4.5 Article

Total RNA sequencing reveals multilevel microbial community changes and functional responses to wood ash application in agricultural and forest soil

Related references

Note: Only part of the references are listed.
Article Engineering, Environmental

Long-term industrial metal contamination unexpectedly shaped diversity and activity response of sediment microbiome

Samuel Jacquiod et al.

JOURNAL OF HAZARDOUS MATERIALS (2018)

Article Microbiology

Relic DNA is abundant in soil and obscures estimates of soil microbial diversity

Paul Carini et al.

NATURE MICROBIOLOGY (2017)

Article Environmental Sciences

Wood ash application increases pH but does not harm the soil mesofauna

Jiayi Qin et al.

ENVIRONMENTAL POLLUTION (2017)

Review Microbiology

Embracing the unknown: disentangling the complexities of the soil microbiome

Noah Fierer

NATURE REVIEWS MICROBIOLOGY (2017)

Article Microbiology

Wood Ash Induced pH Changes Strongly Affect Soil Bacterial Numbers and Community Composition

Toke Bang-Andreasen et al.

FRONTIERS IN MICROBIOLOGY (2017)

Article Soil Science

Soil microbial responses to wood ash addition and forest fire in managed Ontario forests

Genevieve L. Noyce et al.

APPLIED SOIL ECOLOGY (2016)

Article Biochemical Research Methods

SWORD-a highly efficient protein database search

Robert Vaser et al.

BIOINFORMATICS (2016)

Article Ecology

Microbial communities after wood ash fertilization in a boreal drained peatland forest

Krista Peltoniemi et al.

EUROPEAN JOURNAL OF SOIL BIOLOGY (2016)

Article Soil Science

Bacteria dominate the short-term assimilation of plant-derived N in soil

Robert Starke et al.

SOIL BIOLOGY & BIOCHEMISTRY (2016)

Review Microbiology

The Ecology of Acidobacteria: Moving beyond Genes and Genomes

Anna M. Kielak et al.

FRONTIERS IN MICROBIOLOGY (2016)

Article Microbiology

Exploiting rRNA operon copy number to investigate bacterial reproductive strategies

Benjamin R. K. Roller et al.

NATURE MICROBIOLOGY (2016)

Review Forestry

Recycling of ash - For the good of the environment?

Noora Huotari et al.

FOREST ECOLOGY AND MANAGEMENT (2015)

Article Ecology

Metatranscriptomic census of active protists in soils

Stefan Geisen et al.

ISME JOURNAL (2015)

Article Multidisciplinary Sciences

Multi-omics of permafrost, active layer and thermokarst bog soil microbiomes

Jenni Hultman et al.

NATURE (2015)

Article Biochemistry & Molecular Biology

Rfam 12.0: updates to the RNA families database

Eric P. Nawrocki et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Microbiology

Crenotalea thermophila gen. nov., sp. nov., a member of the family Chitinophagaceae isolated from a hot spring

Satoshi Hanada et al.

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2014)

Article Biotechnology & Applied Microbiology

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love et al.

GENOME BIOLOGY (2014)

Review Soil Science

Active microorganisms in soil: Critical review of estimation criteria and approaches

Evgenia Blagodatskaya et al.

SOIL BIOLOGY & BIOCHEMISTRY (2013)

Article Biochemical Research Methods

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

Evguenia Kopylova et al.

BIOINFORMATICS (2012)

Review Microbiology

Novel traits of Trichoderma predicted through the analysis of its secretome

Irina S. Druzhinina et al.

FEMS MICROBIOLOGY LETTERS (2012)

Article Biodiversity Conservation

Consistent effects of nitrogen amendments on soil microbial communities and processes across biomes

Kelly S. Ramirez et al.

GLOBAL CHANGE BIOLOGY (2012)

Article Biodiversity Conservation

Acidity controls on dissolved organic carbon mobility in organic soils

Chris D. Evans et al.

