Activity of abundant and rare bacteria in a coastal ocean.

Abstract:

:The surface layer of the oceans and other aquatic environments contains many bacteria that range in activity, from dormant cells to those with high rates of metabolism. However, little experimental evidence exists about the activity of specific bacterial taxa, especially rare ones. Here we explore the relationship between abundance and activity by documenting changes in abundance over time and by examining the ratio of 16S rRNA to rRNA genes (rDNA) of individual bacterial taxa. The V1-V2 region of 16S rRNA and rDNA was analyzed by tag pyrosequencing in a 3-y study of surface waters off the Delaware coast. Over half of the bacterial taxa actively cycled between abundant and rare, whereas about 12% always remained rare and potentially inactive. There was a significant correlation between the relative abundance of 16S rRNA and the relative abundance of 16S rDNA for most individual taxa. However, 16S rRNA:rDNA ratios were significantly higher in about 20% of the taxa when they were rare than when abundant. Relationships between 16S rRNA and rDNA frequencies were confirmed for five taxa by quantitative PCR. Our findings suggest that though abundance follows activity in the majority of the taxa, a significant portion of the rare community is active, with growth rates that decrease as abundance increases.

authors

Campbell BJ,Yu L,Heidelberg JF,Kirchman DL

doi

10.1073/pnas.1101405108

subject

Has Abstract

pub_date

2011-08-02 00:00:00

pages

12776-81

issue

31

eissn

0027-8424

issn

1091-6490

pii

1101405108

journal_volume

108

pub_type

杂志文章
  • High catalytic activity of Au/CeOx/TiO2(110) controlled by the nature of the mixed-metal oxide at the nanometer level.

    abstract::Mixed-metal oxides play a very important role in many areas of chemistry, physics, materials science, and geochemistry. Recently, there has been a strong interest in understanding phenomena associated with the deposition of oxide nanoparticles on the surface of a second (host) oxide. Here, scanning tunneling microscop...

    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.0812604106

    authors: Park JB,Graciani J,Evans J,Stacchiola D,Ma S,Liu P,Nambu A,Sanz JF,Hrbek J,Rodriguez JA

    更新日期:2009-03-31 00:00:00

  • Interaction of Escherichia coli 30S ribosomal subunits with MS2 phage RNA in the absence of initiation factors.

    abstract::MS2 RNA binds at 0 degrees to 30S subunits from E. coli and, to a smaller extent, to those of a Pseudomonas species, as judged by filtration on nitrocellulose membranes; this mRNA does not bind to 30S subunits from Bacillus brevis or Caulobacter crescentus. Binding does not depend on the presence of initiation factors...

    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.71.9.3611

    authors: Szer W,Leffler S

    更新日期:1974-09-01 00:00:00

  • Formins: phosphoprotein isoforms encoded by the mouse limb deformity locus.

    abstract::Mutations at the mouse limb deformity (ld) locus result in defects of growth and patterning of the limb and kidney during embryonic development. The gene responsible for this phenotype is large and complex, with the capacity to generate a number of alternatively spliced messenger RNA transcripts encoding nuclear prote...

    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.90.12.5554

    authors: Vogt TF,Jackson-Grusby L,Rush J,Leder P

    更新日期:1993-06-15 00:00:00

  • Molecular weight of the membrane C5b-9 complex of human complement: characterization of the terminal complex as a C5b-9 monomer.

    abstract::The hydrodynamic properties of the detergent-solubilized, terminal membrane complex of serum complement components C5-C9 [C5b-9(m)] were studied to obtain an estimate of its molecular weight. In a solution of Triton X-100/deoxycholate, the protein complex binds 17% Triton X-100 and 11% deoxycholate by weight. The sedi...

    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.78.3.1818

    authors: Bhakdi S,Tranum-Jensen J

    更新日期:1981-03-01 00:00:00

  • Exploring monovalent copper compounds with oxygen and hydrogen.

    abstract::New important applications of copper metal, e.g., in the areas of hydrogen production, fuel cell operation, and spent nuclear fuel disposal, require accurate knowledge of the physical and chemical properties of stable and metastable copper compounds. Among the copper(I) compounds with oxygen and hydrogen, cuprous oxid...

    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.1115834109

    authors: Korzhavyi PA,Soroka IL,Isaev EI,Lilja C,Johansson B

    更新日期:2012-01-17 00:00:00

  • Emergent magnetism at transition-metal-nanocarbon interfaces.

    abstract::Charge transfer at metallo-molecular interfaces may be used to design multifunctional hybrids with an emergent magnetization that may offer an eco-friendly and tunable alternative to conventional magnets and devices. Here, we investigate the origin of the magnetism arising at these interfaces by using different techni...

