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EMBRIO Thrust 1A Seminar Today 3-4PM
by Ladd, Brent Thomas 10 Feb '25

10 Feb '25

Dear EMBRIOphytes, Looking forward to having you all together this afternoon 3-4pm EST, as we kick off our Thrust projects spring seminar series with Krishna Jayant presenting for Thrust 1A. Zoom Link: https://purdue-edu.zoom.us/j/97946412458?pwd=YUurFKck0n1am07eA7b0O0TVKsVwpC…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Upcoming dates for Thrust seminars: Feb 10 Krishna Jayant Lab; Thrust 1A Feb 24 Janice Evans Lab; Thrust 1B Mar 10 Chris Staiger and Anjali Iyer-Pascuzzi Labs; Thrust 2A Mar 24 Jeremiah Zartman Lab; Thrust 2B Apr 7 Qing Deng Lab; T3B Apr 21 Mary Mullins Lab; T3A May 5 Stephanie Gardner Lab; T4 May 19 Ale Magana Lab (Joreen/Abby); T4 You may be interested to check out the Cytoskeleton Modelling Workshop happening May 12-16 at NC State (details below). From: Julio Monti Belmonte <jbelmon2(a)ncsu.edu<mailto:jbelmon2@ncsu.edu>> Date: Thu, Feb 6, 2025, 4:38 PM Subject: Cytoskeleton Modelling Workshop May 12-16 at NC State To: <cytosimworkshop(a)ncsu.edu<mailto:cytosimworkshop@ncsu.edu>> Dear Colleagues, We are pleased to announce the first in-person Cytoskeleton Modeling Workshop in the United States, utilizing the CytoSim<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcytosim.or…> software<https://nam04.safelinks.protection.outlook.com/?url=http%3A%2F%2Fcytosim.or…>. This workshop will be held at NC State, Raleigh, NC<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, from May 12-16, 2025. Over the course of five days, the workshop will feature a combination of lectures<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, guest talks<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>, and hands-on hackathon sessions. This workshop is open to individuals from a wide range of backgrounds, including Physics, Biology, Chemistry, and related fields, as well as participants at all career stages (undergraduate students to faculty). No prior programming experience is required. Key Learning Outcomes: - How to download, install, and run CytoSim simulations on your own machine - An overview of the biophysical properties and dynamics of various cytoskeletal systems and their components - An introduction to all the features and functionalities available in CytoSim - Techniques and scripts for extracting and analyzing simulation data - Methods for performing parameter scans and running simulations on computer clusters In the final days of the workshop, we will host hackathon sessions, where participants can apply the knowledge gained throughout the workshop to work on projects of their choosing, either independently or in groups, with the support of our instructors: François Nédélec<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.slcu.…>, Daniel Cortes<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcorteslab…> and Julio Belmonte<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbelmonte.…>. Additional Information: - There are no registration<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…> fees for this workshop; however, participants are responsible for their own travel and lodging expenses. Discounted accommodation rates are available at a nearby university dormitory<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…>. - Lunch and coffee will be provided throughout the workshop. For more details and to register, please visit the workshop website: https://cytosimworkshop.wordpress.ncsu.edu<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fcytosimwo…> Registration Deadline: March 30, 2025 Given limited space, applicants will be notified by early April regarding their acceptance to the workshop. We encourage you to share this announcement with any colleagues who may be interested in attending. We look forward to welcoming you to Raleigh in May! Best regards, Julio M. Belmonte Assistant Professor Department of Physics NC State University Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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Today's Seminar "Next Generation Fluorescence Lifetime Imaging Microscopy (FLIM)" + New Pre-Prints
by Ladd, Brent Thomas 27 Jan '25

27 Jan '25

[cid:b9a695e0-2f7e-4f46-8e32-5eecfc0fd297] Dear EMBRIO Members, Tune in this afternoon 3-4pm EST for our invited seminar by Scott Howard<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fengineeri…>, Ph.D., University of Notre Dame "Next Generation Fluorescence Lifetime Imaging Microscopy (FLIM)" Zoom link: https://purdue-edu.zoom.us/j/97946412458?pwd=YUurFKck0n1am07eA7b0O0TVKsVwpC…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Abstract This talk will introduce fluorescence lifetime imaging microscopy (FLIM), a microscopy tool for quantitative analysis of intravital microenvironments, and our "Instant FLIM" system that costs a fraction of existing multiphoton FLIM systems and achieves the highest imaging rate, depth-resolved, intravital imaging in highly scattering tissue. Our open-source image analysis and processing tools, including neural-network based image denoising, and our work developing the first theoretical framework for machine-learning based FLIM image processing and analysis will be presented. The Spring Seminar schedule, Monday's 3-4pm ET (please contact Jennifer Goad: goad3(a)purdue.edu for any changes needed in scheduling): Month Day Spring Semester 2025 Jan 13 Denise Driscoll, Purdue (ABIDES Invited Scholar) Recording<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Jan 27 Scott Howard, Notre Dame Feb 10 Tami Kinzer-Ursem; Thrust 1A Feb 24 Janice Evans; Thrust 1B Mar 10 Chris Staiger and Anjali Iyer-Pascuzzi; Thrust 2A Mar 24 Jeremiah Zartman; Thrust 2B Apr 7 Qing Deng; T3B Apr 21 Mary Mullins; T3A May 5 Stephanie Gardner; T4 May 19 Ale Magana (Joreen/Abby); T4 Get Your Summer Intern Projects Submitted Now for the SURF Program! Reminder to faculty at Purdue (and Partners - please identify any undergrads at your university you might want to send to Purdue to work in EMBRIO labs for the summer): Submit your EMBRIO project idea now to take advantage of the EMBRIO-SURF collaboration<https://engineering.purdue.edu/Engr/Research/EURO/info-faculty> to bring excellent undergraduate students into your lab this summer. EMBRIO Institute will cover the faculty mentor portion, along with the $1000 housing requirement for external students. Please see the SURF program project submittal page linked above for details, and make sure to check the EMBRIO Institute box. Kay Kobak, SURF Asst. Dir., can help with any programmatic, student matching, or project submission questions: kkobak(a)purdue.edu Recent EMBRIO Publications: Check out the new pre-prints on bioRxiv from Thrust 2A with the Staiger Lab and a collaborative effort with five EMBRIO labs involved : Xu, L., W. Zhang, L. Huang, C. Zhang, and C.J. Staiger. 202X. Actomyosin and the Arp2/3 complex are involved in the internalization of cellulose synthase complexes. Plant Physiol. Submitted 01-17-25. Also available on bioRxiv at https://doi.org/10.1101/2025.01.19.633783<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> Zhang, W., N. Kumar, J. Helwig, A. Hoerter, D. Umulis, A.S. Iyer-Pascuzzi, E. Pienaar, and C.J. Staiger. 202X. Local traveling waves of cytosolic calcium elicited by defense signals or wounding are propagated by distinct mechanisms. Science Signaling. Submitted 01-23-25. Also available on bioRxiv at https://doi.org/10.1101/2025.01.23.634554<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> Let me know of your recent publications and pre-print posts, as well as conference papers and posters. Access the Institute's Google Scholar page and full list of products on our website: https://www.purdue.edu/research/embrio/research/scholarly-products.php Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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End of Week Reminders and Opportunities (Get your SURF summer intern projects submitted!)
by Ladd, Brent Thomas 17 Jan '25

