Human Microbe-Disease Association Prediction With Graph Regularized Non-Negative Matrix Factorization.

abstract：:Staphylococcus capitis is an opportunistic pathogen of the coagulase negative staphylococci (CoNS). Functional genomic studies of S. capitis have thus far been limited by a lack of available complete genome sequences. Here, we determined the closed S. capitis genome and methylome using Single Molecule Real Time (SMRT)...

journal_title：Frontiers in microbiology

authors： Cameron DR,Jiang JH,Hassan KA,Elbourne LD,Tuck KL,Paulsen IT,Peleg AY

更新日期：2015-09-23 00:00:00

abstract：:The rise of antibiotic resistance is not only a challenge for human and animal health treatments, but is also posing the risk of spreading among bacterial populations in foodstuffs. Farmed fish-related foodstuffs, the food of animal origin most consumed worldwide, are suspected to be a reservoir of antibiotic resistan...

journal_title：Frontiers in microbiology

authors： Helsens N,Calvez S,Prevost H,Bouju-Albert A,Maillet A,Rossero A,Hurtaud-Pessel D,Zagorec M,Magras C

更新日期：2020-12-03 00:00:00

abstract：:The current understanding of human gut microbial community is mainly limited to taxonomic features at the genus level. Here, we examined the human gut microbial community at the species level by metataxonomics. To achieve this purpose, a high-throughput approach involving operational phylogenetic unit analysis of the ...

journal_title：Frontiers in microbiology

authors： Yang J,Pu J,Lu S,Bai X,Wu Y,Jin D,Cheng Y,Zhang G,Zhu W,Luo X,Rosselló-Móra R,Xu J

更新日期：2020-08-26 00:00:00

abstract：:The use of antibiotics on a mass scale, particularly in farming, and their release into the environment has led to a rapid emergence of resistant bacteria. Once emerged, resistance determinants are spread by horizontal gene transfer among strains of the same as well as disparate bacterial species. Their accumulation i...

journal_title：Frontiers in microbiology

authors： Bukowski M,Piwowarczyk R,Madry A,Zagorski-Przybylo R,Hydzik M,Wladyka B

更新日期：2019-04-24 00:00:00

abstract：:Salinity and pH have direct and indirect impacts on the growth and metabolic activities of microorganisms. In this study, the effects of salt and alkaline stresses on the kinetic balance between nitrous oxide (N2O) production and consumption in the denitrification pathway of Dechloromonas aromatica strain RCB were exa...

journal_title：Frontiers in microbiology

authors： Han H,Song B,Song MJ,Yoon S

更新日期：2019-06-05 00:00:00

abstract：:Biomineralized ferric oxide microbial mats are ubiquitous features on Earth, are common in hot springs of Yellowstone National Park (YNP, WY, USA), and form due to direct interaction between microbial and physicochemical processes. The overall goal of this study was to determine the contribution of different community...

journal_title：Frontiers in microbiology

authors： Beam JP,Bernstein HC,Jay ZJ,Kozubal MA,Jennings Rd,Tringe SG,Inskeep WP

更新日期：2016-02-15 00:00:00

abstract：:With the increasing amount of evidence linking certain disorders of the human body to a disturbed gut microbiota, there is a growing interest for compounds that positively influence its composition and activity through diet. Besides the consumption of probiotics to stimulate favorable bacterial communities in the huma...

journal_title：Frontiers in microbiology

authors： Rivière A,Selak M,Lantin D,Leroy F,De Vuyst L

更新日期：2016-06-28 00:00:00

abstract：:The Deepwater Horizon (DWH) blowout resulted in oil transport, including polycyclic aromatic hydrocarbons (PAHs) to the Gulf of Mexico shoreline. The microbial communities of these shorelines are thought to be responsible for the intrinsic degradation of PAHs. To investigate the Gulf Coast beach microbial community re...

journal_title：Frontiers in microbiology

authors： Kappell AD,Wei Y,Newton RJ,Van Nostrand JD,Zhou J,McLellan SL,Hristova KR

更新日期：2014-05-09 00:00:00

abstract：:In Taiwan, the 7-valent pneumococcal conjugate vaccine (PCV7) was introduced in 2006 and a PCV13 national childhood catchup program was implemented in 2013. To delineate the trend of serotype distribution and antimicrobial susceptibility following vaccination programs, we investigated a total of 1845 Streptococcus pne...

journal_title：Frontiers in microbiology

authors： Wu CJ,Lai JF,Huang IW,Shiau YR,Wang HY,Lauderdale TL

更新日期：2020-10-22 00:00:00

abstract：:The understanding of the response of arbuscular mycorrhizal fungi (AMF) community composition to fertilization is of great significance in sustainable agriculture. However, how fertilization influences AMF diversity and composition is not well-established yet. A field experiment located in northeast China in typical b...