    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.1620216114

    authors: Al Ma'Mari F,Rogers M,Alghamdi S,Moorsom T,Lee S,Prokscha T,Luetkens H,Valvidares M,Teobaldi G,Flokstra M,Stewart R,Gargiani P,Ali M,Burnell G,Hickey BJ,Cespedes O

    更新日期:2017-05-30 00:00:00

  • Id1 restrains myeloid commitment, maintaining the self-renewal capacity of hematopoietic stem cells.

    abstract::Appropriate hematopoietic stem cell (HSC) self-renewal reflects the tight regulation of cell cycle entry and lineage commitment. Here, we show that Id1, a dominant-negative regulator of E protein transcription factors, maintains HSC self-renewal by preserving the undifferentiated state. Id1-deficient HSCs show increas...

    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.0607894104

    authors: Jankovic V,Ciarrocchi A,Boccuni P,DeBlasio T,Benezra R,Nimer SD

    更新日期:2007-01-23 00:00:00

  • Disassembly of the Staphylococcus aureus hibernating 100S ribosome by an evolutionarily conserved GTPase.

    abstract::The bacterial hibernating 100S ribosome is a poorly understood form of the dimeric 70S particle that has been linked to pathogenesis, translational repression, starvation responses, and ribosome turnover. In the opportunistic pathogen Staphylococcus aureus and most other bacteria, hibernation-promoting factor (HPF) ho...

    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.1709588114

    authors: Basu A,Yap MN

    更新日期:2017-09-26 00:00:00

  • The human sex-reversing ATRX gene has a homologue on the marsupial Y chromosome, ATRY: implications for the evolution of mammalian sex determination.

    abstract::Mutations in the ATRX gene on the human X chromosome cause X-linked alpha-thalassemia and mental retardation. XY patients with deletions or mutations in this gene display varying degrees of sex reversal, implicating ATRX in the development of the human testis. To explore further the role of ATRX in mammalian sex diffe...

    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.230424497

    authors: Pask A,Renfree MB,Marshall Graves JA

    更新日期:2000-11-21 00:00:00

  • Tissue nonautonomous effects of fat body methionine metabolism on imaginal disc repair in Drosophila.

    abstract::Regulatory mechanisms for tissue repair and regeneration within damaged tissue have been extensively studied. However, the systemic regulation of tissue repair remains poorly understood. To elucidate tissue nonautonomous control of repair process, it is essential to induce local damage, independent of genetic manipula...

    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.1523681113

    authors: Kashio S,Obata F,Zhang L,Katsuyama T,Chihara T,Miura M

    更新日期:2016-02-16 00:00:00

  • Activation of the multifunctional Ca2+/calmodulin-dependent protein kinase by autophosphorylation: ATP modulates production of an autonomous enzyme.

    abstract::The multifunctional Ca2+/calmodulin-dependent protein kinase purified from rat brain cytosol undergoes an intramolecular self-phosphorylation or autophosphorylation. Autophosphorylation produces two strikingly different effects on kinase activity that are dependent on the level of ATP used in the reaction. At low but ...

    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.83.24.9497

    authors: Lou LL,Lloyd SJ,Schulman H

    更新日期:1986-12-01 00:00:00

  • Identification of a receptor for gamma melanotropin and other proopiomelanocortin peptides in the hypothalamus and limbic system.

    abstract::Corticotropin (ACTH) and melanotropin (MSH) peptides (melanocortins) are produced not only in the pituitary but also in the brain, with highest concentrations in the arcuate nucleus of the hypothalamus and the commisural nucleus of the solitary tract. We have identified a receptor for MSH and ACTH peptides that is spe...

    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.90.19.8856

    authors: Roselli-Rehfuss L,Mountjoy KG,Robbins LS,Mortrud MT,Low MJ,Tatro JB,Entwistle ML,Simerly RB,Cone RD

    更新日期:1993-10-01 00:00:00

  • The Role of 1N-Ethenoadenosine Triphosphate and 1N-Ethenoadenosine Monophosphate in Firefly Luminescence.

    abstract::1,N(6)-Ethenoadenosine triphosphate (epsilon-ATP) has been found to be inactive as a substrate for firefly luciferase. However, chemically synthesized luciferyl-epsilonAMP is oxidized by luciferase and light is emitted. The color of the light is red in contrast to the normal yellow-green observed with luciferyladenyla...

