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Archives of Microbiology

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https://www.readbyqxmd.com/read/30635671/characterization-and-distribution-of-crispr-cas-systems-in-lactobacillus-sakei
#1
Julian A Schuster, Rudi F Vogel, Matthias A Ehrmann
Clustered regularly interspaced palindromic repeats (CRISPR)-Cas (CRISPR-associated) structures, known as prokaryotes 'immune system', have been successfully applied for genetic engineering and genotyping purposes for a variety of microorganisms. Here we investigated 50 Lactobacillus (L.) sakei genomes and found 13 of them as CRISPR-Cas positive. The majority of positive genomes contain type II-A system, which appears to be widespread across food born lactic acid bacteria. However, a type II-C system with low similarity in Cas protein sequence to related II-C structures is rarely present in the genomes...
January 11, 2019: Archives of Microbiology
https://www.readbyqxmd.com/read/30635670/pedobacter-paludis-sp-nov-isolated-from-wetland-soil
#2
Yuxiao Zhang, Jingxin Li, Jinling Wang, Gejiao Wang
A Gram-stain-negative, aerobic, non-motile, rod-shaped and non-spore-forming bacterium, designated YXT , was isolated from wetland soil. Compared to strain YXT , Pedobacter yonginense HMD1002T had the highest 16S rRNA gene sequence identity (97.8%), and the remaining strains had the identities below 97%. Phylogenetic analysis of the 16S rRNA gene sequences showed that strain YXT grouped with P. yonginense HMD1002T . The values of DNA-DNA hybridization and genomic orthologous average nucleotide identity (orthoANI) between strain YXT and Pedobacter yonginense KCTC 22721T were 58...
January 11, 2019: Archives of Microbiology
https://www.readbyqxmd.com/read/30627760/molecular-identification-of-clinical-and-environmental-avian-aspergillus-isolates
#3
Raquel Sabino, Julia Burco, Joana Valente, Cristina Veríssimo, Karl V Clemons, David A Stevens, Lisa A Tell
Aspergillosis causes high morbidity and mortality in avian species. The main goal of this study was to use molecular techniques to identify Aspergillus species collected from different avian species with aspergillosis. A subsample of those isolates was also screened for resistance to itraconazole. Over a 2-year period, clinical samples were recovered from 44 birds with clinical signs of the disease, clinical pathology results suspicious of aspergillosis, or from birds that died from Aspergillus spp. infection...
January 9, 2019: Archives of Microbiology
https://www.readbyqxmd.com/read/30617456/can-co-inoculation-of-bradyrhizobium-and-azospirillum-alleviate-adverse-effects-of-drought-stress-on-soybean-glycine-max-l-merrill
#4
Elijanara Raissa Silva, Jardel Zoz, Carlos Eduardo Silva Oliveira, Alan Mario Zuffo, Fábio Steiner, Tiago Zoz, Eduardo Pradi Vendruscolo
Harnessing the beneficial potential of plant growth-promoting rhizobacteria may be an alternative strategy to improve plant tolerance to drought stress. The effect of inoculation with Bradyrhizobium japonicum and Azospirillum brasilense either alone or in combination on the plant growth and drought tolerance of soybean [Glycine max (L.) Merrill.] was investigated in this study in greenhouse conditions. Treatments were arranged in a randomized block design in a 3 × 4 factorial: three irrigation regimes [100% of pot capacity-PC (well-watered control), 50% of PC (moderate stress) and 25% of PC (severe stress)] and four inoculation treatments [control (non-inoculated), inoculation with B...
January 7, 2019: Archives of Microbiology
https://www.readbyqxmd.com/read/30610246/high-resolution-novel-method-for-tracking-bacteria-in-a-multi-species-biofilm
#5
David Polak, Sharon Shany-Kdoshim, Liana Zaydel, Osnat Feuerstein, Yael Houri-Haddad
The aim of this study is to establish a novel high resolution tracking ability of a specific bacterium in multispecies biofilm. A periodontal multispecies biofilm was constructed with Streptococcus sanguis, Actinomyces naeslundii, Porphyromonas gingivalis and Fusobacterium nucleatum. A single species was stained with fluorescein isothiocyanate (FITC). The mature biofilm was stained for viability (propidium iodide) and analysis was performed with flow cytometry. The sensitivity of the assay was compared with colony forming units (CFU) counts...
