Dryland soil microbial communities display spatial biogeographic patterns associated with soil depth and soil parent material.

Abstract:

:Biological soil crusts (biocrusts) are common to drylands worldwide. We employed replicated, spatially nested sampling and 16S rRNA gene sequencing to describe the soil microbial communities in three soils derived from different parent material (sandstone, shale, and gypsum). For each soil type, two depths (biocrusts, 0-1 cm; below-crust soils, 2-5 cm) and two horizontal spatial scales (15 cm and 5 m) were sampled. In all three soils, Cyanobacteria and Proteobacteria demonstrated significantly higher relative abundance in the biocrusts, while Chloroflexi and Archaea were significantly enriched in the below-crust soils. Biomass and diversity of the communities in biocrusts or below-crust soils did not differ with soil type. However, biocrusts on gypsum soil harbored significantly larger populations of Actinobacteria and Proteobacteria and lower populations of Cyanobacteria. Numerically dominant operational taxonomic units (OTU; 97% sequence identity) in the biocrusts were conserved across the soil types, whereas two dominant OTUs in the below-crust sand and shale soils were not identified in the gypsum soil. The uniformity with which small-scale vertical community differences are maintained across larger horizontal spatial scales and soil types is a feature of dryland ecosystems that should be considered when designing management plans and determining the response of biocrusts to environmental disturbances.

journal_name

FEMS Microbiol Ecol

authors

Steven B,Gallegos-Graves LV,Belnap J,Kuske CR

doi

10.1111/1574-6941.12143

subject

Has Abstract

pub_date

2013-10-01 00:00:00

pages

101-13

issue

1

eissn

0168-6496

issn

1574-6941

journal_volume

86

pub_type

杂志文章
  • Response of total and nitrate-dissimilating bacteria to reduced N deposition in a spruce forest soil profile.

    abstract::A field-scale manipulation experiment conducted for 16 years in a Norway spruce forest at Solling, Central Germany, was used to follow the long-term response of total soil bacteria, nitrate reducers and denitrifiers under conditions of reduced N deposition. N was experimentally removed from throughfall by a roof const...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2008.00632.x

    authors: Kandeler E,Brune T,Enowashu E,Dörr N,Guggenberger G,Lamersdorf N,Philippot L

    更新日期:2009-03-01 00:00:00

  • Rhizosphere persistence of three Pythium oligandrum strains in tomato soilless culture assessed by DNA macroarray and real-time PCR.

    abstract::In tomato soilless culture, plant-disease optimal control and growth promotion are achieved when the rhizosphere is heavily colonized by the biocontrol agent Pythium oligandrum. Discrepancies in performance are generally attributed to the poor persistence of P. oligandrum on roots. In this study, three selected strain...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2007.00348.x

    authors: Le Floch G,Tambong J,Vallance J,Tirilly Y,Lévesque A,Rey P

    更新日期:2007-08-01 00:00:00

  • Abundance and activity of nitrate reducers in an arable soil are more affected by temporal variation and soil depth than by elevated atmospheric [CO2].

    abstract::Elevated atmospheric carbon dioxide concentrations ([CO(2) ]) might change the abundance and the function of soil microorganisms in the depth profile of agricultural soils by plant-mediated reactions. The seasonal pattern of abundance and activity of nitrate-reducing bacteria was studied in a Mini-FACE experiment plan...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2011.01048.x

    authors: Marhan S,Philippot L,Bru D,Rudolph S,Franzaring J,Högy P,Fangmeier A,Kandeler E

    更新日期:2011-05-01 00:00:00

  • Analysis of bacterial communities in heavy metal-contaminated soils at different levels of resolution.

