当前位置： SCI文献检索 > Nature Communications期刊下所有文献 > The evolution of the temporal program of genome replication.

The evolution of the temporal program of genome replication.

Abstract：

:Genome replication is highly regulated in time and space, but the rules governing the remodeling of these programs during evolution remain largely unknown. We generated genome-wide replication timing profiles for ten Lachancea yeasts, covering a continuous evolutionary range from closely related to more divergent species. We show that replication programs primarily evolve through a highly dynamic evolutionary renewal of the cohort of active replication origins. We found that gained origins appear with low activity yet become more efficient and fire earlier as they evolutionarily age. By contrast, origins that are lost comprise the complete range of firing strength. Additionally, they preferentially occur in close vicinity to strong origins. Interestingly, despite high evolutionary turnover, active replication origins remain regularly spaced along chromosomes in all species, suggesting that origin distribution is optimized to limit large inter-origin intervals. We propose a model on the evolutionary birth, death, and conservation of active replication origins.

journal_name

Nat Commun

journal_title

Nature communications

authors

Agier N,Delmas S,Zhang Q,Fleiss A,Jaszczyszyn Y,van Dijk E,Thermes C,Weigt M,Cosentino-Lagomarsino M,Fischer G

doi

10.1038/s41467-018-04628-4

subject

Has Abstract

pub_date

2018-06-06 00:00:00

pages

2199

issue

1

issn

2041-1723

pii

10.1038/s41467-018-04628-4

journal_volume

9

pub_type

杂志文章

相关文献

Nature Communications文献大全
  • Hierarchically structured lithium titanate for ultrafast charging in long-life high capacity batteries.

    abstract：:High-performance Li-ion batteries require materials with well-designed and controlled structures on nanometre and micrometre scales. Electrochemical properties can be enhanced by reducing crystallite size and by manipulating structure and morphology. Here we show a method for preparing hierarchically structured Li4Ti5...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms15636

    authors： Odziomek M,Chaput F,Rutkowska A,Świerczek K,Olszewska D,Sitarz M,Lerouge F,Parola S

    更新日期：2017-05-26 00:00:00

  • Forward models demonstrate that repetition suppression is best modelled by local neural scaling.

    abstract：:Inferring neural mechanisms from functional magnetic resonance imaging (fMRI) is challenging because the fMRI signal integrates over millions of neurons. One approach is to compare computational models that map neural activity to fMRI responses, to see which best predicts fMRI data. We use this approach to compare fou...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-05957-0

    authors： Alink A,Abdulrahman H,Henson RN

    更新日期：2018-09-21 00:00:00

  • Modified relaxation dynamics and coherent energy exchange in coupled vibration-cavity polaritons.

    abstract：:Coupling vibrational transitions to resonant optical modes creates vibrational polaritons shifted from the uncoupled molecular resonances and provides a convenient way to modify the energetics of molecular vibrations. This approach is a viable method to explore controlling chemical reactivity. In this work, we report ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms13504

    authors： Dunkelberger AD,Spann BT,Fears KP,Simpkins BS,Owrutsky JC

    更新日期：2016-11-22 00:00:00

  • Ferroelectric tunnel junctions with graphene electrodes.

    abstract：:Polarization-driven resistive switching in ferroelectric tunnel junctions (FTJs)--structures composed of two electrodes separated by an ultrathin ferroelectric barrier--offers new physics and materials functionalities, as well as exciting opportunities for the next generation of non-volatile memories and logic devices...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms6518

    authors： Lu H,Lipatov A,Ryu S,Kim DJ,Lee H,Zhuravlev MY,Eom CB,Tsymbal EY,Sinitskii A,Gruverman A

    更新日期：2014-11-24 00:00:00

  • Compound-specific radiocarbon dating and mitochondrial DNA analysis of the Pleistocene hominin from Salkhit Mongolia.

