Contributed by Richard M. Losick, June 17, 1998 ABSTRACT The Gram-positive bacterium Metabacterium M. polyspora is modified to allow for the production of multiple polyspora is an uncultivated symbiont of the guinea pig gas- endospores. trointestinal tract. Here we present evidence that in M. In the case of the endospore-forming bacterium Bacillus polyspora vegetative cell division has taken on a minor, and subtilis, which produces only a single endospore, development apparently dispensable, role in propagation. Instead, this occurs by a modification of the process of binary fission. unusual bacterium has evolved the capacity to produce prog- Vegetative cells divide by the formation of a medially posi- eny in the form of multiple endospores. Endospore formation tioned ring of the tubulin-like protein FtsZ (6). The FtsZ ring, is coordinated with transit of the bacterium through the in turn, recruits additional cell division proteins that drive the gastrointestinal tract of the guinea pig. For the majority of formation of the septum. Endospore formation, in contrast, cells, sporulation is initiated in the ileum, whereas later stages takes place by the formation of two rings of FtsZ, one near of development take place in the cecum. We show that multiple each pole of the cell (7). Normally, only one ring becomes endospores are generated both by asymmetric division at both functional and produces a single septum located near one pole poles of the cell and by symmetric division of the endospores of the cell. -
Design and Parameterization of a Coral Reef Ecosystem Model for Guam
NOAA Technical Memorandum NMFS-PIFSC-43 doi:10.7289/V5B27S76 November 2014 Design and Parameterization of a Coral Reef Ecosystem Model for Guam Mariska Weijerman, Isaac Kaplan, Elizabeth Fulton, Bec Gordon, Shanna Grafeld, and Rusty Brainard Pacific Islands Fisheries Science Center National Marine Fisheries Service National Oceanic and Atmospheric Administration U.S. Department of Commerce About this document The mission of the National Oceanic and Atmospheric Administration (NOAA) is to understand and predict changes in the Earth’s environment and to conserve and manage coastal and oceanic marine resources and habitats to help meet our Nation’s economic, social, and environmental needs. As a branch of NOAA, the National Marine Fisheries Service (NMFS) conducts or sponsors research and monitoring programs to improve the scientific basis for conservation and management decisions. NMFS strives to make information about the purpose, methods, and results of its scientific studies widely available. NMFS’ Pacific Islands Fisheries Science Center (PIFSC) uses the NOAA Technical Memorandum NMFS series to achieve timely dissemination of scientific and technical information that is of high quality but inappropriate for publication in the formal peer- reviewed literature. The contents are of broad scope, including technical workshop proceedings, large data compilations, status reports and reviews, lengthy scientific or statistical monographs, and more. NOAA Technical Memoranda published by the PIFSC, although informal, are subjected to extensive review and editing and reflect sound professional work. Accordingly, they may be referenced in the formal scientific and technical literature. A NOAA Technical Memorandum NMFS issued by the PIFSC may be cited using the following format: Weijerman, M., I. -
Protists Are Microbes Too: a Perspective
The ISME Journal (2009) 3, 4–12 & 2009 International Society for Microbial Ecology All rights reserved 1751-7362/09 $32.00 www.nature.com/ismej PERSPECTIVE Protists are microbes too: a perspective David A Caron1, Alexandra Z Worden2, Peter D Countway1, Elif Demir2 and Karla B Heidelberg1 1Department of Biological Sciences, University of Southern California, Los Angeles, CA, USA and 2Monterey Bay Aquarium Research Institute, Moss Landing, CA, USA Our understanding of the composition and activities of microbial communities from diverse habitats on our planet has improved enormously during the past decade, spurred on largely by advances in molecular biology. Much of this research has focused on the bacteria, and to a lesser extent on the archaea and viruses, because of the relative ease with which these assemblages can be analyzed and studied genetically. In contrast, single-celled, eukaryotic microbes (the protists) have received much less attention, to the point where one might question if they have somehow been demoted from the position of environmentally important taxa. In this paper, we draw attention to this situation and explore several possible (some admittedly lighthearted) explanations for why these remarkable and diverse microbes have remained largely overlooked in the present ‘era of the microbe’. The ISME Journal (2009) 3, 4–12; doi:10.1038/ismej.2008.101; published online 13 November 2008 Keywords: protists; eukaryotic genomics; species concept; diversity; biogeography Introduction research activity has lagged behind that of other microbes despite their rather impressive contribu- Environmental science has clearly entered the ‘era tions to microbiological history, microbial diversity of the microbe’ during the past decade.