Evidence map›Paper›PMID 34740250›Full record

ArticleGenetics2021

Replication timing analysis in polyploid cells reveals Rif1 uses multiple mechanisms to promote underreplication in Drosophila.

Souradip Das, Madison Caballero, Tatyana Kolesnikova, Igor Zhimulev, Amnon Koren, Jared Nordman

Open access · hybridAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genetics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.3field-weighted citation impact, top 43% 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

3 citing papers in PubMed, 5 citations in OpenAlex.

  1. Review
  2. Review
  3. Review
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

6 authors at 3 institutions in 2 countries.

Souradip DasDepartment of Biological Sciences, Vanderbilt University, Nashville, TN 37232, USA.ORCID 0000-0002-8427-7749
Madison CaballeroDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.
Tatyana KolesnikovaInstitute of Molecular and Cellular Biology, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, Russia.
Igor ZhimulevInstitute of Molecular and Cellular Biology, Siberian Branch of Russian Academy of Sciences, 630090 Novosibirsk, Russia.
Amnon KorenDepartment of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.ORCID 0000-0002-7144-2602
Jared NordmanDepartment of Biological Sciences, Vanderbilt University, Nashville, TN 37232, USA.ORCID 0000-0002-6612-3201
Cornell University · USRussian Academy of Sciences · RUVanderbilt University · US

Funding

Tumor Immunology and Microenvironment Research ProgramP30CA068485 · NCI · VANDERBILT UNIVERSITY MEDICAL CENTER · PI Ben Ho Park · 1995 to 2026
$172.8M
VANDERBILT UNIVERSITY CTSA FOR PEDIATRIC RESEARCHUL1RR024975 · NCRR · VANDERBILT UNIVERSITY · PI BERNARD, GORDON RAPHAEL · 2007 to 2011
$45.7M
Shop Module CoreP30EY008126 · NEI · VANDERBILT UNIVERSITY MEDICAL CENTER · PI David J. Calkins · 1989 to 2026
$19.6M
VANTAGE:Consolidation to create the Vanderbilt Technologies for Advanced GenomicsG20RR030956 · NCRR · VANDERBILT UNIVERSITY · PI PIETENPOL, JENNIFER A · 2010 to 2010
$8.7M
Personal mutational landscapes encoded in our DNADP2GM123495 · NIGMS · CORNELL UNIVERSITY · PI KOREN, AMNON · 2016 to 2016
$2.3M
NCI NIH HHS P30 CA068485NCRR NIH HHS G20 RR030956NCRR NIH HHS UL1 RR024975NEI NIH HHS P30 EY008126NIGMS NIH HHS DP2 GM123495
6 · The paper itself

Abstract

Regulation of DNA replication and copy number is necessary to promote genome stability and maintain cell and tissue function. DNA replication is regulated temporally in a process known as replication timing (RT). Rap1-interacting factor 1 (Rif1) is a key regulator of RT and has a critical function in copy number control in polyploid cells. Previously, we demonstrated that Rif1 functions with SUUR to inhibit replication fork progression and promote underreplication (UR) of specific genomic regions. How Rif1-dependent control of RT factors into its ability to promote UR is unknown. By applying a computational approach to measure RT in Drosophila polyploid cells, we show that SUUR and Rif1 have differential roles in controlling UR and RT. Our findings reveal that Rif1 acts to promote late replication, which is necessary for SUUR-dependent underreplication. Our work provides new insight into the process of UR and its links to RT.

Indexed as

DNA Replication TimingAnimalsAnimals, Genetically ModifiedCarrier ProteinsComputational BiologyDNA-Binding ProteinsDNA Copy Number VariationsDrosophila melanogasterDrosophila ProteinsFemalePolyploidyRNA-SeqCarrier ProteinsDNA-Binding ProteinsDrosophila ProteinsRif1 protein, DrosophilaSuUR protein, Drosophilacommon fragile sitesDNA replicationDrosophilagenome stabilityreplication timing

Identifiers

PMID34740250
PMCPMC8570783
OpenAlexW3199693035

What Socratic 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 Socratic graph.