    abstract::The impact of heavy metal contamination on soil bacterial communities was studied in soils amended for many years with sewage sludge contaminated with heavy metals to varying extents. At the broad level of resolution, DNA reassociation analysis indicated a dramatic decrease in bacterial diversity from 16{ omitted}000 ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.1999.tb00652.x

    authors: Sandaa R,Torsvik V V,Enger,Daae FL,Castberg T,Hahn D

    更新日期:1999-11-01 00:00:00

  • A tale of two chitons: is habitat specialisation linked to distinct associated bacterial communities?

    abstract::Although most chitons (Mollusca: Polyplacophora) are shallow-water molluscs, diverse species also occur in deep-sea habitats. We investigated the feeding strategies of two species, Leptochiton boucheti and Nierstraszella lineata, recovered on sunken wood sampled in the western Pacific, close to the Vanuatu Islands. Th...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/1574-6941.12014

    authors: Duperron S,Pottier MA,Léger N,Gaudron SM,Puillandre N,Le Prieur S,Sigwart JD,Ravaux J,Zbinden M

    更新日期:2013-03-01 00:00:00

  • Complementary pathways of dissolved organic carbon removal pathways in clear-water Amazonian ecosystems: photochemical degradation and bacterial uptake.

    abstract::Dissolved organic carbon (DOC) photochemical reactions establish important links between DOC and planktonic bacteria. We hypothesize that seasonal changes in DOC quality, related to the flood pulse, drive the effects of light-DOC interactions on uptake by planktonic bacteria uptake in clear-water Amazonian ecosystems....

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2006.00028.x

    authors: Amado AM,Farjalla VF,Esteves Fde A,Bozelli RL,Roland F,Enrich-Prast A

    更新日期:2006-04-01 00:00:00

  • Temporal and spatial interactions modulate the soybean microbiome.

    abstract::Managed agricultural ecosystems are unique systems where crops and microbes are intrinsically linked. This study focuses on discerning microbiome successional patterns across all plant organs and tests for evidence of niche differentiation along temporal and spatial axes. Soybean plants were grown in an environmental ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1093/femsec/fiaa206

    authors: Moroenyane I,Tremblay J,Yergeau É

    更新日期:2021-01-08 00:00:00

  • Prokaryotic community structure and diversity in the sediments of an active submarine mud volcano (Kazan mud volcano, East Mediterranean Sea).

    abstract::We investigated 16S rRNA gene diversity at a high sediment depth resolution (every 5 cm, top 30 cm) in an active site of the Kazan mud volcano, East Mediterranean Sea. A total of 242 archaeal and 374 bacterial clones were analysed, which were attributed to 38 and 205 unique phylotypes, respectively (> or = 98% similar...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2010.00857.x

    authors: Pachiadaki MG,Lykousis V,Stefanou EG,Kormas KA

    更新日期:2010-06-01 00:00:00

  • The vertical distribution of bacterial and archaeal communities in the water and sediment of Lake Taihu.

    abstract::This study was conducted to characterize the vertical distribution of bacterial and archaeal communities in the water and sediment of Lake Taihu, which underwent a change in trophic status from oligotrophic to hypertrophic in last half of the 20th century. The results revealed that the bacterial communities in differe...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2009.00761.x

    authors: Ye W,Liu X,Lin S,Tan J,Pan J,Li D,Yang H

    更新日期:2009-11-01 00:00:00

  • Two dnaB genes are associated with the origin of replication of pQBR55, an exogenously isolated plasmid from the rhizosphere of sugar beet.

    abstract::Plasmid pQBR55 ( approximately 149 kb) represents one of five (Groups I-V) genetically distinct transfer proficient, mercury resistance plasmid groups that have been observed in the phytosphere pseudomonad community at a single geographic location in Oxford, UK. A 4.9-kb HindIII fragment was cloned from pQBR55 (a Grou...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2002.tb01010.x

    authors: Turner SL,Lilley AK,Bailey MJ

    更新日期:2002-11-01 00:00:00

  • Mimosa caesalpiniifolia Benth. adapts to rhizobia populations with differential taxonomy and symbiotic effectiveness outside of its location of origin.

