Diversity of Metabolically Active Bacteria in Water-Flooded High-Temperature Heavy Oil Reservoir.

Abstract:

:The goal of this work was to study the overall genomic diversity of microorganisms of the Dagang high-temperature oilfield (PRC) and to characterize the metabolically active fraction of these populations. At this water-flooded oilfield, the microbial community of formation water from the near-bottom zone of an injection well where the most active microbial processes of oil degradation occur was investigated using molecular, cultural, radiotracer, and physicochemical techniques. The samples of microbial DNA and RNA from back-flushed water were used to obtain the clone libraries for the 16S rRNA gene and cDNA of 16S rRNA, respectively. The DNA-derived clone libraries were found to contain bacterial and archaeal 16S rRNA genes and the alkB genes encoding alkane monooxygenases similar to those encoded by alkB-geo1 and alkB-geo6 of geobacilli. The 16S rRNA genes of methanogens (Methanomethylovorans, Methanoculleus, Methanolinea, Methanothrix, and Methanocalculus) were predominant in the DNA-derived library of Archaea cloned sequences; among the bacterial sequences, the 16S rRNA genes of members of the genus Geobacillus were the most numerous. The RNA-derived library contained only bacterial cDNA of the 16S rRNA sequences belonging to metabolically active aerobic organotrophic bacteria (Tepidimonas, Pseudomonas, Acinetobacter), as well as of denitrifying (Azoarcus, Tepidiphilus, Calditerrivibrio), fermenting (Bellilinea), iron-reducing (Geobacter), and sulfate- and sulfur-reducing bacteria (Desulfomicrobium, Desulfuromonas). The presence of the microorganisms of the main functional groups revealed by molecular techniques was confirmed by the results of cultural, radioisotope, and geochemical research. Functioning of the mesophilic and thermophilic branches was shown for the microbial food chain of the near-bottom zone of the injection well, which included the microorganisms of the carbon, sulfur, iron, and nitrogen cycles.

journal_name

Front Microbiol

authors

Nazina TN,Shestakova NM,Semenova EM,Korshunova AV,Kostrukova NK,Tourova TP,Min L,Feng Q,Poltaraus AB

doi

10.3389/fmicb.2017.00707

subject

Has Abstract

pub_date

2017-04-25 00:00:00

pages

707

issn

1664-302X

journal_volume

8

pub_type

杂志文章
  • Characterization of Bacteriophage Peptides of Pathogenic Streptococcus by LC-ESI-MS/MS: Bacteriophage Phylogenomics and Their Relationship to Their Host.

    abstract::The present work focuses on LC-ESI-MS/MS (liquid chromatography-electrospray ionization-tandem mass spectrometry) analysis of phage-origin tryptic digestion peptides from mastitis-causing Streptococcus spp. isolated from milk. A total of 2,546 non-redundant peptides belonging to 1,890 proteins were identified and anal...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2020.01241

    authors: Abril AG,Carrera M,Böhme K,Barros-Velázquez J,Cañas B,Rama JLR,Villa TG,Calo-Mata P

    更新日期:2020-06-09 00:00:00

  • Deficiency in Lipoteichoic Acid Synthesis Causes a Failure in Executing the Colony Developmental Program in Bacillus subtilis.

    abstract::Colonies are an abundant form of bacterial multicellularity; however, relatively little is known about the initial stages of their construction. We have previously described that colony development of the soil bacterium Bacillus subtilis is a highly ordered process, typically initiating with the formation of extending...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2017.01991

    authors: Mamou G,Fiyaksel O,Sinai L,Ben-Yehuda S

    更新日期:2017-10-24 00:00:00

  • Fourth Generation Cephalosporin Resistance Among Salmonella enterica Serovar Enteritidis Isolates in Shanghai, China Conferred by bla CTX-M-55 Harboring Plasmids.

    abstract::In this study, we investigated the pattern of antimicrobial resistance in Salmonella enterica serotype Enteritidis isolates in Shanghai, China from 2005 to 2014. We found the first isolates with resistance to the fourth-generation cephalosporin cefepime starting in 2010. Furthermore, we analyzed the epidemic character...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2020.00910

    authors: Fu Y,Xu X,Zhang L,Xiong Z,Ma Y,Wei Y,Chen Z,Bai J,Liao M,Zhang J

    更新日期:2020-05-15 00:00:00

  • The Novel Anaerobiosis-Responsive Overlapping Gene ano Is Overlapping Antisense to the Annotated Gene ECs2385 of Escherichia coli O157:H7 Sakai.

