Effect of crop management and sample year on abundance of soil bacterial communities in organic and conventional cropping systems.

Abstract:

AIMS:To identify changes in the bacterial community, at the phylum level brought about by varied crop management. METHODS AND RESULTS:Next-generation sequencing methods were used to compare the taxonomic structure of the bacterial community within 24 agricultural soils managed with either organic or conventional methods, over a 3-year period. Relative abundance of the proportionately larger phyla (e.g. Acidobacteria and Actinobacteria) was primarily affected by sample year rather than crop management. Changes of abundance in these phyla were correlated with changes in pH, organic nitrogen and soil basal respiration. Crop management affected some of the less dominant phyla (Chloroflexi, Nitrospirae, Gemmatimonadetes) which also correlated with pH and organic N. CONCLUSION:Soil diversity can vary with changing environmental variables and soil chemistry. If these factors remain constant, soil diversity can also remain constant even under changing land use. SIGNIFICANCE AND IMPACT OF THE STUDY:The impact of crop management on environmental variables must be considered when interpreting bacterial diversity studies in agricultural soils. Impact of land use change should always be monitored across different sampling time points. Further studies at the functional group level are necessary to assess whether management-induced changes in bacterial community structure are of biological and agronomic relevance.

journal_name

J Appl Microbiol

authors

Orr CH,Stewart CJ,Leifert C,Cooper JM,Cummings SP

doi

10.1111/jam.12822

subject

Has Abstract

pub_date

2015-07-01 00:00:00

pages

208-14

issue

1

eissn

1364-5072

issn

1365-2672

journal_volume

119

pub_type

杂志文章
  • Comparison of the antibiotic resistance between genetically diverse and toxigenic Bacillus cereus sensu lato from milk, pepper and natural habitats.

    abstract:AIMS:Bacillus cereus sensu lato is a complex group of closely related bacteria, which are commonly present in the natural environment and food products. These organisms may cause food poisoning and spoilage as well as opportunistic infections. Thus far, their resistance to selected antibiotics has been explored only in...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.14792

    authors: Bartoszewicz M,Czyżewska U

    更新日期:2020-07-21 00:00:00

  • Bacterial succession during curing process of a skate (Dipturus batis) and isolation of novel strains.

    abstract:AIMS:To study the succession of cultivated and uncultivated microbes during the traditional curing process of skate. METHODS AND RESULTS:The microbial diversity was evaluated by sequencing 16Sr RNA clone libraries and cultivation in variety of media from skate samples taken periodically during a 9-day curing process. ...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2012.05349.x

    authors: Reynisson E,Thornór Marteinsson V,Jónsdóttir R,Magnússon SH,Hreggvidsson GO

    更新日期:2012-08-01 00:00:00

  • Brettanomyces bruxellensis evolution and volatile phenols production in red wines during storage in bottles.

    abstract:AIMS:The presence of Brettanomyces bruxellensis is an important issue during winemaking because of its volatile phenols production capacities. The aim of this study is to provide information on the ability of residual B. bruxellensis populations to multiply and spoil finished wines during storage in bottles. METHODS A...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2009.04561.x

    authors: Coulon J,Perello MC,Lonvaud-Funel A,de Revel G,Renouf V

    更新日期:2010-04-01 00:00:00

  • Laboratory evaluation of a new coagulant/disinfectant point-of-use water treatment product for emergencies.

    abstract:AIMS:There is emerging evidence that point-of-use (POU) water treatment can be effective in the improvement of microbial water quality and the decrease in diarrhoeal disease incidence in humanitarian emergencies. Coagulant/disinfection products (CDPs) have the distinct advantage of providing microbial quality improveme...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.13206

    authors: Marois-Fiset JT,Shaheed A,Brown J,Dorea CC

    更新日期:2016-09-01 00:00:00

  • Modelling of factors influencing the effect of osmotic solution on reduction of selected microorganisms.

