Evidence map›Paper›PMID 25504059›Full record

ArticlePLoS computational biology2014

Two-dimensionality of yeast colony expansion accompanied by pattern formation.

Lin Chen, Javad Noorbakhsh, Rhys M Adams, Joseph Samaniego-Evans, Germaine Agollah, Dmitry Nevozhay, Jennie Kuzdzal-Fick, Pankaj Mehta, Gábor Balázsi

Abstract read
In one paragraph

Article in PLoS computational biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.

0numbers the graph read from it
0cells of the map it votes in
25citing 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

25 citing papers in PubMed.

  1. The role ofmBio · 2026
    Article
  2. Article
  3. Article
  4. Article
  5. Integrative analysis of yeast colony growth.Communications biology · 2024
    Article
  6. Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Characterization ofJournal of fungi (Basel, Switzerland) · 2021
    Article
  12. Article
  13. Article
  14. A thin-film extensional flow model for biofilm expansion by sliding motility.Proceedings. Mathematical, physical, and engineering sciences · 2019
    Article
  15. Article
  16. Multiscale effects of heating and cooling on genes and gene networks.Proceedings of the National Academy of Sciences of the United States of America · 2018
    Article
  17. Article
  18. Article
  19. Article
  20. 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

9 authors.

Lin ChenDepartment of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
Javad NoorbakhshDepartment of Physics, Metcalf Science Center (SCI), Boston University, Boston, Massachusetts, United States of America.
Rhys M AdamsDepartment of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
Joseph Samaniego-EvansDepartment of Physics, Metcalf Science Center (SCI), Boston University, Boston, Massachusetts, United States of America.
Germaine AgollahDepartment of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
Dmitry NevozhayDepartment of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America; School of Biomedicine, Far Eastern Federal University, Vladivostok, Russia.
Jennie Kuzdzal-FickDepartment of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America.
Pankaj MehtaDepartment of Physics, Metcalf Science Center (SCI), Boston University, Boston, Massachusetts, United States of America.
Gábor BalázsiDepartment of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America; The Louis and Beatrice Laufer Center for Physical & Quantitative Biology, Stony Brook University, Stony Brook, New York, United States of America; Department of Biomedical Engineering, Stony Brook University, Stony Brook, New York, United States of America.

Funding

Connecting the selection of noisy gene expression deviants to genetic evolutionDP2OD006481 · OD · UNIVERSITY OF TX MD ANDERSON CAN CTR · PI BALAZSI, GABOR · 2009 to 2009
$2.3M
NIH HHS DP2 OD006481
6 · The paper itself

Abstract

Yeasts can form multicellular patterns as they expand on agar plates, a phenotype that requires a functional copy of the FLO11 gene. Although the biochemical and molecular requirements for such patterns have been examined, the mechanisms underlying their formation are not entirely clear. Here we develop quantitative methods to accurately characterize the size, shape, and surface patterns of yeast colonies for various combinations of agar and sugar concentrations. We combine these measurements with mathematical and physical models and find that FLO11 gene constrains cells to grow near the agar surface, causing the formation of larger and more irregular colonies that undergo hierarchical wrinkling. Head-to-head competition assays on agar plates indicate that two-dimensional constraint on the expansion of FLO11 wild type (FLO11) cells confers a fitness advantage over FLO11 knockout (flo11Δ) cells on the agar surface.

Indexed as

Cell Culture TechniquesComputer SimulationGlucoseMembrane GlycoproteinsSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsFLO11 protein, S cerevisiaeGlucoseMembrane GlycoproteinsSaccharomyces cerevisiae Proteins

Identifiers

PMID25504059
PMCPMC4263361

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.