    abstract：:A skullcap found in the Salkhit Valley in northeast Mongolia is, to our knowledge, the only Pleistocene hominin fossil found in the country. It was initially described as an individual with possible archaic affinities, but its ancestry has been debated since the discovery. Here, we determine the age of the Salkhit sku...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-08018-8

    authors： Devièse T,Massilani D,Yi S,Comeskey D,Nagel S,Nickel B,Ribechini E,Lee J,Tseveendorj D,Gunchinsuren B,Meyer M,Pääbo S,Higham T

    更新日期：2019-01-30 00:00:00

  • Quantum-circuit refrigerator.

    abstract：:Quantum technology promises revolutionizing applications in information processing, communications, sensing and modelling. However, efficient on-demand cooling of the functional quantum degrees of freedom remains challenging in many solid-state implementations, such as superconducting circuits. Here we demonstrate dir...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms15189

    authors： Tan KY,Partanen M,Lake RE,Govenius J,Masuda S,Möttönen M

    更新日期：2017-05-08 00:00:00

  • Post-replicative pairing of sister ter regions in Escherichia coli involves multiple activities of MatP.

    abstract：:The ter region of the bacterial chromosome, where replication terminates, is the last to be segregated before cell division in Escherichia coli. Delayed segregation is controlled by the MatP protein, which binds to specific sites (matS) within ter, and interacts with other proteins such as ZapB. Here, we investigate t...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-17606-6

    authors： Crozat E,Tardin C,Salhi M,Rousseau P,Lablaine A,Bertoni T,Holcman D,Sclavi B,Cicuta P,Cornet F

    更新日期：2020-07-30 00:00:00

  • Author Correction: Puma genomes from North and South America provide insights into the genomic consequences of inbreeding.

    abstract：:An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title：Nature communications

    pub_type： 已发布勘误

    doi：10.1038/s41467-019-13096-3

    authors： Saremi NF,Supple MA,Byrne A,Cahill JA,Coutinho LL,Dalén L,Figueiró HV,Johnson WE,Milne HJ,O'Brien SJ,O'Connell B,Onorato DP,Riley SPD,Sikich JA,Stahler DR,Villela PMS,Vollmers C,Wayne RK,Eizirik E,Corbett-Detig RB,

    更新日期：2019-11-21 00:00:00

  • Modular optimization of multi-gene pathways for fatty acids production in E. coli.

    abstract：:Microbial fatty acid-derived fuels have emerged as promising alternatives to petroleum-based transportation fuels. Here we report a modular engineering approach that systematically removed metabolic pathway bottlenecks and led to significant titre improvements in a multi-gene fatty acid metabolic pathway. On the basis...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms2425

    authors： Xu P,Gu Q,Wang W,Wong L,Bower AG,Collins CH,Koffas MA

    更新日期：2013-01-01 00:00:00

  • Single-molecule study of oxidative enzymatic deconstruction of cellulose.

    abstract：:LPMO (lytic polysaccharide monooxygenase) represents a unique paradigm of cellulosic biomass degradation by an oxidative mechanism. Understanding the role of LPMO in deconstructing crystalline cellulose is fundamental to the enzyme's biological function and will help to specify the use of LPMO in biorefinery applicati...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-01028-y

    authors： Eibinger M,Sattelkow J,Ganner T,Plank H,Nidetzky B

    更新日期：2017-10-12 00:00:00

  • Directing reaction pathways by catalyst active-site selection using self-assembled monolayers.

    abstract：:One key route for controlling reaction selectivity in heterogeneous catalysis is to prepare catalysts that exhibit only specific types of sites required for desired product formation. Here we show that alkanethiolate self-assembled monolayers with varying surface densities can be used to tune selectivity to desired hy...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms3448

    authors： Pang SH,Schoenbaum CA,Schwartz DK,Medlin JW

    更新日期：2013-01-01 00:00:00

  • Metallic surface doping of metal halide perovskites.

