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Article: Parasitoid Increase During an Outbreak of a Native Herbivorous Insect Following Small-scale Amur Honeysuckle (Lonicera maackii) Removal

Mercader, Rodrigo J. / Appenfeller, Logan R. / McCoy, Patrick O. / Sadikot, Takrima / Smith, Joshua L.

American midland naturalist. 2022 Aug. 10, v. 188, no. 1

2022

Abstract: Recolonization by native species following removal of invasive plant species can often be uneven and lead to the rapid increase of one or a few native plant species. This can result in the formation of a significant resource pulse that may consequently ... ...

Abstract	Recolonization by native species following removal of invasive plant species can often be uneven and lead to the rapid increase of one or a few native plant species. This can result in the formation of a significant resource pulse that may consequently affect populations of herbivorous species and their natural enemies. Here we present results from observations of parasitism rates during a localized outbreak of the Asimina webworm moth, Omphalocera munroei, a locally monophagous herbivore of the common paw-paw. Asimina triloba. This outbreak initiated from locations of increased understory growth of A. triloba, following the removal of Amur Honeysuckle (Lonicera maackii). Parasitism rates during the outbreak reached 50%, with higher parasitism rates observed in larvae collected at the end of the local outbreak relative to those the year following the peak of the outbreak. Parasitism rates remained high 3 y after the end of the local O. munroei outbreak, indicating >7 y of high parasitoid densities. O. munroei emerges late in the growing season, making it fairly inaccessible as a host or prey to many generalist predators/parasitoids, which emerge earlier the following year. This suggests the O. munroei outbreak potentially contributed to an increase in natural enemy pressure of other native species in the community.
Keywords	Asimina triloba ; Lonicera maackii ; herbivores ; indigenous species ; invasive species ; moths ; natural enemies ; parasitism ; parasitoids ; understory
Language	English
Dates of publication	2022-0810
Size	p. 127-134.
Publishing place	University of Notre Dame
Document type	Article
ZDB-ID	2052733-0
ISSN	1938-4238 ; 0003-0031 ; 0271-6844
ISSN (online)	1938-4238
ISSN	0003-0031 ; 0271-6844
DOI	10.1674/0003-0031-188.1.127
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Distinct roles for telethonin N-versus C-terminus in sarcomere assembly and maintenance.

Sadikot, Takrima / Hammond, Courtney R / Ferrari, Michael B

Developmental dynamics : an official publication of the American Association of Anatomists

2010 Volume 239, Issue 4, Page(s) 1124–1135

Abstract: The N-terminus of telethonin forms a unique structure linking two titin N-termini at the Z-disc. While a specific role for the C-terminus has not been established, several studies indicate it may have a regulatory function. Using a morpholino approach in ...