17 Jan '25

[cid:f5b6d177-2352-48c9-bbaa-ad25353db552] Dear EMBRIO Members, If you missed the insightful ABIDES Invited Scholar seminar by Denise Driscoll this past Monday focused on cultural awareness and inclusion in science teams, you can access the video on our shared Box account in the All-Hands Meeting Recordings folder. Direct link to the seminar recording files: https://app.box.com/s/7jk3rk3bizsfr563f1g8r6actavp262i<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Personal Assessment handouts are in the ABIDES folder under Cultural Awareness sub-folder: https://app.box.com/s/k80apasri8tm4n75ndxx4un1c4eyaq47<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Our next EMBRIO seminar, Monday, January 27th 3-4pm EST will be presented by Prof. Scott Howard, Electrical Engineering, Notre Dame University. The Howard Research Group<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fhowardpho…> <https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fhowardpho…> is a biomedical photonics research group that focuses on how the interaction of photons and tissue can be used to aid diagnosis and fundamental research in biological fields. The remaining dates in spring are dedicated to Thrust leaders presenting research seminars and updates from their collaborative EMBRIO projects. The Spring Seminar schedule, Monday's 3-4pm ET (please contact Jennifer Goad: goad3(a)purdue.edu for any changes needed in scheduling): Month Day Spring Semester 2025 Jan 13 Denise Driscoll, Purdue (ABIDES Invited Scholar) Jan 27 Scott Howard, Notre Dame Feb 10 Tara Kinzer-Ursem; Thrust 1A Feb 24 Janice Evans; Thrust 1B Mar 10 Chris Staiger and Anjali Iyer-Pascuzzi; Thrust 2A Mar 24 Jeremiah Zartman; Thrust 2B Apr 7 Qing Deng; T3B Apr 21 Mary Mullins; T3A May 5 Stephanie Gardner; T4 May 19 Ale Magana (Joreen/Abby); T4 Get Your Summer Intern Projects Submitted Now for the SURF Program! Reminder to faculty at Purdue (and Partners - please identify any undergrads at your university you might want to send to Purdue to work in EMBRIO labs for the summer): Submit your EMBRIO project idea now to take advantage of the EMBRIO-SURF collaboration<https://engineering.purdue.edu/Engr/Research/EURO/info-faculty> to bring excellent undergraduate students into your lab this summer. EMBRIO Institute will cover the faculty mentor portion, along with the $1000 housing requirement for external students. Please see the SURF program project submittal page linked above for details, and make sure to check the EMBRIO Institute box. Kay Kobak, SURF Asst. Dir., can help with any programmatic, student matching, or project submission questions: kkobak(a)purdue.edu Recent EMBRIO Publications: Check out the recent publication in Nature Communications led by the Jayant lab in collaboration with the Kinzer-Ursem lab: Khan, H.F., Dutta, S., Scott, A.N., Xiao, S., Yadav, S., Chen, X., Kinzer-Ursem, T.L., Rochet, J-C., Jayant, K. *“Site-specific seeding of Lewy pathology induces distinct pre-motor cellular and dendritic vulnerabilities in the cortex”. Nat Commun 15, 10775 (2024). https://doi.org/10.1038/s41467-024-54945-0<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2…> Let me know of your recent publications and pre-print posts, as well as conference papers and posters. Access the Institute's Google Scholar page and full list of products on our website: https://www.purdue.edu/research/embrio/research/scholarly-products.php Graduate Students (Purdue Opportunitity) earn some cold hard cash: Three Minute Thesis (3MT®)<https://maillinks.purdue.edu/t/47166001/1704294751/103530133/0/1007625/?x=6…> The 3MT® competition challenges graduate students and postdoctoral scholars to effectively communicate their research to a non-specialist audience in just three minutes. Participants present their research conducted at Purdue, highlighting its significance and relevance to the general public. Faculty Nominations Deadline: Friday, February 7, 2025, 11:59 PM Prizes: * 1st Place: $5,000 * 2nd Place: $3,000 * People’s Choice: $2,000 Learn more here!<https://maillinks.purdue.edu/t/47166001/1704294751/103530133/1/1007625/?x=c…> Say It In 6®<https://maillinks.purdue.edu/t/47166001/1704294751/102509263/0/1007625/?x=d…> (SII6)<https://maillinks.purdue.edu/t/47166001/1704294751/102509263/1/1007625/?x=b…> Tell the story of your research experience in just six words and one visual aid. Open to all graduate, professional, non-degree students, and postdocs at Purdue, entries will be featured on the Office of the Vice Provost for Graduate Students and Postdoctoral Scholars website and social media. Submission Deadline: Friday, February 21, 2025 Prizes: * 1st Place: $5,000 * 2nd Place: $3,000 * People’s Choice: $2,000 Get creative and share your research story! Learn more here and submit now!<https://maillinks.purdue.edu/t/47166001/1704294751/102509263/2/1007625/?x=6…> Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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EMBRIO ABIDES Seminar Today + reminder to Purdue faculty to post your SURF projects
by Ladd, Brent Thomas 13 Jan '25