journal_title：Frontiers in microbiology

authors： Zhu C,Ling N,Guo J,Wang M,Guo S,Shen Q

更新日期：2016-11-16 00:00:00

abstract：:Our understanding of how antibodies are generated and function could help develop effective vaccines and antibody-based therapeutics against viruses such as HIV-1, SARS coronavirus (SARS CoV), and Hendra and Nipah viruses (henipaviruses). Although broadly neutralizing antibodies (bnAbs) against the HIV-1 were observed...

journal_title：Frontiers in microbiology

authors： Prabakaran P,Zhu Z,Chen W,Gong R,Feng Y,Streaker E,Dimitrov DS

更新日期：2012-08-02 00:00:00

abstract：:Brettanomyces yeasts have gained popularity in many sectors of the biotechnological industry, specifically in the field of beer production, but also in wine and ethanol production. Their unique properties enable Brettanomyces to outcompete conventional brewer's yeast in industrially relevant traits such as production ...

journal_title：Frontiers in microbiology

authors： Colomer MS,Chailyan A,Fennessy RT,Olsson KF,Johnsen L,Solodovnikova N,Forster J

更新日期：2020-04-09 00:00:00

abstract：:Gaining a greater understanding of the plant microbiota and its interactions with its host plant heralds a new era of scientific discovery in agriculture. Different agricultural management practices influence soil microbial populations by changing a soil's physical, chemical and biological properties. However, the imp...

journal_title：Frontiers in microbiology

authors： Rathore R,Dowling DN,Forristal PD,Spink J,Cotter PD,Bulgarelli D,Germaine KJ

更新日期：2017-08-09 00:00:00

abstract：:Lam proteins transport sterols between the membranes of different cellular compartments. In Saccharomyces cerevisiae, the LAM gene family consists of three pairs of paralogs. Because the function of paralogous genes can be redundant, the phenotypes of only a small number of LAM gene deletions have been reported; thus,...

journal_title：Frontiers in microbiology

authors： Sokolov SS,Vorobeva MA,Smirnova AI,Smirnova EA,Trushina NI,Galkina KV,Severin FF,Knorre DA

更新日期：2020-01-28 00:00:00

abstract：:Although currently available model organisms such as Mycobacterium smegmatis and Mycobacterium bovis Bacillus Calmette-Guérin (BCG) have significantly contributed to our understanding of tuberculosis (TB) biology, these models have limitations such as differences in genome size, growth rates and virulence. However, at...

journal_title：Frontiers in microbiology

authors： Mouton JM,Heunis T,Dippenaar A,Gallant JL,Kleynhans L,Sampson SL

更新日期：2019-08-20 00:00:00

abstract：:CapB2 is recognized as a tyrosine kinase and is likely a vital factor in extracellular polysaccharide synthesis in Staphylococcus aureus, but its pathogenicity function and regulatory mechanism remain obscure. Here, we demonstrate that CapB2 enhances bacterial virulence in a murine model. Mice infected with the wild t...

journal_title：Frontiers in microbiology

authors： Li D,Guo Y,Wang S,Lv J,Qi X,Chen Z,Han L,Zhang X,Wang L,Yu F

更新日期：2017-02-10 00:00:00

abstract：:In this study, we integrated geochemical measurements, microbial diversity surveys and physiological characterization of laboratory strains to investigate substrate-attached filamentous microbial biofilms at Tor Caldara, a shallow-water gas vent in the Tyrrhenian Sea. At this site, the venting gases are mainly compose...

journal_title：Frontiers in microbiology

authors： Patwardhan S,Foustoukos DI,Giovannelli D,Yücel M,Vetriani C

更新日期：2018-12-06 00:00:00

abstract：:Fusarium wilt is a devastating soil-borne fungal disease caused by Fusarium oxysporum f.sp. cubense (Foc). In recent years, some antifungal bacteria have been applied for the prevention and biocontrol of pathogenic fungi. In our study, a bacterial strain HQB-1, isolated from banana rhizosphere soil, was cultured for i...

journal_title：Frontiers in microbiology

authors： Xu Z,Wang M,Du J,Huang T,Liu J,Dong T,Chen Y

更新日期：2020-12-10 00:00:00

abstract：:The Bakken Shale and underlying Three Forks Formation is an important oil and gas reservoir in the United States. The hydrocarbon resources in this region are accessible using unconventional oil and gas extraction methods, including horizontal drilling and hydraulic fracturing. However, the geochemistry and microbiolo...

journal_title：Frontiers in microbiology

authors： Tinker K,Gardiner J,Lipus D,Sarkar P,Stuckman M,Gulliver D

更新日期：2020-07-30 00:00:00

abstract：:Shewanella oneidensis is one of the best-understood model organisms for extracellular electron transfer. Endogenously produced and exported flavin molecules seem to play an important role in this process and mediate the connection between respiratory enzymes on the cell surface and the insoluble substrate by acting as...

