Toward the development of generally applicable models of the microbial loop in aquatic ecosystems.

Abstract:

:Simulation modeling has been an integral, albeit ad hoc, component of the field of aquatic microbial ecology for the past two decades. One of the most critical steps in simulation modeling is the initial formulation of a clear set of questions and goals. It is doubtful that a single generic model could be constructed to address adequately all questions of interest concerning the microbial loop because of the tremendous range in time scales that define these questions. Progress in the field of aquatic microbial ecology will benefit from an integrated research program including experimental and modeling approaches. A submodel of bacterial utilization of various qualities of organic matter that we have under construction is presented. This submodel will be a component of a larger model to evaluate the effects of quality and quantity of organic matter and inorganic nutrient inputs on estuarine food web structure and efficiency. The overall model will be general enough in its structure that it should be applicable to a wide range of questions concerning the microbial loop, with time scales ranging from hours to days.

journal_name

Microb Ecol

journal_title

Microbial ecology

authors

Hopkinson CS Jr,Vallino JJ

doi

10.1007/BF00166823

subject

Has Abstract

pub_date

1994-09-01 00:00:00

pages

321-6

issue

2

eissn

0095-3628

issn

1432-184X

journal_volume

28

pub_type

杂志文章
  • Simultaneous consumption of bacteria and dissolved organic matter byTetrahymena pyriformis.

    abstract::The addition of ciliated protozoa to aquatic microcosms and bench-scale sewage treatment plants increases decomposition rates. This is surprising, inasmuch as protozoa consume bacteria, which are the primary decomposers. One possible mechanism of the increase in decomposition rate is the direct consumption of dissolve...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/BF02011712

    authors: Glaser D

    更新日期:1988-03-01 00:00:00

  • Competing factors of compost concentration and proximity to root affect the distribution of streptomycetes.

    abstract::Streptomycetes are important members of soil microbial communities and are particularly active in the degradation of recalcitrant macromolecules and have been implicated in biological control of plant disease. Using a streptomycetes-specific polymerase chain reaction (PCR)-denaturing gradient gel electrophoresis (PCR-...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-004-0111-x

    authors: Inbar E,Green SJ,Hadar Y,Minz D

    更新日期:2005-07-01 00:00:00

  • Variability in Bradyrhizobium japonicum and B. elkanii seven years after introduction of both the exotic microsymbiont and the soybean host in a cerrados soil.

    abstract::The plasticity of rhizobial genomes is far greater than previously thought, with complex genomic recombination events that may be accelerated by the often stressful environmental conditions of the tropics. This study aimed at evaluating changes in soybean rhizobia due to adaptation to inhospitable environmental condit...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-006-9149-2

    authors: Batista JS,Hungria M,Barcellos FG,Ferreira MC,Mendes IC

    更新日期:2007-02-01 00:00:00

  • Molecular Characterisation and Co-cultivation of Bacterial Biofilm Communities Associated with the Mat-Forming Diatom Didymosphenia geminata.

    abstract::Didymosphenia geminata (Lyngbye) M. Schmidt is a stalked freshwater diatom that is expanding its range globally. In some rivers, D. geminata forms thick and expansive polysaccharide-dominated mats. Like other stalked diatoms, D. geminata cells attach to the substratum with a pad of adhesive extracellular polymeric sub...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-016-0816-7

    authors: Brandes J,Kuhajek JM,Goodwin E,Wood SA

    更新日期:2016-10-01 00:00:00

  • Do Multi-year Applications of Bacillus thuringiensis subsp. israelensis for Control of Mosquito Larvae Affect the Abundance of B. cereus Group Populations in Riparian Wetland Soils?

    abstract::Bacillus thuringiensis subsp. israelensis (Bti) is a soil-borne bacterium affiliated to the Bacillus cereus group (Bcg) and has been used in biocontrol products against nematoceran larvae for several decades. However, knowledge is limited on whether long-term Bti application can affect the structure of indigenous comm...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-017-1004-0

    authors: Schneider S,Tajrin T,Lundström JO,Hendriksen NB,Melin P,Sundh I

    更新日期:2017-11-01 00:00:00

  • Bacterial community structure of sediments of the bizerte lagoon (Tunisia), a southern Mediterranean coastal anthropized lagoon.

    abstract::In order to estimate how pollution affects the bacterial community structure and composition of sediments, chemical and molecular approaches were combined to investigate eight stations around the Bizerte lagoon. Terminal restriction fragment length polymorphism (T-RFLP) analysis of PCR-amplified 16S rRNA genes reveale...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-009-9585-x

    authors: Ben Said O,Goñi-Urriza M,El Bour M,Aissa P,Duran R

    更新日期:2010-04-01 00:00:00

  • Response of ammonia oxidizing bacteria and archaea to acute zinc stress and different moisture regimes in soil.