    abstract::Current notion presumes that only one protein is encoded at a given bacterial genetic locus. However, transcription and translation of an overlapping open reading frame (ORF) of 186 bp length were discovered by RNAseq and RIBOseq experiments. This ORF is almost completely embedded in the annotated L,D-transpeptidase g...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2018.00931

    authors: Hücker SM,Vanderhaeghen S,Abellan-Schneyder I,Scherer S,Neuhaus K

    更新日期:2018-05-14 00:00:00

  • Recovering Genomics Clusters of Secondary Metabolites from Lakes Using Genome-Resolved Metagenomics.

    abstract::Metagenomic approaches became increasingly popular in the past decades due to decreasing costs of DNA sequencing and bioinformatics development. So far, however, the recovery of long genes coding for secondary metabolites still represents a big challenge. Often, the quality of metagenome assemblies is poor, especially...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2018.00251

    authors: Cuadrat RRC,Ionescu D,Dávila AMR,Grossart HP

    更新日期:2018-02-20 00:00:00

  • The Endophytic Mycobiome of European Ash and Sycamore Maple Leaves - Geographic Patterns, Host Specificity and Influence of Ash Dieback.

    abstract::The European ash (Fraxinus excelsior) is threatened by the introduced ascomycete Hymenoscyphus fraxineus, the causal agent of ash dieback. Endophytic fungi are known to modulate their host's resistance against pathogens. To understand possible consequences of ash dieback on the endophytic mycobiome, F. excelsior leave...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2018.02345

    authors: Schlegel M,Queloz V,Sieber TN

    更新日期:2018-10-24 00:00:00

  • Vaginal Lactobacillus Inhibits HIV-1 Replication in Human Tissues Ex Vivo.

    abstract::Lactobacillus species, which dominate vaginal microbiota of healthy reproductive-age women, lower the risks of sexually transmitted infections, including the risk of human immunodeficiency virus (HIV) acquisition. The exact mechanisms of this protection remain to be understood. Here, we investigated these mechanisms i...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2017.00906

    authors: Ñahui Palomino RA,Zicari S,Vanpouille C,Vitali B,Margolis L

    更新日期:2017-05-19 00:00:00

  • Heterologous Production of a Novel Cyclic Peptide Compound, KK-1, in Aspergillus oryzae.

    abstract::A novel cyclic peptide compound, KK-1, was originally isolated from the plant-pathogenic fungus Curvularia clavata. It consists of 10 amino acid residues, including five N-methylated amino acid residues, and has potent antifungal activity. Recently, the genome-sequencing analysis of C. clavata was completed, and the b...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2018.00690

    authors: Yoshimi A,Yamaguchi S,Fujioka T,Kawai K,Gomi K,Machida M,Abe K

    更新日期:2018-04-09 00:00:00

  • Incidence and Outcome of Invasive Fungal Diseases in Children With Hematological Malignancies and/or Allogeneic Hematopoietic Stem Cell Transplantation: Results of a Prospective Multicenter Study.

    abstract:Background:Available data on the incidence and outcome of invasive fungal diseases (IFD) in children with hematological malignancies or after allogeneic hematopoietic stem cell transplantation (HSCT) are mostly based on monocenter, retrospective studies or on studies performed prior to the availability of newer triazol...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2019.00681

    authors: Lehrnbecher T,Schöning S,Poyer F,Georg J,Becker A,Gordon K,Attarbaschi A,Groll AH

    更新日期:2019-04-16 00:00:00

  • Technologies and approaches to elucidate and model the virulence program of salmonella.

    abstract::Salmonella is a primary cause of enteric diseases in a variety of animals. During its evolution into a pathogenic bacterium, Salmonella acquired an elaborate regulatory network that responds to multiple environmental stimuli within host animals and integrates them resulting in fine regulation of the virulence program....

