Niche differentiation of comammox Nitrospira and canonical ammonia oxidizers in soil aggregate fractions following 27-year fertilizations

The abundance and community structure of active ammonia-oxidizing archaea and ammonia-oxidizing bacteria shape their activities and contributions in coastal wetlands

(2020) Chen Wang et al.   WATER RESEARCH

Influence mechanisms of long-term fertilizations on the mineralization of organic matter in Ultisol

(2020) Peidong Xu et al.   SOIL & TILLAGE RESEARCH

Differential co-occurrence relationships shaping ecotype diversification within Thaumarchaeota populations in the coastal ocean water column

(2019) Linta Reji et al.   ISME Journal

Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots

(2019) Samiran Banerjee et al.   ISME Journal

Soil aggregate microbial communities: Towards understanding microbiome interactions at biologically relevant scales

(2019) Regina L. Wilpiszeski et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Metagenomic recovery of two distinct comammox Nitrospira from the terrestrial subsurface

(2019) Lianna Poghosyan et al.   ENVIRONMENTAL MICROBIOLOGY

Distribution of comammox and canonical ammonia oxidizing bacteria in tidal flat sediments of the Yangtze River estuary at different depths over four seasons

(2019) Q. Jiang et al.   JOURNAL OF APPLIED MICROBIOLOGY

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Responses of ammonia-oxidizers and comammox to different long-term fertilization regimes in a subtropical paddy soil

(2019) Tianlin Liu et al.   EUROPEAN JOURNAL OF SOIL BIOLOGY

Plant-driven niche differentiation of ammonia-oxidizing bacteria and archaea in global drylands

(2019) Chanda Trivedi et al.   ISME Journal

Manure over crop residues increases soil organic matter but decreases microbial necromass relative contribution in upland Ultisols: Results of a 27-year field experiment

(2019) Guiping Ye et al.   SOIL BIOLOGY & BIOCHEMISTRY

Long-term manure application increases soil organic matter and aggregation, and alters microbial community structure and keystone taxa

(2019) Yongxin Lin et al.   SOIL BIOLOGY & BIOCHEMISTRY

Soil aggregates impact nitrifying microorganisms in a vertisol under diverse fertilization regimes

(2019) Shun Han et al.   EUROPEAN JOURNAL OF SOIL SCIENCE

Comammox Nitrospira play an active role in nitrification of agricultural soils amended with nitrogen fertilizers

(2019) Chaoyu Li et al.   SOIL BIOLOGY & BIOCHEMISTRY

Ubiquity, diversity, and activity of comammox Nitrospira in agricultural soils

(2019) Shaoyi Xu et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Different ammonia oxidizers are responsible for nitrification in two neutral paddy soils

(2019) Zhihui Wang et al.   SOIL & TILLAGE RESEARCH

Organic management and cover crop species steer soil microbial community structure and functionality along with soil organic matter properties

(2018) Laura B. Martínez-García et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

Species co-occurrence networks: Can they reveal trophic and non-trophic interactions in ecological communities?

(2018) Mara A. Freilich et al.   ECOLOGY

The consequences of niche and physiological differentiation of archaeal and bacterial ammonia oxidisers for nitrous oxide emissions

(2018) Linda Hink et al.   ISME Journal

Long-term application of lime or pig manure rather than plant residues suppressed diazotroph abundance and diversity and altered community structure in an acidic Ultisol

(2018) Yongxin Lin et al.   SOIL BIOLOGY & BIOCHEMISTRY

Responses of fungal–bacterial community and network to organic inputs vary among different spatial habitats in soil

(2018) Wei Zheng et al.   SOIL BIOLOGY & BIOCHEMISTRY

Fertilization rather than aggregate size fractions shape the nitrite-oxidizing microbial community in a Mollisol

(2018) Shun Han et al.   SOIL BIOLOGY & BIOCHEMISTRY

Nitrite-Oxidizing Bacteria Community Composition and Diversity Are Influenced by Fertilizer Regimes, but Are Independent of the Soil Aggregate in Acidic Subtropical Red Soil

(2018) Shun Han et al.   Frontiers in Microbiology

Nitrosospira Cluster 8a Plays a Predominant Role in the Nitrification Process of a Subtropical Ultisol under Long-Term Inorganic and Organic Fertilization

(2018) Yongxin Lin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Niche separation of comammox Nitrospira and canonical ammonia oxidizers in an acidic subtropical forest soil under long-term nitrogen deposition

(2018) Xiuzhen Shi et al.   SOIL BIOLOGY & BIOCHEMISTRY

Soil bacterial networks are less stable under drought than fungal networks

(2018) Franciska T. de Vries et al.   Nature Communications

Ubiquity and Diversity of Complete Ammonia Oxidizers (Comammox)

(2018) Fei Xia et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Complete nitrification: insights into the ecophysiology of comammox Nitrospira