13 Jan '25

Dear EMBRIOphytes, This afternoon 3-4pm EST, Dr. Denise Driscoll (bio below), will present our ABIDES invited scholar seminar, "Your Role in Building Teams that are Inclusive and Culturally Responsive" (please complete two very quick self-reflection exercises we will be using during the seminar - attached). Additional announcements below include details on posting your faculty project to the SURF Program, and several conferences that may be of interest. Seminar Title: Your Role in Building Teams that are Inclusive and Culturally Responsive Date/Time: January 13, 3-4pm EST Zoom link: https://purdue-edu.zoom.us/j/97946412458?pwd=YUurFKck0n1am07eA7b0O0TVKsVwpC…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Description: Dr. Driscoll will give an introductory, interactive talk about 1. how one creates a culture of inclusion when working on research- or project-related teams and 2. how to increase one’s cultural intelligence (CQ) and be more culturally responsive when on a diverse team. Accompanying Activities: 1. When you think of a team that is inclusive in your workplace, what are some everyday workplace practices, procedures, and/or processes that you believe are responsible for creating a culture of inclusion? Write down a few examples. 2. Please complete the Cultural Intelligence (CQ) Scale - 20 item version (see attached). It has pros and cons, as any scale does, but only takes a few minutes to complete and will help everyone think more complexly about what CQ entails. *During the session, we will talk about global dexterity and illustrate the concept using the Countries and Cultural Considerations attachment. Please print this document ahead of time if you don't have multiple screens. Thank you! Speaker Bio: Since 2019, Dr. Driscoll (Indiana University, B.A., 1986; University of California, Santa Barbara, Ph.D., 1992) has been CISTAR’s Director of Diversity and Inclusion where she is responsible for helping CISTAR NSF-ERC become a more diverse, inclusive center where people from all backgrounds are ready to participate and lead in a global energy economy. She has served previously as: an Assistant Professor of Psychological Sciences at Purdue University who taught and conducted research on stereotyping and intergroup relations (1991-1999); a Diversity Resource Specialist for the Vice President of Human Relations at Purdue advising colleges on diversity initiatives, hosting workshops, assessing diversity climate, grant writing, and administering programs (2000-2007); a Diversity Consultant for her company, Diversity Competency (2007-2014); and a Continuous Lecturer in the Krannert School of Business at Purdue, teaching MBA students intercultural communication and management, business writing, and mentoring (2014-2019). About CISTAR The Center for Innovative and Strategic Transformation of Alkane Resources (CISTAR) is a National Science Foundation Engineering Research Center that is housed within the School of Chemical Engineering at Purdue. There are five universities involved (see below) and over 30 industrial partners. [cid:226910bc-aed8-42cb-8b90-5a65e5044e52] EMBRIO Partnership with SURF (Summer Undergraduate Research Fellowship at Purdue) EMBRIO investigators at Purdue – if you haven't already done so, post your summer research projects with the SURF program to recruit undergraduate researchers to your lab. EMBRIO will cover the faculty portion of the stipend and housing agreement. The SURF program provides an 11-week on campus research experience. Get your project posted now for consideration (links below). EMBRIO faculty at our partner institutions – please let your undergrads know of this opportunity to work with EMBRIO faculty on summer projects and make connections with those at Purdue. SURF Project Portal: Learn more about the program and submit your project today<https://maillinks.purdue.edu/t/46944966/1704294751/98563639/0/1007625/?x=f1…>! Contact the SURF EURO Office for assistance: eur(a)purdue.edu Info for students: This 11-week, on-campus summer program provides a unique opportunity to mentor undergraduate students through hands-on research experiences. Students receive a $6,500 stipend, subsidized by the school/department and college affiliated with the project. Summer Undergraduate Research Fellowship (SURF)<https://maillinks.purdue.edu/t/46944966/1704294751/89814806/0/1007625/?x=5e…> Conferences of Interest Announced: March 26-28, 2025. EMBRIO members check out the Multicellular Engineered Living Systems (M-CELS) Symposium 2025. Organizers invite you to participate in the “M-CELS: Advances in Basic Research and Translational Opportunities<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefens…>” symposium, which will be held on March 26-28, 2025, at the OMNI Hilton Head Resort in South Carolina, USA. July 9-13, 2025. International Zebrafish Conference<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.izfs.…>. Madison, WI, USA. Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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EMBRIO Monday ABIDES Seminar: Your Role in Building Teams that are Inclusive and Culturally Responsive, Denise Driscoll, Ph.D.
by Ladd, Brent Thomas 10 Jan '25

10 Jan '25

Dear EMBRIOphytes, Happy New Year, and welcome back. This is a quick reminder that we'll have a guest speaker, Dr. Denise Driscoll (bio below), for our upcoming ABIDES seminar on Monday 3-4pm EST, with the details below (and two very quick self-reflection exercises we will be using during the seminar are attached for you to complete ahead of the seminar). Additional announcements include several conferences that may be of interest (see below) Seminar Title: Your Role in Building Teams that are Inclusive and Culturally Responsive Description: Dr. Driscoll will give an introductory, interactive talk about 1. how one creates a culture of inclusion when working on research- or project-related teams and 2. how to increase one’s cultural intelligence (CQ) and be more culturally responsive when on a diverse team. Accompanying Activities: 1. When you think of a team that is inclusive in your workplace, what are some everyday workplace practices, procedures, and/or processes that you believe are responsible for creating a culture of inclusion? Write down a few examples. 2. Please complete the Cultural Intelligence (CQ) Scale - 20 item version (see attached). It has pros and cons, as any scale does, but only takes a few minutes to complete and will help everyone think more complexly about what CQ entails. *During the session, we will talk about global dexterity and illustrate the concept using the Countries and Cultural Considerations attachment. Please print this document ahead of time if you don't have multiple screens. Thank you! Speaker Bio: Since 2019, Dr. Driscoll (Indiana University, B.A., 1986; University of California, Santa Barbara, Ph.D., 1992) has been CISTAR’s Director of Diversity and Inclusion where she is responsible for helping CISTAR NSF-ERC become a more diverse, inclusive center where people from all backgrounds are ready to participate and lead in a global energy economy. She has served previously as: an Assistant Professor of Psychological Sciences at Purdue University who taught and conducted research on stereotyping and intergroup relations (1991-1999); a Diversity Resource Specialist for the Vice President of Human Relations at Purdue advising colleges on diversity initiatives, hosting workshops, assessing diversity climate, grant writing, and administering programs (2000-2007); a Diversity Consultant for her company, Diversity Competency (2007-2014); and a Continuous Lecturer in the Krannert School of Business at Purdue, teaching MBA students intercultural communication and management, business writing, and mentoring (2014-2019). About CISTAR The Center for Innovative and Strategic Transformation of Alkane Resources (CISTAR) is a National Science Foundation Engineering Research Center that is housed within the School of Chemical Engineering at Purdue. There are five universities involved (see below) and over 30 industrial partners. [cid:e7bbd1cf-def5-4116-88c4-c196e211be5c] Conferences of Interest Announced: March 26-28, 2025. EMBRIO members check out the Multicellular Engineered Living Systems (M-CELS) Symposium 2025. Organizers invite you to participate in the “M-CELS: Advances in Basic Research and Translational Opportunities<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefens…>” symposium, which will be held on March 26-28, 2025, at the OMNI Hilton Head Resort in South Carolina, USA. July 9-13, 2025. International Zebrafish Conference<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.izfs.…>. Madison, WI, USA. Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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EMBRIO at NSF BII Meeting and Zoom links for Hybrid Sessions
by Ladd, Brent Thomas 17 Dec '24

17 Dec '24

Dear EMBRIOphytes, A small group of us are here in Denver representing the Institute at the NSF-BII annual meeting happening today and tomorrow (Agenda<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwhova.com…>). [https://d3ej931a0s5mcg.cloudfront.net/ced6fa63-01e6-4f17-8a5a-b73fa658b26f/…]<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwhova.com…> 2024 NSF BII Grantee & RCN Meeting hosted on Whova<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwhova.com…> December 16 – 18, 2024, Denver, CO whova.com There are a number of hybrid sessions you can connect with via zoom link which has just been shared with me for the sessions as follows: Tuesday NSF Panel (8:30-10:15am) - https://zoom.us/j/98740204129?from=addon<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fzoom.us%2…> Afternoon Session (1-3:30pm) - https://zoom.us/j/99216883301?from=addon<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fzoom.us%2…> Wednesday Morning Session (8:30-12:30pm) - https://zoom.us/j/93987448089?from=addon<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fzoom.us%2…> Afternoon Session (1-4:30pm) - https://zoom.us/j/93915957573?from=addon<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fzoom.us%2…> On site in Denver we have Linlin Li (thank you for representing us in the Early Career Researcher sessions yesterday), David Umulis, Jeremy Zartman, Stephanie Gardner, and Brent Ladd. Best, Brent Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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All-Hands Seminar Today 3PM ET, Prof. Mark Alber, “Combined multiscale modeling and experimental study of mechanisms of shape formation during tissue development and growth”
by Ladd, Brent Thomas 09 Dec '24