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2011.00121

    authors: McDermott JE,Yoon H,Nakayasu ES,Metz TO,Hyduke DR,Kidwai AS,Palsson BO,Adkins JN,Heffron F

    更新日期:2011-06-02 00:00:00

  • Prevalence of the Antibiotic Resistance Genes in Coagulase-Positive-and Negative-Staphylococcus in Chicken Meat Retailed to Consumers.

    abstract::The use of antibiotics in farm management (growing crops and raising animals) has become a major area of concern. Its implications is the consequent emergence of antibiotic resistant bacteria (ARB) and accordingly their access into the human food chain with passage of antibiotic resistance genes (ARG) to the normal hu...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2016.01846

    authors: Osman K,Badr J,Al-Maary KS,Moussa IM,Hessain AM,Girah ZM,Abo-Shama UH,Orabi A,Saad A

    更新日期:2016-11-22 00:00:00

  • The link between independent acquisition of intracellular gamma-endosymbionts and concerted evolution in Tremblaya princeps.

    abstract::Many insect species establish mutualistic symbiosis with intracellular bacteria that complement their unbalanced diets. The betaproteobacterium "Candidatus Tremblaya" maintains an ancient symbiosis with mealybugs (Hemiptera: Pseudococcidae), which are classified in subfamilies Phenacoccinae and Pseudococcinae. Most Ph...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2015.00642

    authors: López-Madrigal S,Latorre A,Moya A,Gil R

    更新日期:2015-06-25 00:00:00

  • Ascertaining the relationship between Salmonella Typhimurium and Salmonella 4,[5],12:i:- by MLVA and inferring the sources of human salmonellosis due to the two serovars in Italy.

    abstract::The current picture of human salmonellosis shows Salmonella Typhimurium and S. 4,[5],12:i:- as the most common serovars in Italy. The aims of this study were to investigate the genetic relationship between these serovars, as well as to test the possibility of inferring sources of human salmonellosis due to S. Typhimur...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2015.00301

    authors: Barco L,Barrucci F,Cortini E,Ramon E,Olsen JE,Luzzi I,Lettini AA,Ricci A

    更新日期:2015-04-27 00:00:00

  • Bio-Decolorization of Synthetic Dyes by a Halophilic Bacterium Salinivibrio sp.

    abstract::Synthetic dyes, extensively used in various industries, act as pollutants in the aquatic environment, and pose a significant threat to living beings. In the present study, we assessed the potential of a halophilic bacterium Salinivibrio kushneri HTSP isolated from a saltpan for decolorization and bioremediation of syn...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2020.594011

    authors: John J,Dineshram R,Hemalatha KR,Dhassiah MP,Gopal D,Kumar A

    更新日期:2020-12-21 00:00:00

  • Trends and future challenges in sampling the deep terrestrial biosphere.

    abstract::Research in the deep terrestrial biosphere is driven by interest in novel biodiversity and metabolisms, biogeochemical cycling, and the impact of human activities on this ecosystem. As this interest continues to grow, it is important to ensure that when subsurface investigations are proposed, materials recovered from ...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2014.00481

    authors: Wilkins MJ,Daly RA,Mouser PJ,Trexler R,Sharma S,Cole DR,Wrighton KC,Biddle JF,Denis EH,Fredrickson JK,Kieft TL,Onstott TC,Peterson L,Pfiffner SM,Phelps TJ,Schrenk MO

    更新日期:2014-09-12 00:00:00

  • Populations of Stored Product Mite Tyrophagus putrescentiae Differ in Their Bacterial Communities.

    abstract:BACKGROUND:Tyrophagus putrescentiae colonizes different human-related habitats and feeds on various post-harvest foods. The microbiota acquired by these mites can influence the nutritional plasticity in different populations. We compared the bacterial communities of five populations of T. putrescentiae and one mixed po...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2016.01046

    authors: Erban T,Klimov PB,Smrz J,Phillips TW,Nesvorna M,Kopecky J,Hubert J

    更新日期:2016-07-12 00:00:00

  • The RstAB System Impacts Virulence, Motility, Cell Morphology, Penicillin Tolerance and Production of Type II Secretion System-Dependent Factors in the Fish and Human Pathogen Photobacterium damselae subsp. damselae.

