Replication timing analysis in polyploid cells reveals rif1 uses multiple mechanisms to promote underreplication in drosophila

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Replication timing analysis in polyploid cells reveals rif1 uses multiple mechanisms to promote underreplication in drosophila. / Das, Souradip; Caballero, Madison; Kolesnikova, Tatyana et al.

In: Genetics, Vol. 219, No. 3, iyab147, 11.2021.

Research output: Contribution to journal › Article › peer-review

BibTeX

@article{fba606d14481481c9603c0d5ff622496,

title = "Replication timing analysis in polyploid cells reveals rif1 uses multiple mechanisms to promote underreplication in drosophila",

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.",

keywords = "Common fragile sites, DNA replication, Drosophila, Genome stability, Replication timing",

author = "Souradip Das and Madison Caballero and Tatyana Kolesnikova and Igor Zhimulev and Amnon Koren and Jared Nordman",

note = "This work was supported by a National Science Foundation grant (MCB-818019 to J.T.N.); National Institutes of Health (DP2-GM123495 to A.K.) and the National Science Foundation (MCB1921341 to A.K.); and a Joint Russian-German grant from the Russian Foundation for Basic Research (No. 20-54-12016) and Deutsche Forschungsgemeinschaft Schu762/12-1. Illumina sequencing was performed at the VANTAGE core at Vanderbilt University Medical Center, which is supported by the CTSA Grant (5UL1 RR024975-03), the Vanderbilt-Ingram Cancer Center (P30 CA68485), the Vanderbilt Vision Center (P30 EY08126), and NIH/NCRR (G20 RR030956). Publisher Copyright: {\textcopyright} 2021 Genetics Society of America. All rights reserved.",

year = "2021",

month = nov,

doi = "10.1093/genetics/iyab147",

language = "English",

volume = "219",

journal = "Genetics",

issn = "0016-6731",

publisher = "Genetics Society of America",

number = "3",

}

RIS

TY - JOUR

T1 - Replication timing analysis in polyploid cells reveals rif1 uses multiple mechanisms to promote underreplication in drosophila

AU - Das, Souradip

AU - Caballero, Madison

AU - Kolesnikova, Tatyana

AU - Zhimulev, Igor

AU - Koren, Amnon

AU - Nordman, Jared

N1 - This work was supported by a National Science Foundation grant (MCB-818019 to J.T.N.); National Institutes of Health (DP2-GM123495 to A.K.) and the National Science Foundation (MCB1921341 to A.K.); and a Joint Russian-German grant from the Russian Foundation for Basic Research (No. 20-54-12016) and Deutsche Forschungsgemeinschaft Schu762/12-1. Illumina sequencing was performed at the VANTAGE core at Vanderbilt University Medical Center, which is supported by the CTSA Grant (5UL1 RR024975-03), the Vanderbilt-Ingram Cancer Center (P30 CA68485), the Vanderbilt Vision Center (P30 EY08126), and NIH/NCRR (G20 RR030956). Publisher Copyright: © 2021 Genetics Society of America. All rights reserved.

PY - 2021/11

Y1 - 2021/11

N2 - 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.

AB - 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.

KW - Common fragile sites

KW - DNA replication

KW - Drosophila

KW - Genome stability

KW - Replication timing

UR - http://www.scopus.com/inward/record.url?scp=85120670851&partnerID=8YFLogxK

U2 - 10.1093/genetics/iyab147

DO - 10.1093/genetics/iyab147

M3 - Article

C2 - 34740250

AN - SCOPUS:85120670851

VL - 219

JO - Genetics

JF - Genetics

SN - 0016-6731

IS - 3

M1 - iyab147

ER -

ID: 34967944