09 Dec '24

Dear EMBRIOphytes, Join us today at 3PM ET for our All-Hands Seminar, presented by Mark Alber, Ph.D., Distinguished Professor of Mathematics, Director of the Interdisciplinary Center for Quantitative Modeling in Biology, UC-Riverside<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Ficqmb.ucr…>, seminar title: “Combined multiscale modeling and experimental study of mechanisms of shape formation during tissue development and growth” Abstract Attached Join Zoom Meeting https://purdue-edu.zoom.us/j/99105530025?pwd=wPuFZtASboXSfD8Y9e4vsbKpcrKl5j…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Meeting ID: 991 0553 0025 Passcode: 469678 See you all there, Brent Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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Emergence Newsletter Issue 38: Dec 7, 2024
by Ladd, Brent Thomas 06 Dec '24

06 Dec '24

[cid:9cb18fbb-c66c-445c-96cb-8836a571afea] Emergence: A newsletter of discovery, education, and outreach from the EMBRIO Institute Issue 38: Dec 7, 2024 DIRECTORS’ NOTE Plan to join us for the Institute’s all-hands seminar this coming Monday, December 9, 3PM ET with Prof. Mark Alber (UC Riverside, Center for Quantitative Modeling in Biology<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Ficqmb.ucr…>) presenting “Combined multiscale modeling and experimental study of mechanisms of shape formation during tissue development and growth” (see abstract below). If you missed our previous seminar on “Development of EMBRIO as a Community of Practice” presented by Soumi Mukherjee and Emily Georgopoulos from the Gardner Lab at Purdue<https://www.bio.purdue.edu/lab/gardner/>, you can find the recording on our shared Box drive in the All-Hands Meetings Recordings folder<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…>. EMBRIO investigators at Purdue – it is time it is time to post your summer research projects with the SURF program to recruit undergraduate researchers to your lab! EMBRIO will cover the faculty portion of the stipend and housing agreement. The SURF program provides an 11-week on campus research experience. Get your project posted now for consideration (details and links below). The student portal is now open, with students beginning to apply to the program. EMBRIO faculty at our partner institutions – please let your undergrads know of this opportunity to work with EMBRIO faculty on summer projects and make connections with those at Purdue. There are also a number of resources and programs available for undergraduate thinking about graduate school you may want to share with your undergraduate students (see SURF details and other info below UG Resources section). Jeffery Coulter is presenting a public talk today at 3pm in MJIS 2001 at Purdue as part of his PhD Preliminary Exam “A computational analysis of CaMKII-actin networks and their influence on dendritic spine morphology” (abstract below). Congrats to Mayesha Sahir Mim, Ph.D. Candidate in EMBRIO (Zartman Lab) at Notre Dame, on a successful defense of her Ph.D. dissertation!! "Engineering Morphogenesis through Calcium Signaling and Cellular Mechanical Mediators." We wish Mayesha the very best in the next steps of her career. The NSF Biology Integration Institutes Grantee Annual Meeting will be held December 17-18, Denver, CO. The NSF Research Coordination Network grant team with the BII’s will be hosting this year’s meeting, with goals of community building, peer learning, and future visioning for transformative scientific impact. Please check out the event website<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwhova.com…> for details on hybrid sessions, keynotes, and panels (more details below). EMBRIO members check out these conferences in 2025: Multicellular Engineered Living Systems (M-CELS) Symposium 2025. Organizers invite you to participate in the “M-CELS: Advances in Basic Research and Translational Opportunities<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefens…>” symposium, which will be held on March 26-28, 2025, at the OMNI Hilton Head Resort in South Carolina, USA. July 9-13, 2025 the International Zebrafish Conference<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.izfs.…> will be held in Madison, WI. Best wishes to all as the Fall 2024 semester wraps up! David, Chris, Jeremy, Anjali, Janice, Alejandra, Elsje, and Brent QUICK LINKS All-Hands Meetings Recordings<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Materials from Summer School & Annual Retreat<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Institute Skills and Strengths Sharing Platform<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…> Orientation to EMBRIO<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> ABIDES Cultural and Mentoring resources<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Sign the Data Sharing Policy Agreement<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue.ca…> EMBRIO Personnel List<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Summer Undergraduate Research Fellowship and Resources for UG’s Thinking about Graduate School Mentoring and Summer Research (Freshman – Juniors): 1. Early Discovery Mentoring Circles - This Graduate School mentoring for freshman and sophomore students (at least 2+ years remaining in bachelor's degree) will help you build your professional network and get the insider scoop about graduate school through online mentoring circles. Discover whether you might be interested in research and get real world advice about whether graduate school is your next step! * Details: Three 1.5 hour meetings over 2 weeks in January (specific dates/times are on our website: www.engr.purdue.edu/earlydiscovery<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmx.techno…>) * Apply here by January 8, 2025: https://purdue.ca1.qualtrics.com/jfe/form/SV_5o4drtNSvIjlkKW <https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmx.techno…> 2. Purdue Summer Undergraduate Research Fellowship (SURF) SURF is a 10-week-long paid research opportunity for undergraduates enrolled in US universities. * Save the Date: Purdue SURF application<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmx.techno…> opens Dec 1, 2024! * Priority deadline is Jan 15, 2025 with rolling admissions after this deadline. * SURF Program Dates: May 25- August 8, 2025 * SURF Students receive a summer stipend of $6,500 * Send any summer research questions to eur(a)purdue.edu<mailto:eur@purdue.edu?subject=Purdue%20Summer%20Research%20Question>. Also check out the Pathways Scholars cohort<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmx.techno…> of SURF, if you are interested in graduate school and a PhD. Selected Pathways Scholars receive $10k, which includes summer stipend ($6500) and is expected to cover the cost of housing ($2500 summer housing allowance) and travel (up to $1000 travel reimbursement). 3. Webinar: Grad School 101: Why Consider Graduate School? – Tuesday December 3rd, 6:00 – 7:00 p.m. eastern. Think a PhD is just for future faculty? Think again! This session demystifies what it takes to be and become a graduate student (MS and PhD), as well as how you can gain more experience to be competitive through Summer Research. Sponsored by the EngGAP Graduate School Collaborative: UC Berkeley, Carnegie Mellon University, Clarkson University, Georgia Tech, Iowa State, Lehigh University, University of Michigan, Northeastern, NYU, Purdue University, University of Florida, University of Southern California, and Wentworth Institute of Technology. Register here<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmx.techno…>. 4. Interested in Semiconductors? Join STARS (Summer Training on Awareness and Readiness for Semiconductors) at Purdue! Get paid to learn about semiconductors and grow your semiconductor training. Geared towards freshman and sophomore students but all undergraduate student ages/majors welcome to apply. * Application is open December 2024 for Summer 2025 cohort * Program Dates: from May 25 – Aug 8 2025 * $10,000 per student covers stipend, lodging, and program operating fee * Open to Purdue and External students. * Apply here: https://engineering.purdue.edu/Engr/Research/EURO/programs/stars<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmx.techno…> Learn about Graduate School (For students graduating Spring 2025): GradSchoolThriving.com<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmx.techno…> is a collection of FREE resources and insider tips that aim to support the success of graduate students. You don’t know what you don’t know… so let us help you explore information that will help you thrive in your graduate studies. This is a partnership between Purdue University, Virginia Tech, Ohio State University and the University of Oklahoma. Check out the website! Current Senior and Applying? Check out Graduate Application Requirements for Purdue here: https://www.purdue.edu/academics/ogsps/prospective/gradrequirements/westlaf…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmx.techno…> EMBRIO ABIDES (Access, Belonging, Inclusion, Diversity, Equity, Support) Dr. Anjali Iyer-Pascuzzi, EMBRIO ABIDES Director, Thrust 2 Co-Lead, and Professor at Purdue, has led and organized sessions on mentorship, project management, careers, and individual development plans that are available on the Institute’s shared Box folder under ABIDES<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…>. The ABIDES program will host a talk on active mentoring for EMBRIO in January 2025 by Denise Driscoll, DEI Director, CISTAR ERC, Purdue University. STUDENT LEADERSHIP COUNCIL CORNER The Student Leadership Council has put together a resource to boost collaboration and community connection in EMBRIO. They’ve have created a platform (google slide deck<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…>) where we can all share a little about who we are and what kinds of strengths we can and are willing to share with others. We kindly request that all members take a few minutes to fill out a slide for themselves. This way, we can also use this to gauge what topics would be of most value to EMBRIO for hosting workshops. The SLC welcomes new officers to represent your university and your perspective for EMBRIO. Reach out to David Gazzo (dgazzo(a)nd.edu) SLC president, for more information, and log your ideas for future topics or events<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…> that the SLC could organize. Access SLC slides and documents<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…>, and consider signing up to give or receive mentoring<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…> for/from EMBRIO trainees in helping support and orient to the EMBRIO mission and interdisciplinary framework. UPCOMING DEADLINES, IMPORTANT DATES, OPPORTUNITIES & INFO EMBRIO All-hands Meeting Schedule, Monday’s 3-4pm ET. Previous All Hands Recordings<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Sept 2 Labor Day Sept 9 State of the Institute and open discussion Sept 23 Donny Hanjaya-Putra, Notre Dame Oct 7 & 8 Fall Break at