Functional Structure of the Bromeliad Tank Microbiome Is Strongly Shaped by Local Geochemical Conditions
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Functional Structure of the Bromeliad Tank Microbiome Is Strongly Shaped by Local Geochemical Conditions
Environmental Microbiology (2017) 19(8), 3132–3151 doi:10.1111/1462-2920.13788 Functional structure of the bromeliad tank microbiome is strongly shaped by local geochemical conditions Stilianos Louca,1,2* Saulo M. S. Jacques,3,4 denitrification steps, ammonification, sulfate respira- Aliny P. F. Pires,3 Juliana S. Leal,3,5 tion, methanogenesis, reductive acetogenesis and 6 1,2,7 Angelica L. Gonzalez, Michael Doebeli and anoxygenic phototrophy. Overall, CO2 reducers domi- Vinicius F. Farjalla3 nated in abundance over sulfate reducers, and 1Biodiversity Research Centre, University of British anoxygenic phototrophs largely outnumbered oxy- Columbia, Vancouver, BC, Canada. genic photoautotrophs. Functional community 2Department of Zoology, University of British Columbia, structure correlated strongly with environmental vari- Vancouver, BC, Canada. ables, between and within a single bromeliad species. 3Department of Ecology, Biology Institute, Universidade Methanogens and reductive acetogens correlated Federal do Rio de Janeiro, Rio de Janeiro, Brazil. with detrital volume and canopy coverage, and exhib- 4Programa de Pos-Graduac ¸ao~ em Ecologia e ited higher relative abundances in N. cruenta.A Evoluc¸ao,~ Universidade Estadual do Rio de Janeiro, Rio comparison of bromeliads to freshwater lake sedi- de Janeiro, Brazil. ments and soil from around the world, revealed stark differences in terms of taxonomic as well as func- 5Programa de Pos-Graduac ¸ao~ em Ecologia, tional microbial community structure. Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil. 6Biology Department & Center for Computational & Introduction Integrative Biology, Rutgers University, Camden, NJ, USA. Bromeliads (fam. Bromeliaceae) are plants found through- 7Department of Mathematics, University of British out the neotropics, with many species having rosette-like Columbia, Vancouver, BC, Canada. -
Metagenomic Insights Into the Uncultured Diversity and Physiology of Microbes in Four Hypersaline Soda Lake Brines
Lawrence Berkeley National Laboratory Recent Work Title Metagenomic Insights into the Uncultured Diversity and Physiology of Microbes in Four Hypersaline Soda Lake Brines. Permalink https://escholarship.org/uc/item/9xc5s0v5 Journal Frontiers in microbiology, 7(FEB) ISSN 1664-302X Authors Vavourakis, Charlotte D Ghai, Rohit Rodriguez-Valera, Francisco et al. Publication Date 2016 DOI 10.3389/fmicb.2016.00211 Peer reviewed eScholarship.org Powered by the California Digital Library University of California ORIGINAL RESEARCH published: 25 February 2016 doi: 10.3389/fmicb.2016.00211 Metagenomic Insights into the Uncultured Diversity and Physiology of Microbes in Four Hypersaline Soda Lake Brines Charlotte D. Vavourakis 1, Rohit Ghai 2, 3, Francisco Rodriguez-Valera 2, Dimitry Y. Sorokin 4, 5, Susannah G. Tringe 6, Philip Hugenholtz 7 and Gerard Muyzer 1* 1 Microbial Systems Ecology, Department of Aquatic Microbiology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, Netherlands, 2 Evolutionary Genomics Group, Departamento de Producción Vegetal y Microbiología, Universidad Miguel Hernández, San Juan de Alicante, Spain, 3 Department of Aquatic Microbial Ecology, Biology Centre of the Czech Academy of Sciences, Institute of Hydrobiology, Ceskéˇ Budejovice,ˇ Czech Republic, 4 Research Centre of Biotechnology, Winogradsky Institute of Microbiology, Russian Academy of Sciences, Moscow, Russia, 5 Department of Biotechnology, Delft University of Technology, Delft, Netherlands, 6 The Department of Energy Joint Genome Institute, Walnut Creek, CA, USA, 7 Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences and Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, Australia Soda lakes are salt lakes with a naturally alkaline pH due to evaporative concentration Edited by: of sodium carbonates in the absence of major divalent cations. -