Abstract	The N-terminus of telethonin forms a unique structure linking two titin N-termini at the Z-disc. While a specific role for the C-terminus has not been established, several studies indicate it may have a regulatory function. Using a morpholino approach in Xenopus, we show that telethonin knockdown leads to embryonic paralysis, myocyte defects, and sarcomeric disruption. These myopathic defects can be rescued by expressing full-length telethonin mRNA in morpholino background, indicating that telethonin is required for myofibrillogenesis. However, a construct missing C-terminal residues is incapable of rescuing motility or sarcomere assembly in cultured myocytes. We, therefore, tested two additional constructs: one where four C-terminal phosphorylatable residues were mutated to alanines and another where terminal residues were randomly replaced. Data from these experiments support that the telethonin C-terminus is required for assembly, but in a context-dependent manner, indicating that factors and forces present in vivo can compensate for C-terminal truncation or mutation.
MeSH term(s)	Amino Acid Sequence ; Animals ; Animals, Genetically Modified ; Embryo, Nonmammalian ; Gene Expression Regulation, Developmental/drug effects ; Gene Expression Regulation, Developmental/genetics ; Gene Expression Regulation, Developmental/physiology ; Models, Molecular ; Muscle Development/drug effects ; Muscle Development/genetics ; Muscle Development/physiology ; Muscle Fibers, Skeletal/metabolism ; Muscle Fibers, Skeletal/physiology ; Muscle Proteins/chemistry ; Muscle Proteins/genetics ; Muscle Proteins/physiology ; Muscle, Striated/growth & development ; Muscle, Striated/metabolism ; Muscle, Striated/physiology ; Oligoribonucleotides, Antisense/pharmacology ; Protein Structure, Tertiary/genetics ; Protein Structure, Tertiary/physiology ; Sarcomeres/drug effects ; Sarcomeres/genetics ; Sarcomeres/metabolism ; Sarcomeres/physiology ; Sequence Homology ; Xenopus
Chemical Substances	Muscle Proteins ; Oligoribonucleotides, Antisense
Language	English
Publishing date	2010-04
Publishing country	United States
Document type	Journal Article
ZDB-ID	1102541-4
ISSN	1097-0177 ; 1058-8388
ISSN (online)	1097-0177
ISSN	1058-8388
DOI	10.1002/dvdy.22263
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Article: Interaction of heme and heme-hemopexin with an extracellular oxidant system used to measure cell growth-associated plasma membrane electron transport.

Rish, Kimberly R / Swartzlander, Ryan / Sadikot, Takrima N / Berridge, Michael V / Smith, Ann

Biochimica et biophysica acta

2007 Volume 1767, Issue 9, Page(s) 1107–1117

Abstract: Since redox active metals are often transported across membranes into cells in the reduced state, we have investigated whether exogenous ferri-heme or heme bound to hemopexin (HPX), which delivers heme to cells via receptor-mediated endocytosis, interact ...

Abstract	Since redox active metals are often transported across membranes into cells in the reduced state, we have investigated whether exogenous ferri-heme or heme bound to hemopexin (HPX), which delivers heme to cells via receptor-mediated endocytosis, interact with a cell growth-associated plasma membrane electron transport (PMET) pathway. PMET reduces the cell-impermeable tetrazolium salt, WST-1, in the presence of the mandatory low potential intermediate electron acceptor, mPMS. In human promyelocytic (HL60) cells, protoheme (iron protoporphyrin IX; 2,4-vinyl), mesoheme (2,4-ethyl) and deuteroheme (2,4-H) inhibited reduction of WST-1/mPMS in a saturable manner supporting interaction with a finite number of high affinity acceptor sites (Kd 221 nM for naturally occurring protoheme). A requirement for the redox-active iron was shown using gallium-protoporphyrin IX (PPIX) and tin-PPIX. Heme-hemopexin, but not apo-hemopexin, also inhibited WST-1 reduction, and copper was required. Importantly, since neither heme nor heme-hemopexin replace mPMS as an intermediate electron acceptor and since inhibition of WST-1/mPMS reduction requires living cells, the experimental evidence supports the view that heme and heme-hemopexin interact with electrons from PMET. We therefore propose that heme and heme-hemopexin are natural substrates for this growth-associated electron transfer across the plasma membrane.
MeSH term(s)	Biological Transport ; Cell Membrane/metabolism ; Cell Proliferation ; Dose-Response Relationship, Drug ; Electrons ; HL-60 Cells ; Heme/chemistry ; Hemopexin/chemistry ; Humans ; Kinetics ; Models, Biological ; Models, Chemical ; Oxidants/chemistry ; Oxidoreductases/metabolism ; Protoporphyrins/chemistry
Chemical Substances	Oxidants ; Protoporphyrins ; Heme (42VZT0U6YR) ; Hemopexin (9013-71-2) ; protoporphyrin IX (C2K325S808) ; Oxidoreductases (EC 1.-)
Language	English
Publishing date	2007-09
Publishing country	Netherlands
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	60-7
ISSN	1879-2596 ; 1879-260X ; 1872-8006 ; 1879-2642 ; 1879-2618 ; 1879-2650 ; 0006-3002 ; 0005-2728 ; 0005-2736 ; 0304-4165 ; 0167-4838 ; 1388-1981 ; 0167-4889 ; 0167-4781 ; 0304-419X ; 1570-9639 ; 0925-4439 ; 1874-9399
ISSN (online)	1879-2596 ; 1879-260X ; 1872-8006 ; 1879-2642 ; 1879-2618 ; 1879-2650
ISSN	0006-3002 ; 0005-2728 ; 0005-2736 ; 0304-4165 ; 0167-4838 ; 1388-1981 ; 0167-4889 ; 0167-4781 ; 0304-419X ; 1570-9639 ; 0925-4439 ; 1874-9399
DOI	10.1016/j.bbabio.2007.06.003
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Article ; Online: Development of a high-throughput screening cancer cell-based luciferase refolding assay for identifying Hsp90 inhibitors.