    abstract::Ammonia oxidation has been intensively studied for its sensitivity to environmental shifts and stresses. However, acute stress effects on the occurrence and composition of ammonia oxidizing bacteria (AOB) and archaea (AOA) based on expression of related molecular markers in complex soil environments have been to an ex...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-012-0081-3

    authors: Vasileiadis S,Coppolecchia D,Puglisi E,Balloi A,Mapelli F,Hamon RE,Daffonchio D,Trevisan M

    更新日期:2012-11-01 00:00:00

  • Drag-reducing properties of bacteria from the skin mucus of the cornetfish (Fistularia commersonii).

    abstract::Scanning electron microscopy and fluorescence microscopy after scanning with DAPI indicated that the skin mucus of the cornetfish contained large numbers of bacteria, 4 × 10(8) per cm3. However, viable counts yielded only 2 × 104 per cm(3). Twelve bacterial strains were isolated directly from the mucus and another ten...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/BF00171971

    authors: Bernadsky G,Rosenberg E

    更新日期:1992-07-01 00:00:00

  • Eco-epidemiology of Novel Bartonella Genotypes from Parasitic Flies of Insectivorous Bats.

    abstract::Bats are important zoonotic reservoirs for many pathogens worldwide. Although their highly specialized ectoparasites, bat flies (Diptera: Hippoboscoidea), can transmit Bartonella bacteria including human pathogens, their eco-epidemiology is unexplored. Here, we analyzed the prevalence and diversity of Bartonella strai...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-018-1195-z

    authors: Sándor AD,Földvári M,Krawczyk AI,Sprong H,Corduneanu A,Barti L,Görföl T,Estók P,Kováts D,Szekeres S,László Z,Hornok S,Földvári G

    更新日期:2018-11-01 00:00:00

  • Species diversity, distribution, and genetic structure of endophytic and epiphytic Trichoderma associated with banana roots.

    abstract::Selective isolation, molecular identification and AFLP were used to investigate the distribution of the various species of endophytic and epiphytic Trichoderma associated with banana roots and to compare and contrast their genetic structure. Three specific groups of Trichoderma were observed in the roots of banana. Gr...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-010-9770-y

    authors: Xia X,Lie TK,Qian X,Zheng Z,Huang Y,Shen Y

    更新日期:2011-04-01 00:00:00

  • Frankia and Alnus rubra canopy roots: an assessment of genetic diversity, propagule availability, and effects on soil nitrogen.

    abstract::The ecological importance of microbial symbioses in terrestrial soils is widely recognized, but their role in soils that accumulate in forest canopies is almost entirely unknown. To address this gap, this study investigated the Frankia-Alnus rubra symbiosis in canopy and forest floor roots at Olympic National Park, WA...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-009-9587-8

    authors: Kennedy PG,Schouboe JL,Rogers RH,Weber MG,Nadkarni NM

    更新日期:2010-02-01 00:00:00

  • Effects of temperature and salinity on survival of toxigenicVibrio cholerae O1 in seawater.

    abstract::In 1991 and 1992, the Latin American epidemic strain of Vibrio cholerae O1 was isolated from ballast water, bilge water, and sewage taken from cargo ships docked in Mobile Bay, Alabama. The findings raised questions regarding the organism's ability to survive long-term aboard ships and to withstand the exchange of bal...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/BF00167862

    authors: McCarthy SA

    更新日期:1996-03-01 00:00:00

  • Aerobic methanotroph diversity in Sanjiang wetland, Northeast China.

    abstract::Aerobic methanotrophs present in wetlands can serve as a methane filter and thereby significantly reduce methane emissions. Sanjiang wetland is a major methane source and the second largest wetland in China, yet little is known about the characteristics of aerobic methanotrophs in this region. In the present study, we...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-014-0506-2

    authors: Yun J,Zhang H,Deng Y,Wang Y

    更新日期:2015-04-01 00:00:00

  • Microbial Diversity and Community Structure in Two Different Agricultural Soil Communities.

    abstract::Abstract In this study, two different agricultural soils were investigated: one organic soil and one sandy soil, from Stend (south of Bergen), Norway. The sandy soil was a field frequently tilled and subjected to crop rotations. The organic soil was permanent grazing land, infrequently tilled. Our objective was to com...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s002489900117

    authors: Øvreås L,Torsvik V V

    更新日期:1998-11-01 00:00:00

  • Field-Scale Pattern of Denitrifying Microorganisms and N2O Emission Rates Indicate a High Potential for Complete Denitrification in an Agriculturally Used Organic Soil.

