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      Complete Genome Sequences of Two Marine Biofilm Isolates, Leisingera sp. nov. Strains 201A and 204H, Novel Representatives of the Roseobacter Group

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          Abstract

          Here, we report the complete-genome assemblies of biofilm isolates 201A and 204H. They possess six and seven plasmids, respectively, with a size ranging from 44 kb to 159 kb. Genomic comparisons place the two strains into one new species belonging to the genus Leisingera as novel representatives of the Roseobacter group.

          ABSTRACT

          Here, we report the complete-genome assemblies of biofilm isolates 201A and 204H. They possess six and seven plasmids, respectively, with a size ranging from 44 kb to 159 kb. Genomic comparisons place the two strains into one new species belonging to the genus Leisingera as novel representatives of the Roseobacter group.

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          The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes

          Luis Rodriguez-R, Konstantinos Konstantinidis (2016)
          Genomic and metagenomic analyses are increasingly becoming commonplace in several areas of biological research, but recurrent specialized analyses are frequently reported as in-house scripts rarely available after publication. We describe the enveomics collection, a growing set of actively maintained scripts for several recurrent and specialized tasks in microbial genomics and metagenomics, and present a graphical user interface and several case studies. Our resource includes previously described as well as new algorithms such as Transformed-space Resampling In Biased Sets (TRIBS), a novel method to evaluate phylogenetic under- or over-dispersion in reference sets with strong phylogenetic bias. The enveomics collection is freely available under the terms of the Artistic License 2.0 at https://github.com/lmrodriguezr/enveomics and for online analysis at http://enve-omics.ce.gatech.edu
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            Bypassing Cultivation To Identify Bacterial Species

            Konstantinos Konstantinidis, Luis Rodriguez-R (2014)
            Article 0 comments Cited 197 times – based on 0 reviews     Review now
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              Environmental biology of the marine Roseobacter lineage.

              H Biebl, Irene Wagner-Döbler (2005)
              The Roseobacter lineage is a phylogenetically coherent, physiologically heterogeneous group of alpha-Proteobacteria comprising up to 25% of marine microbial communities, especially in coastal and polar oceans, and it is the only lineage in which cultivated bacteria are closely related to environmental clones. Currently 41 subclusters are described, covering all major marine ecological niches (seawater, algal blooms, microbial mats, sediments, sea ice, marine invertebrates). Members of the Roseobacter lineage play an important role for the global carbon and sulfur cycle and the climate, since they have the trait of aerobic anoxygenic photosynthesis, oxidize the greenhouse gas carbon monoxide, and produce the climate-relevant gas dimethylsulfide through the degradation of algal osmolytes. Production of bioactive metabolites and quorum-sensing-regulated control of gene expression mediate their success in complex communities. Studies of representative isolates in culture, whole-genome sequencing, e.g., of Silicibacter pomeroyi, and the analysis of marine metagenome libraries have started to reveal the environmental biology of this important marine group.
              Article 0 comments Cited 164 times – based on 0 reviews     Review now
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                Author and article information

                Contributors
                Julie C. Dunning Hotopp: Role: Editor
                Journal
                Journal ID (nlm-ta): Microbiol Resour Announc
                Journal ID (iso-abbrev): Microbiol Resour Announc
                Journal ID (hwp): ga
                Journal ID (pmc): mra
                Journal ID (publisher-id): MRA
                Title: Microbiology Resource Announcements
                Publisher: American Society for Microbiology (1752 N St., N.W., Washington, DC )
                ISSN (Electronic): 2576-098X
                Publication date (Electronic): 9 July 2020
                Publication date Collection: July 2020
                Volume: 9
                Issue: 28
                Electronic Location Identifier: e00505-20
                Affiliations
                [a ]Department of Biology, San Diego State University, San Diego, California, USA
                [b ]Viral Information Institute, San Diego State University, San Diego, California, USA
                [c ]Energy, Mining and Environment, National Research Council Canada, Montreal, Quebec, Canada
                [d ]Department of Human Genetics, McGill University, Montreal, Quebec, Canada
                [e ]McGill University and Genome Quebec Innovation Centre, McGill University, Montreal, Quebec, Canada
                University of Maryland School of Medicine
                Author notes
                Address correspondence to Nicholas J. Shikuma, nshikuma@ 123456sdsu.edu .

                Citation Cavalcanti GS, Wasserscheid J, Dewar K, Shikuma NJ. 2020. Complete genome sequences of two marine biofilm isolates, Leisingera sp. nov. strains 201A and 204H, novel representatives of the Roseobacter group. Microbiol Resour Announc 9:e00505-20. https://doi.org/10.1128/MRA.00505-20.

                Author information
                https://orcid.org/0000-0001-5518-5020
                Article
                Publisher ID: MRA00505-20
                DOI: 10.1128/MRA.00505-20
                PMC ID: 7348020
                PubMed ID: 32646902
                SO-VID: 24534196-5536-48d8-aadf-632e322e9cc0
                Copyright © Copyright © 2020 Cavalcanti et al.
                License:

                This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license.

                History
                Date received : 2 May 2020
                Date accepted : 23 June 2020
                Page count
                Figures: 1, Tables: 0, Equations: 0, References: 13, Pages: 3, Words: 1483
                Funding
                Funded by: National Science Foundation (NSF), https://doi.org/10.13039/100000001;
                Award ID: 1942251
                Award Recipient :
                Funded by: Alfred P. Sloan Foundation, https://doi.org/10.13039/100000879;
                Award Recipient :
                Funded by: DOD | United States Navy | Office of Naval Research (ONR), https://doi.org/10.13039/100000006;
                Award ID: N00014-14-1-0340
                Award ID: N00014-16-1-2135
                Award Recipient :
                Categories
                Subject: Genome Sequences
                Custom metadata
                cover-date July 2020

                Data availability:

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