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Narrative for Bioproject PRJNA623111

Dataset ·
 [1]
  1. Division of Natural Sciences, Maryville College, Maryville, TN, USA; Department of Microbiology, University of Tennessee, Knoxville, TN, USA; Department of Energy Systems Biology Knowledgebase (KBase)
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This Narrative is part of a collection used in publications focused on the microbial ecology of fjord sediment in the high Arctic, Svalbard. This paper took a genome-centric approach to uncover novel metabolic capabilities of the Acidobacteriota clade. Metagenomic data was coupled with amplicon sequencing of 16S rRNA and dissimilatory sulfite reductase (dsrB) genes, and transcripts (available under NCBI-Genbank Bioproject PRJNA623111), and gene expression analyses of tetrathionate-amended microcosms.

This Narrative contains the metagenomic assemblies that were constructed within KBase for reproducibility. These include:

stnF metagenome assembly stnAB metagenome assembly stnAC metagenome assembly

These metagenome assemblies served as the launching point for an additional publication focused on a different clade of bacteria (Buongiorno et al., 2020). Link to that Narrative landing page here.

Please cite: Flieder, Mathias, Joy Buongiorno, Craig W. Herbold, Bela Hausmann, Thomas Rattei, Karen G. Lloyd, Alexander Loy, and Kenneth Wasmund. "Novel taxa of Acidobacteriota implicated in seafloor sulfur cycling." The ISME Journal (2021): 1-22.

Research Organization:
Department of Microbiology, University of Tennessee, Knoxville, TN, USA
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI ID:
1817654
Country of Publication:
United States
Language:
English

References (15)

Phylogenetic and environmental diversity of DsrAB-type dissimilatory (bi)sulfite reductases journal October 2014
The Biogeochemical Sulfur Cycle of Marine Sediments journal April 2019
Trimmomatic: a flexible trimmer for Illumina sequence data journal April 2014
MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph journal January 2015
MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets journal October 2015
MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm journal August 2014
Oxygen in the Sea Bottom Measured with a Microelectrode journal March 1980
Woeseiales transcriptional response to shallow burial in Arctic fjord surface sediment journal August 2020
Methanogenic archaea are globally ubiquitous in aerated soils and become active under wet anoxic conditions journal November 2011
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth journal April 2012
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes journal May 2015
Fast gapped-read alignment with Bowtie 2 journal March 2012
metaSPAdes: a new versatile metagenomic assembler journal March 2017
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome journal January 2009
The life sulfuric: microbial ecology of sulfur cycling in marine sediments: Microbial sulfur cycling in marine sediments journal May 2017

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Related Subjects

59 BASIC BIOLOGICAL SCIENCES
acidobacteriota
MAGs
metagenome-assembled genomes
amplicon sequencing
16SDefulfobacterota
marine sediment
Candidatus