scholarly journals The Genomics Education Partnership: Successful Integration of Research into Laboratory Classes at a Diverse Group of Undergraduate Institutions

2010 ◽  
Vol 9 (1) ◽  
pp. 55-69 ◽  
Author(s):  
Christopher D. Shaffer ◽  
Consuelo Alvarez ◽  
Cheryl Bailey ◽  
Daron Barnard ◽  
Satish Bhalla ◽  
...  
Keyword(s):  
Genomic Sequence ◽  
Undergraduate Research ◽  
Bioinformatic Analysis ◽  
Ongoing Research ◽  
The Core ◽  
Undergraduate Institutions ◽  
Genomics Research ◽  
Genomics Education ◽  
Washington University ◽  
Genome Center

Genomics is not only essential for students to understand biology but also provides unprecedented opportunities for undergraduate research. The goal of the Genomics Education Partnership (GEP), a collaboration between a growing number of colleges and universities around the country and the Department of Biology and Genome Center of Washington University in St. Louis, is to provide such research opportunities. Using a versatile curriculum that has been adapted to many different class settings, GEP undergraduates undertake projects to bring draft-quality genomic sequence up to high quality and/or participate in the annotation of these sequences. GEP undergraduates have improved more than 2 million bases of draft genomic sequence from several species of Drosophila and have produced hundreds of gene models using evidence-based manual annotation. Students appreciate their ability to make a contribution to ongoing research, and report increased independence and a more active learning approach after participation in GEP projects. They show knowledge gains on pre- and postcourse quizzes about genes and genomes and in bioinformatic analysis. Participating faculty also report professional gains, increased access to genomics-related technology, and an overall positive experience. We have found that using a genomics research project as the core of a laboratory course is rewarding for both faculty and students.

scholarly journals Fermentation revival in the classroom: investigating ancient human practices as CUREs for modern diseases

2020 ◽  
Vol 367 (21) ◽  
Author(s):  
Jennifer K Lyles ◽  
Monika Oli
Keyword(s):  
Undergraduate Research ◽  
Bioinformatic Analysis ◽  
Research Experience ◽  
Group Presentation ◽  
Student Knowledge ◽  
Laboratory Equipment ◽  
Lecture Material ◽  
Hands On ◽  
Human Practices ◽  
Survey Responses

ABSTRACT A course-based undergraduate research experience (CURE) was designed to integrate key microbiological principles and techniques into an authentic research experience in a classroom setting and was implemented in an undergraduate microbiology laboratory course. Students conducted a 6-week study in order to determine the identity and quantity of unique probiotic species from various types of kefir. This course module followed an inquiry-based pedagogical approach in which students use the scientific process to investigate an unknown question with no predetermined outcome. During each lab, relevant microbiological topics and laboratory concepts were presented. Students then performed various laboratory techniques, reinforcing the lecture material with hands-on experience. In addition, students participated in reflection through group presentation of their results, bioinformatic analysis and literature review. Based on data collected from pre- and post-study survey responses, both student knowledge and attitudes towards the topics covered improved due to participation in this CURE. Importantly, this CURE can be implemented at many levels of education, requiring only minimal resources and common laboratory equipment.

REMARKS AT THE PRESENTATION OF THE PORTRAIT OF JOHN HOWLAND

PEDIATRICS ◽  
1958 ◽  
Vol 21 (4) ◽  
pp. 655-660
Author(s):  
James L. Gamble
Keyword(s):  
New York ◽  
Medical School ◽  
Academic Medicine ◽  
Full Time ◽  
New York University ◽  
The Core ◽  
Medical Career ◽  
Time Basis ◽  
Washington University ◽  
Johns Hopkins Medical School

WE OWE Edwards A. Park a large debt for the sketch of John Howland illustrated by anecdotes displaying his personality which he gave us in his John Howland address. Howland was a New Englander to the core and a loyal son of Yale of the Class of '94. His medical career began in New York where, after 3 years as a student in New York University Medical School and a 2-year internship at the Presbyterian Hospital, he became associated with L. Emmett Holt, Sr. and decided to enter the then opening field of pediatrics. His fine abilities as a physician were rapidly recognized. He also began his investigative career in New York. In the year 1910 at the age of 39 he was appointed Professor of Pediatrics at the Medical School of Washington University in St. Louis, which had just been reorganized on a full-time basis. He was disappointed by the inadequacy of the equipment there and unwilling to wait several years for the building of the projected new hospital. He resigned after 6 months and returned to New York. This hiatus in his careen in academic medicine was a short one. In the year 1912 he was called to the chair of Pediatrics at the Johns Hopkins Medical School to succeed Von Pirquet who had returned to Germany to accept the professorship at Breslau. This was a much coveted post. Also, I have been told, he was much aggrieved over having contracted trichinosis from eating Baltimore sausages. During the 2 years that Von Pirquet was in Baltimore, the Department of Pediatrics had no quarters of its own and was obliged to use space borrowed from the Medical Outpatient.

