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Linking soil microbial genomic features to forest-to-pasture conversion in the Amazon

Dataset ·
 [1]
  1. (1) Former: Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture, University of São Paulo. Piracicaba, SP 13416-000, Brazil. (2) Current: Department of Biology, Stanford University. Stanford, CA 94305, USA. (3) Current 2: Department of Environmental Science, American University. Washington, DC 20016-8007, USA.; DOE Systems Biology Knowledgebase
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Genome-resolved metagenomics was applied to recover soil archaeal and bacterial metagenome-assembled genomes (MAGs) from three forests and three pastures of the Brazilian Eastern Amazon.

Research Organization:
Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture, University of São Paulo. Piracicaba, SP 13416-000, Brazil
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI ID:
2496635
Country of Publication:
United States
Language:
English

References (10)

MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities journal January 2015
GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database journal November 2019
Binning metagenomic contigs by coverage and composition journal September 2014
Mash: fast genome and metagenome distance estimation using MinHash journal June 2016
Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy journal May 2018
High-throughput ANI Analysis of 90K Prokaryotic Genomes Reveals Clear Species Boundaries posted_content October 2017
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome journal January 2009
MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm journal August 2014
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life journal August 2018
Accelerated Profile HMM Searches journal October 2011

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