Prevalence of the Chloroflexi-related SAR202 bacterioplankton cluster throughout the mesopelagic zone and deep ocean.

Abstract:

:Since their initial discovery in samples from the north Atlantic Ocean, 16S rRNA genes related to the environmental gene clone cluster known as SAR202 have been recovered from pelagic freshwater, marine sediment, soil, and deep subsurface terrestrial environments. Together, these clones form a major, monophyletic subgroup of the phylum Chloroflexi: While members of this diverse group are consistently identified in the marine environment, there are currently no cultured representatives, and very little is known about their distribution or abundance in the world's oceans. In this study, published and newly identified SAR202-related 16S rRNA gene sequences were used to further resolve the phylogeny of this cluster and to design taxon-specific oligonucleotide probes for fluorescence in situ hybridization. Direct cell counts from the Bermuda Atlantic time series study site in the north Atlantic Ocean, the Hawaii ocean time series site in the central Pacific Ocean, and along the Newport hydroline in eastern Pacific coastal waters showed that SAR202 cluster cells were most abundant below the deep chlorophyll maximum and that they persisted to 3600 m in the Atlantic Ocean and to 4000 m in the Pacific Ocean, the deepest samples used in this study. On average, members of the SAR202 group accounted for 10.2% (+/-5.7%) of all DNA-containing bacterioplankton between 500 and 4000 m.

journal_name

Appl Environ Microbiol

authors

Morris RM,Rappé MS,Urbach E,Connon SA,Giovannoni SJ

doi

10.1128/aem.70.5.2836-2842.2004

keywords:

subject

Has Abstract

pub_date

2004-05-01 00:00:00

pages

2836-42

issue

5

eissn

0099-2240

issn

1098-5336

journal_volume

70

pub_type

杂志文章
  • Isolation of Vibrio cholerae serotype O1 from the eastern oyster, Crassostrea virginica.

    abstract::Two strains of Vibrio cholerae serotype O1 Inaba were isolated from eastern oysters, Crassostrea virginica, collected from estuarine waters in Florida during April 1980. The oyster meats and waters from which the oysters were collected had low fecal coliform counts, and the area had no prior evidence of sewage contami...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.41.2.559-560.1981

    authors: Hood MA,Ness GE,Rodrick GE

    更新日期:1981-02-01 00:00:00

  • Inactivation Kinetics and Mechanism of a Human Norovirus Surrogate on Stainless Steel Coupons via Chlorine Dioxide Gas.

    abstract::Acute gastroenteritis caused by human norovirus is a significant public health issue. Fresh produce and seafood are examples of high-risk foods associated with norovirus outbreaks. Food contact surfaces also have the potential to harbor noroviruses if exposed to fecal contamination, aerosolized vomitus, or infected fo...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.02489-15

    authors: Yeap JW,Kaur S,Lou F,DiCaprio E,Morgan M,Linton R,Li J

    更新日期:2015-10-16 00:00:00

  • Characterization of the central metabolic pathways in Thermoanaerobacter sp. strain X514 via isotopomer-assisted metabolite analysis.

    abstract::Thermoanaerobacter sp. strain X514 has great potential in biotechnology due to its capacity to ferment a range of C(5) and C(6) sugars to ethanol and other metabolites under thermophilic conditions. This study investigated the central metabolism of strain X514 via (13)C-labeled tracer experiments using either glucose ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.00715-09

    authors: Feng X,Mouttaki H,Lin L,Huang R,Wu B,Hemme CL,He Z,Zhang B,Hicks LM,Xu J,Zhou J,Tang YJ

    更新日期:2009-08-01 00:00:00

  • Viruses as partners in spring bloom microbial trophodynamics.

    abstract::Population sizes of algae, bacteria, heterotrophic flagellates, and viruses were observed through the 1989 spring diatom bloom in Raunefjorden in western Norway. The culmination of the diatom bloom was followed by a peak in the concentration of bacteria and an increase in the concentration of heterotrophic flagellates...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.56.5.1400-1405.1990

    authors: Bratbak G,Heldal M,Norland S,Thingstad TF

    更新日期:1990-05-01 00:00:00

  • Activity of glutaraldehyde at low concentrations (less than 2%) against poliovirus and its relevance to gastrointestinal endoscope disinfection procedures.

    abstract::The activity of glutaraldehyde (GTA) at low concentrations (less than 2%) against poliovirus was assessed by a suspension procedure. The inactivation kinetics showed that concentrations of less than or equal to 0.10% were effective against purified poliovirus at pH 7.2; a 1 log10 reduction was obtained in 70 min with ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.57.4.1156-1160.1991

    authors: Bailly JL,Chambon M,Peigue-Lafeuille H,Laveran H,De Champs C,Beytout D

    更新日期:1991-04-01 00:00:00

  • Modeling of pathogen survival during simulated gastric digestion.

