Bacteria are different: observations, interpretations, speculations, and opinions about the mechanisms of adaptive evolution in prokaryotes.

Abstract:

:To some extent, the genetic theory of adaptive evolution in bacteria is a simple extension of that developed for sexually reproducing eukaryotes. In other, fundamental ways, the process of adaptive evolution in bacteria is quantitatively and qualitatively different from that of organisms for which recombination is an integral part of the reproduction process. In this speculative and opinionated discussion, we explore these differences. In particular, we consider (i) how, as a consequence of the low rates of recombination, "ordinary" chromosomal gene evolution in bacteria is different from that in organisms where recombination is frequent and (ii) the fundamental role of the horizontal transmission of genes and accessory genetic elements as sources of variation in bacteria. We conclude with speculations about the evolution of accessory elements and their role in the adaptive evolution of bacteria.

authors

Levin BR,Bergstrom CT

doi

10.1073/pnas.97.13.6981

keywords:

subject

Has Abstract

pub_date

2000-06-20 00:00:00

pages

6981-5

issue

13

eissn

0027-8424

issn

1091-6490

pii

97/13/6981

journal_volume

97

pub_type

杂志文章,评审
  • Dominant factors controlling glacial and interglacial variations in the treeline elevation in tropical Africa.

    abstract::The knowledge of tropical palaeoclimates is crucial for understanding global climate change, because it is a test bench for general circulation models that are ultimately used to predict future global warming. A longstanding issue concerning the last glacial maximum in the tropics is the discrepancy between the decrea...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0610109104

    authors: Wu H,Guiot J,Brewer S,Guo Z,Peng C

    更新日期:2007-06-05 00:00:00

  • Phase identity of the maize leaf is determined after leaf initiation.

    abstract::The vegetative development of the maize shoot can be divided into juvenile and adult phases based on the types of leaves produced at different times in shoot development. Models for the regulation of phase change make explicit predictions about when the identity of these types of leaves is determined. To test these mo...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.180301597

    authors: Orkwiszewski JA,Poethig RS

    更新日期:2000-09-12 00:00:00

  • Multiwavelength anomalous diffraction analysis at the M absorption edges of uranium.

    abstract::The multiwavelength anomalous diffraction (MAD) method for phase evaluation is now widely used in macromolecular crystallography. Successful MAD structure determinations have been carried out at the K or L absorption edges of a variety of elements. In this study, we investigate the anomalous scattering properties of u...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.191003998

    authors: Liu Y,Ogata CM,Hendrickson WA

    更新日期:2001-09-11 00:00:00

  • Nonconscious activation of placebo and nocebo pain responses.

    abstract::The dominant theories of human placebo effects rely on a notion that consciously perceptible cues, such as verbal information or distinct stimuli in classical conditioning, provide signals that activate placebo effects. However, growing evidence suggest that behavior can be triggered by stimuli presented outside of co...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章,随机对照试验

    doi:10.1073/pnas.1202056109

    authors: Jensen KB,Kaptchuk TJ,Kirsch I,Raicek J,Lindstrom KM,Berna C,Gollub RL,Ingvar M,Kong J

    更新日期:2012-09-25 00:00:00

  • Mutants of Balb/c 3T3 fibroblasts defective in adhesiveness to substratum: evidence for alteration in cell surface proteins.

    abstract::Two mutants of Balb/c 3T3 cells defective in adhesiveness to substratum have been isolated. After exposure to a mutagen a cell population was treated with prostaglandin E1 and methylisobutylxanthine to elevate the cells 3':5'-cyclic AMP levels and adhesion to the substratum; then, loosley adherent cells were harvested...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.73.2.544

    authors: Pouysségur JM,Pastan I

    更新日期:1976-02-01 00:00:00

  • 3.3 Å structure of Niemann-Pick C1 protein reveals insights into the function of the C-terminal luminal domain in cholesterol transport.

    abstract::Niemann-Pick C1 (NPC1) and NPC2 proteins are indispensable for the export of LDL-derived cholesterol from late endosomes. Mutations in these proteins result in Niemann-Pick type C disease, a lysosomal storage disease. Despite recent reports of the NPC1 structure depicting its overall architecture, the function of its ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1711716114

    authors: Li X,Lu F,Trinh MN,Schmiege P,Seemann J,Wang J,Blobel G

    更新日期:2017-08-22 00:00:00

  • Antisense oligodeoxynucleotides to the cystic fibrosis transmembrane conductance regulator inhibit cAMP-activated but not calcium-activated chloride currents.