Sadikot, Takrima / Swink, Megan / Eskew, Jeffery D / Brown, Douglas / Zhao, Huiping / Kusuma, Bhaskar R / Rajewski, Roger A / Blagg, Brian S J / Matts, Robert L / Holzbeierlein, Jeffrey M / Vielhauer, George A

Assay and drug development technologies

2013 Volume 11, Issue 8, Page(s) 478–488

Abstract: The 90 kDa heat-shock protein (Hsp90) and other cochaperones allow for proper folding of nascent or misfolded polypeptides. Cancer cells exploit these chaperones by maintaining the stability of mutated and misfolded oncoproteins and allowing them to ... ...

Abstract	The 90 kDa heat-shock protein (Hsp90) and other cochaperones allow for proper folding of nascent or misfolded polypeptides. Cancer cells exploit these chaperones by maintaining the stability of mutated and misfolded oncoproteins and allowing them to evade proteosomal degradation. Inhibiting Hsp90 is an attractive strategy for cancer therapy, as the concomitant degradation of multiple oncoproteins may lead to effective anti-neoplastic agents. Unfortunately, early clinical trials have been disappointing with N-terminal Hsp90 inhibitors, as it is unclear whether the problems that plague current Hsp90 inhibitors in clinical trials are related to on-target or off-target activity. One approach to overcome these pitfalls is to identify structurally diverse scaffolds that improve Hsp90 inhibitory activity in the cancer cell milieu. Utilizing a panel of cancer cell lines that express luciferase, we have designed an in-cell Hsp90-dependent luciferase refolding assay. The assay was optimized using previously identified Hsp90 inhibitors and experimental novobiocin analogues against prostate, colon, and lung cancer cell lines. This assay exhibits good interplate precision (% CV), a signal-to-noise ratio (S/N) of ≥7, and an approximate Z-factor ranging from 0.5 to 0.7. Novobiocin analogues that revealed activity in this assay were examined via western blot experiments for client protein degradation, a hallmark of Hsp90 inhibition. Subsequently, a pilot screen was conducted using the Prestwick library, and two compounds, biperiden and ethoxyquin, revealed significant activity. Here, we report the development of an in-cell Hsp90-dependent luciferase refolding assay that is amenable across cancer cell lines for the screening of inhibitors in their specific milieu.
MeSH term(s)	Animals ; Antineoplastic Agents/pharmacology ; Biological Assay ; Blotting, Western ; Cell Line, Tumor ; Coloring Agents ; Dose-Response Relationship, Drug ; Enzyme Inhibitors/chemical synthesis ; Enzyme Inhibitors/pharmacology ; HSP90 Heat-Shock Proteins/antagonists & inhibitors ; High-Throughput Screening Assays/methods ; Humans ; Luciferases/antagonists & inhibitors ; Luciferases/chemistry ; Novobiocin/analogs & derivatives ; Novobiocin/pharmacology ; Protein Denaturation ; Protein Refolding/drug effects ; Rabbits ; Reticulocytes/drug effects ; Reticulocytes/metabolism ; Rhodamines ; Small Molecule Libraries
Chemical Substances	Antineoplastic Agents ; Coloring Agents ; Enzyme Inhibitors ; HSP90 Heat-Shock Proteins ; Rhodamines ; Small Molecule Libraries ; Novobiocin (17EC19951N) ; lissamine rhodamine B (2609-88-3) ; Luciferases (EC 1.13.12.-)
Language	English
Publishing date	2013-10-15
Publishing country	United States
Document type	Journal Article
ISSN	1557-8127
ISSN (online)	1557-8127
DOI	10.1089/adt.2012.498
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Article ; Online: Development and characterization of a novel C-terminal inhibitor of Hsp90 in androgen dependent and independent prostate cancer cells