January 4, 2019: Archives of Microbiology
https://www.readbyqxmd.com/read/30604014/draft-genome-and-description-of-cohnella-massiliensis-sp-nov-a-new-bacterial-species-isolated-from-the-blood-culture-of-a-hemodialysis-patient
#6
Rita Abou Abdallah, Jacques Bou Khalil, Claudia Andrieu, Enora Tomeï, Nicholas Armstrong, Pierre-Edouard Fournier, Didier Raoult, Fadi Bittar
Strain 6021052837T was isolated from the blood culture of a hemodialysis patient on Chocolat PolyViteX medium at 37 °C after 2 days of incubation. Colonies could not be identified by our systematic MALDI-TOF Mass Spectrometry screening. The16S rRNA gene sequencing showed that the strain had 96% sequence identity with Cohnella formosensis (Genbank accession number JN806384), the phylogenetic closely related type strain of a species with standing in nomenclature, which putatively classifies it as a new species...
January 2, 2019: Archives of Microbiology
https://www.readbyqxmd.com/read/30604013/lectin-based-detection-of-escherichia-coli-and-staphylococcus-aureus-by-flow-cytometry
#7
Olga D Hendrickson, Vadim D Nikitushkin, Anatoly V Zherdev, Boris B Dzantiev
This study develops a flow cytometry analysis of the bacterial pathogens Escherichia coli and Staphylococcus aureus based on a ligand-bioreceptor interaction. We used fluorescently labeled plant lectins as natural receptors that could specifically interact with the cell wall carbohydrates of bacteria. An epifluorescence microscopy was used as an additional approach to confirm and visualize lectin-carbohydrate interactions. The binding specificity of plant lectins to E. coli and S. aureus cells was studied, and wheat germ agglutinin, which provided high-affinity interactions, was selected as a receptor...
January 2, 2019: Archives of Microbiology
https://www.readbyqxmd.com/read/30604012/shotgun-metagenomics-offers-novel-insights-into-taxonomic-compositions-metabolic-pathways-and-antibiotic-resistance-genes-in-fish-gut-microbiome
#8
Anuj Tyagi, Balwinder Singh, Naveen K Billekallu Thammegowda, Niraj K Singh
Gut microbiota of freshwater carp (Labeo rohita) was investigated by shotgun metagenomics to understand its taxonomic composition and functional capabilities. With the presence of 36 phyla, 326 families and 985 genera, the fish gut microbiota was found to be quite diverse in nature. However, at the phylum level, more than three-fourths of gut microbes belonged to Proteobacteria. Very low prevalence of commonly used probiotic bacteria (Bacillus, Lactobacillus, Streptococcus, and Lactococcus) in fish gut suggested the need to search for alternative probiotics for aquaculture use...
January 2, 2019: Archives of Microbiology
https://www.readbyqxmd.com/read/30560286/sphingobium-aromaticivastans-sp-nov-a-novel-aniline-and-benzene-degrading-and-antimicrobial-compound-producing-bacterium
#9
Tuan Manh Nguyen, Jaisoo Kim
A strictly aerobic, orange-pigmented strain was isolated and designated as UCM-25T . This strain is capable of degrading aniline and benzene, while is also producing antimicrobial compounds which inhibit the growth of some common pathogenic microbes. A near full-length 16S rRNA gene sequence revealed similarity to Sphingobium chlorophenolicum NBRC 16172T (98.6%). The level of DNA-DNA hybridization between the new isolate and the related species suggests UCM-25T to be a new species belonging to the genus Sphingobium...
December 17, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30554292/pore-forming-bacteriocins-structural-functional-relationships
#10
REVIEW
Alexey S Vasilchenko, Alexander V Valyshev
Peptides and proteins are important bioorganic compounds in nature, among which a special place is occupied by antimicrobial substances. There are more than 2000 different antimicrobial peptides (AMPs) produced by a variety of living organisms. Bacteriocins produced by bacteria are the minor group, whose chemical structures are most complicated among all AMPs. The review summarized the main points related to antimicrobial action of the bacteriocins including steps of peptide's interaction with bacterial membranes and details of membrane damaging...
