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Microorganisms, Volume 10, Issue 5

May 2022 - 240 articles

Cover Story: Microbial processes are difficult to study in natural soil, owing to the small spatial scales on which microorganisms operate and to the opacity and chemical complexity of the soil habitat. To circumvent these challenges, we have developed synthetic soil aggregates (SSAs), 3D-bioprinted habitats that mimic aspects of natural soil aggregates and provide a chemically defined and translucent culturing method for soil microorganisms. We demonstrate the printability of several microorganisms within SSAs and show how individual SSAs can be integrated into multi-omics workflows and biogeochemical assays. SSAs have the potential to help researchers to quantify microbial processes in situ and achieve high-resolution data from the interplay between environmental properties and microbial ecology. View this paper
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Articles (240)

  • Article
  • Open Access
7 Citations
2,656 Views
12 Pages

Impact of the Introduction of a Two-Step Laboratory Diagnostic Algorithm in the Incidence and Earlier Diagnosis of Clostridioides difficile Infection

  • Nieves Sopena,
  • Jun Hao Wang-Wang,
  • Irma Casas,
  • Lourdes Mateu,
  • Laia Castellà,
  • María José García-Quesada,
  • Sara Gutierrez,
  • Josep M. Llibre,
  • M. Luisa Pedro-Botet and
  • Gema Fernandez-Rivas

Our aim was to determine changes in the incidence of CD infection (CDI) following the introduction of a two-step diagnostic algorithm and to analyze CDI cases diagnosed in the study period. We retrospectively studied CDI (January 2009 to July 2018) i...

  • Article
  • Open Access
29 Citations
4,599 Views
19 Pages

Comparison of the Microbiome of Artisanal Homemade and Industrial Feta Cheese through Amplicon Sequencing and Shotgun Metagenomics

  • Konstantinos Papadimitriou,
  • Rania Anastasiou,
  • Marina Georgalaki,
  • Rimi Bounenni,
  • Argiro Paximadaki,
  • Christina Charmpi,
  • Voula Alexandraki,
  • Maria Kazou and
  • Effie Tsakalidou

Feta is the most renowned protected designation of origin (PDO) white brined cheese produced in Greece. The fine organoleptic characteristics and the quality of Feta rely on, among other factors, its overall microbial ecosystem. In this study, we emp...

  • Article
  • Open Access
11 Citations
3,947 Views
15 Pages

The complexity of the current nucleic acid isolation methods limits their use outside of the modern laboratory environment. Here, we describe a fast and affordable method (easy express extraction, called TripleE) as a centrifugation-free and electric...

  • Review
  • Open Access
85 Citations
7,958 Views
19 Pages

The Multifunctions and Future Prospects of Endophytes and Their Metabolites in Plant Disease Management

  • Yandong Xia,
  • Junang Liu,
  • Cang Chen,
  • Xiuli Mo,
  • Qian Tan,
  • Yuan He,
  • Zhikai Wang,
  • Jia Yin and
  • Guoying Zhou

Endophytes represent a ubiquitous and magical world in plants. Almost all plant species studied by different researchers have been found to harbor one or more endophytes, which protect host plants from pathogen invasion and from adverse environmental...

  • Article
  • Open Access
15 Citations
4,396 Views
13 Pages

Isolation and Properties of the Bacterial Strain Janthinobacterium sp. SLB01

  • Lubov Chernogor,
  • Kseniya Bakhvalova,
  • Alina Belikova and
  • Sergei Belikov

Bacteria of the genus Janthinobacterium are widespread in soils and freshwater ecosystems and belong to the phylum Proteobacteria. The Janthinobacterium sp. SLB01 strain was isolated from diseased freshwater Lubomirskia baicalensis (Pallas, 1776) spo...

  • Article
  • Open Access
12 Citations
3,395 Views
12 Pages

Listeria monocytogenes is a foodborne pathogen with a highly clonal population structure comprising multiple phylogenetic sub-groups that can persist within food processing environments and contaminate food. The epidemiology of L. monocytogenes is we...

  • Article
  • Open Access
5 Citations
3,537 Views
14 Pages

Seroprevalence, Direct Detection and Risk Factors for Toxoplasma gondii Infection in Pigs in Serbia, and Influence of Biosecurity Measures

  • Nikola Betić,
  • Nedjeljko Karabasil,
  • Olgica Djurković-Djaković,
  • Vladimir Ćirković,
  • Branko Bobić,
  • Ivana Branković Lazić,
  • Vesna Djordjević and
  • Ivana Klun

Consumption of Toxoplasma gondii contaminated pork is a major risk factor for human infection. We thus conducted a cross-sectional survey on the seroprevalence of T. gondii infection in a representative sample of slaughter pigs from throughout Serbia...

  • Article
  • Open Access
9 Citations
3,200 Views
21 Pages

Root-Knot Disease Suppression in Eggplant Based on Three Growth Ages of Ganoderma lucidum

  • Saba Fatima,
  • Faryad Khan,
  • Mohd Asif,
  • Saqer S. Alotaibi,
  • Khushbu Islam,
  • Mohammad Shariq,
  • Arshad Khan,
  • Mohd Ikram,
  • Faheem Ahmad and
  • Tabreiz Ahmad Khan
  • + 2 authors

This investigation presents a novel finding showing the effect of culture filtrates (CFs) of macrofungi, Ganoderma lucidum, against Meloidogyne incognita evaluated in vitro and in planta. To determine the nematicidal activity, juveniles of M. incogni...

  • Article
  • Open Access
13 Citations
3,933 Views
10 Pages

Antibiotic Resistance in Campylobacter spp. Isolated from Broiler Chicken Meat and Human Patients in Estonia

  • Triin Tedersoo,
  • Mati Roasto,
  • Mihkel Mäesaar,
  • Liidia Häkkinen,
  • Veljo Kisand,
  • Marina Ivanova,
  • Marikki Heidi Valli and
  • Kadrin Meremäe

Poultry meat is considered the most important source of Campylobacter spp. Because of rising antimicrobial resistance in Campylobacter spp., this study investigated the antimicrobial resistance of Campylobacter isolates from fresh broiler chicken mea...

  • Article
  • Open Access
14 Citations
2,974 Views
11 Pages

Effects of Humic Substances on the Growth of Pseudomonas plecoglossicida 2,4-D and Wheat Plants Inoculated with This Strain

  • Arina Feoktistova,
  • Margarita Bakaeva,
  • Maxim Timergalin,
  • Darya Chetverikova,
  • Aliya Kendjieva,
  • Timur Rameev,
  • Gaisar Hkudaygulov,
  • Aleksey Nazarov,
  • Guzel Kudoyarova and
  • Sergey Chetverikov

Both rhizosphere bacteria and humic substances (HSs) can promote plant growth when applied individually and even greater effects of their combination have been demonstrated. We aimed to elucidate the relative importance of the stimulating effects of...

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Microorganisms - ISSN 2076-2607