I’ll be presenting a shorter, 20 minute version on the Microbiome of the Digestive Tract!
I’m very pleased to announce that I’ll be teaching a course this fall on “Introduction to Mammalian Microbiomes”, with the University of Oregon Clark Honors College. I hope that this will be the first of many courses taught at UO, beginning with my background in “host-associated”, and expanding out into “house-associated”.
Course Description: Introduction to mammalian microbiomes.
The learning objectives of this course are to introduce students to basic concepts in host-associated microbiomes. Some background in microbial ecology, genetics, anatomy, bioinformatics, or immunology would be helpful, but is not required. While difficult concepts will be discussed, the course is intended to teach students about the basic principles: what is a microbiome? How does host anatomy drive microbial ecology? How does that community develop over time? How does it change? How does technology inform our understanding of these systems, and what limitations does that technology introduce? When we read about host-associated microbiomes in the news, especially regarding health, how can we assess if the study is rigorous and how should be interpret the scope of the findings? The skill-set objectives include learning to review complicated journal articles, distilling their findings while understanding their limitations, and developing science communication skills in a variety of formats.
500 Women Scientists Eugene is hosting another Science Salon at First National Taphouse; “Hot Mess: Biodiversity in the Sky Islands and following fire.”
Carolyna Piña Páez
Graduate Student at Oregon State University
Title: “Population structure of Rhizopogon in the Madrean Archipielago: The Sky Islands of Southwestern United States and Northwestern Mexico.”
Bio: Carolyna Piña Páez is a graduate student at Oregon State university. Her adventures in Mycology began in 2005 in the Sonoran Desert, working with gasteroid fungi. Since 2011, she’s been working with truffles and other ectomycorrhizal fungi associated with true fir, pine and oak in the central part of México. In 2013, she moved to Oregon and was amazed with the diversity that this place hosts.
Talk slides: ScienceSalonMarch25_Carolina_fungi_ScienceTalk
Amanda Stamper, M.S.
Fire Management Officer, a.k.a. “Burn Boss”, Nature Conservancy, Oregon
Title: “Burning for Butterflies, Birds & Blooms”
Bio: Amanda started her career in fire management as a member of a 20-person contract crew in 1999. In 2001, after finishing her BA in Philosophy at the University of Oregon, she returned to fire management, working on hotshot crews, handcrews, and engines; as a fuels technician on the Deschutes National Forest; and assistant fire management officer in fuels management on the Ochoco National Forest and Crooked River National Grassland. She studied Natural Resources at Oregon State University and completed a Masters in Natural Resources, Fire Ecology, and Management at the University of Idaho in 2012. She has since worked for the Prineville Bureau of Land Management as a natural resource specialist coordinating post-fire emergency stabilization and rehabilitation; as invasives program manager for the Deschutes and Ochoco National Forests and Crooked River National Grassland; fire management officer for The Nature Conservancy in Oregon and Washington; and chair of the Oregon Prescribed Fire Council.
Talk slides: 20180325_Salon_Amanda_fire
Acknowledgements to our wonderful support network
500 Women Scientists Eugene would like to thank the organizations that helped make this event possible. First and foremost, First National Taphouse in Eugene, who shared their wonderful space with us and where we will be putting on future Salons, and donated a keg to the event! We are also extremely grateful to several organizations which contributed raffle or trivia items for us to raise additional funds, including Leslie Dietz and the Eugene Science Center. Our beautiful logo was crafted by Cassie Cook, our amazing event posters were designed by Serena Lim. Fertilab generously lent us a sound system. And of course, we want to acknowledge the national leadership of 500 Women Scientists, who brought us together, gave us a voice, and who suggested these Science Salons as a way to help CienciaPR, a organization which similarly supports science education and infrastructure.