2018 Issn: 2456-8643
International Journal of Agriculture, Environment and Bioresearch Vol. 3, No. 05; 2018 ISSN: 2456-8643 METAGENOMIC ANALYSIS OF BACTERIAL COMMUNITIES IN THE RHIZOSPHERE OF STIPA CAPILLATA AND CENTAUREA DIFFUSA Oleg Zhurlov and Nataliya Nemtseva Institute For Cellular And Intracellular Symbiosis, Ural Branch Russian Academy Of Sciences, Pio-nerskaya St.11, 46000, Orenburg, Russia. ABSTRACT The effectiveness of bioremediation of unproductive agricultural lands and marginal lands, not only on the zonal climatic conditions and physico-chemical parameters of soil, but also on the used plants and rhizosphere microorganisms. The use of xerophytic perennial grasses, adapted to the regional climatic conditions and physico-chemical parameters of soils, will improve the efficiency of bioremediation of unproductive agricultural lands and marginal lands. The article presents the results of a comparative analysis of the prokaryotic communities of the rhizosphere of the two representatives of the xerophytes herbs - Stipa capillata and Centaurea diffusa. We have shown that the dominant position in the prokaryotic communities of the rhizosphere of Stipa capillata and Centaurea diffusa is the phyla Proteobacteria, Actinobacteria, Firmicutes, Bacteroidetes, Verrucomicrobia, Planctomycetes and Chloroflexi. The microorganisms with cellulolytic activity and the destructors of aromatic compounds included in the composition of prokaryotic communities in the rhizosphere of Stipa capillata and Centaurea diffusa. Keywords: Stipa capillata, Centaurea diffusa, 16s rRNA gene, bioremediation 1. INTRODUCTION Soil is not only the main means of agricultural production, but also an important component of terrestrial biocenoses, a regulator of the composition of the atmosphere, hydrosphere and a reliable barrier to the migration of pollutants. However, this irreplaceable component of the biosphere undergoes significant degradation as a result of anthropogenic impact. -
ANATOMICAL and PHYSIOLOGICAL RESPONSES of Billbergia Zebrina (Bromeliaceae) UNDER DIFFERENT in VITRO CONDITIONS
JOÃO PAULO RODRIGUES MARTINS ANATOMICAL AND PHYSIOLOGICAL RESPONSES OF Billbergia zebrina (Bromeliaceae) UNDER DIFFERENT IN VITRO CONDITIONS LAVRAS- MG 2015 JOÃO PAULO RODRIGUES MARTINS ANATOMICAL AND PHYSIOLOGICAL RESPONSES OF Billbergia zebrina (BROMELIACEAE) UNDER DIFFERENT IN VITRO CONDITIONS This thesis is being submitted in a partial fulfilment of the requirements for degree of Doctor in Applied Botanic of Universidade Federal de Lavras. Supervisor Dr. Moacir Pasqual Co-supervisor Dr. Maurice De Proft LAVRAS- MG 2015 Ficha catalográfica elaborada pelo Sistema de Geração de Ficha Catalográfica da Biblioteca Universitária da UFLA, com dados informados pelo(a) próprio(a) autor(a). Martins, João Paulo Rodrigues. Anatomical and physiological responses of Billbergia zebrina (Bromeliaceae) under different in vitro conditions / João Paulo Rodrigues Martins. – Lavras : UFLA, 2015. 136 p. : il. Tese(doutorado)–Universidade Federal de Lavras, 2015. Orientador(a): Moacir Pasqual. Bibliografia. 1. Bromeliad. 2. In vitro culture. 3. Photoautotrophic growth. 4. Plant anatomy. 5. Plant physiology. I. Universidade Federal de Lavras. II. Título. JOÃO PAULO RODRIGUES MARTINS ANATOMICAL AND PHYSIOLOGICAL RESPONSES OF Billbergia zebrina (BROMELIACEAE) UNDER DIFFERENT IN VITRO CONDITIONS This thesis is being submitted in a partial fulfilment of the requirements for degree of Doctor in Applied Botanic of Universidade Federal de Lavras. APPROVED 09th of June, 2015 Dr Diogo Pedrosa Corrêa da Silva UFLA Dra Leila Aparecida Salles Pio UFLA Dr Thiago Corrêa de Souza UNIFAL-MG Dra Vânia Helena Techio UFLA Dra Cynthia de Oliveira UFLA Supervisor Dr. Moacir Pasqual Co-supervisor Dr. Maurice De Proft LAVRAS- MG 2015 ACKNOWLEDGEMENTS God for having guided my path. My wonderful family (Including Capivara), I could not ask for better people. -
