2,382 results match your criteria cultivable bacteria


Selective Isolation of From Human Faeces Using Pangenomics, Metagenomics, and Enzymology.

Front Microbiol 2021 21;12:649698. Epub 2021 Apr 21.

Guangdong Provincial Key Laboratory of Microbial Safety and Health, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, China.

, an important genus for human health, is difficult to isolate. We applied metagenomics, pangenomics, and enzymology to determine the dominant glycoside hydrolase (GH) families of Bifidobacterium and designed selective medium for isolation. Pangenomics results showed that the GH13, GH3, GH42, and GH43 families were highly conserved in . Read More

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Cultivable and metagenomic approach to study the combined impact of nanogypsum and Pseudomonas taiwanensis on maize plant health and its rhizospheric microbiome.

PLoS One 2021 26;16(4):e0250574. Epub 2021 Apr 26.

Department of Microbiology, College of Basic Sciences and Humanities, G.B. Pant University of Agriculture and Technology, Pantnagar, Uttarakhand, India.

In the present study we examined the effect of nanogypsum and Pseudomonas taiwanensis strain BCRC 17751on plant and soil health using conventional and metagenomics approaches. Soil physicochemical properties and agronomical parameters of maize plants were reported to be better when applied with nanogypsum and bacterial inoculum together. When compared to control a significant increase in total bacterial counts, nitrogen, phosphorus, potassium (NPK) solubilizing bacterial population and soil enzyme activities (fluorescein diacetate, alkaline phosphatase, dehydrogenase, β-glucosidase, arylesterase and amylase) was reported in treatments. Read More

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Sulfitobacter alexandrii sp. nov., a new microalgae growth-promoting bacterium with exopolysaccharides bioflocculanting potential isolated from marine phycosphere.

Antonie Van Leeuwenhoek 2021 Apr 24. Epub 2021 Apr 24.

Department of Marine Chemistry, Zhejiang Ocean University, Zhoushan, China.

Marine phycosphere harbors unique cross-kingdom associations with enormous ecological significance in aquatic ecosystems as well as relevance for algal biotechnology industry. During our investigating the microbial composition and bioactivity of marine phycosphere microbiota (PM), a novel lightly yellowish and versatile bacterium designated strain AM1-D1 was isolated from cultivable PM of marine dinoflagellate Alexandrium minutum amtk4 that produces high levels of paralytic shellfish poisoning toxins (PSTs). Strain AM1-D1 demonstrates notable bioflocculanting bioactivity with bacterial exopolysaccharides (EPS), and microalgae growth-promoting (MGP) potential toward its algal host. Read More

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High level of conservation and diversity among the endophytic seed bacteriome in eight alpine grassland species growing at the Qinghai Tibetan Plateau.

FEMS Microbiol Ecol 2021 Apr 22. Epub 2021 Apr 22.

AgResearch Limited, Grasslands Research Center, Tennent Drive, Private Bag 11008, Palmerston North 4442, New Zealand.

Seed borne microorganisms play an important role in plant biology. Concerns have recently been raised about loss of seed microbial diversity by seed treatments, crop domestication and plant breeding. Information on the seed microbiomes of native plants growing in natural ecosystems is beneficial as they provide the best settings to detect indigenous plant microbe interactions. Read More

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Diluted Luria-Bertani medium vs. sewage sludge as growth media: comparison of community structure and diversity in the culturable bacteria.

Appl Microbiol Biotechnol 2021 May 15;105(9):3787-3798. Epub 2021 Apr 15.

Department of Biological Functions Engineering, Graduate School of Life Science and Systems Engineering, Kyushu Institute of Technology, Wakamatsu-Ku, Kitakyushu, Japan.