    abstract：:Intentional doping is the core of semiconductor technologies to tune electrical and optical properties of semiconductors for electronic devices, however, it has shown to be a grand challenge for halide perovskites. Here, we show that some metal ions, such as silver, strontium, cerium ions, which exist in the precursor...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-20110-6

    authors： Lin Y,Shao Y,Dai J,Li T,Liu Y,Dai X,Xiao X,Deng Y,Gruverman A,Zeng XC,Huang J

    更新日期：2021-01-04 00:00:00

  • Loss of the E3 ubiquitin ligase MKRN1 represses diet-induced metabolic syndrome through AMPK activation.

    abstract：:AMP-activated protein kinase (AMPK) plays a key role in controlling energy metabolism in response to physiological and nutritional status. Although AMPK activation has been proposed as a promising molecular target for treating obesity and its related comorbidities, the use of pharmacological AMPK activators has been m...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-05721-4

    authors： Lee MS,Han HJ,Han SY,Kim IY,Chae S,Lee CS,Kim SE,Yoon SG,Park JW,Kim JH,Shin S,Jeong M,Ko A,Lee HY,Oh KJ,Lee YH,Bae KH,Koo SH,Kim JW,Seong JK,Hwang D,Song J

    更新日期：2018-08-24 00:00:00

  • The antiparasitic drug ivermectin is a novel FXR ligand that regulates metabolism.

    abstract：:Farnesoid X receptor (FXR) has important roles in maintaining bile acid and cholesterol homeostasis. Here we report that the antiparasitic drug ivermectin is a ligand for nuclear FXR. We identify ivermectin using a high-throughput compound library screening and show that it induces the transcriptional activity of the ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms2924

    authors： Jin L,Feng X,Rong H,Pan Z,Inaba Y,Qiu L,Zheng W,Lin S,Wang R,Wang Z,Wang S,Liu H,Li S,Xie W,Li Y

    更新日期：2013-01-01 00:00:00

  • Autosomal genetic variation is associated with DNA methylation in regions variably escaping X-chromosome inactivation.

    abstract：:X-chromosome inactivation (XCI), i.e., the inactivation of one of the female X chromosomes, restores equal expression of X-chromosomal genes between females and males. However, ~10% of genes show variable degrees of escape from XCI between females, although little is known about the causes of variable XCI. Using a dis...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-05714-3

    authors： Luijk R,Wu H,Ward-Caviness CK,Hannon E,Carnero-Montoro E,Min JL,Mandaviya P,Müller-Nurasyid M,Mei H,van der Maarel SM,BIOS Consortium.,Relton C,Mill J,Waldenberger M,Bell JT,Jansen R,Zhernakova A,Franke L,'t Hoen PAC

    更新日期：2018-09-14 00:00:00

  • Comprehensive catecholaminergic projectome analysis reveals single-neuron integration of zebrafish ascending and descending dopaminergic systems.

    abstract：:Essential components of animal behaviour are modulated by dopaminergic (DA) and noradrenergic circuitry. In this study, we reveal at cellular resolution the complete set of projections ('projectome') of every single type of DA and noradrenergio neurons in the central nervous system of zebrafish larvae. The most extens...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms1171

    authors： Tay TL,Ronneberger O,Ryu S,Nitschke R,Driever W

    更新日期：2011-01-25 00:00:00

  • Surface melt driven summer diurnal and winter multi-day stick-slip motion and till sedimentology.

    abstract：:Fluctuations in glacier motion are very common and are thought to be controlled by subglacial hydrology and till deformation. There are few instrumented studies that have monitored seasonal changes. We use the innovative Glacsweb subglacial in situ wireless probes, combined with dGPS and custom geophone data from an I...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-09547-6

    authors： Hart JK,Martinez K,Basford PJ,Clayton AI,Robson BA,Young DS

    更新日期：2019-04-08 00:00:00

  • Retrotransposon insertions can initiate colorectal cancer and are associated with poor survival.

