Effect of storage, temperature, and extraction kit on the phylogenetic composition detected in the human milk microbiota
This study highlights that when extraction from fresh milk samples is not an option, freezing at −80°C is the next best option to preserve the integrity of the milk microbiome. Furthermore, our results demonstrate that choice of extraction kit had a profound impact on the microbiota populations detected in milk. AbstractHuman milk is considered the optimum feeding regime for newborns and is a source of bacteria for the developing infant gastrointestinal tract. However, as with all low biomass samples, standardization across variabilities such as sample collection, storage, and extraction methods is needed to eliminate d...
Source: MicrobiologyOpen - January 27, 2021 Category: Microbiology Authors: Katriona E. Lyons,
Fiona Fouhy,
Carol ‐Anne O’ Shea,
C. Anthony Ryan,
Eugene M. Dempsey,
R. Paul Ross,
Catherine Stanton Tags: ORIGINAL ARTICLE Source Type: research
Issue Information
(Source: MicrobiologyOpen)
Source: MicrobiologyOpen - January 21, 2021 Category: Microbiology Tags: ISSUE INFORMATION Source Type: research
Community diversity metrics, interactions, and metabolic functions of bacteria associated with municipal solid waste landfills at different maturation stages
This study determined bacterial community composition, interaction conetworks, metabolic functions, and controlling physicochemical properties in two landfills aged 14 and 36 years. High throughput sequencing revealed a similar distribution of bacterial diversity, evenness, and richness in the 14‐ and 36‐year‐old landfills in the 0–90 cm depth. At deeper layers (120–150 cm), the 14‐year‐old landfill had significantly greater bacterial diversity and rich ness indicating that it is a more active microcosm than the 36‐year‐old landfill, where phylumEpsilonbacteraeota was overwhelmingly dominant. The taxo...
Source: MicrobiologyOpen - January 21, 2021 Category: Microbiology Authors: Lerato Sekhohola ‐Dlamini,
Ramganesh Selvarajan,
Henry Joseph Odour Ogola,
Memory Tekere Tags: ORIGINAL ARTICLE Source Type: research
Issue Information
MicrobiologyOpen, Volume 10, Issue 1, January 2021. (Source: MicrobiologyOpen)
Source: MicrobiologyOpen - January 21, 2021 Category: Microbiology Tags: ISSUE INFORMATION Source Type: research
Identification of a conserved N ‐terminal domain in the first module of ACV synthetases
A conserved domain was identified in the first module of thel‐δ‐(α‐aminoadipoyl)‐l‐cysteinyl‐d‐valine synthetase, the first enzyme of the biosynthetic pathway of penicillin. The domain is structurally related to condensation domains, but it is approximately half the size and it lacks the typical active site motif. Nevertheless, its presence is important for catalysis. AbstractThel‐δ‐(α‐aminoadipoyl)‐l‐cysteinyl‐d‐valine synthetase (ACVS) is a trimodular nonribosomal peptide synthetase (NRPS) that provides the peptide precursor for the synthesis of β‐lactams. The enzyme has been extensivel...
Source: MicrobiologyOpen - January 15, 2021 Category: Microbiology Authors: Riccardo Iacovelli,
L ászló Mózsik,
Roel A.L. Bovenberg,
Arnold J.M. Driessen Tags: ORIGINAL ARTICLE Source Type: research
Characterization of the microbiota and chemical properties of pork loins during dry aging
This study identified the microbiota of pork loins during DA using culturing and culture‐independent meta‐16S rRNA gene sequencing and elucidated its characteristics. The amounts of free amino acids and profiles of aroma‐active compounds were also monitored by high‐performance liquid chromatography and gas chromatography, respectively. The meta‐16S rRNA gene sequencing revealed thatPseudomonas spp. generally dominated the microbiota throughout DA; however, the culturing analysis showed marked changes in the species composition during DA.Acinetobacter spp. were the second most dominant bacteria before DA in the cu...
Source: MicrobiologyOpen - January 7, 2021 Category: Microbiology Authors: Akihito Endo,
Ryosuke Koizumi,
Yozo Nakazawa,
Yuh Shiwa,
Shintaro Maeno,
Yoshihiko Kido,
Tomohiro Irisawa,
Yoshiki Muramatsu,
Kotaro Tada,
Masao Yamazaki,
Takao Myoda Tags: ORIGINAL ARTICLE Source Type: research
Characteristics of DNA polymerase I from an extreme thermophile, Thermus scotoductus strain K1
The DNA polymerase from the extreme thermophileThermus scotoductus strain K1 (TsK1) was expressed inEscherichia coli, purified, and characterized. The enzyme demonstrated an optimal temperature and pH value of 72 –74°C and 9.0, respectively, and could efficiently amplify 2.5 kb DNA products.TsK1 DNA polymerase did not require additional K+ ions but it did need Mg2+ at 3 –5 mM for optimal activity. The base insertion fidelity for this enzyme was significantly better than that ofTaq DNA polymerase. AbstractSeveral native and engineered heat ‐stable DNA polymerases from a variety of sources are used as powerful tools...
Source: MicrobiologyOpen - January 7, 2021 Category: Microbiology Authors: Ani Saghatelyan,
Hovik Panosyan,
Armen Trchounian,
Nils ‐Kåre Birkeland Tags: ORIGINAL ARTICLE Source Type: research
Temporal transcriptomes of a marine cyanopodovirus and its Synechococcus host during infection
Marine picocyanobacteria belonging to generaSynechococcus andProchlorococcus are genetically diverse and distributed into distinct biogeographical patterns, and both are infected by genetically closely related cyanopodoviruses. Here, we isolated and characterized a cyanopodovirus infectingSynechococcus, carried out RNA ‐seq analysis, and compared the results to the expression patterns of a cyanopodovirus and itsProchlorococcus host, which were previously reported. Our study demonstrated that cyanopodoviruses infecting marineSynechococcus andProchlorococcus undergo similar genome ‐wide expression dynamics and that gene ...