Because colony formation is essential to seek bacterial functions by the direct observation of phenotype, the diversification of colony formation for culturable bacteria is a big challenge in the research field of Environmental Biotechnology. In this study, the biodiversity of cultivable bacteria (colony or liquid culture) was compared by using Luria-Bertani (LB) medium and waste sewage sludge (WSS) under different dilutions and temperatures. When WSS was used as a bacterial source, whereas the highest number of colonies was found at the concentration of WSS (5%), a particular concentration of LB (10%) or WSS (1%) as a growth medium showed the best number of the operational taxonomic units (OTUs) of colonies. Read More

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Characterization of Environmental and Cultivable Antibiotic-Resistant Microbial Communities Associated with Wastewater Treatment.

Antibiotics (Basel) 2021 Mar 26;10(4). Epub 2021 Mar 26.

Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Charlotte, NC 28223, USA.

Bacterial resistance to antibiotics is a growing global concern, threatening human and environmental health, particularly among urban populations. Wastewater treatment plants (WWTPs) are thought to be "hotspots" for antibiotic resistance dissemination. The conditions of WWTPs, in conjunction with the persistence of commonly used antibiotics, may favor the selection and transfer of resistance genes among bacterial populations. Read More

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Primary Processing and Storage Affect the Dominant Microbiota of Fresh and Chill-Stored Sea Bass Products.

Foods 2021 Mar 22;10(3). Epub 2021 Mar 22.

Laboratory of Marketing and Technology of Aquatic Products and Foods, Department of Ichthyology and Aquatic Environment, School of Agricultural Sciences, University of Thessaly, Fytokou Street, 38446 Volos, Greece.

The cultivable microbiota isolated from three sea bass products (whole, gutted, and filleted fish from the same batch) during chilled storage and the effect of primary processing on microbial communities in gutted and filleted fish were studied. Microbiological and sensory changes were also monitored. A total of 200 colonies were collected from TSA plates at the beginning and the end of fish shelf-life, differentiated by High Resolution Sequencing (HRM) and identified by sequencing analysis of the V3-V4 region of the 16S rRNA gene. Read More

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Characterization of the Skin Cultivable Microbiota Composition of the Frog Inhabiting Different Environments.

Int J Environ Res Public Health 2021 03 5;18(5). Epub 2021 Mar 5.

Department of Life Sciences and Centre for Mechanical Engineering, Materials and Processes, University of Coimbra, Calçada Martim de Freitas, 3000-456 Coimbra, Portugal.

Microorganisms that live in association with amphibian skin can play important roles in protecting their host. Within the scenarios of global change, it is important to understand how environmental disturbances, namely, metal pollution, can affect this microbiota. The aim of this study is to recognize core bacteria in the skin cultivable microbiota of the Perez frog () that are preserved regardless of the environmental conditions in which the frogs live. Read More

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High Diversity of β-Glucosidase-Producing Bacteria and Their Genes Associated with Scleractinian Corals.

Int J Mol Sci 2021 Mar 29;22(7). Epub 2021 Mar 29.

Coral Reef Research Center of China, Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, School of Marine Sciences, Guangxi University, Nanning 530004, China.

β-Glucosidase is a microbial cellulose multienzyme that plays an important role in the regulation of the entire cellulose hydrolysis process, which is the rate-limiting step in bacterial carbon cycling in marine environments. Despite its importance in coral reefs, the diversity of β-glucosidase-producing bacteria, their genes, and enzymatic characteristics are poorly understood. In this study, 87 β-glucosidase-producing cultivable bacteria were screened from 6 genera of corals. Read More

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Beneficial traits of root endophytes and rhizobacteria associated with plants growing in phytomanaged soils with mixed trace metal-polycyclic aromatic hydrocarbon contamination.

Chemosphere 2021 Mar 16;277:130272. Epub 2021 Mar 16.

Chrono-environnement UMR6249, CNRS, Université Bourgogne Franche-Comté, F-25000, Besançon, France; Université de Lorraine, Faculté des Sciences et Technologies, 54000, Nancy, France.

The diversity of cultivable bacteria associated with plants from phytomanaged soils with mixed trace metal (TM) and polycyclic aromatic hydrocarbon (PAH) contamination in Pierrelaye (France) was evaluated. The emphasis was on the cultivable bacterial community since the overall objective is to obtain inoculants to improve the remediation of this type of contaminated site. Root endophytic and rhizosphere soil bacterial counts were determined, and isolates were pooled by amplified rDNA restriction analysis and identified by 16S rDNA sequencing. Read More

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Dust and microbial filtration performance of regular and antimicrobial HVAC filters in realistic conditions.