    abstract:AIMS:The goal of this research is to model the effects of two osmotic solutions factors on the reduction of selected microorganisms, and to assess the application in osmotic dehydration process of animal raw materials from the aspect of microbiological safety. METHODS AND RESULTS:Sugar beet molasses and aquatic osmoti...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.13927

    authors: Filipović I,Markov S,Filipović V,Filipović J,Vidaković A,Novković N,Rafajlovska V

    更新日期:2018-09-01 00:00:00

  • Yeast fermentate prebiotic improves intestinal barrier integrity during heat stress by modulation of the gut microbiota in rats.

    abstract:AIMS:To evaluate efficacy of Saccharomyces cerevisiae fermentate prebiotic (EH) in protection of intestinal barrier integrity in rats during heat stress, to analyze the impact of heat stress and preventive treatment with EH on the structure of the gut microbiota. METHODS AND RESULTS:Two groups of rats were treated ora...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.14361

    authors: Ducray HAG,Globa L,Pustovyy O,Morrison E,Vodyanoy V,Sorokulova I

    更新日期:2019-10-01 00:00:00

  • Effects of the kinetics of water potential variation on bacteria viability.

    abstract::The effect of the kinetics of water potential variation (psi) on the viability of bacteria subjected to hyperosmotic stresses in water-glycerol solution was studied. The three bacteria used were Lactobacillus plantarum L-73, Leuconostoc mesenteroides LM057 and Escherichia coli TG1. These strains were submitted to a fi...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.1997.tb03303.x

    authors: Poirier I,Maréchal PA,Gervais P

    更新日期:1997-01-01 00:00:00

  • Interactions between Saccharomyces cerevisiae and malolactic bacteria: preliminary characterization of a yeast proteinaceous compound(s) active against Oenococcus oeni.

    abstract:AIMS:To investigate the occurrence and extent of Saccharomyces cerevisiae and Oenococcus oeni interactions. METHODS AND RESULTS:Interactions between S. cerevisiae and O. oeni were investigated by double-layer and well-plate assays showing the occurrence of specific interactions for each yeast-malolactic bacteria (MLB)...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2005.02579.x

    authors: Comitini F,Ferretti R,Clementi F,Mannazzu I,Ciani M

    更新日期:2005-01-01 00:00:00

  • Antifungal activity of tyrosol and farnesol used in combination against Candida species in the planktonic state or forming biofilms.

    abstract:AIM:This study examined the antifungal activity of the combination of tyrosol and farnesol against Candida albicans and Candida glabrata in the planktonic state or forming biofilms. METHODS AND RESULTS:The effect of drug association against Candida planktonic cells was assessed by the fractional inhibitory concentrati...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.13513

    authors: Monteiro DR,Arias LS,Fernandes RA,Deszo da Silva LF,de Castilho MOVF,da Rosa TO,Vieira APM,Straioto FG,Barbosa DB,Delbem ACB

    更新日期:2017-08-01 00:00:00

  • Evaluation of numerical analyses of RAPD and API 50 CH patterns to differentiate Lactobacillus plantarum, Lact. fermentum, Lact. rhamnosus, Lact. sake, Lact. parabuchneri, Lact. gallinarum, Lact. casei, Weissella minor and related taxa isolated from kocho

    abstract:AIM:The study was carried out to assess the agreement of API 50 CH fermentation data of food lactobacilli with their RAPD profiles to determine whether the system could be used alone as a reliable taxonomic tool for this genus. METHODS AND RESULTS:API 50 CH, RAPD and DNA:DNA reassociation data for 42 lactobacilli from...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2672.2000.01202.x

    authors: Nigatu A

    更新日期:2000-12-01 00:00:00

  • Formate and ethanol are the major products of glycerol fermentation produced by a Klebsiella planticola strain isolated from red deer.