Source: MicrobiologyOpen - December 30, 2020 Category: Microbiology Authors: Sijun Huang,
Yingting Sun,
Si Zhang,
Lijuan Long Tags: ORIGINAL ARTICLE Source Type: research
Effect of storage, temperature, and extraction kit on the phylogenetic composition detected in the human milk microbiota
This study highlights that when extraction from fresh milk samples is not an option, freezing at −80°C is the next best option to preserve the integrity of the milk microbiome. Furthermore, our results demonstrate that choice of extraction kit had a profound impact on the microbiota populations detected in milk. AbstractHuman milk is considered the optimum feeding regime for newborns and is a source of bacteria for the developing infant gastrointestinal tract. However, as with all low biomass samples, standardization across variabilities such as sample collection, storage, and extraction methods is needed to eliminate d...
Source: MicrobiologyOpen - December 29, 2020 Category: Microbiology Authors: Katriona E. Lyons,
Fiona Fouhy,
Carol-Anne O ’ Shea,
C. Anthony Ryan,
Eugene M. Dempsey,
R. Paul Ross,
Catherine Stanton Tags: ORIGINAL ARTICLE Source Type: research
Isolation and characterization of fast ‐growing green snow bacteria from coastal East Antarctica
In this study, 45 fast ‐growing bacteria were isolated from green snow in East Antarctica. Bacterial isolates, identified by 16S rRNA sequencing, showed a wide range of growth temperature from 4°C to 25°C and a high‐level of enzymatic activity. Phenotyping using Fourier‐transform infrared spectroscopy revealed a p ossible accumulation of intracellular polymers and lipids in some of the isolates. AbstractSnow microorganisms play a significant role in climate change and affecting the snow melting rate in the Arctic and Antarctic regions. While research on algae inhabiting green and red snow has been performed extensi...
Source: MicrobiologyOpen - December 29, 2020 Category: Microbiology Authors: Margarita Smirnova,
Uladzislau Miamin,
Achim Kohler,
Leonid Valentovich,
Artur Akhremchuk,
Anastasiya Sidarenka,
Andrey Dolgikh,
Volha Shapaval Tags: ORIGINAL ARTICLE Source Type: research
Hidden heterogeneity and co ‐occurrence networks of soil prokaryotic communities revealed at the scale of individual soil aggregates
DNA extracted from ≥250‐mg of soil neglects spatial information stored in individual soil aggregates and thus limits our understanding of the structure and functionality of soil microbial communities. Here, we demonstrate that DNA obtained from individual mg‐sized soil aggregates provides new insights into how m icrobial communities are assembled and increases the likelihood of finding truly interacting microbial taxa by network analysis. AbstractSequencing PCR ‐amplified gene fragments from metagenomic DNA is a widely applied method for studying the diversity and dynamics of soil microbial communities. Typically, ...
Source: MicrobiologyOpen - December 25, 2020 Category: Microbiology Authors: M árton Szoboszlay,
Christoph C. Tebbe Tags: ORIGINAL ARTICLE Source Type: research
Microbiota succession during aerobic stability of maize silage inoculated with Lentilactobacillus buchneri NCIMB 40788 and Lentilactobacillus hilgardii CNCM ‐I‐4785
Aerobic deterioration of silage following feeding out is responsible for important quality losses on farms. Inoculation with a combination ofLentilactobacillus buchneri andLentilactobacillus hilgardii modified the consequence of exposure to air and maintained higher microbial diversity, avoiding spoiling microorganisms detrimental effect on the silage. AbstractAerobic deterioration of silage following feeding out is responsible for the deterioration of its quality. Inoculation of silage with lactic acid bacteria is one strategy to limit these effects. A trial was performed using whole ‐plant corn ensiled in bag silo, and...
Source: MicrobiologyOpen - December 24, 2020 Category: Microbiology Authors: Pascal Drouin,
Julien Tremblay,
Justin Renaud,
Emmanuelle Apper Tags: ORIGINAL ARTICLE Source Type: research
Circulation of an atypical hepatitis C virus (HCV) strain at a dialysis unit in northeast India
A high infection rate of HCV (26%) was detected in the dialysis unit of a tertiary care hospital. All the strains of HCV were of the same genotype and subtype 3 f. This is the first time an outbreak of HCV 3f subtype is reported. AbstractPatients undergoing hemodialysis are at an increased risk of hepatitis C virus (HCV) infection. The implementation of standard infection control measures can substantially decrease the risk of infections and other nosocomial infections. To study the HCV infection rates and genotypes in maintenance hemodialysis subjects in a dialysis unit. A total of 196 maintenance hemodialysis subjects ...
Source: MicrobiologyOpen - December 24, 2020 Category: Microbiology Authors: Deepjyoti Kalita,
Sangeeta Deka,
Kailash Chamuah Tags: ORIGINAL ARTICLE Source Type: research
Corrigendum: PasT of Escherichia coli sustains antibiotic tolerance and aerobic respiration as a bacterial homolog of mitochondrial Coq10
MicrobiologyOpen, Volume 9, Issue 12, December 2020. (Source: MicrobiologyOpen)
Source: MicrobiologyOpen - December 22, 2020 Category: Microbiology Tags: CORRIGENDUM Source Type: research
Issue Information
MicrobiologyOpen, Volume 9, Issue 12, December 2020. (Source: MicrobiologyOpen)
Source: MicrobiologyOpen - December 22, 2020 Category: Microbiology Tags: ISSUE INFORMATION Source Type: research
