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KBase Narrative - Methylobacterium fujisawaense Strain C14 Genomic Sequence

Dataset ·
 [1];  [2];  [3];  [4];  [4]
  1. Department of Biological Sciences, University of Delaware, Newark DE USA; Oak Ridge National Laboratory
  2. Department of Environmental Biology, SUNY College of Environmental Science and Forestry, Syracuse, NY, USA
  3. Sequencing and Genotyping Center, University of Delaware, Newark DE USA
  4. Department of Chemistry, SUNY College of Environmental Science and Forestry, Syracuse, NY, USA

Methylobacterium fujisawaense strain C14 was isolated from a weathered concrete cylinder. Using PacBio sequencing, a high-quality genome secquence was generated for strain C14 to facilitate the development genetic tools for engineering of microorganisms inhabiting concrete.

Research Organization:
U.S. Department of Energy Systems Biology Knowledgebase
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI ID:
2345706
Country of Publication:
United States
Language:
English

References (17)

Assembly of long, error-prone reads using repeat graphs journal April 2019
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST) journal November 2013
Identification, variation and transcription of pneumococcal repeat sequences journal February 2011
PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies journal May 2012
RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes journal February 2015
GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database journal November 2019
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes journal May 2015
Translational recoding in archaea journal September 2012
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life journal August 2018
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree journal October 2010
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs journal September 1997
Identifying bacterial genes and endosymbiont DNA with Glimmer journal January 2007
The RAST Server: Rapid Annotations using Subsystems Technology journal January 2008
BLAT---The BLAST-Like Alignment Tool journal March 2002
Prodigal: prokaryotic gene recognition and translation initiation site identification journal March 2010
FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments journal March 2010
FIGfams: yet another set of protein families journal September 2009

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