    abstract::The RstB histidine kinase of the two component system RstAB positively regulates the expression of damselysin (Dly), phobalysin P (PhlyP) and phobalysin C (PhlyC) cytotoxins in the fish and human pathogen Photobacterium damselae subsp. damselae, a marine bacterium of the family Vibrionaceae. However, the function of t...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2019.00897

    authors: Terceti MS,Vences A,Matanza XM,Barca AV,Noia M,Lisboa J,Dos Santos NMS,do Vale A,Osorio CR

    更新日期:2019-04-24 00:00:00

  • Variability of Gut Microbiota Across the Life Cycle of Grapholita molesta (Lepidoptera: Tortricidae).

    abstract::Grapholita molesta, the oriental fruit moth, is a serious global pest of many Rosaceae fruit trees. Gut microorganisms play important roles in host nutrition, digestion, detoxification, and resistance to pathogens. However, there are few studies on the microbiota of G. molesta, particularly during metamorphosis. Here,...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2020.01366

    authors: Wang X,Sun S,Yang X,Cheng J,Wei H,Li Z,Michaud JP,Liu X

    更新日期:2020-06-30 00:00:00

  • Identification of Genes Essential for Antibiotic-Induced Up-Regulation of Plasmid-Transfer-Genes in Cephalosporin Resistant Escherichia coli.

    abstract::Bacterial conjugation is one of the most important mechanisms for spread of antibiotic resistance among bacteria. We have previously demonstrated that cefotaxime (CTX) exposure up-regulates expression of Type-IV conjugation transfer genes, and that this leads to increased transfer of a blaCTX-M-1 encoding IncI1 resist...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2019.02203

    authors: Liu G,Olsen JE,Thomsen LE

    更新日期:2019-09-24 00:00:00

  • Geobacillus and Bacillus Spore Inactivation by Low Energy Electron Beam Technology: Resistance and Influencing Factors.

    abstract::Low energy electron beam (LEEB) treatment is an emerging non-thermal technology that performs surface decontamination with a minimal influence on food quality. Bacterial spore resistance toward LEEB treatment and its influencing factors were investigated in this study. Spores from Geobacillus and Bacillus species were...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2018.02720

    authors: Zhang Y,Moeller R,Tran S,Dubovcova B,Akepsimaidis G,Meneses N,Drissner D,Mathys A

    更新日期:2018-11-23 00:00:00

  • A Pilot Study of the Humoral Response Against the AntiSense Protein (ASP) in HIV-1-Infected Patients.

    abstract::The existence of an antisense Open Reading Frame (ORF) that encodes a putative AntiSense Protein (ASP) on the proviral genome of Human Immunodeficiency Virus type 1 (HIV-1) was a source of debate for 30 years. During the last years, some progresses have been made to characterize the cellular immune response against AS...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2020.00020

    authors: Savoret J,Chazal N,Moles JP,Tuaillon E,Boufassa F,Meyer L,Lecuroux C,Lambotte O,Van De Perre P,Mesnard JM,Gross A

    更新日期:2020-01-24 00:00:00

  • Genome-enabled studies of anaerobic, nitrate-dependent iron oxidation in the chemolithoautotrophic bacterium Thiobacillus denitrificans.

    abstract::Thiobacillus denitrificans is a chemolithoautotrophic bacterium capable of anaerobic, nitrate-dependent U(IV) and Fe(II) oxidation, both of which can strongly influence the long-term efficacy of in situ reductive immobilization of uranium in contaminated aquifers. We previously identified two c-type cytochromes involv...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2013.00249

    authors: Beller HR,Zhou P,Legler TC,Chakicherla A,Kane S,Letain TE,A O'Day P

    更新日期:2013-08-27 00:00:00

  • High Heating Rates Affect Greatly the Inactivation Rate of Escherichia coli.

    abstract::Heat resistance of microorganisms can be affected by different influencing factors. Although, the effect of heating rates has been scarcely explored by the scientific community, recent researches have unraveled its important effect on the thermal resistance of different species of vegetative bacteria. Typically heatin...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2016.01256

    authors: Huertas JP,Aznar A,Esnoz A,Fernández PS,Iguaz A,Periago PM,Palop A

    更新日期:2016-08-11 00:00:00

  • Identification and Characterization of Wheat Yellow Striate Virus, a Novel Leafhopper-Transmitted Nucleorhabdovirus Infecting Wheat.