GLOBAL CHANGE BIOLOGY (2012)

Review Biochemical Research Methods

Application of metatranscriptomics to soil environments

Lilia C. Carvalhais et al.

JOURNAL OF MICROBIOLOGICAL METHODS (2012)

Article Multidisciplinary Sciences

CREST - Classification Resources for Environmental Sequence Tags

Anders Lanzen et al.

PLOS ONE (2012)

Article Microbiology

Aciditerrimonas ferrireducens gen. nov., sp nov., an iron-reducing thermoacidophilic actinobacterium isolated from a solfataric field

Takashi Itoh et al.

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2011)

Article Biotechnology & Applied Microbiology

Full-length transcriptome assembly from RNA-Seq data without a reference genome

Manfred G. Grabherr et al.

NATURE BIOTECHNOLOGY (2011)

Article Soil Science

The under-recognized dominance of Verrucomicrobia in soil bacterial communities

Gaddy T. Bergmann et al.

SOIL BIOLOGY & BIOCHEMISTRY (2011)

Article Biotechnology & Applied Microbiology

EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data

Christopher S. Miller et al.

GENOME BIOLOGY (2011)

Review Biochemistry & Molecular Biology

Hierarchical Evolution of the Bacterial Sporulation Network

Michiel J. L. de Hoon et al.

CURRENT BIOLOGY (2010)

Article Biotechnology & Applied Microbiology

Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale

Christian L. Lauber et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2009)

Article Biotechnology & Applied Microbiology

Contrasting Soil pH Effects on Fungal and Bacterial Growth Suggest Functional Redundancy in Carbon Mineralization

Johannes Rousk et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2009)

Article Biochemical Research Methods

Fast and accurate short read alignment with Burrows-Wheeler transform

Heng Li et al.

BIOINFORMATICS (2009)

Review Chemistry, Multidisciplinary

Coordination Chemistry of Bacterial Metal Transport and Sensing

Zhen Ma et al.

CHEMICAL REVIEWS (2009)

Article Biochemistry & Molecular Biology

eggNOG: automated construction and annotation of orthologous groups of genes

Lars Juhl Jensen et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Ecology

Toward an ecological classification of soil bacteria

Noah Fierer et al.

ECOLOGY (2007)

Article Multidisciplinary Sciences

The diversity and biogeography of soil bacterial communities

N Fierer et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Plant Sciences

Molecular and morphological diversity of pezizalean ectomycorrhiza

L Tedersoo et al.

NEW PHYTOLOGIST (2006)

Article Multidisciplinary Sciences

A three-dimensional model of myxobacterial aggregation by contact-mediated interactions

O Sozinova et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Review Environmental Sciences

Biological effects of wood ash application to forest and aquatic ecosystems

KA Aronsson et al.

JOURNAL OF ENVIRONMENTAL QUALITY (2004)

Article Soil Science

Soil respiration and microbial properties in an acid forest soil: effects of wood ash

S Zimmermann et al.

SOIL BIOLOGY & BIOCHEMISTRY (2002)

Article Soil Science

Short and long-term effects of wood ash on the boreal forest humus microbial community

J Perkiömäki et al.

SOIL BIOLOGY & BIOCHEMISTRY (2002)

Article Biotechnology & Applied Microbiology

Population dynamics of active and total ciliate populations in arable soil amended with wheat

F Ekelund et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2002)

Review Agricultural Engineering

Characteristics of wood ash and influence on soil properties and nutrient uptake: an overview

A Demeyer et al.

BIORESOURCE TECHNOLOGY (2001)

Article Biotechnology & Applied Microbiology

RRNA operon copy number reflects ecological strategies of bacteria

JA Klappenbach et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2000)

Article Microbiology

Effect of Cd-containing wood ash on the microflora of coniferous forest humus

H Fritze et al.

FEMS MICROBIOLOGY ECOLOGY (2000)