Evidence map›Paper›PMID 17993529›Full record

ArticleJournal of bacteriology2008

Genome sequence of Lactobacillus helveticus, an organism distinguished by selective gene loss and insertion sequence element expansion.

Michael Callanan, Pawel Kaleta, John O'Callaghan, Orla O'Sullivan, Kieran Jordan, Olivia McAuliffe, Amaia Sangrador-Vegas, Lydia Slattery, Gerald F Fitzgerald, Tom Beresford and 1 more

Abstract readComparative Study
In one paragraph

Article in Journal of bacteriology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 82 papers.

0numbers the graph read from it
0cells of the map it votes in
82citing 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

82 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. The mobilome ofMicrobial genomics · 2023
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  5. Article
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  8. Article
  9. Niche-specific adaptation ofMicrobial genomics · 2021
    Article
  10. Whole-Genome Sequencing ofMicroorganisms · 2020
    Article
  11. Genomic Comparison ofFrontiers in microbiology · 2019
    Article
  12. ThemSphere · 2018
    Article
  13. Article
  14. Article
  15. Draft Genome Sequence ofGenome announcements · 2018
    Article
  16. Article
  17. Comparative Genomics of Completely SequencedFrontiers in microbiology · 2018
    Article
  18. Article
  19. Article
  20. Article

22 more citing papers are in PubMed but not listed here.

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

11 authors.

Michael CallananMoorepark Food Research Centre, Moorepark, Fermoy, Co. Cork, Ireland.
Pawel Kaleta
John O'Callaghan
Orla O'Sullivan
Kieran Jordan
Olivia McAuliffe
Amaia Sangrador-Vegas
Lydia Slattery
Gerald F Fitzgerald
Tom Beresford
R Paul Ross

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Mobile genetic elements are major contributing factors to the generation of genetic diversity in prokaryotic organisms. For example, insertion sequence (IS) elements have been shown to specifically contribute to niche adaptation by promoting a variety of genetic rearrangements. The complete genome sequence of the cheese culture Lactobacillus helveticus DPC 4571 was determined and revealed significant conservation compared to three nondairy gut lactobacilli. Despite originating from significantly different environments, 65 to 75% of the genes were conserved between the commensal and dairy lactobacilli, which allowed key niche-specific gene sets to be described. However, the primary distinguishing feature was 213 IS elements in the DPC 4571 genome, 10 times more than for the other lactobacilli. Moreover, genome alignments revealed an unprecedented level of genome stability between these four Lactobacillus species, considering the number of IS elements in the L. helveticus genome. Comparative analysis also indicated that the IS elements were not the primary agents of niche adaptation for the L. helveticus genome. A clear bias toward the loss of genes reported to be important for gut colonization was observed for the cheese culture, but there was no clear evidence of IS-associated gene deletion and decay for the majority of genes lost. Furthermore, an extraordinary level of sequence diversity exists between copies of certain IS elements in the DPC 4571 genome, indicating they may represent an ancient component of the L. helveticus genome. These data suggest a special unobtrusive relationship between the DPC 4571 genome and its mobile DNA complement.

Indexed as

DNA Transposable ElementsGenome, BacterialBase SequenceChromosomes, BacterialConserved SequenceDNA, BacterialGene DeletionGenes, BacterialLactobacillus helveticusMolecular Sequence DataPolymorphism, GeneticSequence Analysis, DNASyntenyDNA, BacterialDNA Transposable Elements

Identifiers

PMID17993529
PMCPMC2223680

What OpenQuestion holds

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Registered trials

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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.