Work

KBase Narrative - Genomic and environmental controls on Castellaniella biogeography in an anthropogenically disturbed site

Year: 2023

Type: article

Abstract: Genome assemblies were imported into KBase using the Batch Import Assembly from Staging Area (v1.0.57) function. All assemblies were annotated using the Annotated Multiple Microbial Assemblies with RASTtk - v1.073 tool. Annotated genomes were grouped into sets using the Add Genomes to GenomeSet - v1.7.6 function. Individual annotated genomes can be found both below and in the Data menu to the left. Taxonomy was assigned using the Classify Microbes with GTDB-Tk-v1.7.0 tool. The results of this analysis are shown below. Analysis of the Castellaniella pangenome was performed using the Compute Pangenome (v0.0.7) tool. Using the same method, we also computed the ORR-specific and non-ORR Castellaniella pangenomes. All pangenome results (including the presence/absence matrix) can be found below.

Source: OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)

DOI: 10.25982/135835.33/2203552

Authors: Szink, Elizabeth, Goff, Jennifer, Durrence, Konnor, Lui, Lauren, Nielsen, Torben, Kuehl, Jennifer, Hunt, Kristopher, Chandonia, John-Marc, Thorgersen, Michael, Poole, Farris, Stahl, David, Chakraborty, Romy, Arkin, Adam, Adams, Michael

Institutions: University of Georgia, SUNY College of Environmental Science and Forestry, Lawrence Berkeley National Laboratory, University of Washington, University of California, Berkeley

Language: English

Topic: Genomics and Phylogenetic Studies

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: green

OpenAlex ID: W4391506413

FWCI:

Cites: 5

Cited by:

Related to: 10