Abstract:
:Transfer RNA (tRNA) gene content is a differentiating feature of genomes that contributes to the efficiency of the translational apparatus, but the principles shaping tRNA gene copy number and codon composition are poorly understood. Here, we report that the emergence of two specific tRNA modifications shaped the structure and composition of all extant genomes. Through the analysis of more than 500 genomes, we identify two kingdom-specific tRNA modifications as major contributors that separated archaeal, bacterial, and eukaryal genomes in terms of their tRNA gene composition. We show that, contrary to prior observations, genomic codon usage and tRNA gene frequencies correlate in all kingdoms if these two modifications are taken into account and that presence or absence of these modifications explains patterns of gene expression observed in previous studies. Finally, we experimentally demonstrate that human gene expression levels correlate well with genomic codon composition if these identified modifications are considered.
journal_name
Celljournal_title
Cellauthors
Novoa EM,Pavon-Eternod M,Pan T,Ribas de Pouplana Ldoi
10.1016/j.cell.2012.01.050subject
Has Abstractpub_date
2012-03-30 00:00:00pages
202-13issue
1eissn
0092-8674issn
1097-4172pii
S0092-8674(12)00212-7journal_volume
149pub_type
杂志文章相关文献
CELL文献大全abstract::Most bacteria that colonize eukaryotes must bind directly to host cells to establish a replicative niche. In enteric bacteria, adhesion to host cells is often promoted by a lectin found on surface-localized pili. Some pili promote efficient adhesion only when they are subjected to shear stress, as found during the flo...
journal_title:Cell
pub_type: 杂志文章,评审
doi:10.1016/s0092-8674(02)00821-8
更新日期:2002-07-12 00:00:00
abstract::Cellular compartments that cannot be biochemically isolated are challenging to characterize. Here we demonstrate the proteomic characterization of the synaptic clefts that exist at both excitatory and inhibitory synapses. Normal brain function relies on the careful balance of these opposing neural connections, and und...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2016.07.041
更新日期:2016-08-25 00:00:00
abstract::Embryonic stem cells (ESCs) repress the expression of exogenous proviruses and endogenous retroviruses (ERVs). Here, we systematically dissected the cellular factors involved in provirus repression in embryonic carcinomas (ECs) and ESCs by a genome-wide siRNA screen. Histone chaperones (Chaf1a/b), sumoylation factors ...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2015.08.037
更新日期:2015-09-24 00:00:00
abstract::Loss-of-function diseases are often caused by a mutation in a protein traversing the secretory pathway that compromises the normal balance between protein folding, trafficking, and degradation. We demonstrate that the innate cellular protein homeostasis, or proteostasis, capacity can be enhanced to fold mutated enzyme...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2008.06.037
更新日期:2008-09-05 00:00:00
abstract::Three different cases of pancreatic beta cell hyperplasia in mice are accompanied by an increase in a subclass of cells expressing tyrosine hydroxylase (TH), a neuronal enzyme. In the nontumorigenic cases of islet growth during normal pregnancy and in the obese mutant mouse, the TH-insulin cells do not divide, in cont...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(88)90534-x
更新日期:1988-01-15 00:00:00
abstract::Posttranslational modifications of histones have been strongly correlated with transcriptional regulation. In this issue of Cell, comprehensively examined the nature of arginine methyltransferases and histone modifications in p53-mediated transcription. ...