    abstract::Phosphorylation of the cystic fibrosis transmembrane conductance regulator (CFTR) by cAMP-dependent protein kinase leads to chloride flux in epithelial cells. Is CFTR also required for the calcium-dependent activation of chloride channels? We used antisense oligodeoxynucleotides to CFTR to reduce the expression of CFT...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.89.15.6785

    authors: Wagner JA,McDonald TV,Nghiem PT,Lowe AW,Schulman H,Gruenert DC,Stryer L,Gardner P

    更新日期:1992-08-01 00:00:00

  • Isolation and expression of rat liver sepiapterin reductase cDNA.

    abstract::Sepiapterin reductase (7,8-dihydrobiopterin: NADP+ oxidoreductase, EC 1.1.1.153) catalyzes the terminal step in the biosynthetic pathway for tetrahydrobiopterin, the cofactor necessary for aromatic amino acid hydroxylation. We report here the isolation of a cDNA clone for rat liver sepiapterin reductase. The cDNA has ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.87.16.6436

    authors: Citron BA,Milstien S,Gutierrez JC,Levine RA,Yanak BL,Kaufman S

    更新日期:1990-08-01 00:00:00

  • Development of CD4+ T cells expressing a nominally MHC class I-restricted T cell receptor by two different mechanisms.

    abstract::Differences in T cell receptor (TCR) signaling initiated by interactions among TCRs, coreceptors, and self-peptide-MHC complexes determine the outcome of CD4 versus CD8 lineage of T cell differentiation. The H-2Ld and Kbm3 alloreactive 2C TCR is positively selected by MHC class I Kb and a yet-to-be identified nonclass...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0510561103

    authors: Ge Q,Holler PD,Mahajan VS,Nuygen T,Eisen HN,Chen J

    更新日期:2006-02-07 00:00:00

  • Mutations in the telomerase component NHP2 cause the premature ageing syndrome dyskeratosis congenita.

    abstract::Dyskeratosis congenita is a premature aging syndrome characterized by muco-cutaneous features and a range of other abnormalities, including early greying, dental loss, osteoporosis, and malignancy. Dyskeratosis congenita cells age prematurely and have very short telomeres. Patients have mutations in genes that encode ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0800042105

    authors: Vulliamy T,Beswick R,Kirwan M,Marrone A,Digweed M,Walne A,Dokal I

    更新日期:2008-06-10 00:00:00

  • Top-down versus bottom-up and the Ruritanian bean bug.

    abstract::In a recent article, Hunter uses the late George Varley and George Gradwell's long-term data on the winter moth (Operophtera brumata) and green tortrix (Tortrix viridana) populations to propose a method of quantifying the relative importance of top-down effects (because of natural enemies) and bottom-up effects (becau...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.95.18.10661

    authors: Hassell MP,Crawley MJ,Godfray HC,Lawton JH

    更新日期:1998-09-01 00:00:00

  • The human papilloma virus 16E6 gene sensitizes human mammary epithelial cells to apoptosis induced by DNA damage.

    abstract::Programmed cell death (apoptosis) is a normal physiological process, which could in principle be manipulated to play an important role in cancer therapy. The key importance of p53 expression in the apoptotic response to DNA-damaging agents has been stressed because mutant or deleted p53 is so common in most kinds of c...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.92.17.7829

    authors: Xu C,Meikrantz W,Schlegel R,Sager R

    更新日期:1995-08-15 00:00:00

  • Dual-modality gene reporter for in vivo imaging.

    abstract::The ability to track cells and their patterns of gene expression in living organisms can increase our understanding of tissue development and disease. Gene reporters for bioluminescence, fluorescence, radionuclide, and magnetic resonance imaging (MRI) have been described but these suffer variously from limited depth p...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1319000111

    authors: Patrick PS,Hammersley J,Loizou L,Kettunen MI,Rodrigues TB,Hu DE,Tee SS,Hesketh R,Lyons SK,Soloviev D,Lewis DY,Aime S,Fulton SM,Brindle KM

    更新日期:2014-01-07 00:00:00

  • Broad and thematic remodeling of the surfaceome and glycoproteome on isogenic cells transformed with driving proliferative oncogenes.

    abstract::The cell surface proteome, the surfaceome, is the interface for engaging the extracellular space in normal and cancer cells. Here we apply quantitative proteomics of N-linked glycoproteins to reveal how a collection of some 700 surface proteins is dramatically remodeled in an isogenic breast epithelial cell line stabl...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1917947117

    authors: Leung KK,Wilson GM,Kirkemo LL,Riley NM,Coon JJ,Wells JA

    更新日期:2020-04-07 00:00:00

  • Expression of a mRNA related to c-rel and dorsal in early Xenopus laevis embryos.