    abstract::More than 50% of all anthropogenic N2O emissions come from the soil. Drained Histosols that are used for agricultural purposes are particularly potent sources of denitrification due to higher stocks of organic matter and fertiliser application. However, conditions that favour denitrification can vary considerably acro...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-017-0991-1

    authors: Schulz S,Kölbl A,Ebli M,Buegger F,Schloter M,Fiedler S

    更新日期:2017-11-01 00:00:00

  • Comparison of soil bacterial communities of Pinus patula of Nilgiris, western ghats with other biogeographically distant pine forest clone libraries.

    abstract::The bacterial community structure of the rhizosphere and non-rhizosphere soil of Pinus patula, found in the Nilgiris region of Western Ghats, was studied by constructing 16S rRNA gene clone libraries. In the rhizosphere and non-rhizosphere soil clone libraries constructed, 13 and 15 bacterial phyla were identified, re...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-012-0167-y

    authors: Rohini-Kumar M,Osborne JW,Saravanan VS

    更新日期:2013-07-01 00:00:00

  • Activity and Identification of Methanotrophic Bacteria in Arable and No-Tillage Soils from Lublin Region (Poland).

    abstract::Methanotrophic bacteria are able to use methane (CH4) as a sole carbon and energy source. Photochemical oxidation of methane takes place in the stratosphere, whereas in the troposphere, this process is carried out by methanotrophic bacteria. On the one hand, it is known that the efficiency of biological CH4 oxidation ...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-018-1248-3

    authors: Szafranek-Nakonieczna A,Wolińska A,Zielenkiewicz U,Kowalczyk A,Stępniewska Z,Błaszczyk M

    更新日期:2019-04-01 00:00:00

  • Microbial production, enzyme activity, and carbon turnover in surface sediments of the Hudson River estuary.

    abstract::The detrital food web is a major nexus of energy flow in nearly all aquatic ecosystems. Energy enters this nexus by microbial assimilation of detrital carbon. To link microbiological variables with ecosystem process, it is necessary to understand the regulatory hierarchy that controls the distribution of microbial bio...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/BF00172569

    authors: Sinsabaugh RL,Findlay S

    更新日期:1995-09-01 00:00:00

  • Different Interspecies Electron Transfer Patterns during Mesophilic and Thermophilic Syntrophic Propionate Degradation in Chemostats.

    abstract::Propionate is one of the major intermediates in anaerobic digestion of organic waste to CO2 and CH4. In methanogenic environments, propionate is degraded through a mutualistic interaction between symbiotic propionate oxidizers and methanogens. Although temperature heavily influences the microbial ecology and performan...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-020-01485-x

    authors: Chen YT,Zeng Y,Wang HZ,Zheng D,Kamagata Y,Narihiro T,Nobu MK,Tang YQ

    更新日期:2020-07-01 00:00:00

  • Biological soil crusts of sand dunes in Cape Cod National Seashore, Massachusetts, USA.

    abstract::Biological soil crusts cover hundreds of hectares of sand dunes at the northern tip of Cape Cod National Seashore (Massachusetts, USA). Although the presence of crusts in this habitat has long been recognized, neither the organisms nor their ecological roles have been described. In this study, we report on the microbi...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-004-0254-9

    authors: Smith SM,Abed RM,Gercia-Pichel F

    更新日期:2004-08-01 00:00:00

  • Nosema ceranae in South American Native Stingless Bees and Social Wasp.

    abstract::Besides the incipient research effort, the role of parasites as drivers of the reduction affecting pollinator populations is mostly unknown. Given the worldwide extension of the beekeeping practice and the diversity of pathogens affecting Apis mellifera populations, honey bee colonies are a certain source of parasite ...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-017-0975-1

    authors: Porrini MP,Porrini LP,Garrido PM,de Melo E Silva Neto C,Porrini DP,Muller F,Nuñez LA,Alvarez L,Iriarte PF,Eguaras MJ

    更新日期:2017-11-01 00:00:00

  • Enteric luminous microflora of the pond-cultured milk fishChanos chanos (Forskal).

    abstract::Qualitative and quantitative investigations were made on the luminous bacteria associated with the gut of pond cultured milk fishChanos chanos. Significant differences in luminous bacterial numbers were found between gut and pond water and between gut and pond sediment, but not between pond water and sediment. No sign...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/BF02011207

    authors: Ramesh A,Nandakumar R,Venugopalan VK

    更新日期:1986-06-01 00:00:00

  • The Oral Bacterium Fusobacterium nucleatum Binds Staphylococcus aureus and Alters Expression of the Staphylococcal Accessory Regulator sarA.