    abstract::Mimosa caesalpiniifolia Benth. is a legume native to the semi-arid region of Brazil, in the Northeast. Its successful adaptation to other locations, such as the Atlantic Forest in the Southeast region, may be related to its ability to establish symbiosis with nitrogen-fixing bacteria, especially β-rhizobia of the genu...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1093/femsec/fiz109

    authors: de Oliveira ISR,Jesus EDC,Ribeiro TG,Santos Reis de Andrade da Silva M,Tenorio JO,Martins LMV,de Faria SM

    更新日期:2019-08-01 00:00:00

  • Summer distribution and diversity of aerobic anoxygenic phototrophic bacteria in the Mediterranean Sea in relation to environmental variables.

    abstract::Aerobic anoxygenic phototrophic bacteria (AAP) represent an important fraction of bacterioplankton assemblages in various oceanic regimes. Although their abundance and distribution have been explored recently in diverse oceanic regions, the environmental factors controlling the population structure and diversity of th...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2010.00954.x

    authors: Lehours AC,Cottrell MT,Dahan O,Kirchman DL,Jeanthon C

    更新日期:2010-11-01 00:00:00

  • Community structure of photosynthetic picoeukaryotes differs in lakes with different trophic statuses along the middle-lower reaches of the Yangtze River.

    abstract::Photosynthetic picoeukaryotes (PPEs) play an important role in aquatic ecosystem functioning. There is still a relative lack of information on freshwater PPEs, especially in eutrophic lakes. We used a combination of flow cytometric sorting and pyrosequencing to investigate the PPEs community structure in more than 20 ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1093/femsec/fiy011

    authors: Shi X,Li S,Liu C,Zhang M,Liu M

    更新日期:2018-04-01 00:00:00

  • Revisiting life strategy concepts in environmental microbial ecology.

    abstract::Microorganisms are physiologically diverse, possessing disparate genomic features and mechanisms for adaptation (functional traits), which reflect on their associated life strategies and determine at least to some extent their prevalence and distribution in the environment. Unlike animals and plants, there is an unpre...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章,评审

    doi:10.1093/femsec/fix006

    authors: Ho A,Di Lonardo DP,Bodelier PL

    更新日期:2017-03-01 00:00:00

  • Impacts of heavy metal contamination and phytoremediation on a microbial community during a twelve-month microcosm experiment.

    abstract::The effects of heavy metals and phytoextraction practices on a soil microbial community were studied during 12 months using a hyperaccumulating plant (Thlaspi caerulescens) grown in an artificially contaminated soil. The 16S ribosomal RNA genes of the Bacteria and the beta-Proteobacteria and the amoA gene (encoding th...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1016/j.femsec.2004.02.004

    authors: Gremion F,Chatzinotas A,Kaufmann K,Von Sigler W,Harms H

    更新日期:2004-05-01 00:00:00

  • Marine culturable yeasts in deep-sea hydrothermal vents: species richness and association with fauna.

    abstract::Investigations of the diversity of culturable yeasts at deep-sea hydrothermal sites have suggested possible interactions with endemic fauna. Samples were collected during various oceanographic cruises at the Mid-Atlantic Ridge, South Pacific Basins and East Pacific Rise. Cultures of 32 isolates, mostly associated with...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2010.00881.x

    authors: Burgaud G,Arzur D,Durand L,Cambon-Bonavita MA,Barbier G

    更新日期:2010-07-01 00:00:00

  • Primers for overlooked nirK, qnorB, and nosZ genes of thermophilic Gram-positive denitrifiers.

    abstract::Although efforts have been made the past few years, knowledge on genomic and phenotypic diversity and occurrence of the denitrification ability in Gram-positive bacteria are still fragmentary. Many environmental monitoring approaches have used nir, nor, and nos genes as marker genes for detection of denitrification or...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/1574-6941.12346

    authors: Verbaendert I,Hoefman S,Boeckx P,Boon N,De Vos P

    更新日期:2014-07-01 00:00:00

  • Microbiomes inhabiting rice roots and rhizosphere.

