Browse
Submit Data
Databases
API
Help

Dataset Information

10 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Complete Genome Sequences of Pseudomonas alkylphenolica Neo and Variovorax sp. Strain CSUSB, Obtained in Undergraduate Microbiology Courses Using a Hybrid Assembly Approach.

ABSTRACT: Two Gram-negative bacteria with a high G+C content were isolated from soil in undergraduate microbiology classes by enriching for low nutrient growth and neonicotinoid pesticide tolerance. DNA from these isolates was purified and sequenced using a hybrid approach. Here we report the genome sequences of Pseudomonas alkylphenolica strain Neo and Variovorax sp. strain CSUSB.

SUBMITTER: Ne Ville C

PROVIDER: S-EPMC7046822 | biostudies-literature | 2020 Feb

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Complete Genome Sequences of Pseudomonas alkylphenolica Neo and Variovorax sp. Strain CSUSB, Obtained in Undergraduate Microbiology Courses Using a Hybrid Assembly Approach.

Ne Ville Christopher C Enright Dylan D Hernandez Ivan I Dodsworth Jeremey J Orwin Paul P

Microbiology resource announcements 20200227 9

Two Gram-negative bacteria with a high G+C content were isolated from soil in undergraduate microbiology classes by enriching for low nutrient growth and neonicotinoid pesticide tolerance. DNA from these isolates was purified and sequenced using a hybrid approach. Here we report the genome sequences of Pseudomonas alkylphenolica strain Neo and Variovorax sp. strain CSUSB. ...[more]

PMID: 32107301

Similar Datasets

Microbiology in Nursing and Allied Health (MINAH) Undergraduate Curriculum Guidelines: A Call to Retain Microbiology Lecture and Laboratory Courses in Nursing and Allied Health Programs.

Project description:This position paper presents the Microbiology in Nursing and Allied Health (MINAH) Undergraduate Curriculum Guidelines (Appendix 1) that were developed by a committee effort of the American Society for Microbiology (ASM). These guidelines differ from the 2012 General Microbiology Undergraduate Curriculum Guidelines presented by a separate ASM taskforce. The fact that some U.S. nursing programs are eliminating microbiology courses from their curriculum prompted the development of curriculum guidelines focused on nursing and allied health. Here we review: 1) factors that have shifted microbiology's place in health professions curricula (with a focus on nursing associate degree programs); 2) resources to support microbiology's inclusion in nursing and allied health programs; and 3) recommendations for maintaining microbiology as a full course (lecture and laboratory) in nursing and allied health undergraduate curricula.

| S-EPMC5969438 | biostudies-other

Complete Genome Sequences of Four Atrazine-Degrading Bacterial Strains, Pseudomonas sp. Strain ADPe, Arthrobacter sp. Strain TES, Variovorax sp. Strain 38R, and Chelatobacter sp. Strain SR38.

Project description:We report here the complete genome sequences of four atrazine-degrading bacteria. Their genomes will serve as references for determining the genetic changes that have occurred during an evolution experiment.

| S-EPMC8407692 | biostudies-literature

High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.

Project description:Here, we report the high-quality draft genome sequences of four phylogenetically diverse lignocellulose-degrading bacteria isolated from tropical soil (Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.) to elucidate the genetic basis of their ability to degrade lignocellulose. These isolates may provide novel enzymes for biofuel production.

| S-EPMC5477197 | biostudies-literature

Using Tobamoviruses for Phylogenetic Instruction in Undergraduate Biology Courses.

Project description: Not available

| S-EPMC5976030 | biostudies-literature

Complete Genome Sequences for Pseudomonas sp. Strains 29A and 43A.

Project description:Pseudomonas sp. strains 29A and 43A were originally isolated from the phyllosphere of individual plants of Cardamine cordifolia (Brassicaceae). Here, we report complete genome sequences for these two closely related strains, assembled using a hybrid approach combining Illumina paired-end reads and longer reads sequenced on an Oxford Nanopore MinION flow cell.

| S-EPMC7516153 | biostudies-literature

Genome Sequences for Two Acinetobacter baumannii Strains Obtained Using the Unicycler Hybrid Assembly Pipeline.