    abstract::The rumen contents of red deer (Cervus elaphus) were used to isolate bacterial capable of fermenting glycerol. The biochemistry, physiology, morphology and phylogeny of one isolate were studied in detail. The isolate (DR3) was tentatively identified as a strain of the species Klebsiella planticola as based on phenotyp...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2672.1997.00217.x

    authors: Jarvis GN,Moore ER,Thiele JH

    更新日期:1997-08-01 00:00:00

  • Fish oils against Burkholderia and Pseudomonas aeruginosa: in vitro efficacy and their therapeutic and prophylactic effects on infected Galleria mellonella larvae.

    abstract:AIM:This study investigates the antimicrobial effects of fish oil-based formulas rich in omega-3 fatty acids (free fatty acids, ethyl esters or triacylglycerols), against cystic fibrosis (CF) pathogens (Burkholderia cenocepacia K56-2 and Pseudomonas aeruginosa PAO1), often resistant to multiple antibiotics. METHODS AN...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.13145

    authors: Mil-Homens D,Ferreira-Dias S,Fialho AM

    更新日期:2016-06-01 00:00:00

  • Real-time PCR versus MALDI-TOF MS and culture-based techniques for diagnosis of bloodstream and pyogenic infections in humans and animals.

    abstract:AIMS:This study was applied to evaluate the usefulness of a high-throughput sample preparation protocol prior to the application of quantitative real-time PCR (qPCR) for the early diagnosis of bloodstream and pyogenic infections in humans and animals compared to matrix-assisted laser desorption ionization-time of fligh...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.14862

    authors: Abd El-Aziz NK,Gharib AA,Mohamed EAA,Hussein AH

    更新日期:2020-10-18 00:00:00

  • In vitro effect of phenolic antioxidants on germination, growth and aflatoxin B accumulation by peanut Aspergillus section Flavi.

    abstract:AIMS:The effectiveness of the food-grade antioxidants butylated hydroxytoluene (BHT), trihydroxybutyrophenone (THB), propyl paraben (PP) and butylated hydroxyanisole (BHA) at 1, 10 and 20 mmol l(-1) concentrations on germination, growth, and aflatoxin B(1) (AFB(1)) production by Aspergillus section Flavi strains was de...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2005.02661.x

    authors: Passone MA,Resnik SL,Etcheverry MG

    更新日期:2005-01-01 00:00:00

  • Anti-Listeria bacteriocin-producing bacteria from raw ewe's milk in northern Greece.

    abstract:AIMS:The isolation and partial characterization of anti-Listeria bacteriocin producing strains present in milk from areas of northern Greece in view of their potential use as protective cultures in food fermentations. METHODS AND RESULTS:Three hundred and thirty-two isolates were obtained from milk samples intended fo...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2010.04932.x

    authors: Chanos P,Williams DR

    更新日期:2011-03-01 00:00:00

  • The antibacterial activity of vancomycin towards Staphylococcus aureus under aerobic and anaerobic conditions.

    abstract:AIMS:To investigate the antibacterial efficacy of vancomycin towards Staphylococcus aureus under aerobic and anaerobic conditions, and to assess the influence of oxygen on the duration of the post-antibiotic effect (PAE) after exposure to vancomycin. METHODS AND RESULTS:Culture-based techniques and flow cytometric mea...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2672.2002.01594.x

    authors: Suller MT,Lloyd D

    更新日期:2002-01-01 00:00:00

  • Physicochemical characterization of pectinase activity from Bacillus spp. and their accessory role in synergism with crude xylanase and commercial cellulase in enzyme cocktail mediated saccharification of agrowaste biomass.

    abstract:AIM:The aim of this study was to evaluate the physicochemical properties of the crude pectinase activity from three Bacillus isolates of ruminant dung origin and study their synergism with crude xylanases from the same Bacillus spp. and a commercial cellulase to evaluate their accessory role in improved biomass sacchar...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.13718

    authors: Thite VS,Nerurkar AS

    更新日期:2018-05-01 00:00:00

  • Antibiotic resistance in bacteria associated with coarse atmospheric particulate matter in an urban area.

