Skip to Content

Microorganisms, Volume 6, Issue 1

2018 March - 27 articles

Cover Story: It is now over a decade since recA and tly gene loci were adopted for sequence typing and phylogenetic analysis of the anaerobic skin bacterium, Propionibacterium acnes. In that time, our knowledge of the intraspecies phylogeny and taxonomy of this bacterium has increased greatly, particularly as higher resolution multilocus sequence analysis methods have been developed and whole genome sequencing has become commonplace. This has now led to the identification of specific lineages associated with skin health, and others associated with skin disease and infections at distal sites. View this paper

Articles (27)

  • Article
  • Open Access
13 Citations
5,962 Views
21 Pages

Responses of Salt Marsh Plant Rhizosphere Diazotroph Assemblages to Drought

  • Debra A. Davis,
  • Sparkle L. Malone and
  • Charles R. Lovell

Drought has many consequences in the tidally dominated Spartina sp. salt marshes of the southeastern US; including major dieback events, changes in sediment chemistry and obvious changes in the landscape. These coastal systems tend to be highly produ...

  • Review
  • Open Access
19 Citations
6,478 Views
16 Pages

Staphylococcus aureus is a human pathogen that can cause a wide spectrum of diseases, including sepsis, pneumonia, arthritis, and endocarditis. Ineffective treatment of a number of staphylococcal infections with antibiotics is due to the development...

  • Article
  • Open Access
3 Citations
4,330 Views
11 Pages

Rhizopus microsporus NBRC 32995 was found to hydrolyze fructooligosaccharides (FOS), as well as sucrose, almost completely into monosaccharides through the production of sufficient amounts of organic acids, indicating that the complete hydrolysis of...

  • Article
  • Open Access
10 Citations
5,616 Views
14 Pages

Description of New and Amended Clades of the Genus Photobacterium

  • Alejandro M. Labella,
  • M. Dolores Castro,
  • Manuel Manchado and
  • Juan J. Borrego

Phylogenetic relationships between species in the genus Photobacterium have been poorly studied despite pathogenic and ecological relevance of some of its members. This is the first phylogenetic study that includes new species of Photobacterium (vali...

  • Review
  • Open Access
88 Citations
14,591 Views
13 Pages

The Mycobiome: A Neglected Component in the Microbiota-Gut-Brain Axis

  • Raphaël Enaud,
  • Louise-Eva Vandenborght,
  • Noémie Coron,
  • Thomas Bazin,
  • Renaud Prevel,
  • Thierry Schaeverbeke,
  • Patrick Berger,
  • Michael Fayon,
  • Thierry Lamireau and
  • Laurence Delhaes

In recent years, the gut microbiota has been considered as a full-fledged actor of the gut–brain axis, making it possible to take a new step in understanding the pathophysiology of both neurological and psychiatric diseases. However, most of the stud...

  • Article
  • Open Access
21 Citations
6,502 Views
12 Pages

With recent improvements in the commercial feasibility of high pressure pasteurization units, the technology is gaining rapid acceptability across various sectors of food manufacturing, thus requiring extensive validation studies for effective adopti...

  • Article
  • Open Access
74 Citations
14,549 Views
13 Pages

Non-cultivated plants carry microbial endophytes that may be used to enhance development and disease resistance of crop species where growth-promoting and protective microbes may have been lost. During seedling establishment, seedlings may be infecte...

  • Article
  • Open Access
12 Citations
5,523 Views
15 Pages

Methanotrophs are a specialized group of bacteria that can utilize methane (CH4) as a sole energy source. A key enzyme responsible for methane oxidation is methane monooxygenase (MMO), of either a soluble, cytoplasmic type (sMMO), or a particulate, m...

  • Review
  • Open Access
23 Citations
12,293 Views
15 Pages

Inteins are self-splicing polypeptides with an ability to excise themselves from flanking host protein regions with remarkable precision; in the process, they ligate flanked host protein fragments. Inteins are distributed sporadically across all thre...

  • Article
  • Open Access
14 Citations
5,927 Views
22 Pages

Staphylococcus aureus (S. aureus) is a common Ventilator-Associated Pneumonia (VAP) isolate. The objective here is to define the extent and possible reasons for geographic variation in the incidences of S. aureus-associated VAP, MRSA-VAP and overall...

  • Article
  • Open Access
59 Citations
8,044 Views
13 Pages

The ability of ruminants to utilize cellulosic biomass is a result of the metabolic activities of symbiotic microbial communities that reside in the rumen. To gain further insight into this complex microbial ecosystem, a selection-based batch culturi...

  • Article
  • Open Access
33 Citations
5,909 Views
17 Pages

Biochemical reactors (BCRs) based on the stimulation of sulphate-reducing microorganisms (SRM) are emerging semi-passive remediation technologies for treatment of mine-influenced water. Their successful removal of metals and sulphate has been proven...

  • Communication
  • Open Access
91 Citations
9,266 Views
10 Pages

Comparison of Rumen and Manure Microbiomes and Implications for the Inoculation of Anaerobic Digesters

  • Emine Gozde Ozbayram,
  • Orhan Ince,
  • Bahar Ince,
  • Hauke Harms and
  • Sabine Kleinsteuber

Cattle manure is frequently used as an inoculum for the start-up of agricultural biogas plants or as a co-substrate in the anaerobic digestion of lignocellulosic feedstock. Ruminal microbiota are considered to be effective plant fiber degraders, but...

  • Article
  • Open Access
83 Citations
13,405 Views
20 Pages

Rice is currently the most important food crop in the world and we are only just beginning to study the bacterial associated microbiome. It is of importance to perform screenings of the core rice microbiota and also to develop new plant-microbe model...