Taxonomy JN869023
Species that differentiate periods of high vs. low species richness in unattached communities Species Taxonomy JN869023 Bacteria; Actinobacteria; Actinobacteria; Actinomycetales; ACK-M1 JN674641 Bacteria; Bacteroidetes; [Saprospirae]; [Saprospirales]; Chitinophagaceae; Sediminibacterium JN869030 Bacteria; Actinobacteria; Actinobacteria; Actinomycetales; ACK-M1 U51104 Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Comamonadaceae; Limnohabitans JN868812 Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Comamonadaceae JN391888 Bacteria; Planctomycetes; Planctomycetia; Planctomycetales; Planctomycetaceae; Planctomyces HM856408 Bacteria; Planctomycetes; Phycisphaerae; Phycisphaerales GQ347385 Bacteria; Verrucomicrobia; [Methylacidiphilae]; Methylacidiphilales; LD19 GU305856 Bacteria; Proteobacteria; Alphaproteobacteria; Rickettsiales; Pelagibacteraceae GQ340302 Bacteria; Actinobacteria; Actinobacteria; Actinomycetales JN869125 Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Comamonadaceae New.ReferenceOTU470 Bacteria; Cyanobacteria; ML635J-21 JN679119 Bacteria; Proteobacteria; Betaproteobacteria; Burkholderiales; Comamonadaceae HM141858 Bacteria; Acidobacteria; Holophagae; Holophagales; Holophagaceae; Geothrix FQ659340 Bacteria; Verrucomicrobia; [Pedosphaerae]; [Pedosphaerales]; auto67_4W AY133074 Bacteria; Elusimicrobia; Elusimicrobia; Elusimicrobiales FJ800541 Bacteria; Verrucomicrobia; [Pedosphaerae]; [Pedosphaerales]; R4-41B JQ346769 Bacteria; Acidobacteria; [Chloracidobacteria]; RB41; Ellin6075 -
Low-Maintenance Landscape Plants for South Florida1
Archival copy: for current recommendations see http://edis.ifas.ufl.edu or your local extension office. ENH854 Low-Maintenance Landscape Plants for South Florida1 Jody Haynes, John McLaughlin, Laura Vasquez, Adrian Hunsberger2 Introduction The term "low-maintenance" refers to a plant that does not require frequent maintenance—such as This publication was developed in response to regular watering, pruning, or spraying—to remain requests from participants in the Florida Yards & healthy and to maintain an acceptable aesthetic Neighborhoods (FYN) program in Miami-Dade quality. A low-maintenance plant has low fertilizer County for a list of recommended landscape plants requirements and few pest and disease problems. In suitable for south Florida. The resulting list includes addition, low-maintenance plants suitable for south over 350 low-maintenance plants. The following Florida must also be adapted to—or at least information is included for each species: common tolerate—our poor, alkaline, sand- or limestone-based name, scientific name, maximum size, growth rate soils. (vines only), light preference, salt tolerance, and other useful characteristics. An additional criterion for the plants on this list was that they are not listed as being invasive by the Criteria Florida Exotic Pest Plant Council (FLEPPC, 2001), or restricted by any federal, state, or local laws This section will describe the criteria by which (Burks, 2000). Miami-Dade County does have plants were selected. It is important to note, first, that restrictions for planting certain species within 500 even the most drought-tolerant plants require feet of native habitats they are known to invade watering during the establishment period. -
Ice-Nucleating Particles Impact the Severity of Precipitations in West Texas
