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1. Expression-Based Cell Lineage Analysis inDrosophilaThrough a Course-Based Research Experience for Early Undergraduates

Author

Daniel Chang, Earl Yoon, David Loppato, Justin N. Maghen, Silverio D. Alvarez, Kristy Ou, Katherine E. Peterson, Manjeet Bhamra, Helen H.-L. Chan, Lilit Gevorgyan, Clifton Lee, Peter Trinh, David M. Li, Elizabeth Kim, Garrick Iwamoto, Yue Zhao, Victor W. Yee, Kimberly Gon, Lisa M. Scully, Akram V. Uraizee, Sangita Datta, Sae Ho Song, Lisa Han, Andrew C. J. Huang, PhuongThao Tran, George K. Yeh, John M. Olson, Shawn J. Kim, Lili Sadri, Hannah G. Ahn, Grace E. Lee, Cindy L. Trang, Arezou Babaesfahani, Stephanie Wang, Saif Ansari, Hanwool Kim, Rakesh Bhatia, Brandon Lung, Victoria Ragland, Noemi E. Lee, Casey Shapiro, Van Thanh Mai, Sean H. K. Lee, Holly Dickinson, Joseph Park, Rona Law, Carrou Lee, Cameron M. Rice, Kirandeep Sumra, Alexandra L. Pourzia, Raj Dhaliwal, Vijay A. Patel, Michael Guillermo Daniel, Elaine L. Hsia, Hiu Wai Lam, Yujin Park, Jason H. Melehani, Annie Tigranyan, Xin Zheng, Nasser Heyrani, Jennifer Chang, Neda Asem, Joseph Duy Nguyen, Hanh H. Nguyen, Ted T. Uotani, Harnek Singh, Riley Guerin, Han-Ching H. Tseng, Kevin K. T. Vu, Max Mittelman, Gregory E. Tong, Cynthia Yeh, Jonathan Tran, Steven V. Pham, Bryan Lau, Kenny Lee, Tulika Ghosh, Roger K. Lau, An Huynh Pham, Christopher M. From, Elizabeth B. Johnson, Bobby Asem, Abhik Banerjee, Utpal Banerjee, Derek J. Cheung, Kambria Nguyen, Zainab Saifee, Carmel M. Moazez, Hung G. Trinh, Hannah Kim, Sonja Darwish, Lu Chen, Sondra L. Snyder, Pei-Yun Kao, Kevin Chen, Youngho Cho, Joseph Hargan Calvopina, Neil D. Poria, Vanessa Shih, Danica D. Wiredja, Shuo Wang, Zunera Ghaznavi, Jenny Dinh, Andrew J. Kim, Simran Kahlon, Awais M. Khan, Yuyu Chen, Julie Ko, Elise M. Calonico, Joseph N. Dickan, Huy D. Le, Leslie Jaworski, Xingfu Liang, Brooke Scruggs, Marc Levis-Fitzgerald, Susie Moon, Sara K. Taylor, An An Jiang, Nicholas Bumacod, Siddharth Sukumar, Matthew G. Keehn, Aleksandar Kitich, Cheng-An Tony Chien, Alexander N. Patananan, Jesse J. Cheung, Ragini Bhargava, Michael J. Jang, Alana M. Chin, Nikki Villarasa, Carman Chan, Ami Patel, Stacy Hu, Chiaen Chang, Solomon Rojhani, Michelle J. Kim, Shivani K. Thaker, Daisuke Furukawa, Arunit Singh Chugh, Volker Hartenstein, Hao Li, Akash Bhakta, Khoa T. Truong-N, Mark Sy, Daniel Rothberg, Melinda Feng, Kristine Kim, Nicole A. Azarian, David J. Groves, Sravya Mallam, Man Ting Chou, Katelyn F. Sobotka, Kathy T. Ngo, Justin Hsueh, Jasmine Y. Chen, Jessica Chew, Ira E. Clark, Zhong Ye, Mark R. Cubberly, Komal Wadhwani, Sumedha Singh, Jonathan J. Caine, Tamir Sholklapper, Jane Kuon, Nicholas G. Kouzelos, Emmylou Dowling, Francie Diep, Carolyn Chu, Kalkidan K. Gurara, Isabella Niu, Yaelim A. Park, Yong Jun Lee, Ali R. Haghighi, Nauman Charania, Nitish Mittal, Chee Jia Chin, Ben Sprung-Keyser, Naseem Moridzadeh, Donald N. Allen, Virginia Chu, Cory J. Evans, Luke Berry, Ahmad Bahrami, Justin J. Houman, Jesse M. Zaretsky, Kimberly A. Passmore, Chris Iwuchukwu, Rebecca S. Wang, Christina Lee, David Roh, Hee Jong Kim, Szuyao Lee, Rameen S. Moridzadeh, Randi K. Oyama, Amy A. Patel, Regina Lee, Serena S. Luong, Manpreet Kaur, Dhruv Patel, Xi Xue, Johnny He, Seo-Kyung Oh, Sabrena M. Ahmadi, Angela W. Nieh, Anke Ziegenbalg, Thien Nguyen, Jacinda N. Tran, John Y. Yu, Brian S. Kim, Eric Lin, Omair Khan, Ross G. Kelley, Sung Kyu Lee, Jessica S. Ma, Tanya Hioe, Nicole B. Chew, Kayla G. H. Gurley, Mark R Murata, Jiwon Lee, Hande Tan, Andrew L. Wong, Michael Koenig, Sung-Ling D. Lee, In Young Choi, Daniel Sitz, Paluk K. Walia, Maggie K. Chu, Ke-Huan K. Chow, Jessica R. Ong, Michelle J. Lee, Jenny Huynh, Rachael Le, Riki D. Ranat, Griselda Yanez, Yung-Hsuan Yang, Molly Howland, Ross A. Kornberg, Agafe Saguros, Peter Lin, Jessie C. Wu, Rahul Kumar Ghosh, Anand D. Gandhi, Jaskaran Gill, Edward Kuoy, Tulsi Thakore, Ritika Dutta, Himaja Gaddipati, Truc Ta, Melissa E. Phuphanich, Stacey Lu, Suji Kim, Letty Liang, Megan J. Leong, Derrick M. Chu, Michelle M. Lin, Alejandro LaRiviere, Alexandra L. Havard, Subir Bhatia, Minh-Tu Do, Sarah Kang, Jon Alkali, Kent K. T. Vu, Brian A. Shin, Samira J. Akhave, Kirim Hong, Thomas A. Caldwell, Jonathan Hofman, Vivi Tran, Katherine Chuang, Paul D. Picard, Jay Wang, Nicole A. Calica, Tiffany Y. Lin, Ryan C. Miller, Ida Azizkhanian, Manjot Sandhu, Dhaval Dixit, Kaley Ngo, Daniel Wu, Halley C. Sullivan, Jasmine C. Huynh, Tirth Patel, Vivian Yip, Manish M. Padhiar, Li Ma, Ryen Castillo, Shivtaj Mann, Tuan D. Tran, Albert J. Chang, and Kunal Thaker