Environ Sci Pollut Res Int 2021 Mar 25. Epub 2021 Mar 25.

IMT Atlantique, GEPEA, CNRS UMR 6144, BP 20722, 44307, Nantes cedex3, France.

Two polypropylene HVAC electret filters: a regular filter and an antimicrobial filter containing zinc pyrithione (ZPT), were compared for filtration performance. The study was conducted over 7 months in realistic conditions with semi-urban outdoor air. Several parameters were monitored over the study period: the average temperature was about 20 °C and relative humidity about 60%, the average inlet concentration of cultivable microorganisms was 50 CFU m, the average inlet concentration of particles was 10 μg m, the filter pressure drop increased moderately by about 30 Pa, and the particle collection efficiency of soda fluorescein (median diameter 0. Read More

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Physicochemical and Microbial Diversity Analyses of Indian Hot Springs.

Front Microbiol 2021 3;12:627200. Epub 2021 Mar 3.

State Key Laboratory of Biocontrol, Guangdong Provincial Key Laboratory of Plant Resources and Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Life Sciences, Sun Yat-sen University, Guangzhou, China.

In the present study, physicochemical and microbial diversity analyses of seven Indian hot springs were performed. The temperature at the sample sites ranged from 32 to 67°C, and pH remained neutral to slightly alkaline. pH and temperature influenced microbial diversity. Read More

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Blood cultures and blood microbiota analysis as surrogates for bronchoalveolar lavage fluid analysis in dogs with bacterial pneumonia.

BMC Vet Res 2021 Mar 23;17(1):129. Epub 2021 Mar 23.

Department of Veterinary Medicine and Surgery, College of Veterinary Medicine, University of Missouri, Columbia, MO, 65211, USA.

Background: Diagnosis of canine bacterial pneumonia relies on airway lavage to confirm septic, suppurative inflammation, and a positive bacterial culture. Considering risks of bronchoalveolar lavage fluid (BALF) collection, minimally invasive methods like culture or next generation sequencing of blood would be appealing. In dogs with bacterial pneumonia, our study aims included (1): determining proportion of agreement between cultivable bacteria in BALF and blood (2); characterizing BALF, blood, and oropharyngeal (OP) microbiota and determining if bacteria cultured from BALF were present in these communities; and (3) comparing relatedness of microbial community composition at all three sites. Read More

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Combined characterization of a new member of Marivita cryptomonadis strain LZ-15-2 isolated from cultivable phycosphere microbiota of highly toxic HAB dinoflagellate Alexandrium catenella LZT09.

Braz J Microbiol 2021 Jun 19;52(2):739-748. Epub 2021 Mar 19.

ABI Group of GPM Project, Department of Marine Chemistry, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, 316022, China.

During our conveying the microbial structures of phycosphere microbiota (PM) derived from diverse marine harmful algal bloom (HAB) dinoflagellates, a new rod-sharped, white-colored cultivable bacterial strain, designated as LZ-15-2, was isolated from the PM of highly toxic Alexandrium catenella LZT09. Phylogenetic analysis of 16S rRNA gene sequence indicated that strain LZ-15-2 belonged to the genus Marivita within the family Rhodobacteraceae, and demonstrated the highest gene similarity of 99.2% to M. Read More

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Manure-Based Amendments Influence Surface-Associated Bacteria and Markers of Antibiotic Resistance on Radishes Grown in Soils with Different Textures.

Appl Environ Microbiol 2021 Apr 27;87(10). Epub 2021 Apr 27.