    abstract::Land plants directly contact soil through their roots. An enormous diversity of microbes dwelling in root-associated zones, including endosphere (inside root), rhizoplane (root surface) and rhizosphere (soil surrounding the root surface), play essential roles in ecosystem functioning and plant health. Rice is a staple...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1093/femsec/fiz040

    authors: Ding LJ,Cui HL,Nie SA,Long XE,Duan GL,Zhu YG

    更新日期:2019-05-01 00:00:00

  • Microbial diversity in hot synthetic compost as revealed by PCR-amplified rRNA sequences from cultivated isolates and extracted DNA.

    abstract::High-temperature (>/=60 degrees C) synthetic food waste compost was examined by cultivation-dependent and -independent methods to determine predominant microbial populations. Fluorescent direct counts totaled 6.4 (+/-2.5)x10(10) cells gdw(-1) in a freeze-dried 74 degrees C compost sample, while plate counts for thermo...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2001.tb00805.x

    authors: Dees PM,Ghiorse WC

    更新日期:2001-04-01 00:00:00

  • Biofilm growth and control in cooling water industrial systems.

    abstract::Matrix-embedded, surface-attached microbial communities, known as biofilms, profusely colonise industrial cooling water systems, where the availability of nutrients and organic matter favours rapid microbial proliferation and their adhesion to surfaces in the evaporative fill material, heat exchangers, water reservoir...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章,评审

    doi:10.1093/femsec/fiy044

    authors: Di Pippo F,Di Gregorio L,Congestri R,Tandoi V,Rossetti S

    更新日期:2018-05-01 00:00:00

  • Mitochondrial sequences of Rhipicephalus and Coxiella endosymbiont reveal evidence of lineages co-cladogenesis.

    abstract::Rhipicephalus ticks are competent vectors of several pathogens, such as Spotted Fever Group Rickettsiae (SFGR) and many Babesia species. Within this genus, different R. sanguineus s.l. lineages show an unequal vector competence and resistance regarding some pathogenic strains. Current literature supports that tick end...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1093/femsec/fiaa072

    authors: Coimbra-Dores MJ,Jaarsma RI,Carmo AO,Maia-Silva M,Fonville M,da Costa DFF,Brandão RML,Azevedo F,Casero M,Oliveira AC,Afonso SMS,Sprong H,Rosa F,Dias D

    更新日期:2020-06-01 00:00:00

  • Microbial oxidation of CH(4) at different temperatures in landfill cover soils.

    abstract::Biological oxidation of CH(4) is an important constraint on the emission of this gas from areas, such as landfills to the atmosphere. We studied the effect of temperature on methanotrophic bacteria in three different landfill cover soils, incubated in the laboratory. In samples of a young cover, consisting of wood chi...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1016/j.femsec.2004.02.006

    authors: Börjesson G,Sundh I,Svensson B

    更新日期:2004-06-01 00:00:00

  • High-frequency monitoring of the genetic diversity and the potential toxicity of a Microcystis aeruginosa bloom in a French shallow lake.

    abstract::During cyanobacterial blooms, processes influencing the population dynamics of blooming species remain partially unexplained. To provide new information, we performed a high-frequency monitoring – every 2 days at six sampling points – of a Microcystis aeruginosa population blooming in a shallow lake. At each sampling ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2011.01203.x

    authors: Pobel D,Godon JJ,Humbert JF,Robin J

    更新日期:2012-01-01 00:00:00

  • Ammonia-oxidizing archaea and nitrite-oxidizing nitrospiras in the biofilter of a shrimp recirculating aquaculture system.