journal_title：Frontiers in microbiology

authors： Arinda T,Philipp LA,Rehnlund D,Edel M,Chodorski J,Stöckl M,Holtmann D,Ulber R,Gescher J,Sturm-Richter K

更新日期：2019-02-05 00:00:00

abstract：:We performed a study to (i) investigate efficacy of an Escherichia coli/Salmonella spp./Listeria monocytogenes-targeting bacteriophage cocktail (tentatively named F.O.P.) to reduce a human pathogenic E. coli strain O157:H7 in experimentally infected mice, and (ii) determine how bacteriophages impact the normal gut mic...

journal_title：Frontiers in microbiology

authors： Dissanayake U,Ukhanova M,Moye ZD,Sulakvelidze A,Mai V

更新日期：2019-09-10 00:00:00

abstract：:Listeria monocytogenes is a foodborne pathogen that can cause severe disease in susceptible humans. This microorganism has the ability to adapt to hostile environmental conditions such as the low temperatures used by the food industry for controlling microorganisms. Bacteria are able to adjust their transcriptional re...

journal_title：Frontiers in microbiology

authors： Quesille-Villalobos AM,Parra A,Maza F,Navarrete P,González M,Latorre M,Toro M,Reyes-Jara A

更新日期：2019-03-28 00:00:00

abstract：:Several Bacillus strains exert beneficial effects on the maintenance of intestinal homeostasis and host health. However, whether Bacillus amyloliquefaciens (BA) can improve gut microbial dysbiosis and ameliorate colitis is unknown. Therefore, we conducted the present study to investigate the effects of BA administrati...

journal_title：Frontiers in microbiology

authors： Cao G,Wang K,Li Z,Tao F,Xu Y,Lan J,Chen G,Yang C

更新日期：2019-01-08 00:00:00

abstract：:Previously we reported the biosynthesis of intracellular cadmium sulfide quantum dots (CdS QDs) at low temperatures by the Antarctic strain Pseudomonas fragi GC01. Here we studied the role of volatile sulfur compounds (VSCs) in the biosynthesis of CdS QDs by P. fragi GC01. The biosynthesis of nanoparticles was evaluat...

journal_title：Frontiers in microbiology

authors： Gallardo-Benavente C,Carrión O,Todd JD,Pieretti JC,Seabra AB,Durán N,Rubilar O,Pérez-Donoso JM,Quiroz A

更新日期：2019-08-13 00:00:00

abstract：:Nowadays food preservation, quality maintenance, and safety are major growing concerns of the food industry. It is evident that over time consumers' demand for natural and safe food products with stringent regulations to prevent food-borne infectious diseases. Antimicrobial packaging which is thought to be a subset of...

journal_title：Frontiers in microbiology

authors： Malhotra B,Keshwani A,Kharkwal H

更新日期：2015-06-16 00:00:00

abstract：:Carbapenemases are bacterial enzymes that hydrolyze carbapenems, a group of last-resort β-lactam antibiotics used for treatment of severe bacterial infections. They belong to three β-lactamase classes based amino acid sequence (A, B, and D). The aim of this study was to elucidate occurrence, diversity and functionalit...

journal_title：Frontiers in microbiology

authors： Gudeta DD,Bortolaia V,Pollini S,Docquier JD,Rossolini GM,Amos GC,Wellington EM,Guardabassi L

更新日期：2016-12-26 00:00:00

abstract：:Microbial communities in the endosphere of Salicaceae plants, poplar (Populus trichocarpa) and willow (Salix sitchensis), have been demonstrated to be important for plant growth promotion, protection from biotic and abiotic stresses, and degradation of toxic compounds. Our study aimed to investigate bio-control activi...

journal_title：Frontiers in microbiology

authors： Kandel SL,Firrincieli A,Joubert PM,Okubara PA,Leston ND,McGeorge KM,Mugnozza GS,Harfouche A,Kim SH,Doty SL

更新日期：2017-03-13 00:00:00

abstract：:With only hundreds of genes contained within their genomes, mycoplasmas have become model organisms for precise understanding of cellular processes, as well as platform organisms for predictable engineering of microbial functions for mission-critical applications. Despite the availability of "whole genome writing" in ...

journal_title：Frontiers in microbiology

authors： Karas BJ,Wise KS,Sun L,Venter JC,Glass JI,Hutchison CA 3rd,Smith HO,Suzuki Y

更新日期：2014-07-23 00:00:00

abstract：:Calcium carbonate (CaCO3) biomineralization has been investigated due to its wide range of scientific and technological implications, however, the molecular mechanisms of this important geomicrobiological process are largely unknown. Here, a urease-positive marine actinobacterium Brevibacterium linens BS258 was demons...

journal_title：Frontiers in microbiology

authors： Zhu Y,Ma N,Jin W,Wu S,Sun C

更新日期：2017-04-06 00:00:00

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

authors： de Vries FT,Shade A

更新日期：2013-09-05 00:00:00