Transcriptome-wide mapping of 5-methylcytidine RNA modifications in bacteria, archaea, and yeast reveals m5C within archaeal mRNAs.

abstract：:[This corrects the article DOI: 10.1371/journal.pgen.1006396.]. ...

journal_title：PLoS genetics

authors： Hibshman JD,Hung A,Baugh LR

更新日期：2018-08-30 00:00:00

abstract：:The dual toxicity/essentiality of copper forces cells to maintain a tightly regulated homeostasis for this metal in all living organisms, from bacteria to humans. Consequently, many genes have previously been reported to participate in copper detoxification in bacteria. Myxococcus xanthus, a prokaryote, encodes many p...

journal_title：PLoS genetics

authors： Gómez-Santos N,Pérez J,Sánchez-Sutil MC,Moraleda-Muñoz A,Muñoz-Dorado J

更新日期：2011-06-01 00:00:00

abstract：:Although tumor size and lymph node involvement are the current cornerstones of breast cancer prognosis, they have not been extensively explored in relation to tumor methylation attributes in conjunction with other tumor and patient dietary and hormonal characteristics. Using primary breast tumors from 162 (AJCC stage ...

journal_title：PLoS genetics

authors： Christensen BC,Kelsey KT,Zheng S,Houseman EA,Marsit CJ,Wrensch MR,Wiemels JL,Nelson HH,Karagas MR,Kushi LH,Kwan ML,Wiencke JK

更新日期：2010-07-29 00:00:00

abstract：:Class-switch recombination (CSR), induced by activation-induced cytidine deaminase (AID), can be divided into two phases: DNA cleavage of the switch (S) regions and the joining of the cleaved ends of the different S regions. Here, we show that the DSIF complex (Spt4 and Spt5), a transcription elongation factor, is req...

journal_title：PLoS genetics

authors： Stanlie A,Begum NA,Akiyama H,Honjo T

更新日期：2012-01-01 00:00:00

abstract：:The clinical spectrum of ciliopathies affecting motile cilia spans impaired mucociliary clearance in the respiratory system, laterality defects including heart malformations, infertility and hydrocephalus. Using linkage analysis and whole exome sequencing, we identified two recessive loss-of-function MNS1 mutations in...

journal_title：PLoS genetics

authors： Ta-Shma A,Hjeij R,Perles Z,Dougherty GW,Abu Zahira I,Letteboer SJF,Antony D,Darwish A,Mans DA,Spittler S,Edelbusch C,Cindrić S,Nöthe-Menchen T,Olbrich H,Stuhlmann F,Aprea I,Pennekamp P,Loges NT,Breuer O,Shaag A,Re

更新日期：2018-08-27 00:00:00

abstract：:Recent comparative genomic analysis of alternative splicing has shown that protein modularity is an important criterion for functional alternative splicing events. Exons that are alternatively spliced in multiple organisms are much more likely to be an exact multiple of 3 nt in length, representing a class of "modular...

journal_title：PLoS genetics

authors： Xing Y,Lee CJ

更新日期：2005-09-01 00:00:00

abstract：:The deluge of data generated by genome sequencing has led to an increasing reliance on bioinformatic predictions, since the traditional experimental approach of characterizing gene function one at a time cannot possibly keep pace with the sequence-based discovery of novel genes. We have utilized Biolog phenotype Micro...

journal_title：PLoS genetics

authors： Johnson DA,Tetu SG,Phillippy K,Chen J,Ren Q,Paulsen IT

更新日期：2008-10-03 00:00:00

abstract：:Polycomb proteins are epigenetic regulators that localize to developmental loci in the early embryo where they mediate lineage-specific gene repression. In Drosophila, these repressors are recruited to sequence elements by DNA binding proteins associated with Polycomb repressive complex 2 (PRC2). However, the sequence...

journal_title：PLoS genetics

authors： Mendenhall EM,Koche RP,Truong T,Zhou VW,Issac B,Chi AS,Ku M,Bernstein BE

更新日期：2010-12-09 00:00:00

abstract：:The cerebral cortex is a specialized region of the brain that processes cognitive, motor, somatosensory, auditory, and visual functions. Its characteristic architecture and size is dependent upon the number of neurons generated during embryogenesis and has been postulated to be governed by symmetric versus asymmetric ...

journal_title：PLoS genetics

authors： Sakai D,Dixon J,Dixon MJ,Trainor PA

更新日期：2012-01-01 00:00:00

abstract：:In flowering plants, gene expression in the haploid male gametophyte (pollen) is essential for sperm delivery and double fertilization. Pollen also undergoes dynamic epigenetic regulation of expression from transposable elements (TEs), but how this process interacts with gene expression is not clearly understood. To e...

journal_title：PLoS genetics

authors： Warman C,Panda K,Vejlupkova Z,Hokin S,Unger-Wallace E,Cole RA,Chettoor AM,Jiang D,Vollbrecht E,Evans MMS,Slotkin RK,Fowler JE