Subjects
Lineage (genetic), QH426-470, Biology, 03 medical and health sciences, Gene expression, Genetics, stem, Molecular Biology, Drosophila, Genetics (clinical), 030304 developmental biology, education, 0303 health sciences, g-trace, 4. Education, 05 social sciences, 050301 education, biology.organism_classification, cure, Imaginal disc, Haematopoiesis, Undergraduate research, Expression (architecture), Evolutionary biology, gene expression, 0503 education, Functional genomics
Abstract

A variety of genetic techniques have been devised to determine cell lineage relationships during tissue development. Some of these systems monitor cell lineages spatially and/or temporally without regard to gene expression by the cells, whereas others correlate gene expression with the lineage under study. The GAL4 Technique for Real-time and Clonal Expression (G-TRACE) system allows for rapid, fluorescent protein-based visualization of both current and past GAL4 expression patterns and is therefore amenable to genome-wide expression-based lineage screens. Here we describe the results from such a screen, performed by undergraduate students of the University of California, Los Angeles (UCLA) Undergraduate Research Consortium for Functional Genomics (URCFG) and high school summer scholars as part of a discovery-based education program. The results of the screen, which reveal novel expression-based lineage patterns within the brain, the imaginal disc epithelia, and the hematopoietic lymph gland, have been compiled into the G-TRACE Expression Database (GED), an online resource for use by the Drosophila research community. The impact of this discovery-based research experience on student learning gains was assessed independently and shown to be greater than that of similar programs conducted elsewhere. Furthermore, students participating in the URCFG showed considerably higher STEM retention rates than UCLA STEM students that did not participate in the URCFG, as well as STEM students nationwide.

Published
2019
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2. Expression-Based Cell Lineage Analysis in