journal_title:Cell
pub_type: 评论,杂志文章,评审
doi:10.1016/j.cell.2004.05.021
更新日期:2004-06-11 00:00:00
abstract::Dietary restriction (DR) extends lifespan in multiple species. To examine the mechanisms of lifespan extension upon DR, we assayed genome-wide translational changes in Drosophila. A number of nuclear encoded mitochondrial genes, including those in Complex I and IV of the electron transport chain, showed increased ribo...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2009.07.034
更新日期:2009-10-02 00:00:00
abstract::NAD(+) is an important cofactor regulating metabolic homeostasis and a rate-limiting substrate for sirtuin deacylases. We show that NAD(+) levels are reduced in aged mice and Caenorhabditis elegans and that decreasing NAD(+) levels results in a further reduction in worm lifespan. Conversely, genetic or pharmacological...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2013.06.016
更新日期:2013-07-18 00:00:00
abstract::High-grade serous ovarian cancer (HGSC) exhibits extensive malignant clonal diversity with widespread but non-random patterns of disease dissemination. We investigated whether local immune microenvironment factors shape tumor progression properties at the interface of tumor-infiltrating lymphocytes (TILs) and cancer c...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2018.03.073
更新日期:2018-06-14 00:00:00
abstract::Bovine Papilloma Virus (BPV-1) establishes itself as a multicopy nuclear plasmid in somatic mammalian cells in culture. We report here that two discontinuous regions within the viral genome can independently support extrachromosomal replication of the Tn5 neomycinr gene in cells that provide viral factors in trans. Th...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(84)90232-0
更新日期:1984-02-01 00:00:00
abstract::In this issue of Cell, Uderhardt et al. employed intravital two-photon microscopy to examine tissue-resident macrophage responses to sterile cellular injuries of variable size. They observed that while multi-cell "macrolesions" are characteristically pro-inflammatory, resident macrophages can "cloak" single-cell micro...
journal_title:Cell
pub_type: 评论,杂志文章
doi:10.1016/j.cell.2019.03.042
更新日期:2019-04-18 00:00:00
abstract::The ephrin/Eph system plays a central role in neuronal circuit formation; however, its downstream effectors are poorly understood. Here we show that alpha-chimerin Rac GTPase-activating protein mediates ephrinB3/EphA4 forward signaling. We discovered a spontaneous mouse mutation, miffy (mfy), which results in a rabbit...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2007.07.022
更新日期:2007-08-24 00:00:00
abstract::Exit from mitosis must not occur prior to partitioning of chromosomes between daughter cells. We find that the GTP binding protein Tem1, a regulator of mitotic exit, is present on the spindle pole body that migrates into the bud during S phase and mitosis. Tem1's exchange factor, Lte1, localizes to the bud. Thus, Tem1...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/s0092-8674(00)00007-6
更新日期:2000-07-07 00:00:00
abstract::Using X-ray crystallography, we have directly observed the path of mRNA in the 70S ribosome in Fourier difference maps at 7 A resolution. About 30 nucleotides of the mRNA are wrapped in a groove that encircles the neck of the 30S subunit. The Shine-Dalgarno helix is bound in a large cleft between the head and the back...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/s0092-8674(01)00435-4
更新日期:2001-07-27 00:00:00
abstract::Two allelic forms of the natural chicken ovalbumin gene have been independently cloned. These alleles differ from each other by an Eco RI restriction cleavage site in one of the seven intervening sequences within the natural ovalbumin gene. Restriction endonuclease mapping and sequence analyses of these cloned genotyp...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(79)90201-0
更新日期:1979-01-01 00:00:00
abstract::The human immunodeficiency virus, the lentivirus that causes AIDS, is responsible for the most prevalent epidemic in the history of mankind. Here in this Timeline, we have attempted to illustrate a short history of HIV-1, from its identification in landmark papers published by Robert Gallo, Myron Essex, and Luc Montag...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2020.09.004
更新日期:2020-10-15 00:00:00
abstract::A diverse range of ultimate chemical carcinogens inhibited the transfer of methyl groups from S-adenosylmethionine to hemimethylated DNA in a reaction catalyzed by mouse spleen methyltransferase. The formation of alkali-labile sites in DNA lessened its ability to accept methyl groups in vitro, but the methylation reac...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(83)90514-7
更新日期:1983-01-01 00:00:00
abstract::We have isolated a conditional lethal mutant of bacteriophage 12 which makes plaques only on E. coli strains carrying a UGA suppressor. It grows normally in nonsuppressing hosts but does not lyse such strains. The mutation complements with amber mutations in each of the three known phage cistrons. These observations l...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(79)90043-6