I’d also like to acknowledge the powerhouse team of women who came together to organize this event: Karen Yook, Leslie Dietz, Jessica Flannery, and our wonderful speakers; Carolyna Piña Páez and Amanda Stamper. 500 Women Scientists was formed in the spirit of cooperation and support, and this team truly took that to heart. I can’t wait to organize the next one with you ladies, and the next one, and the next one, and the next one…
The Hungate 1000 Project was a massive undertaking: namely, sequencing the genome of 1000 microorganisms cultured from ruminant animals all over the world, and was both coordinated and led by the Rumen Microbial Genomics Network. After years of hard work by some incredible researchers, the Hungate 1000 has just been published in the Nature Biotechnology Journal! The […]
The inaugural Science Salon of the 500 Women Scientists Eugene Pod is underway! If you’d like to follow along with the presentation on your device, you can find the pdf formats below:
Sue Ishaq’s talk:
“Geographical Differences in the Moose Microbiome”; Ishaq Eugene SciSalon 20180311
A few close-ups:
Hannah Tavalire’s talk:
“Genetics and Environment Influence Human Microbiome Composition”; Tavalire_MB_talk_final_03112018
Acknowledgements to our wonderful support network
500 Women Scientists Eugene would like to thank the organizations that helped make this event possible. First and foremost, First National Taphouse in Eugene, who shared their wonderful space with us and where we will be putting on future Salons, and donated a keg to the event! We are also extremely grateful to several organizations which contributed raffle items for us to raise additional funds, including Broadway Metro, Sizzle Pie, and the Eugene Science Center. Our beautiful logo was crafted by Cassie Cook, our amazing event posters were designed by Serena Lim, and photographer Danielle Cosme took some incredible event photos. Fertilab generously lent us a sound system, the Biology and the Built Environment Center donated the bacterial culture supplies, and both Theresa Cheng and Jessica Flannery provided materials and support for the interactive portion of the event. And of course, we want to acknowledge the national leadership of 500 Women Scientists, who brought us together, gave us a voice, and who suggested these Science Salons as a way to help CienciaPR, a organization which similarly supports science education and infrastructure.
I’d also like to acknowledge the powerhouse team of women who came together to organize this event, and who turned my silly event title into a reality: Karen Yook, Theresa Cheng, Leslie Dietz, and Hannah Tavalire. 500 Women Scientists was formed in the spirit of cooperation and support, and this team truly took that to heart. I can’t wait to organize the next one with you ladies, and the next one, and the next one, and the next one…
This summer, I’ll be presenting a talk at the Indoor Air 2018 conference in Philadelphia, on some of the work I’ve been doing on bacteria in homes!
Biology and the Built Environment Center
The 500 Women Scientists Eugene, Oregon Pod is inviting you to join our Science Salons for Puerto Rico Campaign. For the last year, our amazing women scientists have put their communication skills to use within our community. Now, we’re channeling that energy into a concerted campaign to raise money to support our amazing partners at CienciaPR as they work to transform science education in Puerto Rico and around the world.
The Eugene Pod’s evening of science will center around the gut microbiome:
“Gut Stuff: the battle of nature versus nurture in the microbiome”
March 11, 2018, 4:30 pm to 6:30 pm
51 W Broadway, Eugene, Oregon 97401
- Hands on activity: culture your own bacteria, 4:30 pm – 6:30 pm
- Presentations from Sue Ishaq, Ph.D. and Hannah Tavalier, Ph.D. on their microbiome work, 5 – 6 pm
- Open Q&A: Ask a scientist, 6 – 6:30 pm
- Raffle for prizes. Tickets are eligible for raffle entry, and additional raffle entries may be purchased at the door.
Tickets may be purchased online or at the door, $5 suggested donation. All proceeds go to CienciaPR.
Throughout history, salons have acted as gathering places for conversation “either to please or to educate” (Latin: aut delectare aut prodesse). From the salons of the Enlightenment to the 1940s salons of Gertrude Stein, women have played a central role in guiding and driving the discussion.
500 Women Scientists has borrowed from the spirit of the salon to bring discussions about science to the communities we serve. We invite you to listen to speakers sharing 10 to 20 minute talks about their work, geared toward a public audience, followed by ample time for questions and discussion. The purpose of the salon is two-fold, creating an opportunity for the community to learn about our membership’s amazing research while giving our members a platform to hone their public speaking skills. And by charging admission — through a donation — the Salon will raise money for CienciaPR to transform science education in Puerto Rico. Ciencia PR is a global community of scientists, students, educators and allies who believe that science can empower individuals with the knowledge, capacity, and agency to improve their lives and society.
As a women-led nonprofit, CienciaPR taps into its rich and diverse community to democratize science and transform science education and career training in Puerto Rico. We’ve partnered with CienciaPR because our missions to democratize science and foster agency among underrepresented communities are well-aligned. While CienciaPR focuses on Puerto Rico and its diaspora, their strategy can serve as a model to other communities that are underrepresented in or disengaged from science. We are thrilled to support their ongoing efforts and learn from their organization’s successes in building capacity and fostering community.