更新日期：2020-04-01 00:00:00

abstract：:Evolutionary rescue occurs when a population that is threatened with extinction by an environmental change adapts to the change sufficiently rapidly to survive. Here we extend the mathematical theory of evolutionary rescue. In particular, we model evolutionary rescue to a sudden environmental change when adaptation in...

journal_title：PLoS genetics

authors： Orr HA,Unckless RL

更新日期：2014-08-14 00:00:00

abstract：:The cell envelope of Gram-negative bacteria is a formidable barrier that is difficult for antimicrobial drugs to penetrate. Thus, the list of treatments effective against these organisms is small and with the rise of new resistance mechanisms is shrinking rapidly. New therapies to treat Gram-negative bacterial infecti...

journal_title：PLoS genetics

authors： Paradis-Bleau C,Kritikos G,Orlova K,Typas A,Bernhardt TG

更新日期：2014-01-01 00:00:00

abstract：:Epigenetic regulation of gene expression, including by Polycomb Group (PcG) proteins, may depend on heritable chromatin states, but how these states can be propagated through mitosis is unclear. Using immunofluorescence and biochemical fractionation, we find PcG proteins associated with mitotic chromosomes in Drosophi...

journal_title：PLoS genetics

authors： Follmer NE,Wani AH,Francis NJ

更新日期：2012-01-01 00:00:00

abstract：:In Drosophila, genes expressed in males tend to accumulate on autosomes and are underrepresented on the X chromosome. In particular, genes expressed in testis have been observed to frequently relocate from the X chromosome to the autosomes. The inactivation of X-linked genes during male meiosis (i.e., meiotic sex chro...

journal_title：PLoS genetics

authors： Vibranovski MD,Lopes HF,Karr TL,Long M

更新日期：2009-11-01 00:00:00

abstract：:We recently showed that cassette integration and deletion in integron platforms were occurring through unconventional site-specific recombination reactions involving only the bottom strand of attC sites. The lack of sequence conservation among attC sites led us to hypothesize that sequence-independent structural recog...

journal_title：PLoS genetics

authors： Bouvier M,Ducos-Galand M,Loot C,Bikard D,Mazel D

更新日期：2009-09-01 00:00:00

abstract：:Molybdenum (Mo) is an essential micronutrient for plants, serving as a cofactor for enzymes involved in nitrate assimilation, sulfite detoxification, abscisic acid biosynthesis, and purine degradation. Here we show that natural variation in shoot Mo content across 92 Arabidopsis thaliana accessions is controlled by va...

journal_title：PLoS genetics

authors： Baxter I,Muthukumar B,Park HC,Buchner P,Lahner B,Danku J,Zhao K,Lee J,Hawkesford MJ,Guerinot ML,Salt DE

更新日期：2008-02-29 00:00:00

abstract：:As a member of the large Ran-binding protein family, Ran-binding protein 9 (RANBP9) has been suggested to play a critical role in diverse cellular functions in somatic cell lineages in vitro, and this is further supported by the neonatal lethality phenotype in Ranbp9 global knockout mice. However, the exact molecular ...

journal_title：PLoS genetics

authors： Bao J,Tang C,Li J,Zhang Y,Bhetwal BP,Zheng H,Yan W

更新日期：2014-12-04 00:00:00

abstract：:In recent years different types of structural variants (SVs) have been discovered in the human genome and their functional impact has become increasingly clear. Inversions, however, are poorly characterized and more difficult to study, especially those mediated by inverted repeats or segmental duplications. Here, we d...

journal_title：PLoS genetics

authors： Aguado C,Gayà-Vidal M,Villatoro S,Oliva M,Izquierdo D,Giner-Delgado C,Montalvo V,García-González J,Martínez-Fundichely A,Capilla L,Ruiz-Herrera A,Estivill X,Puig M,Cáceres M

更新日期：2014-03-20 00:00:00

abstract：:Ribosome assembly cofactors are widely conserved across all domains of life. One such group, the ribosome-associated GTPases (RA-GTPase), act as molecular switches to coordinate ribosome assembly. We previously identified the Staphylococcus aureus RA-GTPase Era as a target for the stringent response alarmone (p)ppGpp,...

journal_title：PLoS genetics

authors： Wood A,Irving SE,Bennison DJ,Corrigan RM

更新日期：2019-08-29 00:00:00

abstract：:Invasion of epithelial cells by Salmonella enterica requires expression of genes located in the pathogenicity island I (SPI-1). The expression of SPI-1 genes is very tightly regulated and activated only under specific conditions. Most studies have focused on the regulatory pathways that induce SPI-1 expression. Here, ...

journal_title：PLoS genetics

authors： El Mouali Y,Gaviria-Cantin T,Sánchez-Romero MA,Gibert M,Westermann AJ,Vogel J,Balsalobre C