    abstract::We describe a Xenopus mRNA, Xrel1, that is related to the avian protooncogene c-rel, the embryonic pattern gene dorsal of Drosophila, and the mammalian transcription factor NK-kappa B/KBF1. The sequence of Xrel1 is homologous to the other rel-related proteins in the large amino-terminal region that defines this class ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.88.7.2697

    authors: Kao KR,Hopwood ND

    更新日期:1991-04-01 00:00:00

  • Cell cycle inhibition provides neuroprotection and reduces glial proliferation and scar formation after traumatic brain injury.

    abstract::Traumatic brain injury (TBI) causes neuronal apoptosis, inflammation, and reactive astrogliosis, which contribute to secondary tissue loss, impaired regeneration, and associated functional disabilities. Here, we show that up-regulation of cell cycle components is associated with caspase-mediated neuronal apoptosis and...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0500989102

    authors: Di Giovanni S,Movsesyan V,Ahmed F,Cernak I,Schinelli S,Stoica B,Faden AI

    更新日期:2005-06-07 00:00:00

  • A nonperturbative approximation for the moderate Reynolds number Navier-Stokes equations.

    abstract::The nonlinearity of the Navier-Stokes equations makes predicting the flow of fluid around rapidly moving small bodies highly resistant to all approaches save careful experiments or brute force computation. Here, we show how a linearization of the Navier-Stokes equations captures the drag-determining features of the fl...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0810578106

    authors: Roper M,Brenner MP

    更新日期:2009-03-03 00:00:00

  • Resolution of single and double Holliday junction recombination intermediates by GEN1.

    abstract::Genetic recombination provides an important mechanism for the repair of DNA double-strand breaks. Homologous pairing and strand exchange lead to the formation of DNA intermediates, in which sister chromatids or homologous chromosomes are covalently linked by four-way Holliday junctions (HJs). Depending on the type of ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1619790114

    authors: Shah Punatar R,Martin MJ,Wyatt HD,Chan YW,West SC

    更新日期:2017-01-17 00:00:00

  • Discovery of deoxyceramides and diacylglycerols as CD1b scaffold lipids among diverse groove-blocking lipids of the human CD1 system.

    abstract::Unlike the dominant role of one class II invariant chain peptide (CLIP) in blocking MHC class II, comparative lipidomics analysis shows that human cluster of differentiation (CD) proteins CD1a, CD1b, CD1c, and CD1d bind lipids corresponding to hundreds of diverse accurate mass retention time values. Although most ions...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1112969108

    authors: Huang S,Cheng TY,Young DC,Layre E,Madigan CA,Shires J,Cerundolo V,Altman JD,Moody DB

    更新日期:2011-11-29 00:00:00

  • Inhibition of GCN2 sensitizes ASNS-low cancer cells to asparaginase by disrupting the amino acid response.

    abstract::General control nonderepressible 2 (GCN2) plays a major role in the cellular response to amino acid limitation. Although maintenance of amino acid homeostasis is critical for tumor growth, the contribution of GCN2 to cancer cell survival and proliferation is poorly understood. In this study, we generated GCN2 inhibito...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1805523115

    authors: Nakamura A,Nambu T,Ebara S,Hasegawa Y,Toyoshima K,Tsuchiya Y,Tomita D,Fujimoto J,Kurasawa O,Takahara C,Ando A,Nishigaki R,Satomi Y,Hata A,Hara T

    更新日期:2018-08-14 00:00:00

  • Perforin-low memory CD8+ cells are the predominant T cells in normal humans that synthesize the beta -chemokine macrophage inflammatory protein-1beta.

    abstract::The synthesis of antiviral beta-chemokines has joined cytolysis as a potential mechanism for the control of HIV-1 infection by CD8(+) T cells. Recent evidence suggests that these two effector functions can diverge in some individuals infected with HIV-1; however, little is known about the CD8(+) T cell subsets in norm...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.161298998

    authors: Kamin-Lewis R,Abdelwahab SF,Trang C,Baker A,DeVico AL,Gallo RC,Lewis GK

    更新日期:2001-07-31 00:00:00

  • Pleiotropic effects for Parkin and LRRK2 in leprosy type-1 reactions and Parkinson's disease.

    abstract::Type-1 reactions (T1R) are pathological inflammatory episodes and main contributors to nerve damage in leprosy. Here, we evaluate the genewise enrichment of rare protein-altering variants in 7 genes where common variants were previously associated with T1R. We selected 474 Vietnamese leprosy patients of which 237 were...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 临床试验,杂志文章,多中心研究

    doi:10.1073/pnas.1901805116

    authors: Fava VM,Xu YZ,Lettre G,Van Thuc N,Orlova M,Thai VH,Tao S,Croteau N,Eldeeb MA,MacDougall EJ,Cambri G,Lahiri R,Adams L,Fon EA,Trempe JF,Cobat A,Alcaïs A,Abel L,Schurr E