Eskew Jeffery D / Sadikot Takrima / Morales Pedro / Duren Alicia / Dunwiddie Irene / Swink Megan / Zhang Xiaoying / Hembruff Stacey / Donnelly Alison / Rajewski Roger A / Blagg Brian SJ / Manjarrez Jacob R / Matts Robert L / Holzbeierlein Jeffrey M / Vielhauer George A

BMC Cancer, Vol 11, Iss 1, p

2011 Volume 468

Abstract: Abstract Background The molecular chaperone, heat shock protein 90 (Hsp90) has been shown to be overexpressed in a number of cancers, including prostate cancer, making it an important target for drug discovery. Unfortunately, results with N- terminal ... ...

Abstract	Abstract Background The molecular chaperone, heat shock protein 90 (Hsp90) has been shown to be overexpressed in a number of cancers, including prostate cancer, making it an important target for drug discovery. Unfortunately, results with N- terminal inhibitors from initial clinical trials have been disappointing, as toxicity and resistance resulting from induction of the heat shock response (HSR) has led to both scheduling and administration concerns. Therefore, Hsp90 inhibitors that do not induce the heat shock response represent a promising new direction for the treatment of prostate cancer. Herein, the development of a C-terminal Hsp90 inhibitor, KU174, is described, which demonstrates anti-cancer activity in prostate cancer cells in the absence of a HSR and describe a novel approach to characterize Hsp90 inhibition in cancer cells. Methods PC3-MM2 and LNCaP-LN3 cells were used in both direct and indirect in vitro Hsp90 inhibition assays (DARTS, Surface Plasmon Resonance, co-immunoprecipitation, luciferase, Western blot, anti-proliferative, cytotoxicity and size exclusion chromatography) to characterize the effects of KU174 in prostate cancer cells. Pilot in vivo efficacy studies were also conducted with KU174 in PC3-MM2 xenograft studies. Results KU174 exhibits robust anti-proliferative and cytotoxic activity along with client protein degradation and disruption of Hsp90 native complexes without induction of a HSR. Furthermore, KU174 demonstrates direct binding to the Hsp90 protein and Hsp90 complexes in cancer cells. In addition, in pilot in-vivo proof-of-concept studies KU174 demonstrates efficacy at 75 mg/kg in a PC3-MM2 rat tumor model. Conclusions Overall, these findings suggest C-terminal Hsp90 inhibitors have potential as therapeutic agents for the treatment of prostate cancer.
Keywords	Hsp90 ; prostate cancer ; novobiocin ; C-terminal inhibitors ; N-terminal inhibitors ; Neoplasms. Tumors. Oncology. Including cancer and carcinogens ; RC254-282 ; Internal medicine ; RC31-1245 ; Medicine ; R ; DOAJ:Oncology ; DOAJ:Medicine (General) ; DOAJ:Health Sciences
Subject code	570
Language	English
Publishing date	2011-10-01T00:00:00Z
Publisher	BioMed Central
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Student Attitudes Contribute to the Effectiveness of a Genomics CURE.