Immediately after Hurricanes Irma and Maria devastated Puerto Rico, CienciaPR worked with the Department of Education to create disaster-related and project-based science lesson plans that could allow displaced students to continue learning. Early in 2018, CienciaPR will launch a pilot project to train educators to implement four science lessons in natural disaster and environment related topics: renewable energy, environmental sustainability, clean and potable water, and terrestrial ecosystems. Later in the year, they will bring together scientists and educators to co-create project-based science lessons that foster creativity, entrepreneurship, and critical thinking skills. These new lessons will serve as a platform for students to work together to address the challenges they see in their communities. This pilot project kicks off the implementation of CienciaPR’s new 10-year strategic plan of transforming science education in Puerto Rico, by engaging its community of scientists, educators, and students to bring discovery, experimentation, and problem-solving to the classroom in ways that are culturally and socially relevant to Puerto Rican children.
You can donate to CienciaPR at any time outside of the Science Salons campaign. You can also read more about CienciaPR’s strategic vision in their latest op-ed for Scientific American, “Rebuilding Science Education in Puerto Rico.”
For the past two months, I’ve been spending quite a bit of time writing grant proposals. In particular; those which expand our understanding of indoor lighting on human health and behavior, the indoor microbiome, and energy usage in buildings. These project proposals are collaborative efforts between several University of Oregon research labs: Biology and the Built Environment Center, Energy Studies and Buildings Laboratory, and the Baker Lighting Lab. I’ll have more updates in the next few months as those are reviewed.
Siobhan “Shevy” Rockcastle, Chair of the Baker Lighting Lab, and I have been brainstorming ideas, and today I went over to the Baker Lab to check it out in person. The Lab is decorated with concept-design lighting projects from previous students, which are not only beautiful, but extremely creative. Here are a few of my favorites!
Most studies that examine the microbial diversity of the gastrointestinal tract only look at one or two sample sites, usually the mouth, the rumen in ruminant animals, or the feces. It can be difficult, expensive, invasive, or fatal to get samples from deep inside the intestinal tract; however many studies have pointed out that anatomical location and local environmental factors (like temperature, pH, host cells, nutrient availability, and exposure to UV light) can dramatically change a microbial community. Thus, the microbes that we find in feces aren’t always what we would find in the stomach or along the intestines. On top of that, certain microorganisms have been shown to closely associate with or attach to host cells, and the diversity of microbes next to host tissues can be different from what’s at the center of the intestines (the digesta).
This large, collaborative project took samples from nine different sites along the digestive tract of calves over the first 21 days of life to determine how body sites differed from each other, how sites changed over time as the calf matured, and how the lumen-associated bacteria would differ from the digesta-associated bacteria. Samples from the mothers were also taken to understand how maternal microbial influence would affect body sites over time.
This paper was just published in Scientific Reports, and was something I had previously presented on at the Joint Annual Meeting of the American Society for Animal Science, the American Dairy Science Association, and the Canadian Society for Animal Science in Salt Lake City, UT in 2016.
Biogeographical Differences in the Influence of Maternal Microbial Sources on the Early Successional Development of the Bovine Neonatal Gastrointestinal tract. Carl J. Yeoman, Suzanne L. Ishaq, Elena Bichi, Sarah K. Olivo, James Lowe, Brian M. Aldridge. 2018. Scientific Reports.
The impact of maternal microbial influences on the early choreography of the neonatal calf microbiome were investigated. Luminal content and mucosal scraping samples were collected from ten locations in the calf gastrointestinal tract (GIT) over the first 21 days of life, along with postpartum maternal colostrum, udder skin, and vaginal scrapings. Microbiota were found to vary by anatomical location, between the lumen and mucosa at each GIT location, and differentially enriched for maternal vaginal, skin, and colostral microbiota. Most calf sample sites exhibited a gradual increase in α-diversity over the 21 days beginning the first few days after birth. The relative abundance of Firmicutes was greater in the proximal GIT, while Bacteroidetes were greater in the distal GIT. Proteobacteria exhibited greater relative abundances in mucosal scrapings relative to luminal content. Forty-six percent of calf luminal microbes and 41% of mucosal microbes were observed in at-least one maternal source, with the majority being shared with microbes on the skin of the udder. The vaginal microbiota were found to harbor and uniquely share many common and well-described fibrolytic rumen bacteria, as well as methanogenic archaea, potentially indicating a role for the vagina in populating the developing rumen and reticulum with microbes important to the nutrition of the adult animal.