    abstract::The objective of the present study was to develop a mathematical model of pathogenic bacterial inactivation kinetics in a gastric environment in order to further understand a part of the infectious dose-response mechanism. The major bacterial pathogens Listeria monocytogenes, Escherichia coli O157:H7, and Salmonella s...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.02139-10

    authors: Koseki S,Mizuno Y,Sotome I

    更新日期:2011-02-01 00:00:00

  • Toward biosynthetic design and implementation of Escherichia coli-derived paclitaxel and other heterologous polyisoprene compounds.

    abstract::Escherichia coli offers unparalleled engineering capacity in the context of heterologous natural product biosynthesis. However, as with other heterologous hosts, cellular metabolism must be designed or redesigned to support final compound formation. This task is at once complicated and aided by the fact that the cell ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章,评审

    doi:10.1128/AEM.07391-11

    authors: Jiang M,Stephanopoulos G,Pfeifer BA

    更新日期:2012-04-01 00:00:00

  • Evidence for the presence of Simkania negevensis in drinking water and in reclaimed wastewater in Israel.

    abstract::Simkania negevensis is a recently discovered chlamydia-like intracellular microorganism which has been associated with bronchiolitis in infants and with community-acquired pneumonia in adults; a high seroprevalence of antibodies to the microorganism has been found in various population groups. S. negevensis can be gro...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.70.6.3346-3351.2004

    authors: Kahane S,Platzner N,Dvoskin B,Itzhaki A,Friedman MG

    更新日期:2004-06-01 00:00:00

  • Analysis of the mycosamine biosynthesis and attachment genes in the nystatin biosynthetic gene cluster of Streptomyces noursei ATCC 11455.

    abstract::The polyene macrolide antibiotic nystatin produced by Streptomyces noursei contains a deoxyaminosugar mycosamine moiety attached to the C-19 carbon of the macrolactone ring through the beta-glycosidic bond. The nystatin biosynthetic gene cluster contains three genes, nysDI, nysDII, and nysDIII, encoding enzymes with p...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01122-07

    authors: Nedal A,Sletta H,Brautaset T,Borgos SE,Sekurova ON,Ellingsen TE,Zotchev SB

    更新日期:2007-11-01 00:00:00

  • Large-Scale Transposition Mutagenesis of Streptomyces coelicolor Identifies Hundreds of Genes Influencing Antibiotic Biosynthesis.

    abstract::Gram-positive Streptomyces bacteria produce thousands of bioactive secondary metabolites, including antibiotics. To systematically investigate genes affecting secondary metabolism, we developed a hyperactive transposase-based Tn5 transposition system and employed it to mutagenize the model species Streptomyces coelico...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.02889-16

    authors: Xu Z,Wang Y,Chater KF,Ou HY,Xu HH,Deng Z,Tao M

    更新日期:2017-03-02 00:00:00

  • Life, death, and in-between: meanings and methods in microbiology.

    abstract::Determination of microbial viability by the plate count method is routine in microbiology laboratories worldwide. However, limitations of the technique, particularly with respect to environmental microorganisms, are widely recognized. Many alternatives based upon viability staining have been proposed, and these are of...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章,评审

    doi:10.1128/AEM.00744-11

    authors: Davey HM

    更新日期:2011-08-15 00:00:00

  • Biodegradation and biotransformation of groundwater pollutant mixtures by Mycobacterium vaccae.

    abstract::Mycobacterium vaccae can catabolize a number of major groundwater pollutants. When added singly, acetone, cyclohexane, styrene, benzene, ethylbenzene, propylbenzene, dioxane, and 1,2-dichloroethylene can be catabolized by M. vaccae. Catabolism of a number of these chemicals was monitored by gas-chromatographic analysi...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.59.4.1025-1029.1993

    authors: Burback BL,Perry JJ

    更新日期:1993-04-01 00:00:00

  • Emulsifier of Arthrobacter RAG-1: isolation and emulsifying properties.

    abstract::The oil-degrading Arthrobacter sp. RAG-1 produced an extracellular nondialyzable emulsifying agent when grown on hexadecane, ethanol, or acetate medium. The emulsifier was prepared by two procedures: (i) heptane extraction of the cell-free culture medium and (ii) precipitation with ammonium sulfate. A convenient assay...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.37.3.402-408.1979

    authors: Rosenberg E,Zuckerberg A,Rubinovitz C,Gutnick DL

    更新日期:1979-03-01 00:00:00

  • Evaluation of the Organon-Teknika MICRO-ID LISTERIA system.