December 15, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30539264/paradigm-shift-in-species-description-the-need-to-move-towards-a-tabular-format
#11
EDITORIAL
Erko Stackebrandt, David Smith
No abstract text is available yet for this article.
December 11, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30539263/xylanosomes-produced-by-cellulosimicrobium-cellulans-f16-were-diverse-in-size-but-resembled-in-subunit-composition
#12
Tong-Yi Dou, Jing Chen, Yi-Fu Hao, Xiaohui Qi
The hemicellulolytic enzyme system produced by Cellulosimicrobium cellulans strain F16 was resolved by ultracentrifugation and size exclusion chromatography. The particle size and molecular weight were determined by both dynamic light scattering and negative stain electron microscopy. The results showed that xylanosomes produced by strain F16 were found to have an apparent sedimentation coefficient of 28 S, were diverse in size (18-70 nm), molecular weight (11-78 MDa) and morphology, but resembled in subunit composition (SDS-PAGE and proteomic results)...
December 11, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30535938/revealing-the-roles-of-y4wf-and-tidc-genes-in-rhizobium-tropici-ciat-899-biosynthesis-of-indolic-compounds-and-impact-on-symbiotic-properties
#13
Leandro Datola Tullio, André Shigueyoshi Nakatani, Douglas Fabiano Gomes, Francisco Javier Ollero, Manuel Megías, Mariangela Hungria
Rhizobium tropici CIAT 899 is a strain known by its ability to nodulate a broad range of legume species, to synthesize a variety of Nod factors, its tolerance of abiotic stresses, and its high capacity to fix atmospheric N2 , especially in symbiosis with common bean (Phaseolus vulgaris L.). Genes putatively related to the synthesis of indole acetic acid (IAA) have been found in the symbiotic plasmid of CIAT 899, in the vicinity of the regulatory nodulation gene nodD5, and, in this study, we obtained mutants for two of these genes, y4wF and tidC (R...
December 8, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30523376/blastococcus-deserti-sp-nov-isolated-from-a-desert-sample
#14
Zi-Wen Yang, Mipeshwaree Devi Asem, Xin Li, Lan-Yu Li, Nimaichand Salam, Dalal Hussien M Alkhalifah, Wael N Hozzein, Guo-Xing Nie, Wen-Jun Li
A Gram-positive and aerobic actinobacterium, strain SYSU D8006T , was isolated from a desert sand sample collected from Gurbantunggut desert, China. Phenotypically, the strain was found to grow at 14-50 °C, pH 6.0-9.0 and in the presence of up to 4% (w/v) NaCl. The chemotaxonomic features of strain SYSU D8006T included menaquinone MK-9(H4 ) as the respiratory quinone, diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannoside as known polar lipids, iso-C15:0, iso-C16:0, C17:1 ω8c and C18:1 ω9c as the predominant fatty acids, and arabinose, galactose and glucose as the whole cell sugars...
December 6, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30519708/phenotypical-characterisation-of-a-putative-%C3%AF-amino-acid-transaminase-in-the-yeast-scheffersomyces-stipitis
#15
Tomas Linder
Phylogenetic analysis of class III transaminases in the budding yeasts Lachancea kluyveri, Saccharomyces cerevisiae and Scheffersomyces stipitis identified a hitherto uncharacterised Sch. stipitis transaminase encoded by the PICST_54153 gene, which clustered with previously described γ-amino butyric acid (GABA) and β-alanine transaminases. Deletion of the PICST_54153 gene in Sch. stipitis resulted in a complete loss in the utilisation of β-alanine and β-ureidopropionic acid as nitrogen sources, while growth on 1,3-diaminopropane displayed a significant lag phase compared to the wild-type control...