Ice-nucleating particles impact the severity of precipitations in West Texas Hemanth S. K. Vepuri1,*, Cheyanne A. Rodriguez1, Dimitri G. Georgakopoulos4, Dustin Hume2, James Webb2, Greg D. Mayer3, and Naruki Hiranuma1,* 5 1Department of Life, Earth and Environmental Sciences, West Texas A&M University, Canyon, TX, USA 2Office of Information Technology, West Texas A&M University, Canyon, TX, USA 3Department of Environmental Toxicology, Texas Tech University, Lubbock, TX, USA 4Department of Crop Science, Agricultural University of Athens, Athens, Greece 10 *Corresponding authors: [email protected] and [email protected] Supplemental Information 15 S1. Precipitation and Particulate Matter Properties S1.1 Precipitation Categorization In this study, we have segregated our precipitation samples into four different categories, such as (1) snows, (2) hails/thunderstorms, (3) long-lasted rains, and (4) weak rains. For this categorization, we have considered both our observation-based as well as the disdrometer-assigned National Weather Service (NWS) 20 code. Initially, the precipitation samples had been assigned one of the four categories based on our manual observation. In the next step, we have used each NWS code and its occurrence in each precipitation sample to finalize the precipitation category. During this step, a precipitation sample was categorized into snow, only when we identified a snow type NWS code (Snow: S-, S, S+ and/or Snow Grains: SG). Likewise, a precipitation sample was categorized into hail/thunderstorm, only when the cumulative sum of NWS codes for hail was 25 counted more than five times (i.e., A + SP ≥ 5; where A and SP are the codes for soft hail and hail, respectively). -
The Antarctic Mite, Alaskozetes Antarcticus, Shares Bacterial Microbiome Community Membership but Not Abundance Between Adults and Tritonymphs
Polar Biology (2019) 42:2075–2085 https://doi.org/10.1007/s00300-019-02582-5 ORIGINAL PAPER The Antarctic mite, Alaskozetes antarcticus, shares bacterial microbiome community membership but not abundance between adults and tritonymphs Christopher J. Holmes1 · Emily C. Jennings1 · J. D. Gantz2,3 · Drew Spacht4 · Austin A. Spangler1 · David L. Denlinger4 · Richard E. Lee Jr.3 · Trinity L. Hamilton5 · Joshua B. Benoit1 Received: 14 January 2019 / Revised: 3 September 2019 / Accepted: 4 September 2019 / Published online: 16 September 2019 © Springer-Verlag GmbH Germany, part of Springer Nature 2019 Abstract The Antarctic mite (Alaskozetes antarcticus) is widely distributed on sub-Antarctic islands and throughout the Antarctic Peninsula, making it one of the most abundant terrestrial arthropods in the region. Despite the impressive ability of A. ant- arcticus to thrive in harsh Antarctic conditions, little is known about the biology of this species. In this study, we performed 16S rRNA gene sequencing to examine the microbiome of the fnal immature instar (tritonymph) and both male and female adults. The microbiome included a limited number of microbial classes and genera, with few diferences in community membership noted among the diferent stages. However, the abundances of taxa that composed the microbial community difered between adults and tritonymphs. Five classes—Actinobacteria, Flavobacteriia, Sphingobacteriia, Gammaproteobac- teria, and Betaproteobacteria—comprised ~ 82.0% of the microbial composition, and fve (identifed) genera—Dermacoccus, Pedobacter, Chryseobacterium, Pseudomonas, and Flavobacterium—accounted for ~ 68.0% of the total composition. The core microbiome present in all surveyed A. antarcticus was dominated by the families Flavobacteriaceae, Comamonadaceae, Sphingobacteriaceae, Chitinophagaceae and Cytophagaceae, but the majority of the core consisted of operational taxonomic units of low abundance. -
Ecological Functions of Neotropical Amphibians and Reptiles: a Review