Lopatto, David / Rosenwald, Anne G / Burgess, Rebecca C / Silver Key, Catherine / Van Stry, Melanie / Wawersik, Matthew / DiAngelo, Justin R / Hark, Amy T / Skerritt, Matthew / Allen, Anna K / Alvarez, Consuelo / Anderson, Sara / Arrigo, Cindy / Arsham, Andrew / Barnard, Daron / Bedard, James E J / Bose, Indrani / Braverman, John M / Burg, Martin G /

Croonquist, Paula / Du, Chunguang / Dubowsky, Sondra / Eisler, Heather / Escobar, Matthew A / Foulk, Michael / Giarla, Thomas / Glaser, Rivka L / Goodman, Anya L / Gosser, Yuying / Haberman, Adam / Hauser, Charles / Hays, Shan / Howell, Carina E / Jemc, Jennifer / Jones, Christopher J / Kadlec, Lisa / Kagey, Jacob D / Keller, Kimberly L / Kennell, Jennifer / Kleinschmit, Adam J / Kleinschmit, Melissa / Kokan, Nighat P / Kopp, Olga Ruiz / Laakso, Meg M / Leatherman, Judith / Long, Lindsey J / Manier, Mollie / Martinez-Cruzado, Juan C / Matos, Luis F / McClellan, Amie Jo / McNeil, Gerard / Merkhofer, Evan / Mingo, Vida / Mistry, Hemlata / Mitchell, Elizabeth / Mortimer, Nathan T / Myka, Jennifer Leigh / Nagengast, Alexis / Overvoorde, Paul / Paetkau, Don / Paliulis, Leocadia / Parrish, Susan / Toering Peters, Stephanie / Preuss, Mary Lai / Price, James V / Pullen, Nicholas A / Reinke, Catherine / Revie, Dennis / Robic, Srebrenka / Roecklein-Canfield, Jennifer A / Rubin, Michael R / Sadikot, Takrima / Sanford, Jamie Siders / Santisteban, Maria / Saville, Kenneth / Schroeder, Stephanie / Shaffer, Christopher D / Sharif, Karim A / Sklensky, Diane E / Small, Chiyedza / Smith, Sheryl / Spokony, Rebecca / Sreenivasan, Aparna / Stamm, Joyce / Sterne-Marr, Rachel / Teeter, Katherine C / Thackeray, Justin / Thompson, Jeffrey S / Velazquez-Ulloa, Norma / Wolfe, Cindy / Youngblom, James / Yowler, Brian / Zhou, Leming / Brennan, Janie / Buhler, Jeremy / Leung, Wilson / Elgin, Sarah C R / Reed, Laura K

Journal of microbiology & biology education

2022 Volume 23, Issue 2

Abstract: The Genomics Education Partnership (GEP) engages students in a course-based undergraduate research experience (CURE). To better understand the student attributes that support success in this CURE, we asked students about their attitudes using previously ... ...

Abstract	The Genomics Education Partnership (GEP) engages students in a course-based undergraduate research experience (CURE). To better understand the student attributes that support success in this CURE, we asked students about their attitudes using previously published scales that measure epistemic beliefs about work and science, interest in science, and grit. We found, in general, that the attitudes students bring with them into the classroom contribute to two outcome measures, namely, learning as assessed by a pre- and postquiz and perceived self-reported benefits. While the GEP CURE produces positive outcomes overall, the students with more positive attitudes toward science, particularly with respect to epistemic beliefs, showed greater gains. The findings indicate the importance of a student's epistemic beliefs to achieving positive learning outcomes.
Language	English
Publishing date	2022-05-16
Publishing country	United States
Document type	Journal Article
ISSN	1935-7877
ISSN	1935-7877
DOI	10.1128/jmbe.00208-21
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Article ; Online: Development and characterization of a novel C-terminal inhibitor of Hsp90 in androgen dependent and independent prostate cancer cells.

