Evidence map›Paper›PMID 29545612›Full record

ArticleScientific reports2018

Resolving the complete genome of Kuenenia stuttgartiensis from a membrane bioreactor enrichment using Single-Molecule Real-Time sequencing.

Jeroen Frank, Sebastian Lücker, Rolf H A M Vossen, Mike S M Jetten, Richard J Hall, Huub J M Op den Camp, Seyed Yahya Anvar

Abstract read
In one paragraph

Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.

0numbers the graph read from it
0cells of the map it votes in
18citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

18 citing papers in PubMed.

  1. Article
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  10. The physiological potential of anammox bacteria as revealed by their core genome structure.DNA research : an international journal for rapid publication of reports on genes and genomes · 2021
    Article
  11. Geochemical transition zone powering microbial growth in subsurface sediments.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  12. Article
  13. Article
  14. Review
  15. Article
  16. Article
  17. Article
  18. Genomic Characteristics ofFrontiers in microbiology · 2019
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors.

Jeroen FrankSoehngen Institute of Anaerobic Microbiology, Radboud University Nijmegen, Nijmegen, The Netherlands.
Sebastian LückerDepartment of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands.
Rolf H A M VossenLeiden Genome Technology Center, Leiden University Medical Center, Leiden, The Netherlands.
Mike S M JettenSoehngen Institute of Anaerobic Microbiology, Radboud University Nijmegen, Nijmegen, The Netherlands.
Richard J HallPacific Biosciences, Menlo Park, California, United States of America.
Huub J M Op den CampDepartment of Microbiology, IWWR, Radboud University Nijmegen, Nijmegen, The Netherlands. h.opdencamp@science.ru.nl.ORCID 0000-0003-1990-9030
Seyed Yahya AnvarLeiden Genome Technology Center, Leiden University Medical Center, Leiden, The Netherlands. s.y.anvar@lumc.nl.

Funding

European Research Council 339880
6 · The paper itself

Abstract

Anaerobic ammonium-oxidizing (anammox) bacteria are a group of strictly anaerobic chemolithoautotrophic microorganisms. They are capable of oxidizing ammonium to nitrogen gas using nitrite as a terminal electron acceptor, thereby facilitating the release of fixed nitrogen into the atmosphere. The anammox process is thought to exert a profound impact on the global nitrogen cycle and has been harnessed as an environment-friendly method for nitrogen removal from wastewater. In this study, we present the first closed genome sequence of an anammox bacterium, Kuenenia stuttgartiensis MBR1. It was obtained through Single-Molecule Real-Time (SMRT) sequencing of an enrichment culture constituting a mixture of at least two highly similar Kuenenia strains. The genome of the novel MBR1 strain is different from the previously reported Kuenenia KUST reference genome as it contains numerous structural variations and unique genomic regions. We find new proteins, such as a type 3b (sulf)hydrogenase and an additional copy of the hydrazine synthase gene cluster. Moreover, multiple copies of ammonium transporters and proteins regulating nitrogen uptake were identified, suggesting functional differences in metabolism. This assembly, including the genome-wide methylation profile, provides a new foundation for comparative and functional studies aiming to elucidate the biochemical and metabolic processes of these organisms.

Indexed as

BioreactorsGenome, BacterialBacteriaBacterial ProteinsDNA, BacterialHydrogenaseMethylationSequence Analysis, DNABacterial ProteinsDNA, BacterialHydrogenase

Identifiers

PMID29545612
PMCPMC5854607

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.