scholarly journals First Draft Genome Sequence Resource of a Strain of Pseudocercospora fijiensis Isolated in North America

2020 ◽  
Vol 110 (10) ◽  
pp. 1620-1622
Author(s):  
Luis Amarillas ◽  
Mitzi Estrada-Acosta ◽  
Rubén G. León-Chan ◽  
Carlos López-Orona ◽  
Luis Lightbourn
Keyword(s):  
North America ◽  
Fungicide Resistance ◽  
Fungal Pathogens ◽  
Genomic Sequence ◽  
Draft Genome ◽  
Bioinformatic Analysis ◽  
Black Sigatoka ◽  
Efficient Management ◽  
Black Sigatoka Disease ◽  
Pseudocercospora Fijiensis

Black Sigatoka disease, caused by the fungus Pseudocercospora fijiensis, is one of the most devastating diseases of banana around the world. Fungicide applications are the primary tool used to manage black Sigatoka, but fungicide resistance in P. fijiensis, as in other fungal pathogens, is one of the major limitations in the efficient management and prevention of this disease. In the current study, we present the draft genome of P. fijiensis strain IIL-20, the first genomic sequence published from a strain of this fungus isolated in North America. Bioinformatic analysis showed putative genes involved in fungus virulence and fungicide resistance. These findings may lead us to a better understanding of the molecular pathogenesis of this fungal pathogen and also to the discovery of the mechanisms conferring fungicide resistance.

The Imperative of Diverse and Distinctive Musical Creativities as Practices of Social Justice

2015 ◽  
pp. 356-371
Author(s):  
Pamela Burnard
Keyword(s):  
Theory And Practice ◽  
Social Injustice ◽  
Arts Organizations ◽  
Research Needs ◽  
Ongoing Research ◽  
The Core ◽  
Raising Awareness ◽  
Different Types ◽  
Cultural Stereotyping ◽  
Memory Conflicts

Social injustice and intercultural tensions are often bound up with conflicts that create intolerances: conflicts of memory, conflicts of value, and conflicts of cultural stereotyping, which serve to demarcate one group from the alien “other.” Raising awareness through research needs to position academics, researchers, non-academics, and arts organizations as collaborative partners for deliberating about and developing intercultural translation; this requires dialogue, exchange, and co-construction. What forms the core of this chapter, then, are findings of ongoing research, presented as a layered story interlocking elements in theory and practice relating to how different types of creativities are recognized and communicated in the diverse practices of a particular organization, Musicians without Borders, whose projects work with the power of music to connect communities. This chapter presents an exploration of the empathic and intercultural creativities that emerge in the songwriting and improvisational practices of musical creativities, empathy, interculturality, practices, improvisation, and songwriting.

scholarly journals Complete Genomic Sequence of the Virulent Salmonella Bacteriophage SP6

2004 ◽  
Vol 186 (7) ◽  
pp. 1933-1944 ◽  
Author(s):  
Aleisha T. Dobbins ◽  
Matthew George ◽  
Daryl A. Basham ◽  
Michael E. Ford ◽  
Jennifer M. Houtz ◽  
...  
Keyword(s):  
Rna Polymerase ◽  
Genomic Sequence ◽  
Bioinformatic Analysis ◽  
Complete Genomic Sequence ◽  
Coding Region ◽  
Gene Encoding ◽  
Serovar Typhimurium ◽  
The Right ◽  
Direct Terminal Repeat ◽  
Complete Genomic

