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You searched for: Journal Environmental microbiology Remove constraint Journal: Environmental microbiology Publication Year 2018 Remove constraint Publication Year: 2018 Source 2018 v.20 no.3 Remove constraint Source: 2018 v.20 no.3
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1. A comparative hierarchical analysis of bacterioplankton and biofilm metacommunity structure in an interconnected pond system

Author:
Souffreau, Caroline; Busschaert, Pieter; Denis, Carla; Van Wichelen, Jeroen; Lievens, Bart; Vyverman, Wim; De Meester, Luc
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1271-1282
ISSN:
1462-2912
Subject:
Nuphar; Phragmites; bacterioplankton; biofilm; community structure; environmental factors; microhabitats; ponds; species diversity
Abstract:
... It is unknown whether bacterioplankton and biofilm communities are structured by the same ecological processes, and whether they influence each other through continuous dispersal (known as mass effects). Using a hierarchical sampling approach we compared the relative importance of ecological processes structuring the dominant fraction (relative abundance ≥0.1%) of bacterioplankton and biofilm comm ...
DOI:
10.1111/1462-2920.14073

2. A network of regulators promotes dehydration tolerance in Escherichia coli

Author:
Chen, Annie I.; Goulian, Mark
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1283-1295
ISSN:
1462-2912
Subject:
Escherichia coli; bacteria; disease transmission; genomic libraries; plasmids; stress response; transcription factors; water activity
Abstract:
... The ability to survive conditions of low water activity is critical for the survival of many bacteria in the environment and facilitates disease transmission through food and contaminated surfaces. However, the molecular mechanisms that enable bacteria to withstand this condition remain poorly understood. Here we describe a network of regulators in Escherichia coli that are important for this bact ...
DOI:
10.1111/1462-2920.14074
PubMed:
29457688
PubMed Central:
PMC5869162

3. Cell‐cell recognition and social networking in bacteria

Author:
Troselj, Vera; Cao, Pengbo; Wall, Daniel
Source:
Environmental microbiology 2018 v.20 no.3 pp. 923-933
ISSN:
1462-2912
Subject:
bacteria; genotype; phenotype; receptors; social networks; stochastic processes
Abstract:
... The ability to recognize self and to recognize partnering cells allows microorganisms to build social networks that perform functions beyond the capabilities of the individual. In bacteria, recognition typically involves genetic determinants that provide cell surface receptors or diffusible signalling chemicals to identify proximal cells at the molecular level that can participate in cooperative p ...
DOI:
10.1111/1462-2920.14005
PubMed:
29194914
PubMed Central:
PMC5874169

4. Coexistence of novel gammaproteobacterial and Arsenophonus symbionts in the scale insect Greenisca brachypodii (Hemiptera, Coccomorpha: Eriococcidae)

Author:
Michalik, Anna; Schulz, Frederik; Michalik, Katarzyna; Wascher, Florian; Horn, Matthias; Szklarzewicz, Teresa
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1148-1157
ISSN:
1462-2912
Subject:
Arsenophonus; Eriococcidae; bacteria; cytoplasm; histology; hosts; neck; nutrients; polyphyly; ribosomal RNA; scale insects; symbionts
Abstract:
... Scale insects are commonly associated with obligate, intracellular microorganisms which play important roles in complementing their hosts with essential nutrients. Here we characterized the symbiotic system of Greenisca brachypodii, a member of the family Eriococcidae. Histological and ultrastructural analyses have indicated that G. brachypodii is stably associated with coccoid and rod‐shaped bact ...
DOI:
10.1111/1462-2920.14057

5. Comammox Nitrospira are abundant ammonia oxidizers in diverse groundwater‐fed rapid sand filter communities

Author:
Fowler, Susan Jane; Palomo, Alejandro; Dechesne, Arnaud; Mines, Paul D.; Smets, Barth F.
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1002-1015
ISSN:
1462-2912
Subject:
Nitrosomonadaceae; ammonia; ammonium; bacterial communities; groundwater; nitrification; nitrifying bacteria; nitrogen content; nitrogen cycle; pollution load; sulfates; temperature; water microbiology
Abstract:
... The recent discovery of completely nitrifying Nitrospira demands a re‐examination of nitrifying environments to evaluate their contribution to nitrogen cycling. To approach this challenge, tools are needed to detect and quantify comammox Nitrospira. We present primers for the simultaneous quantification and diversity assessement of both comammox Nitrospira clades. The primers cover a wide range of ...
DOI:
10.1111/1462-2920.14033

6. Distribution of thermophilic endospores in a temperate estuary indicate that dispersal history structures sediment microbial communities