    abstract::The MICRO-ID LISTERIA system, designed to identify Listeria isolates to species level within 24 h, was compared with conventional biochemical identification. MICRO-ID LISTERIA used in combination with the CAMP test correctly identified 409 (98.8%) of 414 strains isolated from human, animal, food, and environmental sou...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.58.6.2011-2015.1992

    authors: Bannerman E,Yersin MN,Bille J

    更新日期:1992-06-01 00:00:00

  • Novel Rickettsiella bacterium in the leafhopper Orosius albicinctus (Hemiptera: Cicadellidae).

    abstract::Bacteria in the genus Rickettsiella (Coxiellaceae), which are mainly known as arthropod pathogens, are emerging as excellent models to study transitions between mutualism and pathogenicity. The current report characterizes a novel Rickettsiella found in the leafhopper Orosius albicinctus (Hemiptera: Cicadellidae), a m...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.00721-13

    authors: Iasur-Kruh L,Weintraub PG,Mozes-Daube N,Robinson WE,Perlman SJ,Zchori-Fein E

    更新日期:2013-07-01 00:00:00

  • Development of genetic tools for Lactobacillus sakei: disruption of the beta-galactosidase gene and use of lacZ as a reporter gene To study regulation of the putative copper ATPase, AtkB.

    abstract::Downstream from the ptsHI operon of Lactobacillus sakei, the genes atkY and atkB, organized in an operon, were observed. The two putative proteins, AtkB and AtkY, show sequence similarity to the Enterococcus hirae copper P-type ATPase, responsible for copper efflux, and its negative regulator. Characterization of AtkB...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/aem.66.10.4272-4278.2000

    authors: Stentz R,Loizel C,Malleret C,Zagorec M

    更新日期:2000-10-01 00:00:00

  • Persistence and differential survival of fecal indicator bacteria in subtropical waters and sediments.

    abstract::Fecal coliforms and enterococci are indicator organisms used worldwide to monitor water quality. These bacteria are used in microbial source tracking (MST) studies, which attempt to assess the contribution of various host species to fecal pollution in water. Ideally, all strains of a given indicator organism (IO) woul...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.71.6.3041-3048.2005

    authors: Anderson KL,Whitlock JE,Harwood VJ

    更新日期:2005-06-01 00:00:00

  • Cloning and characterization of a gene encoding a cell-bound, extracellular beta-glucosidase in the yeast Candida wickerhamii.

    abstract::The ability of yeasts to ferment cellodextrins is rare. Candida wickerhamii is able to use these sugars for alcohol production because of a cell-bound, extracellular, beta-glucosidase that is unusual by not being inhibited by glucose. A cDNA expression library in lambda phage was prepared with mRNA isolated from cello...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.61.2.518-525.1995

    authors: Skory CD,Freer SN

    更新日期:1995-02-01 00:00:00

  • Silage collected from dairy farms harbors an abundance of listeriaphages with considerable host range and genome size diversity.

    abstract::Since the food-borne pathogen Listeria monocytogenes is common in dairy farm environments, it is likely that phages infecting this bacterium ("listeriaphages") are abundant on dairy farms. To better understand the ecology and diversity of listeriaphages on dairy farms and to develop a diverse phage collection for furt...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01859-12

    authors: Vongkamjan K,Switt AM,den Bakker HC,Fortes ED,Wiedmann M

    更新日期:2012-12-01 00:00:00

  • Ecological constraints limit the fitness of fungal hybrids in the Heterobasidion annosum species complex.

    abstract::The ability of two closely related species to maintain species boundaries in spite of retained interfertility between them is a documented driving force of speciation. Experimental evidence to support possible interspecific postzygotic isolation mechanisms for organisms belonging to the kingdom Fungi is still missing....

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01135-07

    authors: Garbelotto M,Gonthier P,Nicolotti G

    更新日期:2007-10-01 00:00:00

  • Toxic and enzymatic activities of Vibrio vulnificus biotype 2 with respect to host specificity.

    abstract::In this work, the enzymatic activities of selected strains of biotypes 1 and 2 of Vabrio vulnificus were analyzed by using conventional methods and the API ZYM system. The toxic activities of extracellular products (ECPs) were further evaluated by in vitro and in vivo experiments. The ECPs of both biotypes (i) showed ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.62.7.2331-2337.1996

    authors: Biosca EG,Amaro C

    更新日期:1996-07-01 00:00:00

  • Pressure stabilization of proteins from extreme thermophiles.

    abstract::We describe the stabilization by pressure of enzymes, including a hydrogenase from Methanococcus jannaschii, an extremely thermophilic deep-sea methanogen. This is the first published report of proteins from thermophiles being stabilized by pressure. Inactivation studies of partially purified hydrogenases from an extr...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.60.3.932-939.1994

    authors: Hei DJ,Clark DS

    更新日期:1994-03-01 00:00:00

  • Thermophilic methanogenesis in a hot-spring algal-bacterial mat (71 to 30 degrees C).