    abstract：:Genomic instability pathways in colorectal cancer (CRC) have been extensively studied, but the role of retrotransposition in colorectal carcinogenesis remains poorly understood. Although retrotransposons are usually repressed, they become active in several human cancers, in particular those of the gastrointestinal tra...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-11770-0

    authors： Cajuso T,Sulo P,Tanskanen T,Katainen R,Taira A,Hänninen UA,Kondelin J,Forsström L,Välimäki N,Aavikko M,Kaasinen E,Ristimäki A,Koskensalo S,Lepistö A,Renkonen-Sinisalo L,Seppälä T,Kuopio T,Böhm J,Mecklin JP,Kilpivaar

    更新日期：2019-09-06 00:00:00

  • Non-invasive assessment of telomere maintenance mechanisms in brain tumors.

    abstract：:Telomere maintenance is a universal hallmark of cancer. Most tumors including low-grade oligodendrogliomas use telomerase reverse transcriptase (TERT) expression for telomere maintenance while astrocytomas use the alternative lengthening of telomeres (ALT) pathway. Although TERT and ALT are hallmarks of tumor prolifer...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-20312-y

    authors： Viswanath P,Batsios G,Mukherjee J,Gillespie AM,Larson PEZ,Luchman HA,Phillips JJ,Costello JF,Pieper RO,Ronen SM

    更新日期：2021-01-04 00:00:00

  • Fast photodynamics of azobenzene probed by scanning excited-state potential energy surfaces using slow spectroscopy.

    abstract：:Azobenzene, a versatile and polymorphic molecule, has been extensively and successfully used for photoswitching applications. The debate over its photoisomerization mechanism leveraged on the computational scrutiny with ever-increasing levels of theory. However, the most resolved absorption spectrum for the transition...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms6860

    authors： Tan EM,Amirjalayer S,Smolarek S,Vdovin A,Zerbetto F,Buma WJ

    更新日期：2015-01-06 00:00:00

  • Dynamic alterations in decoy VEGF receptor-1 stability regulate angiogenesis.

    abstract：:Blood vessel expansion is driven by sprouting angiogenesis of endothelial cells, and is essential for development, wound healing and disease. Membrane-localized vascular endothelial growth factor receptor-1 (mVEGFR1) is an endothelial cell-intrinsic decoy receptor that negatively modulates blood vessel morphogenesis. ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms15699

    authors： Boucher JM,Clark RP,Chong DC,Citrin KM,Wylie LA,Bautch VL

    更新日期：2017-06-07 00:00:00

  • Circuit quantum acoustodynamics with surface acoustic waves.

    abstract：:The experimental investigation of quantum devices incorporating mechanical resonators has opened up new frontiers in the study of quantum mechanics at a macroscopic level. It has recently been shown that surface acoustic waves (SAWs) can be piezoelectrically coupled to superconducting qubits, and confined in high-qual...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-01063-9

    authors： Manenti R,Kockum AF,Patterson A,Behrle T,Rahamim J,Tancredi G,Nori F,Leek PJ

    更新日期：2017-10-17 00:00:00

  • Microglia and monocytes synergistically promote the transition from acute to chronic pain after nerve injury.

    abstract：:Microglia and peripheral monocytes contribute to hypersensitivity in rodent models of neuropathic pain. However, the precise respective function of microglia and peripheral monocytes has not been investigated in these models. To address this question, here we combined transgenic mice and pharmacological tools to speci...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms12029

    authors： Peng J,Gu N,Zhou L,B Eyo U,Murugan M,Gan WB,Wu LJ

    更新日期：2016-06-28 00:00:00

  • Infectious stimuli promote malignant B-cell acute lymphoblastic leukemia in the absence of AID.

    abstract：:The prerequisite to prevent childhood B-cell acute lymphoblastic leukemia (B-ALL) is to decipher its etiology. The current model suggests that infection triggers B-ALL development through induction of activation-induced cytidine deaminase (AID; also known as AICDA) in precursor B-cells. This evidence has been largely ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-13570-y

    authors： Rodríguez-Hernández G,Opitz FV,Delgado P,Walter C,Álvarez-Prado ÁF,González-Herrero I,Auer F,Fischer U,Janssen S,Bartenhagen C,Raboso-Gallego J,Casado-García A,Orfao A,Blanco O,Alonso-López D,Rivas JL,Tena-Dávila SG,Müs