更新日期：2018-06-07 00:00:00

abstract：:Inter-individual variation in gene regulatory elements is hypothesized to play a causative role in adverse drug reactions and reduced drug activity. However, relatively little is known about the location and function of drug-dependent elements. To uncover drug-associated elements in a genome-wide manner, we performed ...

journal_title：PLoS genetics

authors： Smith RP,Eckalbar WL,Morrissey KM,Luizon MR,Hoffmann TJ,Sun X,Jones SL,Force Aldred S,Ramamoorthy A,Desta Z,Liu Y,Skaar TC,Trinklein ND,Giacomini KM,Ahituv N

更新日期：2014-10-02 00:00:00

abstract：:Genome-wide association studies have shown that pleiotropy is a common phenomenon that can potentially be exploited for enhanced detection of susceptibility loci. We propose heritability informed power optimization (HIPO) for conducting powerful pleiotropic analysis using summary-level association statistics. We find ...

journal_title：PLoS genetics

authors： Qi G,Chatterjee N

更新日期：2018-10-05 00:00:00

abstract：:During meiotic prophase I, double-strand breaks (DSBs) initiate homologous recombination leading to non-crossovers (NCOs) and crossovers (COs). In mouse, 10% of DSBs are designated to become COs, primarily through a pathway dependent on the MLH1-MLH3 heterodimer (MutLγ). Mlh3 contains an endonuclease domain that is cr...

journal_title：PLoS genetics

authors： Toledo M,Sun X,Brieño-Enríquez MA,Raghavan V,Gray S,Pea J,Milano CR,Venkatesh A,Patel L,Borst PL,Alani E,Cohen PE

更新日期：2019-06-06 00:00:00

abstract：:Seed development in angiosperms is dependent on the interplay among different transcriptional programs operating in the embryo, the endosperm, and the maternally-derived seed coat. In angiosperms, the embryo and the endosperm are products of double fertilization during which the two pollen sperm cells fuse with the eg...

journal_title：PLoS genetics

authors： Shirzadi R,Andersen ED,Bjerkan KN,Gloeckle BM,Heese M,Ungru A,Winge P,Koncz C,Aalen RB,Schnittger A,Grini PE

更新日期：2011-02-01 00:00:00

abstract：:Perennial questions of evolutionary biology can be applied to gene regulatory systems using the abundance of experimental data addressing gene regulation in a comparative context. What is the tempo (frequency, rate) and mode (way, mechanism) of transcriptional regulatory evolution? Here we synthesize the results of 23...

journal_title：PLoS genetics

authors： Gordon KL,Ruvinsky I

更新日期：2012-01-01 00:00:00

abstract：:Microbial populations founded by a single clone and propagated under resource limitation can become polymorphic. We sought to elucidate genetic mechanisms whereby a polymorphism evolved in Escherichia coli under glucose limitation and persisted because of cross-feeding among multiple adaptive clones. Apart from a 29 k...

journal_title：PLoS genetics

authors： Kinnersley MA,Holben WE,Rosenzweig F

更新日期：2009-11-01 00:00:00

abstract：:Dietary restriction (DR) is the most consistent means of extending longevity in a wide range of organisms. A growing body of literature indicates that mitochondria play an important role in longevity extension by DR, but the impact of mitochondrial genotypes on the DR process have received little attention. Mitochondr...

journal_title：PLoS genetics

authors： Zhu CT,Ingelmo P,Rand DM

更新日期：2014-05-15 00:00:00

abstract：:Wnt signaling regulates primary body axis formation across the Metazoa, with high Wnt signaling specifying posterior identity. Whether a common Wnt-driven transcriptional program accomplishes this broad role is poorly understood. We identified genes acutely affected after Wnt signaling inhibition in the posterior of t...

journal_title：PLoS genetics

authors： Tewari AG,Owen JH,Petersen CP,Wagner DE,Reddien PW

更新日期：2019-10-18 00:00:00

abstract：:Mutation of the DNA molecule is one of the most fundamental processes in biology. In this study, we use 283 parent-offspring trios to estimate the rate of mutation for both single nucleotide variants (SNVs) and short length variants (indels) in humans and examine the mutation process. We found 17812 SNVs, correspondin...

journal_title：PLoS genetics

authors： Besenbacher S,Sulem P,Helgason A,Helgason H,Kristjansson H,Jonasdottir A,Jonasdottir A,Magnusson OT,Thorsteinsdottir U,Masson G,Kong A,Gudbjartsson DF,Stefansson K

更新日期：2016-11-15 00:00:00

abstract：:Insertions and deletions (indels) are a major source of genetic variation within species and may result in functional changes to coding or regulatory sequences. In this study we report that an indel polymorphism in the 3' untranslated region (UTR) of the metallothionein gene MtnA is associated with gene expression var...

journal_title：PLoS genetics

authors： Catalán A,Glaser-Schmitt A,Argyridou E,Duchen P,Parsch J

更新日期：2016-04-27 00:00:00