December 6, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30506399/endophytic-bacterial-communities-of-jingbai-pear-trees-in-north-china-analyzed-with-illumina-sequencing-of-16s-rdna
#16
Fei Ren, Wei Dong, Dong-Hui Yan
Plant endophytes play a crucial role in plant growth, health and ecological function. Jingbai pear (the best quality cultivar of Pyrus ussuriensi Maxim. ex Rupr.) has important ecological and economic value in north China. Conversation of its genetics has great meanings to pear genus (Pyrus L.). However, the bacterial community associated with the cultivar remains unknown. In this study, the structure of endophytic bacterial communities associated with different tissues and soil of Jingbai Pear trees was analyzed with Illumina Miseq sequencing of bacterial 16S rDNA...
December 1, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30506165/fatty-acid-biosynthesis-is-enhanced-in-escherichia-coli-strains-with-deletion-in-genes-encoding-the-pii-signaling-proteins
#17
Thiago Estefano Rodrigues, Guilherme Lanzi Sassaki, Gláucio Valdameri, Fábio Oliveira Pedrosa, Emanuel Maltempi Souza, Luciano Fernandes Huergo
The committed and rate-limiting step in fatty acid biosynthesis is catalyzed by acetyl-CoA carboxylase (ACC). In previous studies we showed that ACC activity is inhibited through interactions with the PII signaling proteins in vitro. Here we provide in vivo support for that model; we noted that PII proteins are able to reduce malonyl-CoA levels in vivo in Escherichia coli. Furthermore, we show that fatty acid biosynthesis is strongly enhanced in E. coli strains carrying deletions in PII coding genes. Given that PII proteins act as conserved negative regulators of ACC in Bacteria, our findings may be explored to engineer other prokaryotes to improve fatty acid yields, thereby turning microbial biofuel production economically competitive in the future...
November 30, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30483842/biochemical-characterization-of-a-kunitz-inhibitor-from-inga-edulis-seeds-with-antifungal-activity-against-candida-spp
#18
Heloisa Xavier Dib, Daniella Gorete Lourenço de Oliveira, Caio Fernando Ramalho de Oliveira, Gabriel Bonan Taveira, Erica de Oliveira Mello, Newton Valério Verbisk, Marilene Rodrigues Chang, Dario Corrêa Junior, Valdirene Moreira Gomes, Maria Lígia Rodrigues Macedo
We describe the characterization of IETI, the first trypsin inhibitor purified from Inga edulis, a tree widely distributed in Brazil. Two-step chromatography was used to purify IETI, a protein composed of a single peptide chain of 19,685.10 Da. Amino-terminal sequencing revealed that IETI shows homology with the Kunitz family, as substantiated by its physical-chemical features, such as its thermal (up to 70 °C) and wide-range pH stability (from 2 to 10), and the value of its dissociation constant (6.2 nM)...
November 27, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30483841/roseovarius-ponticola-sp-nov-a-novel-lipolytic-bacterium-of-the-family-rhodobacteraceae-isolated-from-seawater
#19
Sooyeon Park, Ji-Min Park, Jung-Sook Lee, Jung-Hoon Yoon
A lipolytic, Gram-negative, aerobic, non-motile and pleomorphic bacterial strain, designated W-SW3T , was isolated from seawater around Wando, an island of South Korea, and its taxonomic position was determined using a polyphasic approach. Its optimal growth occurred at 30 °C, pH 7.0-8.0 and 2.0-4.0% (w/v) NaCl. Neighbour-joining phylogenetic tree of 16S rRNA gene sequences showed that strain W-SW3T belonged to the genus Roseovarius of the family Rhodobacteraceae, by showing the highest 16S rRNA gene sequence similarity value (97...
November 27, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/30478730/cold-survival-strategies-for-bacteria-recent-advancement-and-potential-industrial-applications
#20
REVIEW
Amit S Dhaulaniya, Biji Balan, Mohit Kumar, Pawan K Agrawal, Dileep Kumar Singh
Microorganisms have evolved themselves to thrive under various extreme environmental conditions such as extremely high or low temperature, alkalinity, and salinity. These microorganisms adapted several metabolic processes to survive and reproduce efficiently under such extreme environments. As the major proportion of earth is covered with the cold environment and is exploited by human beings, these sites are not pristine anymore. Human interventions are a great reason for disturbing the natural biogeochemical cycles in these regions...
November 26, 2018: Archives of Microbiology
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