    abstract::This study analysed the nitrifier community in the biofilter of a zero discharge, recirculating aquaculture system (RAS) for the production of marine shrimp in a low density (low ammonium production) system. The ammonia-oxidizing populations were examined by targeting 16S rRNA and amoA genes of ammonia-oxidizing bacte...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2012.01448.x

    authors: Brown MN,Briones A,Diana J,Raskin L

    更新日期:2013-01-01 00:00:00

  • Two-years of investigation revealed the inconsistency of seasonal dynamics of an ectomycorrhizal fungal community in Japanese cool-temperate forest across years.

    abstract::Ectomycorrhizal (ECM) fungal communities show temporal dynamics. Such dynamics have been mainly assessed with 1 year of investigations and have been related to the seasonal changes in environment. Recent study in sub-tropical region has revealed that stochastic temporal-based process can affect ECM fungal community, m...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1093/femsec/fiaa118

    authors: Sugiyama Y,Matsuoka S,Osono T

    更新日期:2020-07-01 00:00:00

  • Altering the mineral composition of soil causes a shift in microbial community structure.

    abstract::This study tests the hypothesis that altering the mineral composition of soil influences microbial community structure in a nutrient-deficient soil. Microcosms were established by adding mica (M), basalt (B) and rock phosphate (P) to soil separately, and in combination (MBP), and by planting with Lolium rigidum, Trifo...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2007.00361.x

    authors: Carson JK,Rooney D,Gleeson DB,Clipson N

    更新日期:2007-09-01 00:00:00

  • Deposition and postdeposition mechanisms as possible drivers of microbial population variability in glacier ice.

    abstract::Glaciers accumulate airborne microorganisms year by year and thus are good archives of microbial communities and their relationship to climatic and environmental changes. Hypotheses have focused on two possible drivers of microbial community composition in glacier systems. One is aeolian deposition, in which the micro...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章,评审

    doi:10.1111/j.1574-6941.2009.00759.x

    authors: Xiang SR,Shang TC,Chen Y,Yao TD

    更新日期:2009-11-01 00:00:00

  • The effect of ingestion of milk supplemented with salivaricin A-producing Streptococcus salivarius on the bacteriocin-like inhibitory activity of streptococcal populations on the tongue.

    abstract::The colonization efficacies of salivaricin A (SalA)-producing Streptococcus salivarius strains 20P3 and 5 were compared when given in milk to 219 children, using either 2-day or 9-day dosing regimens. Colonization levels overall were superior for strain 5, and the 9-day dosing schedule resulted in higher levels of bot...

    journal_title:FEMS microbiology ecology

    pub_type: 临床试验,杂志文章

    doi:10.1111/j.1574-6941.2006.00228.x

    authors: Dierksen KP,Moore CJ,Inglis M,Wescombe PA,Tagg JR

    更新日期:2007-03-01 00:00:00

  • Elsinochrome A production by the bindweed biocontrol fungus Stagonospora convolvuli LA39 does not pose a risk to the environment or the consumer of treated crops.

    abstract::Biological control as an alternative to chemical pesticides is of increasing public interest. However, to ensure safe use of biocontrol methods, strategies to assess the possible risks need to be developed. The production of toxic metabolites is an aspect which has so far largely been neglected in the risk assessment ...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2006.00207.x

    authors: Boss D,Maurhofer M,Schläpfer E,Défago G

    更新日期:2007-01-01 00:00:00

  • Distribution of IS91 family insertion sequences in bacterial genomes: evolutionary implications.

    abstract::IS91 is the prototype element of a family of bacterial insertion sequences that transpose by a rolling-circle mechanism. Although previously considered a rarity among IS elements, many new examples have been identified by sequence analysis of bacterial genomes. In this work we provide a summary of occurrences of IS91-...

    journal_title:FEMS microbiology ecology

    pub_type: 杂志文章

    doi:10.1111/j.1574-6941.2002.tb01020.x

    authors: Garcillán-Barcia MP,de la Cruz F

    更新日期:2002-11-01 00:00:00