    abstract::A new wheat viral disease was found in China. Bullet-shaped viral particles within the nucleus of the infected wheat leave cells, which possessed 180-210 nm length and 35-40 nm width, were observed under transmission electron microscopy. A putative wheat-infecting rhabdovirus vectored by the leafhopper Psammotettix al...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2018.00468

    authors: Liu Y,Du Z,Wang H,Zhang S,Cao M,Wang X

    更新日期:2018-03-14 00:00:00

  • A Molecular Survey of Babesia Species and Detection of a New Babesia Species by DNA Related to B. venatorum from White Yaks in Tianzhu, China.

    abstract::Bovine babesiosis is a tick-transmitted disease caused by different species of Babesia. The white yak is a unique yak breed that lives only in Tianzhu in the Tibetan Autonomous County, Gansu Province, in northwestern China. Previous research using the ELISA method has confirmed that the white yak could become infected...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2017.00419

    authors: Liu J,Guan G,Li Y,Liu A,Luo J,Yin H

    更新日期:2017-03-14 00:00:00

  • GlnR Dominates Rifamycin Biosynthesis by Activating the rif Cluster Genes Transcription Both Directly and Indirectly in Amycolatopsis mediterranei.

    abstract::Because of the remarkable efficacy in treating mycobacterial infections, rifamycin and its derivatives are still first-line antimycobacterial drugs. It has been intensely studied to increase rifamycin yield from Amycolatopsis mediterranei, and nitrate is found to provide a stable and remarkable stimulating effect on t...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2020.00319

    authors: Liu X,Liu Y,Lei C,Zhao G,Wang J

    更新日期:2020-03-03 00:00:00

  • Effect of Dietary Forage to Concentrate Ratios on Dynamic Profile Changes and Interactions of Ruminal Microbiota and Metabolites in Holstein Heifers.

    abstract::A better understanding of global ruminal microbiota and metabolites under extensive feeding conditions is a prerequisite for optimizing rumen function and improving ruminant feed efficiency. Furthermore, the gap between the information on the ruminal microbiota and metabolites needs to be bridged. The aim of this stud...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2017.02206

    authors: Zhang J,Shi H,Wang Y,Li S,Cao Z,Ji S,He Y,Zhang H

    更新日期:2017-11-09 00:00:00

  • The Diverse Functional Roles of Elongation Factor Tu (EF-Tu) in Microbial Pathogenesis.

    abstract::Elongation factor thermal unstable Tu (EF-Tu) is a G protein that catalyzes the binding of aminoacyl-tRNA to the A-site of the ribosome inside living cells. Structural and biochemical studies have described the complex interactions needed to effect canonical function. However, EF-Tu has evolved the capacity to execute...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章,评审

    doi:10.3389/fmicb.2019.02351

    authors: Harvey KL,Jarocki VM,Charles IG,Djordjevic SP

    更新日期:2019-10-24 00:00:00

  • Bacterial Community Composition and Potential Driving Factors in Different Reef Habitats of the Spermonde Archipelago, Indonesia.

    abstract::Coastal eutrophication is a key driver of shifts in bacterial communities on coral reefs. With fringing and patch reefs at varying distances from the coast the Spermonde Archipelago in southern Sulawesi, Indonesia offers ideal conditions to study the effects of coastal eutrophication along a spatially defined gradient...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2017.00662

    authors: Kegler HF,Lukman M,Teichberg M,Plass-Johnson J,Hassenrück C,Wild C,Gärdes A

    更新日期:2017-04-20 00:00:00

  • Controls on soil microbial community stability under climate change.

    abstract::Soil microbial communities are intricately linked to ecosystem functioning because they play important roles in carbon and nitrogen cycling. Still, we know little about how soil microbial communities will be affected by disturbances expected with climate change. This is a significant gap in understanding, as the stabi...

    journal_title:Frontiers in microbiology

    pub_type: 杂志文章

    doi:10.3389/fmicb.2013.00265

    authors: de Vries FT,Shade A

    更新日期:2013-09-05 00:00:00