Evidence map›Paper›PMID 31182013›Full record

ArticleBMC bioinformatics2019

Dynamic genome-scale cell-specific metabolic models reveal novel inter-cellular and intra-cellular metabolic communications during ovarian follicle development.

Beatriz Peñalver Bernabé, Ines Thiele, Eugene Galdones, Anaar Siletz, Sriram Chandrasekaran, Teresa K Woodruff, Linda J Broadbelt, Lonnie D Shea

Open access · goldAbstract read
In one paragraph

Article in BMC bioinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
0.9field-weighted citation impact, top 27% of its field
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

11 citing papers in PubMed, 25 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Metabolic Control of Germline Formation and Differentiation in Mammals.Sexual development : genetics, molecular biology, evolution, endocrinology, embryology, and pathology of sex determination and differentiation · 2022
    Review
  7. Article
  8. Article
  9. Clavulanic Acid Production byAntibiotics (Basel, Switzerland) · 2021
    Review
  10. Article
  11. 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

8 authors at 4 institutions in 2 countries.

Beatriz Peñalver BernabéDepartment of Pediatrics, University of California San Diego, La Jolla, CA, 92093, USA.
Ines ThieleLuxembourg Center for Systems Biology, University of Luxembourg, Esch-sur-Alzette, Luxembourg, L-4365, Luxembourg.
Eugene GaldonesDepartment of Obstetrics and Gynecology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA.
Anaar SiletzDepartment of Obstetrics and Gynecology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA.
Sriram ChandrasekaranDepartment of Biomedical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA.
Teresa K WoodruffDepartment of Obstetrics and Gynecology, Northwestern University Feinberg School of Medicine, Chicago, IL, 60611, USA.
Linda J BroadbeltDepartment of Chemical and Biological Engineering, Northwestern University Feinberg School of Medicine, Evanston, IL, 60208, USA.
Lonnie D SheaDepartment of Biomedical Engineering, University of Michigan, Ann Arbor, MI, 48109, USA. ldshea@umich.edu.ORCID http://orcid.org/0000-0002-9296-9673
Northwestern University · USUniversity of Michigan · USUniversity of California San Diego · USUniversity of Luxembourg · LU

Funding

TRANSCRIPTION FACTOR INTERACTIONS IN REPRODUCTIVE HORMONE GENE EXPRESSIONU54HD041857 · NICHD · NORTHWESTERN UNIVERSITY AT CHICAGO · PI WOODRUFF, TERESA K · 2003 to 2012
$12.2M
Developing Capacity to Evaluate Training Programs via Development of Human, Institutional and Social CapitalT32GM008449 · NIGMS · NORTHWESTERN UNIVERSITY · PI LEONARD, JOSHUA NATHANIEL · 1993 to 2023
$7.8M
Fonds National de la Recherche Luxembourg FNR/A12/01National Institute of Child Health and Human Development U54 HD041857-07National Institute of General Medical Sciences T32 GM008449-16NICHD NIH HHS U54 HD041857NIGMS NIH HHS T32 GM008449
6 · The paper itself

Abstract

backgroundThe maturation of the female germ cell, the oocyte, requires the synthesis and storing of all the necessary metabolites to support multiple divisions after fertilization. Oocyte maturation is only possible in the presence of surrounding, diverse, and changing layers of somatic cells. Our understanding of metabolic interactions between the oocyte and somatic cells has been limited due to dynamic nature of ovarian follicle development, thus warranting a systems approach.

resultsHere, we developed a genome-scale metabolic model of the mouse ovarian follicle. This model was constructed using an updated mouse general metabolic model (Mouse Recon 2) and contains several key ovarian follicle development metabolic pathways. We used this model to characterize the changes in the metabolism of each follicular cell type (i.e., oocyte, granulosa cells, including cumulus and mural cells), during ovarian follicle development in vivo. Using this model, we predicted major metabolic pathways that are differentially active across multiple follicle stages. We identified a set of possible secreted and consumed metabolites that could potentially serve as biomarkers for monitoring follicle development, as well as metabolites for addition to in vitro culture media that support the growth and maturation of primordial follicles.

conclusionsOur systems approach to model follicle metabolism can guide future experimental studies to validate the model results and improve oocyte maturation approaches and support growth of primordial follicles in vitro.

Indexed as

Cell CommunicationGenomeModels, BiologicalAnimalsCell DifferentiationFemaleMetabolic Networks and PathwaysMiceOvarian FollicleCell-type specific metabolic modelsGenome-scale modelingMetabolic communitiesMetabolismOvarian follicle developmentSecreted metabolites

Identifiers

PMID31182013
PMCPMC6558917
OpenAlexW2950965013

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.