Department of Food Science and Technology, Virginia Tech, Blacksburg, Virginia, USA

A controlled greenhouse study was performed to determine the effect of manure or compost amendments, derived during or in the absence of antibiotic treatment of beef and dairy cattle, on radish taproot-associated microbiota and indicators of antibiotic resistance when grown in different soil textures. Bacterial beta diversity, determined by 16S rRNA gene amplicon sequencing, bifurcated according to soil texture ( < 0.001,  = 0. Read More

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Transfer of Antibiotic Resistance Plasmid from Commensal Towards Human Intestinal Microbiota in the M-SHIME: Effect of dosis, Human Individual and Antibiotic Use.

Life (Basel) 2021 Feb 28;11(3). Epub 2021 Feb 28.

CMET, Center for Microbial Ecology and Technology, Ghent University, Coupure links 653, 9000 Gent, Belgium.

Along with (in) direct contact with animals and a contaminated environment, humans are exposed to antibiotic-resistant bacteria by consumption of food. The implications of ingesting antibiotic-resistant commensal bacteria are unknown, as dose-response data on resistance transfer and spreading in our gut is lacking. In this study, transfer of a resistance plasmid (IncF), harbouring several antibiotic resistance genes, from a commensal strain towards human intestinal microbiota was assessed using a Mucosal Simulator of the Human Intestinal Ecosystem (M-SHIME). Read More

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February 2021

Marinobacter shengliensis subsp. alexandrii Subsp. Nov., Isolated from Cultivable Phycosphere Microbiota of Highly Toxic Dinoflagellate Alexandrium catenella LZT09 and Description of Marinobacter shengliensis Subsp. shengliensis Subsp. Nov.

Curr Microbiol 2021 Apr 2;78(4):1648-1655. Epub 2021 Mar 2.

Key Laboratory of Livestock Disease Prevention of Guangdong Province, Maoming Branch of Guangdong Laboratory for Lingnan Modern Agriculture, Scientific Observation and Experiment Station of Veterinary Drugs and Diagnostic Techniques of Guangdong Province, Ministry of Agriculture and Rural Affairs, Institute of Animal Health, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China.

Phycosphere hosts the boundary of unique holobionts harboring dynamic algae-bacteria interactions. During our investigating the microbial consortia composition of phycosphere microbiota (PM) derived from diverse harmful algal blooms (HAB) dinoflagellates, a novel rod-shaped, motile and faint yellow-pigmented bacterium, designated as strain LZ-6, was isolated from HAB Alexandrium catenella LZT09 which produces high levels paralytic shellfish poisoning toxins. Phylogenetic analysis based on 16S rRNA gene and two housekeeping genes, rpoA and pheS sequences showed that the novel isolate shared the highest gene similarity with Marinobacter shengliensis CGMCC 1. Read More

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Relationships among intramammary health, udder and teat characteristics, and productivity of extensively managed ewes.

J Anim Sci 2021 Apr;99(4)

USDA, ARS, Livestock Bio-systems Research Unit, Roman. L. Hruska U.S. Meat Animal Research Center, Clay Center, NE 68933, USA.

Mastitis is an economically important disease and its subclinical state is difficult to diagnose, which makes mitigation more challenging. The objectives of this study were to screen clinically healthy ewes in order to 1) identify cultivable microbial species in milk, 2) evaluate somatic cell count (SCC) thresholds associated with intramammary infection, and 3) estimate relationships between udder and teat morphometric traits, SCC, and ewe productivity. Milk was collected from two flocks in early (<5 d) and peak (30 to 45 d) lactation to quantify SCC (n = 530) and numerate cultivable microbial species by culture-based isolation followed by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS; n = 243) identification. Read More

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Community Structure of Protease-Producing Bacteria Cultivated From Aquaculture Systems: Potential Impact of a Tropical Environment.

Front Microbiol 2021 4;12:638129. Epub 2021 Feb 4.

State Key Laboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, China.

Protease-producing bacteria play vital roles in degrading organic matter of aquaculture system, while the knowledge of diversity and bacterial community structure of protease-producing bacteria is limited in this system, especially in the tropical region. Herein, 1,179 cultivable protease-producing bacterial strains that belonged to Actinobacteria, Firmicutes, and Proteobacteria were isolated from tropical aquaculture systems, of which the most abundant genus was , followed by . The diversity and relative abundance of protease-producing bacteria in sediment were generally higher than those in water. Read More

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February 2021

Molecular typing of group B Neisseria meningitidis'subcapsular antigens directly on biological samples demonstrates epidemiological congruence between culture-positive and -negative cases: A surveillance study of invasive disease over a 13-year period.