    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.70.6.1664

    authors: Deluca M,Leonard NJ,Gates BJ,McElroy WD

    更新日期:1973-06-01 00:00:00

  • Nontypeable Haemophilus influenzae releases DNA and DNABII proteins via a T4SS-like complex and ComE of the type IV pilus machinery.

    abstract::Biofilms formed by nontypeable Haemophilus influenzae (NTHI) are central to the chronicity, recurrence, and resistance to treatment of multiple human respiratory tract diseases including otitis media, chronic rhinosinusitis, and exacerbations of both cystic fibrosis and chronic obstructive pulmonary disease. Extracell...

    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.1705508114

    authors: Jurcisek JA,Brockman KL,Novotny LA,Goodman SD,Bakaletz LO

    更新日期:2017-08-08 00:00:00

  • Relaxin binding in the rat heart atrium.

    abstract::Relaxin is a member of the insulin family of polypeptides that is best known as a reproductive hormone. In an effort to elucidate the mechanism of action of relaxin we previously localized the specific binding sites of a 32P-labeled relaxin in the rat uterus and brain. These studies suggested that, in addition to 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.89.6.2384

    authors: Osheroff PL,Cronin MJ,Lofgren JA

    更新日期:1992-03-15 00:00:00

  • Evolution of sexual cooperation from sexual conflict.

    abstract::In many species that form pair bonds, males display to their mate after pair formation. These displays elevate the female's investment into the brood. This is a form of cooperation because without the display, female investment is reduced to levels that are suboptimal for both sexes. The presence of such displays is 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.1904138116

    authors: Servedio MR,Powers JM,Lande R,Price TD

    更新日期:2019-11-12 00:00:00

  • How cytotoxic T cells manage to discriminate nonself from self at the nonapeptide level.

    abstract::Class I major histocompatibility complex (MHC) antigens are confronted with an apparently insurmountable dilemma. Each should show a binding preference to a common enough variety of nonapeptides, so that one relevant nonapeptide can be found in at least every other viral protein to provoke a cytotoxic T-cell response....

    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.89.10.4643

    authors: Ohno S

    更新日期:1992-05-15 00:00:00

  • In vivo function of mutated spliced leader RNAs in Caenorhabditis elegans.

    abstract::The role of spliced leader RNA (SL RNA) in trans-splicing in Caenorhabditis elegans has been studied through a combination of in vitro mutagenesis and in vivo complementation of rrs-1 mutant nematodes, which lack endogenous SL1 RNA. Three classes of mutant SL1 RNAs have been found-those that rescue the lethal phenotyp...

    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.95.8.4235

    authors: Xie H,Hirsh D

    更新日期:1998-04-14 00:00:00

  • Transcriptional signature with differential expression of BCL6 target genes accurately identifies BCL6-dependent diffuse large B cell lymphomas.

    abstract::Diffuse large B cell lymphomas (DLBCLs) often express BCL6, a transcriptional repressor required for the formation of normal germinal centers. In a subset of DLBCLs, BCL6 is deregulated by chromosomal translocations or aberrant somatic hypermutation; in other tumors, BCL6 expression may simply reflect germinal center ...

    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.0611399104

    authors: Polo JM,Juszczynski P,Monti S,Cerchietti L,Ye K,Greally JM,Shipp M,Melnick A

    更新日期:2007-02-27 00:00:00

  • Amantadine-induced conformational and dynamical changes of the influenza M2 transmembrane proton channel.

    abstract::The M2 protein of influenza A virus forms a transmembrane proton channel important for viral infection and replication. Amantadine blocks this channel, thus inhibiting viral replication. Elucidating the high-resolution structure of the M2 protein and its change upon amantadine binding is crucial for designing antivira...

    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.0711500105

    authors: Cady SD,Hong M

    更新日期:2008-02-05 00:00:00

  • Structure, function, and evolution of transient and obligate protein-protein interactions.

    abstract::Recent analyses of high-throughput protein interaction data coupled with large-scale investigations of evolutionary properties of interaction networks have left some unanswered questions. To what extent do protein interactions act as constraints during evolution of the protein sequence? How does the type of interactio...

    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.0502667102

    authors: Mintseris J,Weng Z

    更新日期:2005-08-02 00:00:00

  • Mixture models and exploratory analysis in networks.

    abstract::Networks are widely used in the biological, physical, and social sciences as a concise mathematical representation of the topology of systems of interacting components. Understanding the structure of these networks is one of the outstanding challenges in the study of complex systems. Here we describe a general techniq...