Purdue Oct 14 Holly Goodson, Notre Dame Oct 28 Mark Alber (re-scheduled) Nov 11 Alex Dowling, Notre Dame Nov 25 Soumi Mukherjee and Emily Georgopoulos, Gardner Lab, Purdue Dec 9 Mark Alber, UC-Riverside Dec. 6, 2024: Jeffery Coulter is presenting a public talk today at 3pm in MJIS 2001 at Purdue as part of his PhD Preliminary Exam “A computational analysis of CaMKII-actin networks and their influence on dendritic spine morphology” Time: Fri. Dec. 6th at 3pmET Location: MJIS 2001 Zoom Link: https://notredame.zoom.us/j/9721071389<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.googl…> Passcode: 071389 (please send Brent advanced notices of your graduate thesis defense dates and details, so that we can announce these to the community!). Dec. 9th, 2024. EMBRIO All-Hands Seminar, December 9th, 3PM, Mark Alber, Ph.D., Distinguished Professor of Mathematics, Director of the Interdisciplinary Center for Quantitative Modeling in Biology, UC-Riverside, seminar title: “Combined multiscale modeling and experimental study of mechanisms of shape formation during tissue development and growth”. Join Zoom Meeting https://purdue-edu.zoom.us/j/99105530025?pwd=wPuFZtASboXSfD8Y9e4vsbKpcrKl5j…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Meeting ID: 991 0553 0025 Passcode: 469678 Dec. 17-18th, 2024. NSF Biology Integration Institutes Grantee Annual Meeting, December 17-18, Denver, CO. The NSF Research Coordination Network grant with the BII’s will be hosting this year’s meeting, with goals of community building, peer learning, and future visioning for transformative scientific impact. Please check out the event website<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwhova.com…> for details on hybrid sessions, keynotes, and panels (times shown in Mountain Standard time). Each BII will be presenting a lightning talk during Tuesday, Dec. 17 (Noon – 1pm ET). Contact lead organizer, Dr. Gemma Jiang (gemma.jiang(a)colostate.edu<mailto:gemma.jiang@colostate.edu> ) for the zoom link to connect to sessions. Each BII is sending a small team in person (EMBRIO will be represented by David Umulis, Jeremy Zartman, Stephanie Gardner, Linlin Li, and Brent Ladd). March 26-28, 2025. EMBRIO members check out the Multicellular Engineered Living Systems (M-CELS) Symposium 2025. Organizers invite you to participate in the “M-CELS: Advances in Basic Research and Translational Opportunities<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefens…>” symposium, which will be held on March 26-28, 2025, at the OMNI Hilton Head Resort in South Carolina, USA. July 9-13, 2025. International Zebrafish Conference<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.izfs.…>. Madison, WI, USA. BME PhD Preliminary Exam Announcement for Jeffery Coulter (D. Umulis and T. Kim, Co-advisors) Everyone is invited to attend the public presentation beginning at 3:00pm. Title: A computational analysis of CaMKII-actin networks and their influence on dendritic spine morphology Date: December 6, 2024 Time: 3:00 pm Location: MJIS 2001 Committee: Taeyoon Kim (Co-advisor), David Umulis (Co-advisor), Tamara Kinzer-Ursem, Janice Evans Abstract: Dendritic spines are small protrusions on neuronal dendrites responsible for receiving and integrating the post-synaptic signals that contribute to learning and memory formation through a process known as long-term-potentiation (LTP). The changes that occur in spines during LTP can be roughly categorized as “functional" (related to the efficiency of synaptic communication) and “structural" (related to morphological changes). While these changes are closely related and are both required for proper LTP, the molecular mechanisms underlying the structural changes are not well understood. The actin cytoskeleton is the primary system responsible for regulating spine structure and earlier work has found that calcium-calmodulin protein kinase II (CaMKII) has multiple actin binding capabilities. Disruption of CaMKII activity is linked to pathological spine morphologies and improper LTP, although, elucidating how its interactions with the actin cytoskeleton might contribute to this using existing experimental or computational procedures is challenging due to the small size and the multi-scale nature of this system. Here, we plan to test the hypothesis that CaMKII plays a structural role during LTP through its ability to both sequester monomeric G-actin and bundle filamentous F-actin to regulate spine morphology. We will use an agent-based computational model of homogeneous CaMKII-actin networks to understand the relative contributions of CaMKII sequestration and bundling to network architecture. To resolve the limitations of current computational approaches, we will also present a novel hybrid, continuum-discrete modeling framework capable of describing multi-scale biological systems, such as dendritic spines, wherein biochemical reactions are coupled with filamentous networks. Using this framework, we will consider how heterogeneity of CaMKII localization and its activation by calcium (Ca$^{2+}$) following synaptic stimulation affect spine morphology. Our work will provide insight into the structural role that CaMKII plays in LTP, as well as introduce a general computational framework for studying comparable multi-scale systems. EMBRIO ALL-HANDS SEMINAR: DECEMBER 9, 3PM ET VIA ZOOM: https://purdue-edu.zoom.us/j/99105530025?pwd=wPuFZtASboXSfD8Y9e4vsbKpcrKl5j…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Combined multiscale modeling and experimental study of mechanisms of shape formation during tissue development and growth Mark Alber Department of Mathematics, Center for Quantitative Modeling in Biology University of California Riverside, USA The regulation and maintenance of a tissue’s shape and structure is a major outstanding question in developmental biology and plant biology. In this talk, through iterations between experiments and multiscale model simulations that include a mechanistic description of interkinetic nuclear migration, we will show that the local curvature, height, and nuclear positioning of cells in the Drosophila wing imaginal disc are defined by the concurrent patterning of actomyosin contractility, cell-ECM adhesion, ECM stiffness, and interfacial membrane tension [1]. The biologically calibrated model describing both tissue growth and morphogenesis incorporates the spatial patterning of fundamental subcellular properties. Additionally, the model implements for the first time the dynamics of interkinetic nuclear migration within the simulated pseudostratified epithelium. This includes the basal to apical motion of the nucleus, mitotic rounding, and cell division dynamics. Key characteristics of global tissue architecture, such as the local curvature of the basal wing disc epithelium, cell height, and nuclear positioning, serve as metrics for model calibration. The experiments have shown how these physical features are jointly regulated through spatiotemporal dynamics in the localization of pMyoII, β-Integrin, and ECM stiffness. As the disc grows, there are progressive changes in the patterning of key subcellular features such as actomyosin contractility. The predictions made by the model simulations agree with the observed changes in contractility and cell-ECM adhesion during wing disc morphogenesis. Multiscale modeling approach combined with experiments was also applied to studying stem cell maintenance in multilayered shoot apical meristems (SAMs) of plants which requires strict regulation of cell growth and division. In this talk, the combined approach will be demonstrated through testing three hypothesized mechanisms for the regulation of cell division plane orientation and the direction of anisotropic cell expansion in the corpus [2]. 1. Nilay Kumar, Jennifer Rangel Ambriz, Kevin Tsai, Mayesha Sahir Mim, Marycruz Flores-Flores, Weitao Chen, Jeremiah J. Zartman and Mark Alber [2024], Balancing competing effects of tissue growth and cytoskeletal regulation during Drosophila wing disc development, Nature Communications, volume 15, 2477. 2. Mikahl Banwarth-Kuhn, Kevin Rodriguez, Christian Michael, Calvin-Khang Ta, Alexander Plong, Eric Bourgain-Chang, Ali Nematbakhsh,Weitao Chen, Amit Roy-Chowdhury, G. Venugopala Reddy and Mark Alber [2022], Combined computational modeling and experimental analysis integrating chemical and mechanical signals suggests possible mechanism of shoot meristem maintenance, PLOS Computational Biology 18(6): e1010199. About the speaker: Professor Mark Alber earned his Ph.D. in mathematics at the University of Pennsylvania. He held several positions at the University of Notre Dame including most recently Vincent J. Duncan Family Chair in Applied Mathematics. He is currently Distinguished Professor in the Department of Mathematics and Director of the Center for Quantitative Modeling in Biology, University of California, Riverside. Dr. Alber was elected in 2011 Fellow of the American Association for the Advancement of Science (AAAS) and received 2024 US Fulbright Scholar Award, The Netherlands. He is currently a section editor in systems biology of PLoS Computational Biology and member of editorial board of Bulletin of Mathematical Biology. Hot Off the Press: New & Recent EMBRIO Journal Papers Let us know about new papers you want to highlight for the EMBRIO community! Check out our Google Scholar Page<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.g…> See a more complete list of Scholarly Products produced under support of EMBRIO Institute<https://www.purdue.edu/research/embrio/research/scholarly-products.php> Khan, H.F., Dutta, S., Scott, A.N., Xiao, S., Yadav, S., Chen, X., Kinzer-Ursem, T.L., Rochet, J-C., Jayant, K. *“Site-specific seeding of Lewy pathology induces distinct pre-motor cellular and dendritic vulnerabilities in the cortex”. Accepted Nov. 26, 2024, Nature Communications. REMINDER: EMBRIO Acknowledgement for Scholarly Papers and Posters. For EMBRIO related research publications, NSF requires acknowledgement of EMBRIO NSF funding for our Institute to claim the work in our reporting back to NSF. Please include the following acknowledgement in your journal and conference papers and posters: “This work is based upon efforts supported by EMBRIO Institute, contract #2120200, a National Science Foundation (NSF) Biology Integration Institute.” Awards Let us know about your grants and other awards! New Lab Members? Did you recently have new students or staff members join your EMBRIO projects? We want to add them to the listserv, Box account, demographics survey, and Personnel List for ensuring their inclusion in communications and participation. If they are not already on our Personnel spreadsheet<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> , or they have graduated, let Brent know their names and email contacts (laddb(a)purdue.edu<mailto:laddb@purdue.edu> ) Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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Announcements: Seminar Today + Thesis Defense + Reminders
by Ladd, Brent Thomas 25 Nov '24