Author

John M, Olson, Cory J, Evans, Kathy T, Ngo, Hee Jong, Kim, Joseph Duy, Nguyen, Kayla G H, Gurley, Truc, Ta, Vijay, Patel, Lisa, Han, Khoa T, Truong-N, Letty, Liang, Maggie K, Chu, Hiu, Lam, Hannah G, Ahn, Abhik Kumar, Banerjee, In Young, Choi, Ross G, Kelley, Naseem, Moridzadeh, Awais M, Khan, Omair, Khan, Szuyao, Lee, Elizabeth B, Johnson, Annie, Tigranyan, Jay, Wang, Anand D, Gandhi, Manish M, Padhiar, Joseph Hargan, Calvopina, Kirandeep, Sumra, Kristy, Ou, Jessie C, Wu, Joseph N, Dickan, Sabrena M, Ahmadi, Donald N, Allen, Van Thanh, Mai, Saif, Ansari, George, Yeh, Earl, Yoon, Kimberly, Gon, John Y, Yu, Johnny, He, Jesse M, Zaretsky, Noemi E, Lee, Edward, Kuoy, Alexander N, Patananan, Daniel, Sitz, PhuongThao, Tran, Minh-Tu, Do, Samira J, Akhave, Silverio D, Alvarez, Bobby, Asem, Neda, Asem, Nicole A, Azarian, Arezou, Babaesfahani, Ahmad, Bahrami, Manjeet, Bhamra, Ragini, Bhargava, Rakesh, Bhatia, Subir, Bhatia, Nicholas, Bumacod, Jonathan J, Caine, Thomas A, Caldwell, Nicole A, Calica, Elise M, Calonico, Carman, Chan, Helen H-L, Chan, Albert, Chang, Chiaen, Chang, Daniel, Chang, Jennifer S, Chang, Nauman, Charania, Jasmine Y, Chen, Kevin, Chen, Lu, Chen, Yuyu, Chen, Derek J, Cheung, Jesse J, Cheung, Jessica J, Chew, Nicole B, Chew, Cheng-An Tony, Chien, Alana M, Chin, Chee Jia, Chin, Youngho, Cho, Man Ting, Chou, Ke-Huan K, Chow, Carolyn, Chu, Derrick M, Chu, Virginia, Chu, Katherine, Chuang, Arunit Singh, Chugh, Mark R, Cubberly, Michael Guillermo, Daniel, Sangita, Datta, Raj, Dhaliwal, Jenny, Dinh, Dhaval, Dixit, Emmylou, Dowling, Melinda, Feng, Christopher M, From, Daisuke, Furukawa, Himaja, Gaddipati, Lilit, Gevorgyan, Zunera, Ghaznavi, Tulika, Ghosh, Jaskaran, Gill, David J, Groves, Kalkidan K, Gurara, Ali R, Haghighi, Alexandra L, Havard, Nasser, Heyrani, Tanya, Hioe, Kirim, Hong, Justin J, Houman, Molly, Howland, Elaine L, Hsia, Justin, Hsueh, Stacy, Hu, Andrew J, Huang, Jasmine C, Huynh, Jenny, Huynh, Chris, Iwuchukwu, Michael J, Jang, An An, Jiang, Simran, Kahlon, Pei-Yun, Kao, Manpreet, Kaur, Matthew G, Keehn, Elizabeth J, Kim, Hannah, Kim, Michelle J, Kim, Shawn J, Kim, Aleksandar, Kitich, Ross A, Kornberg, Nicholas G, Kouzelos, Jane, Kuon, Bryan, Lau, Roger K, Lau, Rona, Law, Huy D, Le, Rachael, Le, Carrou, Lee, Christina, Lee, Grace E, Lee, Kenny, Lee, Michelle J, Lee, Regina V, Lee, Sean H K, Lee, Sung Kyu, Lee, Sung-Ling D, Lee, Yong Jun, Lee, Megan J, Leong, David M, Li, Hao, Li, Xingfu, Liang, Eric, Lin, Michelle M, Lin, Peter, Lin, Tiffany, Lin, Stacey, Lu, Serena S, Luong, Jessica S, Ma, Li, Ma, Justin N, Maghen, Sravya, Mallam, Shivtaj, Mann, Jason H, Melehani, Ryan C, Miller, Nitish, Mittal, Carmel M, Moazez, Susie, Moon, Rameen, Moridzadeh, Kaley, Ngo, Hanh H, Nguyen, Kambria, Nguyen, Thien H, Nguyen, Angela W, Nieh, Isabella, Niu, Seo-Kyung, Oh, Jessica R, Ong, Randi K, Oyama, Joseph, Park, Yaelim A, Park, Kimberly A, Passmore, Ami, Patel, Amy A, Patel, Dhruv, Patel, Tirth, Patel, Katherine E, Peterson, An Huynh, Pham, Steven V, Pham, Melissa E, Phuphanich, Neil D, Poria, Alexandra, Pourzia, Victoria, Ragland, Riki D, Ranat, Cameron M, Rice, David, Roh, Solomon, Rojhani, Lili, Sadri, Agafe, Saguros, Zainab, Saifee, Manjot, Sandhu, Brooke, Scruggs, Lisa M, Scully, Vanessa, Shih, Brian A, Shin, Tamir, Sholklapper, Harnek, Singh, Sumedha, Singh, Sondra L, Snyder, Katelyn F, Sobotka, Sae Ho, Song, Siddharth, Sukumar, Halley C, Sullivan, Mark, Sy, Hande, Tan, Sara K, Taylor, Shivani K, Thaker, Tulsi, Thakore, Gregory E, Tong, Jacinda N, Tran, Jonathan, Tran, Tuan D, Tran, Vivi, Tran, Cindy L, Trang, Hung G, Trinh, Peter, Trinh, Han-Ching H, Tseng, Ted T, Uotani, Akram V, Uraizee, Kent K T, Vu, Kevin K T, Vu, Komal, Wadhwani, Paluk K, Walia, Rebecca S, Wang, Shuo, Wang, Stephanie J, Wang, Danica D, Wiredja, Andrew L, Wong, Daniel, Wu, Xi, Xue, Griselda, Yanez, Yung-Hsuan, Yang, Zhong, Ye, Victor W, Yee, Cynthia, Yeh, Yue, Zhao, Xin, Zheng, Anke, Ziegenbalg, Jon, Alkali, Ida, Azizkhanian, Akash, Bhakta, Luke, Berry, Ryen, Castillo, Sonja, Darwish, Holly, Dickinson, Ritika, Dutta, Rahul Kumar, Ghosh, Riley, Guerin, Jonathan, Hofman, Garrick, Iwamoto, Sarah, Kang, Andrew, Kim, Brian, Kim, Hanwool, Kim, Kristine, Kim, Suji, Kim, Julie, Ko, Michael, Koenig, Alejandro, LaRiviere, Clifton, Lee, Jiwon, Lee, Brandon, Lung, Max, Mittelman, Mark, Murata, Yujin, Park, Daniel, Rothberg, Ben, Sprung-Keyser, Kunal, Thaker, Vivian, Yip, Paul, Picard, Francie, Diep, Nikki, Villarasa, Volker, Hartenstein, Casey, Shapiro, Marc, Levis-Fitzgerald, Leslie, Jaworski, David, Loppato, Ira E, Clark, and Utpal, Banerjee