Project description:Here, we report a complete genome sequence for Acinetobacter baumannii strain ATCC 17961, with plasmid sequences, and a high-quality (>98% complete) build for A. baumannii strain AB09-003. These genome sequences were generated by combining short-read Illumina and long-read Oxford Nanopore MinION sequencing data using the Unicycler hybrid assembly pipeline.

| S-EPMC7953280 | biostudies-literature

Meta-analysis of Gender Performance Gaps in Undergraduate Natural Science Courses.

Project description:To investigate patterns of gender-based performance gaps, we conducted a meta-analysis of published studies and unpublished data collected across 169 undergraduate biology and chemistry courses. While we did not detect an overall gender gap in performance, heterogeneity analyses suggested further analysis was warranted, so we investigated whether attributes of the learning environment impacted performance disparities on the basis of gender. Several factors moderated performance differences, including class size, assessment type, and pedagogy. Specifically, we found evidence that larger classes, reliance on exams, and undisrupted, traditional lecture were associated with lower grades for women. We discuss our results in the context of natural science courses and conclude by making recommendations for instructional practices and future research to promote gender equity.

| S-EPMC8715812 | biostudies-literature

Isoprene Oxidation by the Gram-Negative Model bacterium Variovorax sp. WS11.

Project description:Plant-produced isoprene (2-methyl-1,3-butadiene) represents a significant portion of global volatile organic compound production, equaled only by methane. A metabolic pathway for the degradation of isoprene was first described for the Gram-positive bacterium Rhodococcus sp. AD45, and an alternative model organism has yet to be characterised. Here, we report the characterisation of a novel Gram-negative isoprene-degrading bacterium, Variovorax sp. WS11. Isoprene metabolism in this bacterium involves a plasmid-encoded iso metabolic gene cluster which differs from that found in Rhodococcus sp. AD45 in terms of organisation and regulation. Expression of iso metabolic genes is significantly upregulated by both isoprene and epoxyisoprene. The enzyme responsible for the initial oxidation of isoprene, isoprene monooxygenase, oxidises a wide range of alkene substrates in a manner which is strongly influenced by the presence of alkyl side-chains and differs from other well-characterised soluble diiron monooxygenases according to its response to alkyne inhibitors. This study presents Variovorax sp. WS11 as both a comparative and contrasting model organism for the study of isoprene metabolism in bacteria, aiding our understanding of the conservation of this biochemical pathway across diverse ecological niches.

| S-EPMC7143210 | biostudies-literature

Draft Genome Sequences of Pseudomonas sp. Strains Isolated from Wheat in Germany.

Project description:Three chloramphenicol-resistant Pseudomonas sp. strains were isolated from wheat grain in Germany on rose Bengal agar. The draft genome sizes ranged from 5,924,931 to 6,124,470 bp. All the isolates possessed genes for efflux pumps that might be responsible for an intrinsic chloramphenicol resistance. No acquired antibiotic resistance genes in these strains could be determined.

| S-EPMC6509520 | biostudies-literature

Bringing Real-World Microbiology Experiences to Undergraduate Students in Resource-Limited Environments.

Project description:Undergraduate microbiology curriculum should be amenable to periodic changes to incorporate new developments and ideas. The curriculum should be used not merely as a way to disseminate facts but also as a way to allow students to experience the process of science. In the context of undergraduate microbiology education in Osmania University (Hyderabad, India), existing curriculum does not explicitly allow students to engage in deeper understanding of concepts and understanding of the process of science, both in lecture and laboratory courses. The assessment methods that are currently used are limited in scope as they only test factual recall and superficial understanding of the subject and very minimally assess critical thinking skills. Another factor hampering innovation in the broader context of undergraduate education is the unavailability and inaccessibility to adequate resources. To address the issue of resource-limitations in implementing activities that expose undergraduate students to real-world microbiology experiences, a collaboration between a research institute and two teaching colleges was formed. This collaboration involved teacher and student workshops on exploring microbial diversity using 16S rRNA analysis with a view of blending novel research questions with technical skills in the undergraduate microbiology lab. This effort is an example of educators providing students with authentic experiences and, helping them gain critical knowledge and research skills in microbiology even under resource constraints, and students demonstrating motivation to participate in similar activities in the future. The collaborative effort described here can be a broadly sustainable model to improve overall undergraduate education in relatively resource-limited environments.

| S-EPMC7752863 | biostudies-literature