    abstract::Staphylococcus aureus, an opportunistic pathogen member of the nasal and skin microbiota, can also be found in human oral samples and has been linked to infectious diseases of the oral cavity. As the nasal and oral cavities are anatomically connected, it is currently unclear whether S. aureus can colonize the oral cav...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-018-1291-0

    authors: Lima BP,Hu LI,Vreeman GW,Weibel DB,Lux R

    更新日期:2019-08-01 00:00:00

  • Phylogenetic diversity of numerically important Arctic sea-ice bacteria cultured at subzero temperature.

    abstract::Heterotrophic bacteria in sea ice play a key role in carbon cycling, but little is known about the predominant players at the phylogenetic level. In a study of both algal bands and clear ice habitats within summertime Arctic pack ice from the Chukchi Sea, we determined the abundance of total bacteria and actively resp...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-001-1026-4

    authors: Junge K,Imhoff F,Staley T,Deming JW

    更新日期:2002-04-01 00:00:00

  • Application of a novel rpoC1-RFLP approach reveals that marine Prochlorococcus populations in the Atlantic gyres are composed of greater microdiversity than previously described.

    abstract::To elucidate the degree of microdiversity within the genus Prochlorococcus, novel Prochlorococcus-specific polymerase chain reaction (PCR) primers were developed for the rpoC1 gene, which encodes the ribonucleic acid (RNA) polymerase core subunit. The size of the PCR fragment (925 bp) coupled with high sequence variat...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-007-9259-5

    authors: Jameson E,Joint I,Mann NH,Mühling M

    更新日期:2008-01-01 00:00:00

  • Litter Quality Modulates Effects of Dissolved Nitrogen on Leaf Decomposition by Stream Microbial Communities.

    abstract::Rates of leaf litter decomposition in streams are strongly influenced both by inorganic nutrients dissolved in stream water and by litter traits such as lignin, nitrogen (N) and phosphorus (P) concentrations. As a result, decomposition rates of different leaf species can show contrasting responses to stream nutrient e...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-019-01353-3

    authors: Jabiol J,Lecerf A,Lamothe S,Gessner MO,Chauvet E

    更新日期:2019-05-01 00:00:00

  • Molecular Mechanisms of Enhanced Bacterial Growth on Hexadecane with Red Clay.

    abstract::Red clay was previously used to enhance bioremediation of diesel-contaminated soil. It was speculated that the enhanced degradation of diesel was due to increased bacterial growth. In this study, we selected Acinetobacter oleivorans DR1, a soil-borne degrader of diesel and alkanes, as a model bacterium and performed t...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-015-0624-5

    authors: Jung J,Jang IA,Ahn S,Shin B,Kim J,Park C,Jee SC,Sung JS,Park W

    更新日期:2015-11-01 00:00:00

  • Bacterial diversity of weathered terrestrial Icelandic volcanic glasses.

    abstract::The diversity of microbial communities inhabiting two terrestrial volcanic glasses of contrasting mineralogy and age was characterised. Basaltic glass from a <0.8 Ma hyaloclastite deposit (Valafell) harboured a more diverse Bacteria community than the younger rhyolitic glass from ∼150-300 AD (Dόmadalshraun lava flow)....

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-010-9684-8

    authors: Kelly LC,Cockell CS,Piceno YM,Andersen GL,Thorsteinsson T,Marteinsson V

    更新日期:2010-11-01 00:00:00

  • Probability Models Based on Soil Properties for Predicting Presence-Absence of Pythium in Soybean Roots.

    abstract::Associations between soil properties and Pythium groups on soybean roots were investigated in 83 commercial soybean fields in North Dakota. A data set containing 2877 isolates of Pythium which included 26 known spp. and 1 unknown spp. and 13 soil properties from each field were analyzed. A Pearson correlation analysis...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-017-0958-2

    authors: Zitnick-Anderson KK,Norland JE,Del Río Mendoza LE,Fortuna AM,Nelson BD Jr

    更新日期:2017-10-01 00:00:00

  • Genetic and physiological characterization of the intestinal bacterial microbiota of Bluegill (Lepomis macrochirus) with three different feeding habits.

    abstract::Bluegill (Lepomis macrochirus) in Lake Biwa, Japan, feed on benthic invertebrates (benthivorous type), aquatic plants (herbivorous type), and zooplankton (planktivorous type). To evaluate the effect of food on intestinal bacterial microbiota, we characterized and compared the intestinal microbiota of these three types...

    journal_title:Microbial ecology

    pub_type: 杂志文章

    doi:10.1007/s00248-006-9018-z

    authors: Uchii K,Matsui K,Yonekura R,Tani K,Kenzaka T,Nasu M,Kawabata Z

    更新日期:2006-04-01 00:00:00