Univ. Sci. 2015, Vol. 20 (2): 229-245 doi: 10.11144/Javeriana.SC20-2.efna Freely available on line REVIEW ARTICLE Ecological functions of neotropical amphibians and reptiles: a review Cortés-Gomez AM1, Ruiz-Agudelo CA2 , Valencia-Aguilar A3, Ladle RJ4 Abstract Amphibians and reptiles (herps) are the most abundant and diverse vertebrate taxa in tropical ecosystems. Nevertheless, little is known about their role in maintaining and regulating ecosystem functions and, by extension, their potential value for supporting ecosystem services. Here, we review research on the ecological functions of Neotropical herps, in different sources (the bibliographic databases, book chapters, etc.). A total of 167 Neotropical herpetology studies published over the last four decades (1970 to 2014) were reviewed, providing information on more than 100 species that contribute to at least five categories of ecological functions: i) nutrient cycling; ii) bioturbation; iii) pollination; iv) seed dispersal, and; v) energy flow through ecosystems. We emphasize the need to expand the knowledge about ecological functions in Neotropical ecosystems and the mechanisms behind these, through the study of functional traits and analysis of ecological processes. Many of these functions provide key ecosystem services, such as biological pest control, seed dispersal and water quality. By knowing and understanding the functions that perform the herps in ecosystems, management plans for cultural landscapes, restoration or recovery projects of landscapes that involve aquatic and terrestrial systems, development of comprehensive plans and detailed conservation of species and ecosystems may be structured in a more appropriate way. Besides information gaps identified in this review, this contribution explores these issues in terms of better understanding of key questions in the study of ecosystem services and biodiversity and, also, of how these services are generated. -
Plant-Hummingbird Interactions and Temporal Nectar Availability in a Restinga from Brazil
Anais da Academia Brasileira de Ciências (2015) 87(4): 2163-2175 (Annals of the Brazilian Academy of Sciences) Printed version ISSN 0001-3765 / Online version ISSN 1678-2690 http://dx.doi.org/10.1590/0001-3765201520140349 www.scielo.br/aabc Plant-hummingbird interactions and temporal nectar availability in a restinga from Brazil LORENA C.N. FONSECA1,5, JEFERSON VIZENTIN-BUGONI2,6, ANDRÉ R. RECH3 and MARIA ALICE S. ALVES4 1Programa de Pós-Graduação em Ecologia, Universidade Federal do Rio de Janeiro/ UFRJ, CCS, IB, Caixa Postal 68020, 21941-590 Rio de Janeiro, RJ, Brasil 2Programa de Pós-Graduação em Ecologia, Instituto de Biologia, Universidade Estadual de Campinas/ UNICAMP, Rua Monteiro Lobato, 970, Barão Geraldo, 13083-970 Campinas, SP, Brasil 3Instituto de Biologia, Universidade Federal de Uberlândia/UFU, Av. Pará, 1720, Campus Umuarama, 38405-320 Uberlândia, MG, Brasil 4Departamento de Ecologia, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro/UERJ, Rua São Francisco Xavier, 524, Maracanã, 20550-011 Rio de Janeiro, RJ, Brasil 5Companhia Ambiental do Estado de São Paulo/CETESB, Av. Professor Frederico Hermann Jr, 345, Pinheiros, 05459-900 São Paulo, SP, Brasil 6Center for Macroecology, Evolution and Climate, Natural History Museum of Denmark, University of Copenhagen, Universitetsparken 15, DK-2100 Copenhagen Ø, Denmark Manuscript received on July 10, 2014; accepted for publication on April 27, 2015 ABSTRACT Hummingbirds are the most important and specialized group of pollinating birds in the Neotropics and their interactions with plants are key components to many communities. In the present study we identified the assemblage of plants visited by hummingbirds and investigated the temporal availability of floral resources in an area of restinga, sandy plain coastal vegetation associated with the Atlantic forest, in Southeastern Brazil. -
Proposal of Vibrionimonas Magnilacihabitans Gen. Nov., Sp