    abstract::Algal-bacterial mats which grow in the effluent channels of alkaline hot springs provided an environment suitable for studying natural thermophilic methane producing bacteria. Methane was rapidly produced in cores taken from the meat and appeared to be an end product of decomposition of the algal-bacterial organic mat...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.35.6.1019-1026.1978

    authors: Ward DM

    更新日期:1978-06-01 00:00:00

  • Validation of a Previously Developed Geospatial Model That Predicts the Prevalence of Listeria monocytogenes in New York State Produce Fields.

    abstract::Technological advancements, particularly in the field of geographic information systems (GIS), have made it possible to predict the likelihood of foodborne pathogen contamination in produce production environments using geospatial models. Yet, few studies have examined the validity and robustness of such models. This ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.03088-15

    authors: Weller D,Shiwakoti S,Bergholz P,Grohn Y,Wiedmann M,Strawn LK

    更新日期:2015-11-20 00:00:00

  • Growth reduction of Listeria spp. caused by undefined industrial red smear cheese cultures and bacteriocin-producing Brevibacterium lines as evaluated in situ on soft cheese.

    abstract::The undefined microbial floras derived from the surface of ripe cheese which are used for the ripening of commercial red smear cheeses have a strong impact on the growth of Listeria spp. In some cases, these microbial consortia inhibit Listeria almost completely. From such undefined industrial cheese-ripening floras, ...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.63.12.4812-4817.1997

    authors: Eppert I,Valdés-Stauber N,Götz H,Busse M,Scherer S

    更新日期:1997-12-01 00:00:00

  • Contribution of pilA to competitive colonization of the squid Euprymna scolopes by Vibrio fischeri.

    abstract::Vibrio fischeri colonizes the squid Euprymna scolopes in a mutualistic symbiosis. Hatchling squid lack these bacterial symbionts, and V. fischeri strains must compete to occupy this privileged niche. We cloned a V. fischeri gene, designated pilA, that contributes to colonization competitiveness and encodes a protein s...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/aem.69.2.820-826.2003

    authors: Stabb EV,Ruby EG

    更新日期:2003-02-01 00:00:00

  • Lactic Acid Bacteria in Durum Wheat Flour Are Endophytic Components of the Plant during Its Entire Life Cycle.

    abstract::This study aimed at assessing the dynamics of lactic acid bacteria and other Firmicutes associated with durum wheat organs and processed products. 16S rRNA gene-based high-throughput sequencing showed that Lactobacillus, Streptococcus, Enterococcus, and Lactococcus were the main epiphytic and endophytic genera among l...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01852-15

    authors: Minervini F,Celano G,Lattanzi A,Tedone L,De Mastro G,Gobbetti M,De Angelis M

    更新日期:2015-10-01 00:00:00

  • Chimeric lactase capable of spontaneous and strong immobilization on cellulose and development of a continuous-flow system for lactose hydrolysis at high temperatures.

    abstract::Recombinant plasmids containing fusion proteins composed of two different modules were constructed and expressed in Escherichia coli. The modules encoded the lactase LacA (LacZ) from the thermophilic bacterium Thermoanaerobacter ethanolicus and the cellulase CelD, a cellulose-binding module (CBM) from Anaerocellum the...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01517-10

    authors: Velikodvorskaya GA,Tikhonova TV,Gurvits ID,Karyagina AS,Lavrova NV,Sergienko OV,Tashlitskii VN,Lunina NA,Lunin VG

    更新日期:2010-12-01 00:00:00

  • Application of rapid dot blot immunoassay for detection of Salmonella enterica serovar enteritidis in eggs, poultry, and other foods.

    abstract::Salmonella enterica serovar Enteritidis was detected in artificially inoculated eggs within 24 h through a rapid monoclonal antibody-based dot blot immunoassay. Detection in poultry and other products required 28 h. Samples were directly enriched in homogenized egg without the need for pre- or postenrichment steps. Se...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.67.1.459-461.2001

    authors: Yoshimasu MA,Zawistowski J

    更新日期:2001-01-01 00:00:00

  • Effects of Medicago truncatula genetic diversity, rhizobial competition, and strain effectiveness on the diversity of a natural sinorhizobium species community.

    abstract::We investigated the genetic diversity and symbiotic efficiency of 223 Sinorhizobium sp. isolates sampled from a single Mediterranean soil and trapped with four Medicago truncatula lines. DNA molecular polymorphism was estimated by capillary electrophoresis-single-stranded conformation polymorphism and restriction frag...

    journal_title:Applied and environmental microbiology

    pub_type: 杂志文章

    doi:10.1128/AEM.01107-08

    authors: Rangin C,Brunel B,Cleyet-Marel JC,Perrineau MM,Béna G

    更新日期:2008-09-01 00:00:00