Author:
Bell, Emma; Blake, Lynsay I.; Sherry, Angela; Head, Ian M.; Hubert, Casey R.J.
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1134-1147
ISSN:
1462-2912
Subject:
ambient temperature; biogeography; biosphere; endospores; estuaries; habitats; industrial effluents; marine sediments; microbial communities; models; mutation; rivers; runoff; thermophilic bacteria
Abstract:
... Endospores of thermophilic bacteria are found in cold and temperate sediments where they persist in a dormant state. As inactive endospores that cannot grow at the low ambient temperatures, they are akin to tracer particles in cold sediments, unaffected by factors normally governing microbial biogeography (e.g., selection, drift, mutation). This makes thermophilic endospores ideal model organisms ...
DOI:
10.1111/1462-2920.14056
PubMed:
29393553
PubMed Central:
PMC6849807

7. Dynamic environments of fungus‐farming termite mounds exert growth‐modulating effects on fungal crop parasites

Author:
Katariya, Lakshya; Ramesh, Priya B.; Borges, Renee M.
Source:
Environmental microbiology 2018 v.20 no.3 pp. 971-979
ISSN:
1462-2912
Subject:
Odontotermes obesus; Xylaria; carbon dioxide; ecosystem engineers; environmental factors; fungi; fungus gardening; microbial growth; microclimate; relative humidity; temperature; termite mounds
Abstract:
... This study investigated for the first time the impact of the internal mound environment of fungus‐growing termites on the growth of fungal crop parasites. Mounds of the termite Odontotermes obesus acted as (i) temperature and relative humidity (RH) ‘stabilisers’ showing dampened daily variation and (ii) ‘extreme environments’ exhibiting elevated RH and CO₂ levels, compared to the outside. Yet, int ...
DOI:
10.1111/1462-2920.14026

8. Energy drives the dynamic localization of cyanobacterial nitrogen regulators during diurnal cycles

Author:
Espinosa, Javier; Labella, José I.; Cantos, Raquel; Contreras, Asunción
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1240-1252
ISSN:
1462-2912
Subject:
Cyanobacteria; adenosine diphosphate; adenosine triphosphate; autotrophs; carbon; energy; nitrogen; photosynthesis; proteins; signal transduction
Abstract:
... Cyanobacteria, phototrophic organisms performing oxygenic photosynthesis, must adapt their metabolic processes to the challenges imposed by the succession of days and nights. Two conserved cyanobacterial proteins, PII and PipX, function as hubs of the nitrogen interaction network, forming complexes with a variety of diverse targets. While PII proteins are found in all three domains of life as inte ...
DOI:
10.1111/1462-2920.14071

9. Eukaryotic phytoplankton community spatiotemporal dynamics as identified through gene expression within a eutrophic estuary

Author:
Gong, Weida; Paerl, Hans; Marchetti, Adrian
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1095-1111
ISSN:
1462-2912
Subject:
biochemical pathways; carbon metabolism; environmental factors; estuaries; eutrophication; gene expression; genes; nitrogen; phytoplankton; polysaccharides; rivers; water quality
Abstract:
... Over the span of a year, we investigated the interactions between biotic and abiotic factors within the eutrophic Neuse River Estuary (NRE). Through metatranscriptomic sequencing in combination with water quality measurements, we show that there are different metabolic strategies deployed along the NRE. In the upper estuary, taxonomically resolved phytoplankton groups express more transcripts of g ...
DOI:
10.1111/1462-2920.14049

10. Experimental insights into the importance of ecologically dissimilar bacteria to community assembly along a salinity gradient

Author:
Shen, Dandan; Jürgens, Klaus; Beier, Sara
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1170-1184
ISSN:
1462-2912
Subject:
bacteria; bacterioplankton; environmental factors; habitats; phylogeny; salinity; Baltic Sea
Abstract:
... The response of local communities to marine–freshwater transitions and the processes that underlie community assembly are unclear, particularly with respect to bacteria that differ in their life strategies. Here, we implemented a transplant experiment where bacterioplankton from three regions of the Baltic Sea with differing salinities (∼3, 7 and 28 psu) were exposed to each other's environmental ...
DOI:
10.1111/1462-2920.14059

11. Formate hydrogenlyase and formate secretion ameliorate H2 inhibition in the hyperthermophilic archaeon Thermococcus paralvinellae