(2018) Hanna Koch et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Geospatial variation in co-occurrence networks of nitrifying microbial guilds

(2018) Christopher M. Jones et al.   MOLECULAR ECOLOGY

Soil aggregate size and long-term fertilization effects on the function and community of ammonia oxidizers

(2018) Pei-Pei Li et al.   GEODERMA

Soil aggregation and associated microbial communities modify the impact of agricultural management on carbon content

(2017) Pankaj Trivedi et al.   ENVIRONMENTAL MICROBIOLOGY

Comammox—a newly discovered nitrification process in the terrestrial nitrogen cycle

(2017) Hang-Wei Hu et al.   JOURNAL OF SOILS AND SEDIMENTS

Kinetic analysis of a complete nitrifier reveals an oligotrophic lifestyle

(2017) K. Dimitri Kits et al.   NATURE

Variable responses of ammonia oxidizers across soil particle-size fractions affect nitrification in a long-term fertilizer experiment

(2017) Qian Zhang et al.   SOIL BIOLOGY & BIOCHEMISTRY

Time-dependent shifts in populations and activity of bacterial and archaeal ammonia oxidizers in response to liming in acidic soils

(2017) Miao-Miao Zhang et al.   SOIL BIOLOGY & BIOCHEMISTRY

AmoA-Targeted Polymerase Chain Reaction Primers for the Specific Detection and Quantification of Comammox Nitrospira in the Environment

(2017) Petra Pjevac et al.   Frontiers in Microbiology

Biochar and manure amendments impact soil nutrients and microbial enzymatic activities in a semi-arid irrigated maize cropping system

(2016) Erika J. Foster et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

Geographic patterns of co-occurrence network topological features for soil microbiota at continental scale in eastern China

(2016) Bin Ma et al.   ISME Journal

A New Perspective on Microbes Formerly Known as Nitrite-Oxidizing Bacteria

(2016) Holger Daims et al.   TRENDS IN MICROBIOLOGY

Responses of microbial activity, abundance, and community in wheat soil after three years of heavy fertilization with manure-based compost and inorganic nitrogen

(2015) Wei Tian et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

Complete nitrification by a single microorganism

(2015) Maartje A. H. J. van Kessel et al.   NATURE

Complete nitrification by Nitrospira bacteria

(2015) Holger Daims et al.   NATURE

Characteristics of ammonia oxidation potentials and ammonia oxidizers in mineral soil under Salix polaris–moss vegetation in Ny-Ålesund, Svalbard

(2015) Kentaro Hayashi et al.   POLAR BIOLOGY

Aggregate-related changes in network patterns of nematodes and ammonia oxidizers in an acidic soil

(2015) Yuji Jiang et al.   SOIL BIOLOGY & BIOCHEMISTRY

Interactions between Thaumarchaea, Nitrospira and methanotrophs modulate autotrophic nitrification in volcanic grassland soil

(2014) Anne Daebeler et al.   ISME Journal

Active Ammonia Oxidizers in an Acidic Soil Are Phylogenetically Closely Related to Neutrophilic Archaeon

(2013) Baozhan Wang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Soil aggregate stratification of nematodes and ammonia oxidizers affects nitrification in an acid soil

(2013) Yuji Jiang et al.   ENVIRONMENTAL MICROBIOLOGY

Multi-factorial drivers of ammonia oxidizer communities: evidence from a national soil survey

(2013) Huaiying Yao et al.   ENVIRONMENTAL MICROBIOLOGY

pH-dependent distribution of soil ammonia oxidizers across a large geographical scale as revealed by high-throughput pyrosequencing

(2013) Hang-Wei Hu et al.   JOURNAL OF SOILS AND SEDIMENTS

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Diversity, Physiology, and Niche Differentiation of Ammonia-Oxidizing Archaea

(2012) Roland Hatzenpichler   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Cultivation of a highly enriched ammonia-oxidizing archaeon of thaumarchaeotal group I.1b from an agricultural soil

(2012) Jong-Geol Kim et al.   ENVIRONMENTAL MICROBIOLOGY

Microbial interactions: from networks to models

(2012) Karoline Faust et al.   NATURE REVIEWS MICROBIOLOGY

Ammonia concentration determines differential growth of ammonia-oxidising archaea and bacteria in soil microcosms

(2011) Daniel T Verhamme et al.   ISME Journal

Agriculture's impact on microbial diversity and associated fluxes of carbon dioxide and methane

(2011) Uri Y Levine et al.   ISME Journal

Detecting Novel Associations in Large Data Sets

(2011) D. N. Reshef et al.   SCIENCE

The distribution of nematodes and soil microbial communities across soil aggregate fractions and farm management systems

(2011) Shabeg S. Briar et al.   SOIL BIOLOGY & BIOCHEMISTRY

Effects of long-term fertilization on corn productivity and its sustainability in an Ultisol of southern China

(2010) Shan Huang et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One