25 Nov '24

Dear EMBRIO Members, Today: Plan to join us for the Institute’s all-hands seminar at 3PM ET with “Development of EMBRIO as a Community of Practice” (abstract below) presented by Soumi Mukherjee and Emily Georgopoulos in the Gardner Lab at Purdue<https://www.bio.purdue.edu/lab/gardner/>. Their research is a central component to understanding interdisciplinarity evolution, functioning, and community derived value of our Institute, as well as providing insights into evidence-based intentional improvements the Institute can incorporate. Zoom link: https://purdue-edu.zoom.us/j/99105530025?pwd=wPuFZtASboXSfD8Y9e4vsbKpcrKl5j…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Abstract: Biology Integration Institutes (BIIs) are interdisciplinary, multi-institutional communities dedicated to advancing interdisciplinary research and training. Sustaining BIIs requires addressing members' diverse needs across time and space. Using the Community of Practice (CoP) change theory, we examined a BII's progression from its potential stage to stewardship stage, documenting its development through meaningful, shared, and coordinated activities. Feedback gathered from evaluation surveys and interviews informed repair mechanisms to support member growth and expertise. Insights from this study can guide other Institutes in fostering collaborative CoPs through intentional structures, activities, and evaluation strategies. Tuesday, November 26th Thesis Defense: Mayesha Sahir Mim, Ph.D. Candidate in EMBRIO (Zartman Lab) at Notre Dame, will defend her Ph.D. dissertation on "Engineering Morphogenesis through Calcium Signaling and Cellular Mechanical Mediators." She invites all EMBRIO members to join her talk Tuesday, November 26th at 9:30AM. Zoom link: https://notredame.zoom.us/j/9721071389<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.googl…> Passcode: 071389 In-person location: McCourtney Hall, B01, Notre Dame University. Reminders: EMBRIO investigators at Purdue – it is time to post your summer 2025 research projects with the SURF program to recruit undergraduate researchers to your lab! EMBRIO will cover the faculty portion of the stipend and housing allotment (Your College or SURF typically covers 1/3 of the cost, and your Dept the final 1/3). The SURF program provides an 11-week on campus research experience. Get your project posted by December 1st for priority consideration. Learn more about the program and submit your project today<https://engineering.purdue.edu/Engr/Research/EURO/info-faculty> Dec. 9th, 2024. EMBRIO All-Hands Seminar, 3PM ET, Mark Alber, Ph.D., Distinguished Professor of Mathematics, Director of the Interdisciplinary Center for Quantitative Modeling in Biology, UC-Riverside, seminar title TBA. The NSF Biology Integration Institutes Grantee Annual Meeting will be held December 17-18, Denver, CO. The NSF Research Coordination Network grant team with the BII’s will be hosting this year’s meeting, with goals of community building, peer learning, and future visioning for transformative scientific impact. Please check out the event website<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwhova.com…> for details on hybrid sessions, keynotes, and panels. Contact lead organizer, Dr. Gemma Jiang (gemma.jiang(a)colostate.edu<mailto:gemma.jiang@colostate.edu> ) for the zoom link to connect to sessions. Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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Emergence Newsletter Issue 37: November 21, 2024
by Ladd, Brent Thomas 21 Nov '24