  • Article
  • Open Access
18 Citations
5,847 Views
15 Pages

Biomarkers’ Responses to Reductive Dechlorination Rates and Oxygen Stress in Bioaugmentation Culture KB-1TM

  • Gretchen L. W. Heavner,
  • Cresten B. Mansfeldt,
  • Garrett E. Debs,
  • Sage T. Hellerstedt,
  • Annette R. Rowe and
  • Ruth E. Richardson

Using mRNA transcript levels for key functional enzymes as proxies for the organohalide respiration (OHR) rate, is a promising approach for monitoring bioremediation populations in situ at chlorinated solvent-contaminated field sites. However, to dat...

  • Article
  • Open Access
16 Citations
7,006 Views
8 Pages

Defining Multidrug Resistance of Gram-Negative Bacteria in the Dutch–German Border Region—Impact of National Guidelines

  • Robin Köck,
  • Philipp Siemer,
  • Jutta Esser,
  • Stefanie Kampmeier,
  • Matthijs S. Berends,
  • Corinna Glasner,
  • Jan P. Arends,
  • Karsten Becker and
  • Alexander W. Friedrich

Preventing the spread of multidrug-resistant Gram-negative bacteria (MDRGNB) is a public health priority. However, the definition of MDRGNB applied for planning infection prevention measures such as barrier precautions differs depending on national g...

  • Article
  • Open Access
25 Citations
5,954 Views
18 Pages

Coastal areas have become more prone to flooding with seawater due to climate-change-induced sea-level rise and intensified storm surges. One way to cope with this issue is by “managed coastal realignment”, where low-lying coastal areas are no longer...

  • Article
  • Open Access
3 Citations
4,439 Views
10 Pages

Investigating Potential Chromosomal Rearrangements during Laboratory Culture of Neisseria gonorrhoeae

  • Russell Spencer-Smith,
  • Simon W. Gould,
  • Madhuri Pulijala and
  • Lori A. S. Snyder

Comparisons of genome sequence data between different strains and isolates of Neisseria spp., such as Neisseria gonorrhoeae, reveal that over the evolutionary history of these organisms, large scale chromosomal rearrangements have occurred. Factors w...

  • Article
  • Open Access
9 Citations
4,431 Views
7 Pages

Therapeutic Management of Pseudomonas aeruginosa Bloodstream Infection Non-Susceptible to Carbapenems but Susceptible to “Old” Cephalosporins and/or to Penicillins

  • Ronit Zaidenstein,
  • Asaf Miller,
  • Ruthy Tal-Jasper,
  • Hadas Ofer-Friedman,
  • Menachem Sklarz,
  • David E. Katz,
  • Tsillia Lazarovitch,
  • Paul R. Lephart,
  • Bethlehem Mengesha and
  • Dror Marchaim
  • + 4 authors

It is unknown as to whether other beta-lactams can be used for bloodstream infections (BSI) resulting from Pseudomonas aeruginosa (PA) which are non-susceptible to one or more carbapenem. We conducted a retrospective cohort study at the Assaf Harofeh...

  • Article
  • Open Access
24 Citations
7,436 Views
22 Pages

A sandstone outcrop exposed to freshwater seepage supports a diverse assemblage of photosynthetic microbes. Dominant taxa are two cyanophytes (Oscillatoria sp., Rivularia sp.) and a unicellular green alga (Palmellococcus sp.). Less abundant taxa incl...

  • Article
  • Open Access
5 Citations
5,616 Views
8 Pages

Evaluation of an Accelerated Workflow for Surveillance of ESBL (CTX-M)-Producing Escherichia coli Using Amplicon-Based Next-Generation Sequencing and Automated Analysis

  • Nilay Peker,
  • John W. A. Rossen,
  • Ruud H. Deurenberg,
  • Paula C. Langereis,
  • Erwin G. C. Raangs,
  • Jan A. Kluytmans,
  • Alexander W. Friedrich,
  • Jacobien Veenemans and
  • Bhanu Sinha

Outbreak management of extended spectrum β-lactamase (ESBL)-producing pathogens requires rapid and accurate diagnosis. However, conventional screening is slow and labor-intensive. The vast majority of the screened samples are negative and detection o...

  • Article
  • Open Access
82 Citations
9,234 Views
12 Pages

Enzymatic oxidation of 5-hydroxymethylfurfural (HMF) and its oxidized derivatives was studied using three fungal enzymes: wild-type aryl alcohol oxidase (AAO) from three fungal species, wild-type peroxygenase from Agrocybe aegerita (AaeUPO), and reco...

  • Article
  • Open Access
6 Citations
7,369 Views
8 Pages

Bacteria in natural environments are frequently exposed to nutrient starvation and survive against environmental stresses under non-growing conditions. In order to determine the energetic influence on survivability during starvation, changes in salt...

  • Article
  • Open Access
16 Citations
7,018 Views
20 Pages

The heterologous expression of proteins is often a crucial first step in not only investigating their function, but also in their industrial application. The functional assembly and aggregation of hydrophobins offers intriguing biotechnological appli...

  • Article
  • Open Access
18 Citations
5,925 Views
25 Pages

Selective digestive decontamination (SDD, topical antibiotic regimens applied to the respiratory tract) appears effective for preventing ventilator associated pneumonia (VAP) in intensive care unit (ICU) patients. However, potential contextual effect...

  • Review
  • Open Access
33 Citations
19,478 Views
18 Pages

The Gram-positive, anaerobic bacterium Propionibacterium acnes forms part of the normal microbiota on human skin and mucosal surfaces. While normally associated with skin health, P. acnes is also an opportunistic pathogen linked with a range of human...

Get Alerted

Add your email address to receive forthcoming issues of this journal.

XFacebookLinkedIn
Microorganisms - ISSN 2076-2607