    abstract:AIMS:To assess antibiotic resistance in airborne bacteria associated with coarse particulate matter (PM10) in an urban area, with specific considerations about the Staphylococcus genus. METHODS AND RESULTS:Disc diffusion test was performed on 243 microbial strains, isolated from PM10 in winter and summer and belonging...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2011.05018.x

    authors: Gandolfi I,Franzetti A,Bertolini V,Gaspari E,Bestetti G

    更新日期:2011-06-01 00:00:00

  • Aerosol-phase activity of iodine captured from a triiodide resin filter on fine particles containing an infectious virus.

    abstract:AIMS:To avoid interference by water-iodine disinfection chemistry and measure directly the effect of iodine, captured from a triiodide complex bound to a filter medium, on viability of penetrating viral particles. METHODS AND RESULTS:Aerosols of MS2 coli phage were passed through control P100 or iodinated High-Efficie...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.12788

    authors: Heimbuch BK,Harnish DA,Balzli C,Lumley A,Kinney K,Wander JD

    更新日期:2015-06-01 00:00:00

  • Fermentative profile and bacterial diversity of corn silages inoculated with new tropical lactic acid bacteria.

    abstract:AIMS:This study aimed to evaluate the effects of inoculation of strains of lactic acid bacteria (LAB) isolated from sugarcane grown in a Brazil on the quality of corn silage. METHODS AND RESULTS:Three strains of Lactobacillus buchneri (UFLA SLM11, UFLA SLM103 and UFLA SLM108), five strains of Lactobacillus plantarum (...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.12980

    authors: Santos AO,Ávila CL,Pinto JC,Carvalho BF,Dias DR,Schwan RF

    更新日期:2016-02-01 00:00:00

  • Fungitoxicity of organic extracts of Ocimum basilicum on growth and morphogenesis of Bipolaris species (teleomorph Cochliobolus).

    abstract:AIMS:This study aimed at evaluating the inhibitory effects of various organic extracts of Ocimum basilicum against some species of Bipolaris and Cochliobolus with GC-MS and HPLC analysis. METHODS AND RESULTS:The ethyl acetate extract consisted of methyl cinnamate as the most abundant component, while butylated hydroxy...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.13543

    authors: Elsherbiny EA,Safwat NA,Elaasser MM

    更新日期:2017-10-01 00:00:00

  • Changes in the biocide susceptibility of Staphylococcus epidermidis and Escherichia coli cells associated with rapid attachment to plastic surfaces.

    abstract::Differences in opacity between wells of a microtitre plate containing different volumes of inoculated growth medium reflected planktonic growth without any contribution from cells attached at the well surface. Simple algebra and a knowledge of the dependence of optical density upon sample path length (volume) for susp...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1046/j.1365-2672.1998.00422.x

    authors: Das JR,Bhakoo M,Jones MV,Gilbert P

    更新日期:1998-05-01 00:00:00

  • Evaluation of ATP bioluminescence-based methods for hygienic assessment in fish industry.

    abstract:AIMS:To evaluate ATP bioluminescence-based hygiene monitoring systems under conditions relevant to fish processing environments. METHODS AND RESULTS:The ATP bioluminescence of fish fractions that are potentially present after insufficient cleaning of fish processing environments was determined. Different fractions and...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.14292

    authors: Møretrø T,Normann MA,Saebø HR,Langsrud S

    更新日期:2019-07-01 00:00:00

  • Validation of the dorsal air pouch model to predict and examine immunostimulatory responses in the gut.

    abstract:AIMS:To validate the use of the air pouch system to predict and examine early immune responses induced by the presumptive probiotics Lactobacillus paracasei subsp. paracasei B112, DC205, DC215 and DC412 strains in the gut mucosa. METHODS AND RESULTS:Only the DC412 strain interacted strongly with the cells forming the ...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2009.04421.x

    authors: Kourelis A,Zinonos I,Kakagianni M,Christidou A,Christoglou N,Yiannaki E,Testa T,Kotzamanidis C,Litopoulou-Tzanetaki E,Tzanetakis N,Yiangou M