21 Nov '24

[cid:b36af26d-9026-4e3e-8039-209d3f45825f] DIRECTORS’ NOTE Plan to join us for the Institute’s all-hands seminar this coming Monday, November 25th , 3PM ET with “Development of EMBRIO as a Community of Practice” (abstract in the newsletter) presented by Soumi Mukherjee and Emily Georgopoulos in the Gardner Lab at Purdue<https://www.bio.purdue.edu/lab/gardner/>. Their research is a central component to understanding interdisciplinarity evolution, functioning, and community derived value of our Institute, as well as providing insights into evidence-based intentional improvements the Institute can incorporate. EMBRIO investigators at Purdue – it is time it is time to post your summer research projects with the SURF program to recruit undergraduate researchers to your lab! EMBRIO will cover the faculty portion of the stipend and housing agreement. The SURF program provides an 11-week on campus research experience. Get your project posted by December 1st for priority consideration (details and links below). There is a new First Time Researcher program that provides an additional $1K scholarship – but your proposal must be in by tomorrow, Friday, Nov. 22nd (see below). Mayesha Sahir Mim, Ph.D. Candidate in EMBRIO (Zartman Lab) at Notre Dame, will defend her Ph.D. dissertation on "Engineering Morphogenesis through Calcium Signaling and Cellular Mechanical Mediators." She invites all EMBRIO members to join her talk Tuesday, November 26th at 9:30AM (Zoom<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.googl…>). (Please send Brent advanced notices of your graduate thesis defense dates and details, so that we can announce these to the community!) The NSF Biology Integration Institutes Grantee Annual Meeting will be held December 17-18, Denver, CO. The NSF Research Coordination Network grant team with the BII’s will be hosting this year’s meeting, with goals of community building, peer learning, and future visioning for transformative scientific impact. Please check out the event website<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwhova.com…> for details on hybrid sessions, keynotes, and panels (more details below). Many of you are working on manuscripts of your EMBRIO research results to submit for publication in peer-reviewed journals. Please remember to acknowledge our NSF BII Award for EMBRIO as NSF award #2120200. For a more complete record of scholarly products<https://www.purdue.edu/research/embrio/research/scholarly-products.php> produced from EMBRIO members and collaborations see the updated list at our website. The Institute’s Google Scholar<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.g…> page presents our publications and pre-prints. Please send citations and links for new, or missed, publications and preprints to Brent (laddb(a)purdue.edu<mailto:laddb@purdue.edu> ). Stay tuned for a more robust public-facing webpage highlighting EMBRIO publications along with their associated data, videos, and Github code! A reminder that if you have new EMBRIO members joining your lab, please alert Brent with their names, emails, information, so that I can subscribe them to the listserv and Box account, and point them to our Orientation to EMBRIO<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> folder. Winter weather is upon us for all but our more southern located members. As Thanksgiving break arrives next week, wishing you all safe travels and relaxation. Consider decolonizing traditional ideas of this holiday by including Native American perspectives on Thanksgiving<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Famericani…> from the National Museum of the American Indian. For those in northern climes, the winter holiday season brings with it not only dragging fir trees indoors and imbibing warm mugs of cider, hot chocolate, and hot buttered rum, but also freezing temps, snow, icy winds, and significantly fewer daylight hours – this can lead to the “winter blues”, technically known as seasonal affective disorder. Check out these strategies<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpsychiatr…> to cope and even thrive and embrace the winter season from our friends living in the “windy city” at University of Chicago’s Dept. of Psychiatry and Behavioral Neuroscience. David, Chris, Jeremy, Anjali, Janice, Alejandra, Elsje, and Brent QUICK LINKS All-Hands Meetings Recordings<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Materials from Summer School & Annual Retreat<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Institute Skills and Strengths Sharing Platform<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…> Orientation to EMBRIO<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> ABIDES Cultural and Mentoring resources<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Sign the Data Sharing Policy Agreement<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue.ca…> EMBRIO Personnel List<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> EMBRIO Partnership with SURF (Summer Undergraduate Research Fellowship) Purdue EMBRIO faculty, it is time to post your summer research projects to recruit undergraduate researchers to your lab! RECRUITING OPPORTUNITIES First-Time Researcher (FTR) Fellowship<https://maillinks.purdue.edu/t/46944966/1704294751/102907917/0/1007625/?x=9…> PROJECT POSTINGS DEADLINE EXTENDED! You have more time to submit your research projects for the FTR Spring 2024 program and recruit motivated undergraduate talent! The program offers a $1,000 scholarship for students, shared between EURO and faculty— (faculty portion covered by EMBRIO). Learn more here.<https://maillinks.purdue.edu/t/46944966/1704294751/98526951/0/1007625/?x=a9…> Submit your proposal here<https://maillinks.purdue.edu/t/46944966/1704294751/102648466/0/1007625/?x=0…> by Friday, November 22 Summer Undergraduate Research Fellowship (SURF)<https://maillinks.purdue.edu/t/46944966/1704294751/89814806/0/1007625/?x=5e…> PROJECT POSTINGS ARE OPEN! This 11-week, on-campus summer program provides a unique opportunity to mentor undergraduate students through hands-on research experiences. Students receive a $6,500 stipend, subsidized by the school/department and college affiliated with the project. Learn more about the program and submit your project today<https://maillinks.purdue.edu/t/46944966/1704294751/98563639/0/1007625/?x=f1…>! Priority Deadline: December 1, 2024. Submit early to maximize your project's visibility! Host RWTH Aachen University Students (Germany)<https://maillinks.purdue.edu/t/46944966/1704294751/103360961/0/1007625/?x=1…> RECRUITING OPPORTUNITY RWTH Aachen University invites faculty to participate in the UROP Abroad program<https://maillinks.purdue.edu/t/46944966/1704294751/103360961/1/1007625/?x=2…>, which provides funding for talented undergraduate students to join research teams at top-tier North American universities and institutions for up to six months. To promote your research projects, publish them in the UROP Project Database<https://maillinks.purdue.edu/t/46944966/1704294751/103360962/0/1007625/?x=9…>. Detailed information for supervisors (Professors, researchers, postdocs and doctoral students) is available