Eskew, Jeffery D / Sadikot, Takrima / Morales, Pedro / Duren, Alicia / Dunwiddie, Irene / Swink, Megan / Zhang, Xiaoying / Hembruff, Stacey / Donnelly, Alison / Rajewski, Roger A / Blagg, Brian S J / Manjarrez, Jacob R / Matts, Robert L / Holzbeierlein, Jeffrey M / Vielhauer, George A

BMC cancer

2011 Volume 11, Page(s) 468

Abstract: Background: The molecular chaperone, heat shock protein 90 (Hsp90) has been shown to be overexpressed in a number of cancers, including prostate cancer, making it an important target for drug discovery. Unfortunately, results with N-terminal inhibitors ... ...

Abstract	Background: The molecular chaperone, heat shock protein 90 (Hsp90) has been shown to be overexpressed in a number of cancers, including prostate cancer, making it an important target for drug discovery. Unfortunately, results with N-terminal inhibitors from initial clinical trials have been disappointing, as toxicity and resistance resulting from induction of the heat shock response (HSR) has led to both scheduling and administration concerns. Therefore, Hsp90 inhibitors that do not induce the heat shock response represent a promising new direction for the treatment of prostate cancer. Herein, the development of a C-terminal Hsp90 inhibitor, KU174, is described, which demonstrates anti-cancer activity in prostate cancer cells in the absence of a HSR and describe a novel approach to characterize Hsp90 inhibition in cancer cells. Methods: PC3-MM2 and LNCaP-LN3 cells were used in both direct and indirect in vitro Hsp90 inhibition assays (DARTS, Surface Plasmon Resonance, co-immunoprecipitation, luciferase, Western blot, anti-proliferative, cytotoxicity and size exclusion chromatography) to characterize the effects of KU174 in prostate cancer cells. Pilot in vivo efficacy studies were also conducted with KU174 in PC3-MM2 xenograft studies. Results: KU174 exhibits robust anti-proliferative and cytotoxic activity along with client protein degradation and disruption of Hsp90 native complexes without induction of a HSR. Furthermore, KU174 demonstrates direct binding to the Hsp90 protein and Hsp90 complexes in cancer cells. In addition, in pilot in-vivo proof-of-concept studies KU174 demonstrates efficacy at 75 mg/kg in a PC3-MM2 rat tumor model. Conclusions: Overall, these findings suggest C-terminal Hsp90 inhibitors have potential as therapeutic agents for the treatment of prostate cancer.
MeSH term(s)	Animals ; Antineoplastic Agents/therapeutic use ; Blotting, Western ; Cell Line, Tumor ; Cell Proliferation/drug effects ; Growth Inhibitors/pharmacology ; HSP90 Heat-Shock Proteins/antagonists & inhibitors ; HSP90 Heat-Shock Proteins/metabolism ; Humans ; Male ; Neoplasm Proteins/antagonists & inhibitors ; Neoplasm Proteins/metabolism ; Novobiocin/pharmacology ; Prostatic Neoplasms/drug therapy ; Prostatic Neoplasms/metabolism ; Protein Binding/drug effects ; Rats
Chemical Substances	Antineoplastic Agents ; Growth Inhibitors ; HSP90 Heat-Shock Proteins ; Neoplasm Proteins ; Novobiocin (17EC19951N)
Language	English
Publishing date	2011-10-31
Publishing country	England
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ISSN	1471-2407
ISSN (online)	1471-2407
DOI	10.1186/1471-2407-11-468
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Article: Facilitating Growth through Frustration: Using Genomics Research in a Course-Based Undergraduate Research Experience.