Marquette University e-Publications@Marquette Civil and Environmental Engineering Faculty Civil and Environmental Engineering, Department Research and Publications of 2-1-2014 Proposal of Vibrionimonas magnilacihabitans gen. nov., sp. nov., a Curved Gram Negative Bacterium Isolated From Lake Michigan Water Richard A. Albert Marquette University, [email protected] Daniel Zitomer Marquette University, [email protected] Michael Dollhopf Marquette University, [email protected] Anne Schauer-Gimenez Marquette University Craig Struble Marquette University, [email protected] See next page for additional authors Accepted version. International Journal of Systematic and Evolutionary Microbiology, Vol. 64, No. 2 (February 2014): 613-620. DOI. © 2014 Society for General Microbiology. Used with permission. Authors Richard A. Albert, Daniel Zitomer, Michael Dollhopf, Anne Schauer-Gimenez, Craig Struble, Michael King, Sona Son, Stefan Langer, and Hans-Jürgen Busse This article is available at e-Publications@Marquette: https://epublications.marquette.edu/civengin_fac/8 NOT THE PUBLISHED VERSION; this is the author’s final, peer-reviewed manuscript. The published version may be accessed by following the link in the citation at the bottom of the page. Proposal of Vibrionimonas magnilacihabitans gen. nov., sp. nov., a Curved Gram-Stain-Negative Bacterium Isolated from Lake Water Richard A. Albert Water Quality Center, Marquette University, Milwaukee, WI Daniel Zitomer Water Quality Center, Marquette University, Milwaukee, WI Michael Dollhopf Water Quality Center, Marquette University, Milwaukee, WI A.E. Schauer-Gimenez Water Quality Center, Marquette University, Milwaukee, WI Craig Struble Department of Mathematics, Statistics and Computer Science, Marquette University, Milwaukee, WI International Journal of Systematic and Evolutionary Microbiology, Vol. 64, No. 2 (February 2014): pg. -
Clusia Hilariana, a Key Species on Nutrient Cycling in Sand Dune Vegetation Thickets
Oecologia Australis 24(2):420-437, 2020 https://doi.org/10.4257/oeco.2020.2402.13 Clusia hilariana, A KEY SPECIES ON NUTRIENT CYCLING IN SAND DUNE VEGETATION THICKETS Dora Maria Villela1,*, Ana Paula da Silva2, Giselle Sobrosa Levesque Bonadiman3, Anandra de Souza da Silva1 & Raphael Pires de Souza1 1 Universidade Estadual do Norte Fluminense Darcy Ribeiro, Centro de Biociências e Biotecnologia, Programa Pós- Graduação de Ecologia e Recursos Naturais, Laboratório de Ciências Ambientais, Avenida Alberto Lamego 2000, CEP: 28013-602, Campos dos Goytacazes, RJ, Brazil. 2 Instituto Federal do Rio de Janeiro, campus Arraial do Cabo, Laboratório de Ciências Ambientais, Rua José Pinto de Macedo, s/n, CEP: 28930-000, Prainha, Arraial do Cabo, RJ, Brazil. 3 Secretaria Municipal de Meio Ambiente de Cachoeiro de Itapemirim, Rua Agripino de Oliveira, nº 60, CEP:29306-450, Bairro Independência, Cachoeiro de Itapemirim, ES, Brazil. E-mails: [email protected] (*corresponding author); [email protected]; [email protected]; [email protected]; [email protected]; [email protected]. Abstract: Interspecific plant-plant interactions studies showed that Clusia hilariana plays a facilitation role in the scattered vegetation thickets of the Brazilian sandy coastal plain vegetation (Restinga). In the Clusia open formation in the Jurubatiba Restinga National Park there are thickets differing in the presence and senescence of Clusia: (1) healthy Clusia thickets (HCT); (2) senescent Clusia thickets (SCT); and also (3) thickets without Clusia (TWC). The aim of this long term study was to assess soil chemistry, litterfall mass and nutrient input and its leaf-litter decomposition in Clusia thickets, testing the hypotheses that: (1) the presence of Clusia increases soil nutrient concentrations in the thickets; (2) litterfall mass and nutrient input are dependent on the senescence stage of Clusia, being higher in HCT than in SCT; (3) decomposition and nutrient release of Clusia leaves are faster in HCT than in SCT, evaluating if C.