Subjects
education, Universities, Research, Brain, Gene Expression, G-TRACE, Investigations, STEM, Eye, Lymphatic System, Animals, Wings, Animal, Cell Lineage, Drosophila, Students, CURE
Abstract

A variety of genetic techniques have been devised to determine cell lineage relationships during tissue development. Some of these systems monitor cell lineages spatially and/or temporally without regard to gene expression by the cells, whereas others correlate gene expression with the lineage under study. The GAL4 Technique for Real-time and Clonal Expression (G-TRACE) system allows for rapid, fluorescent protein-based visualization of both current and past GAL4 expression patterns and is therefore amenable to genome-wide expression-based lineage screens. Here we describe the results from such a screen, performed by undergraduate students of the University of California, Los Angeles (UCLA) Undergraduate Research Consortium for Functional Genomics (URCFG) and high school summer scholars as part of a discovery-based education program. The results of the screen, which reveal novel expression-based lineage patterns within the brain, the imaginal disc epithelia, and the hematopoietic lymph gland, have been compiled into the G-TRACE Expression Database (GED), an online resource for use by the Drosophila research community. The impact of this discovery-based research experience on student learning gains was assessed independently and shown to be greater than that of similar programs conducted elsewhere. Furthermore, students participating in the URCFG showed considerably higher STEM retention rates than UCLA STEM students that did not participate in the URCFG, as well as STEM students nationwide.

Published
2019

3. Ecological correlates to cranial morphology in Leporids (Mammalia, Lagomorpha)

Author

Nicholas Bumacod, Emma Sherratt, Mathew J. Wedel, and Brian P. Kraatz

Subjects
Cranial morphology, Morphometrics, Cranial skeleton, Lagomorpha, Anatomy and Physiology, Fossa, biology, Ecology, General Neuroscience, lcsh:R, Leporidae, Occipital bone, Postcrania, lcsh:Medicine, General Medicine, biology.organism_classification, General Biochemistry, Genetics and Molecular Biology, Form and function, General Agricultural and Biological Sciences, Zoology, Locomotion
Abstract

The mammalian order Lagomorpha has been the subject of many morphometric studies aimed at understanding the relationship between form and function as it relates to locomotion, primarily in postcranial morphology. The leporid cranial skeleton, however, may also reveal information about their ecology, particularly locomotion and vision. Here we investigate the relationship between cranial shape and the degree of facial tilt with locomotion (cursoriality, saltation, and burrowing) within crown leporids. Our results suggest that facial tilt is more pronounced in cursors and saltators compared to generalists, and that increasing facial tilt may be driven by a need for expanded visual fields. Our phylogenetically informed analyses indicate that burrowing behavior, facial tilt, and locomotor behavior do not predict cranial shape. However, we find that variables such as bullae size, size of the splenius capitus fossa, and overall rostral dimensions are important components for understanding the cranial variation in leporids.

Published
2015

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