Lopatto, David / Rosenwald, Anne G / DiAngelo, Justin R / Hark, Amy T / Skerritt, Matthew / Wawersik, Matthew / Allen, Anna K / Alvarez, Consuelo / Anderson, Sara / Arrigo, Cindy / Arsham, Andrew / Barnard, Daron / Bazinet, Christopher / Bedard, James E J / Bose, Indrani / Braverman, John M / Burg, Martin G / Burgess, Rebecca C / Croonquist, Paula /

Du, Chunguang / Dubowsky, Sondra / Eisler, Heather / Escobar, Matthew A / Foulk, Michael / Furbee, Emily / Giarla, Thomas / Glaser, Rivka L / Goodman, Anya L / Gosser, Yuying / Haberman, Adam / Hauser, Charles / Hays, Shan / Howell, Carina E / Jemc, Jennifer / Johnson, M Logan / Jones, Christopher J / Kadlec, Lisa / Kagey, Jacob D / Keller, Kimberly L / Kennell, Jennifer / Key, S Catherine Silver / Kleinschmit, Adam J / Kleinschmit, Melissa / Kokan, Nighat P / Kopp, Olga Ruiz / Laakso, Meg M / Leatherman, Judith / Long, Lindsey J / Manier, Mollie / Martinez-Cruzado, Juan C / Matos, Luis F / McClellan, Amie Jo / McNeil, Gerard / Merkhofer, Evan / Mingo, Vida / Mistry, Hemlata / Mitchell, Elizabeth / Mortimer, Nathan T / Mukhopadhyay, Debaditya / Myka, Jennifer Leigh / Nagengast, Alexis / Overvoorde, Paul / Paetkau, Don / Paliulis, Leocadia / Parrish, Susan / Preuss, Mary Lai / Price, James V / Pullen, Nicholas A / Reinke, Catherine / Revie, Dennis / Robic, Srebrenka / Roecklein-Canfield, Jennifer A / Rubin, Michael R / Sadikot, Takrima / Sanford, Jamie Siders / Santisteban, Maria / Saville, Kenneth / Schroeder, Stephanie / Shaffer, Christopher D / Sharif, Karim A / Sklensky, Diane E / Small, Chiyedza / Smith, Mary / Smith, Sheryl / Spokony, Rebecca / Sreenivasan, Aparna / Stamm, Joyce / Sterne-Marr, Rachel / Teeter, Katherine C / Thackeray, Justin / Thompson, Jeffrey S / Peters, Stephanie Toering / Van Stry, Melanie / Velazquez-Ulloa, Norma / Wolfe, Cindy / Youngblom, James / Yowler, Brian / Zhou, Leming / Brennan, Janie / Buhler, Jeremy / Leung, Wilson / Reed, Laura K / Elgin, Sarah C R

Journal of microbiology & biology education

2020 Volume 21, Issue 1

Abstract: A hallmark of the research experience is encountering difficulty and working through those challenges to achieve success. This ability is essential to being a successful scientist, but replicating such challenges in a teaching setting can be difficult. ... ...

Abstract	A hallmark of the research experience is encountering difficulty and working through those challenges to achieve success. This ability is essential to being a successful scientist, but replicating such challenges in a teaching setting can be difficult. The Genomics Education Partnership (GEP) is a consortium of faculty who engage their students in a genomics Course-Based Undergraduate Research Experience (CURE). Students participate in genome annotation, generating gene models using multiple lines of experimental evidence. Our observations suggested that the students' learning experience is continuous and recursive, frequently beginning with frustration but eventually leading to success as they come up with defendable gene models. In order to explore our "formative frustration" hypothesis, we gathered data from faculty via a survey, and from students via both a general survey and a set of student focus groups. Upon analyzing these data, we found that all three datasets mentioned frustration and struggle, as well as learning and better understanding of the scientific process. Bioinformatics projects are particularly well suited to the process of iteration and refinement because iterations can be performed quickly and are inexpensive in both time and money. Based on these findings, we suggest that a dynamic of "formative frustration" is an important aspect for a successful CURE.
Language	English
Publishing date	2020-02-28
Publishing country	United States
Document type	Journal Article
ISSN	1935-7877
ISSN	1935-7877
DOI	10.1128/jmbe.v21i1.2005
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