    更新日期：2019-12-05 00:00:00

  • Unscrambling fluorophore blinking for comprehensive cluster detection via photoactivated localization microscopy.

    abstract：:Determining nanoscale protein distribution via Photoactivated Localization Microscopy (PALM) mandates precise knowledge of the applied fluorophore's blinking properties to counteract overcounting artifacts that distort the resulting biomolecular distributions. Here, we present a readily applicable methodology to deter...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-18726-9

    authors： Platzer R,Rossboth BK,Schneider MC,Sevcsik E,Baumgart F,Stockinger H,Schütz GJ,Huppa JB,Brameshuber M

    更新日期：2020-10-05 00:00:00

  • Evidence for a chemical clock in oscillatory formation of UiO-66.

    abstract：:Chemical clocks are often used as exciting classroom experiments, where an induction time is followed by rapidly changing colours that expose oscillating concentration patterns. This type of reaction belongs to a class of nonlinear chemical kinetics also linked to chaos, wave propagation and Turing patterns. Despite i...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms11832

    authors： Goesten MG,de Lange MF,Olivos-Suarez AI,Bavykina AV,Serra-Crespo P,Krywka C,Bickelhaupt FM,Kapteijn F,Gascon J

    更新日期：2016-06-10 00:00:00

  • PD-1 pathway regulates ILC2 metabolism and PD-1 agonist treatment ameliorates airway hyperreactivity.

    abstract：:Allergic asthma is a leading chronic disease associated with airway hyperreactivity (AHR). Type-2 innate lymphoid cells (ILC2s) are a potent source of T-helper 2 (Th2) cytokines that promote AHR and lung inflammation. As the programmed cell death protein-1 (PD-1) inhibitory axis regulates a variety of immune responses...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-17813-1

    authors： Helou DG,Shafiei-Jahani P,Lo R,Howard E,Hurrell BP,Galle-Treger L,Painter JD,Lewis G,Soroosh P,Sharpe AH,Akbari O

    更新日期：2020-08-10 00:00:00

  • Synchronous precessional motion of multiple domain walls in a ferromagnetic nanowire by perpendicular field pulses.

    abstract：:Magnetic storage and logic devices based on magnetic domain wall motion rely on the precise and synchronous displacement of multiple domain walls. The conventional approach using magnetic fields does not allow for the synchronous motion of multiple domains. As an alternative method, synchronous current-induced domain ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms4429

    authors： Kim JS,Mawass MA,Bisig A,Krüger B,Reeve RM,Schulz T,Büttner F,Yoon J,You CY,Weigand M,Stoll H,Schütz G,Swagten HJ,Koopmans B,Eisebitt S,Kläui M

    更新日期：2014-03-24 00:00:00

  • Advection shapes Southern Ocean microbial assemblages independent of distance and environment effects.

    abstract：:Although environmental selection and spatial separation have been shown to shape the distribution and abundance of marine microorganisms, the effects of advection (physical transport) have not been directly tested. Here we examine 25 samples covering all major water masses of the Southern Ocean to determine the effect...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms3457

    authors： Wilkins D,van Sebille E,Rintoul SR,Lauro FM,Cavicchioli R

    更新日期：2013-01-01 00:00:00

  • A network model of Italy shows that intermittent regional strategies can alleviate the COVID-19 epidemic.

    abstract：:The COVID-19 epidemic hit Italy particularly hard, yielding the implementation of strict national lockdown rules. Previous modelling studies at the national level overlooked the fact that Italy is divided into administrative regions which can independently oversee their own share of the Italian National Health Service...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-18827-5

    authors： Della Rossa F,Salzano D,Di Meglio A,De Lellis F,Coraggio M,Calabrese C,Guarino A,Cardona-Rivera R,De Lellis P,Liuzza D,Lo Iudice F,Russo G,di Bernardo M

    更新日期：2020-10-09 00:00:00