更新日期:1979-10-01 00:00:00
abstract::X inactivation results in inactivation of one X chromosome to compensate for gene dosage differences between mammalian females and males. It requires the X-inactivation center (Xic) and Xist in cis. We report that introducing 450 kb of murine Xic/Xist sequences onto autosomes activates female dosage compensation in ma...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/s0092-8674(00)80079-3
更新日期:1996-07-12 00:00:00
abstract::Hsp33, a member of a newly discovered heat shock protein family, was found to be a very potent molecular chaperone. Hsp33 is distinguished from all other known molecular chaperones by its mode of functional regulation. Its activity is redox regulated. Hsp33 is a cytoplasmically localized protein with highly reactive c...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/s0092-8674(00)80547-4
更新日期:1999-02-05 00:00:00
abstract::We studied the chromatin structure and methylation of ribosomal RNA genes (rDNA) in hybrids between Xenopus laevis and Xenopus borealis. S1-nuclease protection experiments showed that 97%-98% of the rRNA precursor in hybrid tadpoles was of the X. laevis type. Preferential expression of the laevis rDNA was correlated w...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(82)90105-2
更新日期:1982-05-01 00:00:00
abstract::Initiation of tumorigenesis in mouse skin can be accomplished by mutagenesis of the H-ras gene by treatment with chemical carcinogens. A mouse model system has been developed to study the additional genetic events that take place during tumor progression. Skin carcinomas were induced in F1 hybrid mice exhibiting restr...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(90)90523-h
更新日期:1990-05-04 00:00:00
abstract::Despite the obvious importance of epithelial stem cells in tissue homeostasis and tumorigenesis, little is known about their specific location or biological characteristics. Using 3H-thymidine labeling, we have identified a subpopulation of corneal epithelial basal cells, located in the peripheral cornea in a region c...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(89)90958-6
更新日期:1989-04-21 00:00:00
abstract::A major problem in treatment of cancers arising in steroid-sensitive cells is their inevitable progression to a steroid-insensitive state; current therapies are based on the assumption that hormone insensitivity is associated with loss of receptor. We demonstrate for the first time that breast tumor cells can progress...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(87)90121-8
更新日期:1987-11-20 00:00:00
abstract::Polarity in mammalian cells emerges from the assembly of signaling molecules into extensive biochemical interaction networks. Despite their complexity, bacterial pathogens have evolved parsimonious mechanisms to hijack these systems. Here, we develop a tractable experimental and theoretical model to uncover fundamenta...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2011.11.063
更新日期:2012-02-17 00:00:00
abstract::Independently derived mutants of Chinese hamster ovary cells have been isolated and shown to exhibit a subtle glycosylation defect resulting in the premature termination of certain asparagine-linked carbohydrate moieties. This carbohydrate alteration is akin to the types of structural variation termed microheterogenei...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(81)90440-2
更新日期:1981-03-01 00:00:00
abstract::A model of hematopoietic development wherein multipotentiality is conserved until segregation of myeloid and lymphoid potential has recently been challenged, proposing that megakaryocyte/erythrocyte (MegE) potential is lost in Flk2/Flt3-expressing early progenitors. Here, we used sensitive in vivo approaches to quanti...
journal_title:Cell
pub_type: 信件
doi:10.1016/j.cell.2006.06.037
更新日期:2006-07-28 00:00:00
abstract::Yeast mutants lacking meiotic proteins Zip1, Zip2, Zip3, Mer3, and/or Msh5 (ZMMs) were analyzed for recombination, synaptonemal complex (SC), and meiotic progression. At 33 degrees C, recombination-initiating double-strand breaks (DSBs) and noncrossover products (NCRs) form normally while formation of single-end invas...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/s0092-8674(04)00292-2
更新日期:2004-04-02 00:00:00
abstract::How metazoan mechanotransduction channels sense mechanical stimuli is not well understood. The NOMPC channel in the transient receptor potential (TRP) family, a mechanotransduction channel for Drosophila touch sensation and hearing, contains 29 Ankyrin repeats (ARs) that associate with microtubules. These ARs have bee...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/j.cell.2015.08.024
更新日期:2015-09-10 00:00:00
abstract::Proteolytic fragments of human plasma fibronectin were used to identify monoclonal antibodies reacting with the various domains of fibronectin. One of these antibodies, which reacts with cell-attachment-promoting fragments of fibronectin, inhibits attachment of cells to fibronectin-coated surfaces. A cell-attachment-p...
journal_title:Cell
pub_type: 杂志文章
doi:10.1016/0092-8674(81)90308-1
更新日期:1981-10-01 00:00:00