ABSTRACT We report the complete genome sequence of enterobacteriophage SP6, which infects Salmonella enterica serovar Typhimurium. The genome contains 43,769 bp, including a 174-bp direct terminal repeat. The gene content and organization clearly place SP6 in the coliphage T7 group of phages, but there is ∼5 kb at the right end of the genome that is not present in other members of the group, and the homologues of T7 genes 1.3 through 3 appear to have undergone an unusual reorganization. Sequence analysis identified 10 putative promoters for the SP6-encoded RNA polymerase and seven putative rho-independent terminators. The terminator following the gene encoding the major capsid subunit has a termination efficiency of about 50% with the SP6-encoded RNA polymerase. Phylogenetic analysis of phages related to SP6 provided clear evidence for horizontal exchange of sequences in the ancestry of these phages and clearly demarcated exchange boundaries; one of the recombination joints lies within the coding region for a phage exonuclease. Bioinformatic analysis of the SP6 sequence strongly suggested that DNA replication occurs in large part through a bidirectional mechanism, possibly with circular intermediates.

scholarly journals The Genomics Education Partnership: Assessing and Improving a Course‐based Undergraduate Research Experience (CURE)

2016 ◽  
Vol 30 (S1) ◽  
Author(s):  
Nick Lee Reeves ◽  
Ana Maria Barral ◽  
Karim A. Sharif ◽  
Michael J. Wolyniak ◽  
Wilson Leung ◽  
...  
Keyword(s):  
Undergraduate Research ◽  
Research Experience ◽  
Genomics Education

scholarly journals An Interview with Lisa Hansel: Core Knowledge versus Common Core Curriculum

2014 ◽  
Vol 1 (1) ◽  
pp. 66
Author(s):  
Michael F. Shaughnessy ◽  
Bill Gaedke
Keyword(s):  
Common Core ◽  
Core Curriculum ◽  
Core Knowledge ◽  
George Washington ◽  
American Federation ◽  
The Core ◽  
American Federation Of Teachers ◽  
Literature History ◽  
Common Core Curriculum ◽  
Washington University

Profile: Lisa Hansel is the director of communications for the Core Knowledge Foundation, a nonprofit dedicated to the idea that every child should learn a core of content that spans language arts and literature, history and geography, mathematics, science, music, and the visual arts. Prior to joining the Foundation in 2013, she was the editor of American Educator, the quarterly journal of educational research and ideas published by the American Federation of Teachers. In that role, she often published articles jointly with E. D. Hirsch Jr., and Daniel T. Willingham that explained why reading comprehension, critical thinking, and problem solving depend on relevant prior knowledge—and why, as a result, all students need a rigorous, coherent, grade-by-grade curriculum that builds broad knowledge. Lisa has a B. S. in Psychology from Washington and Lee University and an Ed. D. in Education Policy from George Washington University, where she was also an adjunct Professor and the writer and editor for the National Clearinghouse for Comprehensive School Reform. To learn more about Core Knowledge, please see www.coreknowledge.org and blog.coreknowledge.org. She expressed her views regarding the Core Knowledge and Common Core Curriculum.

scholarly journals Adding context to the pneumococcal core genes – a bioinformatic analysis of the intergenic pangenome of Streptococcus pneumoniae

2021 ◽  
Author(s):  
Flemming Damgaard Nielsen ◽  
Jakob Møller-Jensen ◽  
Mikkel Girke Jørgensen
Keyword(s):  
Streptococcus Pneumoniae ◽  
Core Genome ◽  
Biological Function ◽  
Bioinformatic Analysis ◽  
Bacterial Pathogenicity ◽  
The Core ◽  
Intergenic Regions ◽  
Crucial Information ◽  
Genetic Context ◽  
Core Genes

AbstractWhole genome sequencing offers great opportunities for linking genotypes to phenotypes aiding in our understanding of human disease and bacterial pathogenicity. However, these analyses often overlook non-coding intergenic regions (IGRs). By disregarding the IGRs, crucial information is lost, as genes have little biological function without expression. In this study, we present the first complete pangenome of the important human pathogen Streptococcus pneumoniae (pneumococcus), spanning both the genes and IGRs. We show that the pneumococcus species retains a small core genome of IGRs that are present across all isolates. Gene expression is highly dependent on these core IGRs, and often several copies of these core IGRs are found across each genome. Core genes and core IGRs show a clear linkage as 81% of core genes are associated with core IGRs. Additionally, we identify a single IGR within the core genome that is always occupied by one of two highly distinct sequences, scattered across the phylogenetic tree. Their distribution indicates that this IGR is transferred between isolates through horizontal regulatory transfer independent of the flanking genes and that each type likely serves different regulatory roles depending on their genetic context.

Sign in / Sign up

Export Citation Format

Share Document