here<https://maillinks.purdue.edu/t/46944966/1704294751/103360963/0/1007625/?x=9…>. Feel free to reach out to Jan Müller at jan.mueller(a)zhv.rwth-aachen.de<mailto:jan.mueller%40zhv.rwth-aachen.de?subject=&body=> for more information. EMBRIO ABIDES (Access, Belonging, Inclusion, Diversity, Equity, Support) Dr. Anjali Iyer-Pascuzzi, EMBRIO ABIDES Director, Thrust 2 Co-Lead, and Professor at Purdue, has led and organized sessions on mentorship, project management, careers, and individual development plans that are available on the Institute’s shared Box folder under ABIDES<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…>. The ABIDES program will host a talk on active mentoring for EMBRIO in January 2025 by Denise Driscoll, DEI Director, CISTAR ERC, Purdue University. STUDENT LEADERSHIP COUNCIL CORNER The Student Leadership Council has put together a resource to boost collaboration and community connection in EMBRIO. They’ve have created a platform (google slide deck<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…>) where we can all share a little about who we are and what kinds of strengths we can and are willing to share with others. We kindly request that all members take a few minutes to fill out a slide for themselves. This way, we can also use this to gauge what topics would be of most value to EMBRIO for hosting workshops. The SLC welcomes new officers to represent your university and your perspective for EMBRIO. Reach out to David Gazzo (dgazzo(a)nd.edu) SLC president, for more information, and log your ideas for future topics or events<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…> that the SLC could organize. Access SLC slides and documents<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…>, and consider signing up to give or receive mentoring<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdocs.goog…> for/from EMBRIO trainees in helping support and orient to the EMBRIO mission and interdisciplinary framework. UPCOMING DEADLINES, IMPORTANT DATES, OPPORTUNITIES & INFO EMBRIO All-hands Meeting Schedule, Monday’s 3-4pm ET. Previous All Hands Recordings<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> Sept 2 Labor Day Sept 9 State of the Institute and open discussion Sept 23 Donny Hanjaya-Putra, Notre Dame Oct 7 & 8 Fall Break at Purdue Oct 14 Holly Goodson, Notre Dame Oct 28 Mark Alber (re-scheduled) Nov 11 Alex Dowling, Notre Dame Nov 25 Soumi Mukherjee and Emily Georgopoulos, Gardner Lab, Purdue Dec 9 Mark Alber, UC-Riverside November 25. EMBRIO All-hands seminar November 25, 3PM “Development of EMBRIO as a Community of Practice” presented by Soumi Mukherjee and Emily Georgopoulos in the Gardner Lab at Purdue<https://www.bio.purdue.edu/lab/gardner/>. Join Zoom Meeting: https://purdue-edu.zoom.us/j/99105530025?pwd=wPuFZtASboXSfD8Y9e4vsbKpcrKl5j…<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-ed…> Meeting ID: 991 0553 0025 Passcode: 469678 General resource: What’s a CoP? Wikipedia on CoP<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fen.wikipe…> Abstract: Biology Integration Institutes (BIIs) are interdisciplinary, multi-institutional communities dedicated to advancing interdisciplinary research and training. Sustaining BIIs requires addressing members' diverse needs across time and space. Using the Community of Practice (CoP) change theory, we examined a BII's progression from its potential stage to stewardship stage, documenting its development through meaningful, shared, and coordinated activities. Feedback gathered from evaluation surveys and interviews informed repair mechanisms to support member growth and expertise. Insights from this study can guide other Institutes in fostering collaborative CoPs through intentional structures, activities, and evaluation strategies. Nov. 26, 2024: Mayesha Sahir Mim, Ph.D. Candidate in EMBRIO (Zartman Lab) at Notre Dame, will defend her Ph.D. dissertation on "Engineering Morphogenesis through Calcium Signaling and Cellular Mechanical Mediators." She invites all EMBRIO members to join her talk (in person or via Zoom): Time: Tuesday, Nov 26 at 9.30 am Location: McCourtney Hall, B01 Zoom Link: https://notredame.zoom.us/j/9721071389<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.googl…> Passcode: 071389 (please send Brent advanced notices of your graduate thesis defense dates and details, so that we can announce these to the community!). Dec. 9th, 2024. EMBRIO All-Hands Seminar, December 9th, 3PM, Mark Alber, Ph.D., Distinguished Professor of Mathematics, Director of the Interdisciplinary Center for Quantitative Modeling in Biology, UC-Riverside, seminar title TBA. Dec. 17-18th, 2024. NSF Biology Integration Institutes Grantee Annual Meeting, December 17-18, Denver, CO. The NSF Research Coordination Network grant with the BII’s will be hosting this year’s meeting, with goals of community building, peer learning, and future visioning for transformative scientific impact. Please check out the event website<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwhova.com…> for details on hybrid sessions, keynotes, and panels (times shown in Mountain Standard time). Each BII will be presenting a lightning talk during Tuesday, Dec. 17 (Noon – 1pm ET). Contact lead organizer, Dr. Gemma Jiang (gemma.jiang(a)colostate.edu<mailto:gemma.jiang@colostate.edu> ) for the zoom link to connect to sessions. Each BII is sending a small team in person (EMBRIO will be represented by David Umulis, Jeremy Zartman, Stephanie Gardner, Linlin Li, and Brent Ladd). Hot Off the Press: New & Recent EMBRIO Journal Papers Let us know about new papers you want to highlight for the EMBRIO community! Check out our Google Scholar Page<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.g…> See a more complete list of Scholarly Products produced under support of EMBRIO Institute<https://www.purdue.edu/research/embrio/research/scholarly-products.php> REMINDER: EMBRIO Acknowledgement for Scholarly Papers and Posters. For EMBRIO related research publications, NSF requires acknowledgement of EMBRIO NSF funding for our Institute to claim the work in our reporting back to NSF. Please include the following acknowledgement in your journal and conference papers and posters: “This work is based upon efforts supported by EMBRIO Institute, contract #2120200, a National Science Foundation (NSF) Biology Integration Institute.” Awards Let us know about your grants and other awards! New Lab Members? Did you recently have new students or staff members join your EMBRIO projects? We want to add them to the listserv, Box account, demographics survey, and Personnel List for ensuring their inclusion in communications and participation. If they are not already on our Personnel spreadsheet<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fapp.box.c…> , or they have graduated, let Brent know their names and email contacts (laddb(a)purdue.edu<mailto:laddb@purdue.edu> ) Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/> Weldon School of Biomedical Engineering, Purdue University Office: Hall for Discovery Learning and Research, Ste. 203 207 S. Martin Jischke Drive West Lafayette, IN 47907 laddb(a)purdue.edu

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