    更新日期:2010-01-01 00:00:00

  • Automated dead-end ultrafiltration of large volume water samples to enable detection of low-level targets and reduce sample variability.

    abstract:AIMS:A Portable Multi-use Automated Concentration System (PMACS) concentrates micro-organisms from large volumes of water through automated dead-end ultrafiltration and backflushing. The ability to detect microbial targets from ground, surface and cooling tower waters collected using standard methods was compared with ...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2012.05345.x

    authors: Leskinen SD,Kearns EA,Jones WL,Miller RS,Bevitas CR,Kingsley MT,Brigmon RL,Lim DV

    更新日期:2012-08-01 00:00:00

  • Antimycin A-producing nonphytopathogenic Streptomyces turgidiscabies from potato.

    abstract:AIM:To detect if substances with mammalian cell toxicity are produced by Streptomyces turgidiscabies and Streptomyces scabiei isolated from potato scab lesions. METHODS AND RESULTS:In vitro cultures of phytopathogenic and nonphytopathogenic strains of S. scabiei and S. turgidiscabies, isolated from scab lesions of pot...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2007.03661.x

    authors: Kotiaho M,Aittamaa M,Andersson MA,Mikkola R,Valkonen JP,Salkinoja-Salonen M

    更新日期:2008-05-01 00:00:00

  • Kannurin, a novel lipopeptide from Bacillus cereus strain AK1: isolation, structural evaluation and antifungal activities.

    abstract:AIM:This study was performed to isolate and characterize novel antifungal lipopeptide from Bacillus cereus. METHODS AND RESULTS:Elucidation of its chemical structure was carried out by electrospray ionization mass spectra (ESI-MS) and Fourier transform infrared spectroscopy (FT-IR). The compound is a cyclic heptapepti...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.12324

    authors: Ajesh K,Sudarslal S,Arunan C,Sreejith K

    更新日期:2013-12-01 00:00:00

  • Inhibition of fructan-fermenting equine faecal bacteria and Streptococcus bovis by hops (Humulus lupulus L.) β-acid.

    abstract:AIMS:The goals of this study were to determine if β-acid from hops (Humulus lupulus L.) could be used to control fructan fermentation by equine hindgut micro-organisms, and to verify the antimicrobial mode of action on Streptococcus bovis, which has been implicated in fructan fermentation, hindgut acidosis and pasture-...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/jam.12532

    authors: Harlow BE,Lawrence LM,Kagan IA,Flythe MD

    更新日期:2014-08-01 00:00:00

  • Identification of pathogenic yeast species by polymerase chain reaction amplification of the RPS0 gene intron fragment.

    abstract:AIMS:This work focuses on the development of a method for the identification of pathogenic yeast. With this aim, we target the nucleotide sequence of the RPS0 gene of pathogenic yeast species with specific PCR primers. PCR analysis was performed with both the genomic DNA, whole cells of clinical isolates of Candida spe...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2009.04595.x

    authors: Martínez JM,Gómez EV,Pemán J,Cantón E,García MG,del Castillo Agudo L

    更新日期:2010-06-01 00:00:00

  • Kinetics of carbon sharing in a bacterial consortium revealed by combining stable isotope probing with fluorescence-activated cell sorting.

    abstract:AIMS:  To determine the kinetics of substrate fluxes in a microbial community in order to elucidate the roles of the community members. METHODS AND RESULTS:  The kinetics of substrate sharing in a bacterial consortium were measured by a new analytical approach combining immunostaining, stable isotope probing and fluor...

    journal_title:Journal of applied microbiology

    pub_type: 杂志文章

    doi:10.1111/j.1365-2672.2011.04964.x

    authors: Pawelczyk S,Bumann D,Abraham WR

    更新日期:2011-04-01 00:00:00