Author:
Topçuoğlu, Begüm D.; Meydan, Cem; Orellana, Roberto; Holden, James F.
Source:
Environmental microbiology 2018 v.20 no.3 pp. 949-957
ISSN:
1462-2912
Subject:
Thermococcus; formate dehydrogenase; formates; gene expression regulation; heterotrophs; hydrogen; hydrogen production; maltose; operon; oxidation; secretion; sequence analysis; tryptones
Abstract:
... Some hyperthermophilic heterotrophs in the genus Thermococcus produce H₂ in the absence of S° and have up to seven hydrogenases, but their combined physiological roles are unclear. Here, we show which hydrogenases in Thermococcus paralvinellae are affected by added H₂ during growth without S°. Growth rates and steady‐state cell concentrations decreased while formate production rates increased when ...
DOI:
10.1111/1462-2920.14022
Chorus Open Access:
10.1111/1462-2920.14022

12. Genomic insights into the Acidobacteria reveal strategies for their success in terrestrial environments

Author:
Eichorst, Stephanie A.; Trojan, Daniela; Roux, Simon; Herbold, Craig; Rattei, Thomas; Woebken, Dagmar
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1041-1063
ISSN:
1462-2912
Subject:
Acidobacteria; bacteriophages; carbohydrates; ecophysiology; edaphic factors; genome; genomics; hydrogen; nitrogen; oxygen; peptidases; sequence analysis; soil; soil bacteria
Abstract:
... Members of the phylum Acidobacteria are abundant and ubiquitous across soils. We performed a large‐scale comparative genome analysis spanning subdivisions 1, 3, 4, 6, 8 and 23 (n = 24) with the goal to identify features to help explain their prevalence in soils and understand their ecophysiology. Our analysis revealed that bacteriophage integration events along with transposable and mobile element ...
DOI:
10.1111/1462-2920.14043
PubMed:
29327410
PubMed Central:
PMC5900883

13. High‐throughput environmental sequencing reveals high diversity of litter and moss associated protist communities along a gradient of drainage and tree productivity

Author:
Heger, Thierry J.; Giesbrecht, Ian J. W.; Gustavsen, Julia; del Campo, Javier; Kellogg, Colleen T. E.; Hoffman, Kira M.; Lertzman, Ken; Mohn, William W.; Keeling, Patrick J.
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1185-1203
ISSN:
1462-2912
Subject:
Filasterea; bogs; calcium; community structure; drainage; edaphic factors; forest ecosystems; forest trees; fungi; habitats; high-throughput nucleotide sequencing; landscapes; mosses and liverworts; phylogeny; primary productivity; protists; rain forests; soil; species diversity; British Columbia
Abstract:
... Although previous studies, mostly based on microscopy analyses of a few groups of protists, have suggested that protists are abundant and diverse in litter and moss habitats, the overall diversity of moss and litter associated protists remains elusive. Here, high‐throughput environmental sequencing was used to characterize the diversity and community structure of litter‐ and moss‐associated protis ...
DOI:
10.1111/1462-2920.14061

14. Inoculation history affects community composition in experimental freshwater bacterioplankton communities

Author:
Rummens, Koen; De Meester, Luc; Souffreau, Caroline
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1120-1133
ISSN:
1462-2912
Subject:
aquatic bacteria; bacterial communities; bacterioplankton; community structure; freshwater; genotype; inoculum; ponds; population structure
Abstract:
... Priority effects occur when the arrival order of species or genotypes has a lasting effect on community or population structure. For freshwater bacteria, priority effects have been shown experimentally among individual species, but no experiments have been performed using complex natural communities. We investigated experimentally whether a foreign bacterioplankton community influences the communi ...
DOI:
10.1111/1462-2920.14053

15. Isolation and genomic characterization of Novimethylophilus kurashikiensis gen. nov. sp. nov., a new lanthanide‐dependent methylotrophic species of Methylophilaceae

Author:
Lv, Haoxin; Sahin, Nurettin; Tani, Akio
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1204-1223
ISSN:
1462-2912
Subject:
Burkholderia ambifaria; Cupriavidus necator; Dyadobacter; Gram-negative bacteria; Methylophilus; genes; genomics; methanol; methylamine; nucleotide sequences; quantitative polymerase chain reaction; rhizosphere; ribosomal RNA; ribulose; rice; soil; transfer RNA
Abstract:
... Recently, it has been found that two types of methanol dehydrogenases (MDHs) exist in Gram‐negative bacterial methylotrophs, calcium‐dependent MxaFI‐MDH and lanthanide‐dependent XoxF‐MDH and the latter is more widespread in bacterial genomes. We aimed to isolate and characterize lanthanide‐dependent methylotrophs. The growth of strain La2‐4ᵀ on methanol, which was isolated from rice rhizosphere so ...
DOI:
10.1111/1462-2920.14062