J Infect 2021 04 19;82(4):28-36. Epub 2021 Feb 19.

Department of Health Sciences, University of Florence and Meyer Children's University Hospital, viale Pieraccini 24, 50139 Florence, Italy.

Background: Surveillance of serogroup B Neisseria meningitidis (MenB) subcapsular antigen variant distribution in invasive disease (IMD) is fundamental for multicomponent vaccine coverage prediction. IMD incidence in Tuscany in 2018 was 0.37/100,000 inhabitants, with MenB representing 57% of cases. Read More

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Insights Into the Ecological Role of spp. in an Ant-plant Symbiosis.

Front Microbiol 2021 1;12:621274. Epub 2021 Feb 1.

School of Pharmaceutical Sciences of Ribeirão Preto, University of São Paulo, Ribeirão Preto, Brazil.

In the myrmecophytic mutualistic relationship between a ants and plants both species receive protection and exchange nutrients. The presence of microorganisms in this symbiotic system has been reported, and the symbiotic role of some fungi involved in the myrmecophytic interactions has been described. In this work we focus on bacteria within this mutualism, conducting isolations and screening for antimicrobial activities, genome sequencing, and biochemical characterization. Read More

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February 2021

Cultivable yeasts associated with marine sponges in the Gulf of Thailand, South China Sea.

Antonie Van Leeuwenhoek 2021 Mar 11;114(3):253-274. Epub 2021 Feb 11.

Department of Microbiology, Faculty of Science, Kasetsart University, 50 Ngamwongwan Road, Lad Yao, Chatuchak, Bangkok, 10900, Thailand.

Marine sponges harbor numerous microorganisms, among which sponge-associated yeasts are the least explored. To gain greater knowledge of sponge-associated yeasts, an investigation was therefore performed on marine sponges in Sattahip Bay, Gulf of Thailand, South China Sea. Seventy-one (71) marine sponge samples were collected at sites near Samae-san, Mu, and Khram islands, and were subsequently identified as 17 sponge species in 14 genera. Read More

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Characterization of Bacterial Communities of Cold-Smoked Salmon during Storage.

Foods 2021 Feb 7;10(2). Epub 2021 Feb 7.

INRAE, UMR Secalim, Oniris, Route de Gachet, CS 44307 Nantes, France.

Cold-smoked salmon is a widely consumed ready-to-eat seafood product that is a fragile commodity with a long shelf-life. The microbial ecology of cold-smoked salmon during its shelf-life is well known. However, to our knowledge, no study on the microbial ecology of cold-smoked salmon using next-generation sequencing has yet been undertaken. Read More

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February 2021

Microbes of the human eye: Microbiome, antimicrobial resistance and biofilm formation.

Exp Eye Res 2021 Apr 5;205:108476. Epub 2021 Feb 5.

Jhaveri Microbiology Centre, Brien Holden Eye Research Centre, L. V. Prasad Eye Institute, Kallam Anji Reddy Campus, Hyderabad, Telangana, India. Electronic address:

Background: The review focuses on the bacteria associated with the human eye using the dual approach of detecting cultivable bacteria and the total microbiome using next generation sequencing. The purpose of this review was to highlight the connection between antimicrobial resistance and biofilm formation in ocular bacteria.

Methods: Pubmed was used as the source to catalogue culturable bacteria and ocular microbiomes associated with the normal eyes and those with ocular diseases, to ascertain the emergence of anti-microbial resistance with special reference to biofilm formation. Read More

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Evolution of Microbial Genomics: Conceptual Shifts over a Quarter Century.

Trends Microbiol 2021 Feb 1. Epub 2021 Feb 1.

National Center for Biotechnology Information, National Library of Medicine, Bethesda, MD 20894, USA.

