Albertsen, Mads

Nielsen, Per Halkjær

Nymann, Thomas

P. G. Marshall, Ian

Petriglieri, Francesca

Schramm, Andreas

Sereika, Mantas

English

    Aalborg UniversitetRecovery of circular and high quality cable bacteria genomes from complex microbialcommunitiesSereika, Mantas; Petriglieri, Francesca; Nymann, Thomas; P. G. Marshall, Ian; Schramm,Andreas; Nielsen, Per Halkjær; Albertsen, MadsCreative Commons LicenseGNU GPLPublication date:2022Document VersionPublisher's PDF, also known as Version of recordLink to publication from Aalborg UniversityCitation for published version (APA):Sereika, M., Petriglieri, F., Nymann, T., P. G. Marshall, I., Schramm, A., Nielsen, P. H., & Albertsen, M. (2022).Recovery of circular and high quality cable bacteria genomes from complex microbial communities. Posterpresented at ISME18, Lausanne, Switzerland.General rightsCopyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright ownersand it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights.            - Users may download and print one copy of any publication from the public portal for the purpose of private study or research.            - You may not further distribute the material or use it for any profit-making activity or commercial gain            - You may freely distribute the URL identifying the publication in the public portal -Take down policyIf you believe that this document breaches copyright please contact us at vbn@aub.aau.dk providing details, and we will remove access tothe work immediately and investigate your claim.Downloaded from vbn.aau.dk on: November 19, 2022IntroductionMethodsConclusionsResultsCable bacteria are centimeter-long filamentousbacteria that can conduct long-distance electrontransfer through coupling of sulfide oxidationand oxygen reduction. To elucidate the uniquephysiology of cable bacteria, reliable genomereference sequences are required. Althoughpublically available cable bacteria genomes areoften fragmented and incomplete due to usingshort reads for genome-centric metagenomics,long-read DNA sequencing technologies, such asNanopore sequencing, are yet to be applied forthe recovery of cable bacteria genomes.• 4 high quality genome drafts of cable bacteria were recovered (2 Electronema, 2 Electrothrix)• Both Electronema genomes were circular, while one 1 Electrothrix genome was single-contig• The single-contig Electrothrix and 1 circular Electronema genomes were of novel species• The novel species circular Electronema genome featured the most unique gene content andchallenges the current definition of genus Candidatus ElectronemaAimRecovery and characterization of circular or highquality cable bacteria genome drafts using long-read Nanopore sequencing.ENR-cMAG BRK-cMAG MAR-scMAG MAR-hqMAG MAR-mqMAGMAG Completeness, % 93.2 94.1 92.0 90.2 93.9MAG Contamination, % 3.0 3.3 2.6 4.0 7.1Contig count 1 1 1 37 9SNP rate, % 0.002 0.03 0.8 1.4 1.0CDS count 2,847 2,807 3,409 2,849 3,484Hypothetical CDS, % 56.4 52.3 58.5 55.5 60.1MIMAG quality ranking HQ HQ HQ HQ MQSpecies taxonomy rankingElectronemaGSNovelElectronemaNovelElectrothrixElectrothrix gigasElectrothrixaarhusiensismase@bio.aau.dk https://github.com/Serka-M www.AlbertsenLab.org   Mantas Sereikaa, Francesca Petriglieria, Thomas Bygh Nymann Jensena, Ian Marshallb, Andreas Schrammb,Per Halkjær Nielsena, Mads AlbertsenaaCenter for Microbial Communities, Aalborg University, Aalborg, Denmark                  bCenter for Electromicrobiology, Aarhus University, DenmarkRecovery of circular and high quality cable bacteria genomesfrom complex microbial communitiesGene-based comparisons of cable bacteria MAGs. A) Maximum-likelihood genome tree, built using 120 universal bacterial markergenes and 100 bootstraps for HQ, MQ cable bacteria MAGs, with multiple outgroups included. B) Selected features of cable bacteriaMAGs: quality metrics and relevant gene counts. C) Average amino acid identity (AAI) and percentage of conserved proteins (POCP)between cable bacteria MAGs and outgroups. POCP of 50 % was used as genus boundary to further confirm the classification of BRK-cMAG as a member of Candidatus Electronema. D) Unique gene fractions for MAGs recovered in this study, compared to other cablebacteria MAGs (HQ and MQ), at different identity thresholds for gene clustering.Suspected MAGnoveltyRecovered cable bacteria MAG statisticsbioinformaticssequencingextractionA                                                                         B                                         CA D                                                                               A                                                                                       B                                    Whole-genome-based comparisons for cable bacteria MAGs. HQ and MQ cable bacteria MAGs (and outgroups used for treebuilding) were compared to each other using BLAST-based average nucleotide identity (ANIb, A) and genome alignment fractions (B).Using ANI of 75-77 % as genus boundary, all cable bacteria MAGs from MAR sample were classified as Candidatus Electrothrix, whileMAGs from BRK and ENR were attributed to Candidatus Electronema.

Recovery of circular and high quality cable bacteria genomes from complex microbial communities

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Recovery of circular and high quality cable bacteria genomes from complex microbial communities

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