16. Metabolomics‐based chemotaxonomy of root endophytic fungi for natural products discovery

Author:
Maciá‐Vicente, Jose G.; Shi, Yan‐Ni; Cheikh‐Ali, Zakaria; Grün, Peter; Glynou, Kyriaki; Kia, Sevda Haghi; Piepenbring, Meike; Bode, Helge B.
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1253-1270
ISSN:
1462-2912
Subject:
chemotaxonomy; endophytes; fungi; phylogeny
Abstract:
... Fungi are prolific producers of natural products routinely screened for biotechnological applications, and those living endophytically within plants attract particular attention because of their purported chemical diversity. However, the harnessing of their biosynthetic potential is hampered by a large and often cryptic phylogenetic and ecological diversity, coupled with a lack of large‐scale natu ...
DOI:
10.1111/1462-2920.14072

17. Metatranscriptome analysis reveals environmental and diel regulation of a Heterosigma akashiwo (raphidophyceae) bloom

Author:
Ji, Nanjing; Lin, Lingxiao; Li, Ling; Yu, Liying; Zhang, Yaqun; Luo, Hao; Li, Meizhen; Shi, Xinguo; Wang, Da‐Zhi; Lin, Senjie
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1078-1094
ISSN:
1462-2912
Subject:
Raphidophyceae; algae; algal blooms; carbon dioxide fixation; carbonate dehydratase; genes; phosphates; phosphorus; photosynthesis; phytoplankton; ribosomal DNA; East China Sea
Abstract:
... Despite numerous laboratory studies on physiologies of harmful algal bloom (HAB) species, physiologies of these algae during a natural bloom are understudied. Here, we investigated a bloom of the raphidophyte Heterosigma akashiwo in the East China Sea in 2014 using metabarcode (18S rDNA) and metatranscriptome sequencing. Based on 18S rDNA analyses, the phytoplankton community shifted from high div ...
DOI:
10.1111/1462-2920.14045

18. Organic carbon availability limiting microbial denitrification in the deep vadose zone

Author:
Chen, Shuaimin; Wang, Fenghua; Zhang, Yuming; Qin, Shuping; Wei, Shoucai; Wang, Shiqin; Hu, Chunsheng; Liu, Binbin
Source:
Environmental microbiology 2018 v.20 no.3 pp. 980-992
ISSN:
1462-2912
Subject:
Pseudomonas; denitrification; denitrifying microorganisms; genes; leaching; nitrates; nitrogen; nitrous oxide; organic carbon; soil profiles; vadose zone
Abstract:
... Microbes in the deep vadose zone play an essential role in the mitigation of nitrate leaching; however, limited information is available on the mechanisms of microbial denitrification due to sampling difficulties. We experimentally studied the factors that affect denitrification in soils collected down to 10.5 meters deep along the soil profile. After an anoxic pre‐incubation, denitrification rate ...
DOI:
10.1111/1462-2920.14027

19. Organohalide respiration in pristine environments: implications for the natural halogen cycle

Author:
Atashgahi, Siavash; Häggblom, Max M.; Smidt, Hauke
Source:
Environmental microbiology 2018 v.20 no.3 pp. 934-948
ISSN:
1462-2912
Subject:
anthropogenic activities; bacteria; biodegradation; energy; evolution; halogens; organic halogen compounds; tundra; tundra soils
Abstract:
... Halogenated organic compounds, also termed organohalogens, were initially considered to be of almost exclusively anthropogenic origin. However, over 5000 naturally synthesized organohalogens are known today. This has also fuelled the hypothesis that the natural and ancient origin of organohalogens could have primed development of metabolic machineries for their degradation, especially in microorga ...
DOI:
10.1111/1462-2920.14016
Chorus Open Access:
10.1111/1462-2920.14016

20. Stress‐induced pyruvate accumulation contributes to cross protection in a fungus

Author:
Zhang, Xing; St. Leger, Raymond J.; Fang, Weiguo
Source:
Environmental microbiology 2018 v.20 no.3 pp. 1158-1169
ISSN:
1462-2912
Subject:
Metarhizium robertsii; cross immunity; fermentation; fungi; genes; heat stress; microbial growth; oxidative stress; pyruvic acid; quantitative polymerase chain reaction; reactive oxygen species; reverse transcriptase polymerase chain reaction; salt stress; sequence analysis; trichloroacetic acid
Abstract:
... It is commonly observed that microorganisms subjected to a mild stress develop tolerance not only to higher doses of the same stress but also to other stresses – a phenomenon called cross protection. The mechanisms for cross protection have not been fully revealed. Here, we report that heat shock induced cross protection against UV, oxidative and osmotic/salt stress conditions in the cosmopolitan ...
DOI:
10.1111/1462-2920.14058