    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.0610537104

    authors: Newman ME,Leicht EA

    更新日期:2007-06-05 00:00:00

  • Neonatal suprachiasmatic nucleus ablation: absence of functional and morphological plasticity.

    abstract::Neonatal ablation of the suprachiasmatic nucleus in the rat has two important consequences. First, the direct projection from the retina to the suprachiasmatic nucleus fails to develop and no other retinal projection to any hypothalamic nucleus is formed. Second, circadian rhythms in drinking and spontaneous locomotor...

    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.75.12.6243

    authors: Mosko S,Moore RY

    更新日期:1978-12-01 00:00:00

  • Protease-based synthetic sensing and signal amplification.

    abstract::The bottom-up design of protein-based signaling networks is a key goal of synthetic biology; yet, it remains elusive due to our inability to tailor-make signal transducers and receptors that can be readily compiled into defined signaling networks. Here, we report a generic approach for the construction of protein-base...

    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.1405220111

    authors: Stein V,Alexandrov K

    更新日期:2014-11-11 00:00:00

  • Effects of mechanical signaling on plant cell cytosolic calcium.

    abstract::Mechanical signals are important influences on the development and morphology of higher plants. Using tobacco transformed with the Ca(2+)-sensitive luminescent protein aequorin, we recently reported the effects of mechanical signals of touch and wind on the luminescence and thus intracellular calcium of young seedling...

    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.92.10.4124

    authors: Haley A,Russell AJ,Wood N,Allan AC,Knight M,Campbell AK,Trewavas AJ

    更新日期:1995-05-09 00:00:00

  • Itinerant ferromagnetism of the Pd-terminated polar surface of PdCoO2.

    abstract::The ability to modulate the collective properties of correlated electron systems at their interfaces and surfaces underpins the burgeoning field of "designer" quantum materials. Here, we show how an electronic reconstruction driven by surface polarity mediates a Stoner-like magnetic instability to itinerant ferromagne...

    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.1811873115

    authors: Mazzola F,Sunko V,Khim S,Rosner H,Kushwaha P,Clark OJ,Bawden L,Marković I,Kim TK,Hoesch M,Mackenzie AP,King PDC

    更新日期:2018-12-18 00:00:00

  • Enhanced receptor-clathrin interactions induced by N-glycan-mediated membrane micropatterning.

    abstract::Glycan-protein interactions are emerging as important modulators of membrane protein organization and dynamics, regulating multiple cellular functions. In particular, it has been postulated that glycan-mediated interactions regulate surface residence time of glycoproteins and endocytosis. How this precisely occurs is ...

    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.1402041111

    authors: Torreno-Pina JA,Castro BM,Manzo C,Buschow SI,Cambi A,Garcia-Parajo MF

    更新日期:2014-07-29 00:00:00

  • Type 1/type 2 cytokine modulation of T-cell programmed cell death as a model for human immunodeficiency virus pathogenesis.

    abstract::In vitro T-cell receptor-induced programmed cell death in both activated T cells from human immunodeficiency virus-seronegative (HIV-) donors and resting T cells from HIV+ donors was substantially influenced by cytokines. Addition of exogenous recombinant "type 1" lymphokines interferon gamma and interleukin 2 (IL-2),...

    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.91.25.11811

    authors: Clerici M,Sarin A,Coffman RL,Wynn TA,Blatt SP,Hendrix CW,Wolf SF,Shearer GM,Henkart PA

    更新日期:1994-12-06 00:00:00

  • Dissection of the role of MHC class II A and E genes in autoimmune susceptibility in murine lupus models with intragenic recombination.

    abstract::Systemic lupus erythematosus (SLE) is a multigenic autoimmune disease, and the major histocompatibility complex (MHC) class II polymorphism serves as a key genetic element. In SLE-prone (NZB x NZW)F(1) mice, the MHC H-2(d/z) heterozygosity (H-2(d) of NZB and H-2(z) of NZW) has a strong impact on disease; thus, congeni...

    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.0405807101

    authors: Zhang D,Fujio K,Jiang Y,Zhao J,Tada N,Sudo K,Tsurui H,Nakamura K,Yamamoto K,Nishimura H,Shira T,Hirose S

    更新日期:2004-09-21 00:00:00

  • Isolation and identification of enkephalins in pedal ganglia of Mytilus edulis (Mollusca).

    abstract::An acid extract of pedal ganglia of the mollusc Mytilus edulis was fractionated by high-pressure liquid chromatography with a reverse-phase column. Peak fractions with retention times of those of [Met]- and [Leu]enkephalin were subjected to binding assays in both invertebrate and vertebrate tissues. The results showed...

    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.81.3.955

    authors: Leung MK,Stefano GB

    更新日期:1984-02-01 00:00:00