Prokaryote genomics started in earnest in 1995, with the complete sequences of two small bacterial genomes, those of Haemophilus influenzae and Mycoplasma genitalium. During the next quarter century, the prokaryote genome database has been growing exponentially, with no saturation in sight. For most of these 25 years, genome sequencing remained limited to cultivable microbes. Read More

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February 2021

Fungi in PAH-contaminated marine sediments: Cultivable diversity and tolerance capacity towards PAH.

Mar Pollut Bull 2021 Mar 30;164:112082. Epub 2021 Jan 30.

Université de Pau et des Pays de l'Adour, UPPA/E2S, IPREM UMR CNRS 5254, Bat. IBEAS, Pau, France. Electronic address:

The cultivable fungal diversity from PAH-contaminated sediments was examined for the tolerance to polycyclic aromatic hydrocarbon (PAH). The 85 fungal strains, isolated in non-selective media, revealed a large diversity by ribosomal internal transcribed spacer (ITS) sequencing, even including possible new species. Most strains (64%) exhibited PAH-tolerance, indicating that sediments retain diverse cultivable PAH-tolerant fungi. Read More

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Beneficial Plant-Associated Microorganisms From Semiarid Regions and Seasonally Dry Environments: A Review.

Front Microbiol 2020 15;11:553223. Epub 2021 Jan 15.

Department of Genetics, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, Brazil.

Semiarid regions are apparently low biodiversity environments; however, these environments may host a phylogenetically diverse microbial community associated with plants. Their microbial inhabitants are often recruited to withstand stressful settings and improve plant growth under harsh conditions. Thus, plant-associated microorganisms isolated from semiarid and seasonally dry environments will be detailed in the present review, focusing on plant growth promotion potential and the microbial ability to alleviate plant abiotic stress. Read More

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January 2021

Polymerase chain reaction targeting 16S ribosomal RNA for the diagnosis of bacterial meningitis after neurosurgery.

Clinics (Sao Paulo) 2021 22;76:e2284. Epub 2021 Jan 22.

Faculdade de Medicina (FMUSP), Universidade de Sao Paulo, Sao Paulo, SP, BR.

Objectives: Bacterial and aseptic meningitis after neurosurgery can present similar clinical signs and symptoms. The aims of this study were to develop and test a molecular method to diagnose bacterial meningitis (BM) after neurosurgery.

Methods: A 16S ribosomal RNA gene PCR-based strategy was developed using artificially inoculated cerebrospinal fluid (CSF) followed by sequencing. Read More

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Greenland and Svalbard glaciers host unknown basidiomycetes: the yeast sp. nov. and the dimorphic gen. and sp. nov.

Int J Syst Evol Microbiol 2021 Feb;71(2)

Department of Biology, Biotechnical Faculty, University of Ljubljana, Jamnikarjeva 101, SI-1000 Ljubljana, Slovenia.

Sampling campaigns in Greenland and Svalbard were executed to explore fungal diversity in cold habitats. Three very abundant groups of strains were discovered, consisting either of recently described or of yet-undescribed psychrophilic and oligotrophic yeasts and dimorphic fungi, accounting for around 50 % of the total cultivable diversity of basidiomycetes in our studies. The occurrence of these taxa has also been demonstrated by culture-independent methods. Read More

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February 2021

Effect of Cyberlindnera jadinii yeast as a protein source on intestinal microbiota and butyrate levels in post-weaning piglets.

Anim Microbiome 2020 May 5;2(1):13. Epub 2020 May 5.

Department of Animal and Aquacultural Sciences, Faculty of Biosciences, Norwegian University of Life Sciences, Ås, Norway.

Background: Dietary yeast inclusions in a pig diet may drive changes both in gut bacterial composition and bacterial functional profile. This study investigated the effect of Cyberlindnera jadinii as a protein to replace 40% of the conventional proteins in a diet for weanling pigs on the microbiota in the small and large intestine, colonic short-chain fatty acid concentration, and colonic histopathology parameters. Seventy-two pigs weaned at 28 days of age were randomly assigned to either a control or a C. Read More

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