    更新日期:2019-07-30 00:00:00

  • Admixture mapping identifies 8q24 as a prostate cancer risk locus in African-American men.

    abstract::A whole-genome admixture scan in 1,597 African Americans identified a 3.8 Mb interval on chromosome 8q24 as significantly associated with susceptibility to prostate cancer [logarithm of odds (LOD) = 7.1]. The increased risk because of inheriting African ancestry is greater in men diagnosed before 72 years of age (P < ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0605832103

    authors: Freedman ML,Haiman CA,Patterson N,McDonald GJ,Tandon A,Waliszewska A,Penney K,Steen RG,Ardlie K,John EM,Oakley-Girvan I,Whittemore AS,Cooney KA,Ingles SA,Altshuler D,Henderson BE,Reich D

    更新日期:2006-09-19 00:00:00

  • RAM2, an essential gene of yeast, and RAM1 encode the two polypeptide components of the farnesyltransferase that prenylates a-factor and Ras proteins.

    abstract::In the yeast Saccharomyces cerevisiae, mutations in either of two unlinked genes, RAM1 or RAM2, abolish the farnesyltransferase activity responsible for prenylation of Ras proteins and the a-factor mating pheromone. Here we report that the function of RAM1 and RAM2 genes is required for the membrane localization of Ra...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.88.24.11373

    authors: He B,Chen P,Chen SY,Vancura KL,Michaelis S,Powers S

    更新日期:1991-12-15 00:00:00

  • Lipid monolayer image dipoles.

    abstract::A simple model is described for calculating the electrostatic energy of lipid domains at the air-water interface, taking account of dipole-dipole repulsions between the lipid molecules themselves, as well as interactions between the molecular dipoles and image dipoles in the subphase. The model assumes that the molecu...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.92.19.8823

    authors: McConnell HM,Bazaliy YB

    更新日期:1995-09-12 00:00:00

  • Double-stranded poliovirus RNA inhibits initiation of protein synthesis by reticulocyte lysates.

    abstract::Infection of HeLa cells with poliovirus results in an inhibition of host-cell protein synthesis. Cytoplasmic extracts from infected cells contian an activity that inhibits initiation of protein synthesis in vitro by rabbit reticulocyte lysates. This inhibitory activity has been purified and characterized, and is shown...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.68.5.1075

    authors: Ehrenfeld E,Hunt T

    更新日期:1971-05-01 00:00:00

  • Relative abundance of Alzheimer A beta amyloid peptide variants in Alzheimer disease and normal aging.

    abstract::The Alzheimer A beta amyloid peptide (A beta) is the principal proteinaceous component of amyloid associated with Alzheimer disease (AD). We have determined the relative abundance of A beta structural variants present in amyloid from brains of 10 individuals with sporadic AD, 2 individuals with familial AD carrying sp...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.91.18.8378

    authors: Näslund J,Schierhorn A,Hellman U,Lannfelt L,Roses AD,Tjernberg LO,Silberring J,Gandy SE,Winblad B,Greengard P

    更新日期:1994-08-30 00:00:00

  • Impacts of anthropogenic and natural NO(x) sources over the U.S. on tropospheric chemistry.

    abstract::We evaluate the impact of anthropogenic and natural NO(x) sources over the contiguous United States on tropospheric NO(x) and O(3) levels by using a global 3D chemical transport model. The effects of major U.S. surface NO(x) emission sources (including anthropogenic, biomass burning, and soil emissions) are compared w...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.252763799

    authors: Zhang R,Tie X,Bond DW

    更新日期:2003-02-18 00:00:00

  • Identification and partial characterization of hepatocyte-stimulating factor from leukemia cell lines: comparison with interleukin 1.

    abstract::Leukemia cell lines of the monocytic series (HL-60, U-937, and P388D1) produce a hepatocyte-stimulating factor (HSF) following induction of differentiation with phorbol diester. In 24-72 hr, these leukemia cells produce 2-30% the amount of HSF as human peripheral blood monocytes. Cells of the series at earlier stages ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.82.5.1443

    authors: Woloski BM,Fuller GM

    更新日期:1985-03-01 00:00:00

  • Identification of a binding site in the disintegrin domain of fertilin required for sperm-egg fusion.

    abstract::Fertilization and certain later stages in mammalian embryonic development require fusion between membranes of individual cells. The mechanism of eukaryotic cell-cell fusion is unknown, and no surface molecules required for this process have been unequivocally identified. The role of the sperm surface protein fertilin ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.91.10.4195

    authors: Myles DG,Kimmel LH,Blobel CP,White JM,Primakoff P

    更新日期:1994-05-10 00:00:00