Congratulations to Dr. Adwoa Dankwa, who defended her doctoral dissertation today on the microbial communities and metabolites in kombucha and kefir!
Adwoa has a background in plant pathology, but she has been working with her adviser, Dr. Jennifer Perry, in the Human Nutrition and Food Sciences program for the last few years on understanding the microbial and chemical composition of fermented non-dairy low alcohol beverages and how these influence consumer acceptability over time.
I’ve been mentoring Adwoa on microbial community data analysis for her project, and look forward to the manuscripts in development from her work. She and I previously published together when she completed the data analysis for a project in my DNA sequencing data analysis class.
Adwoa is beginning a postdoctoral research position in the Perry, and we are all delighted that she’ll continue to be here to brighten our days.
Adwoa originally hails from Ghana, and she generously gave the committee some gifts which were etched with kinds words and symbols from home.
Sarah Hosler passed her Master’s of Science these defense (we knew she would succeed)!! Sarah has worked incredibly hard over the last two years to broaden her research skills and conduct four completely different pilot projects. Her defense presentation focused on the two main projects, but was a wonderful way to see that progression all at once and to reflect on her growth as a lab manager and researcher. She has also earned the designation of “second Ishaq Lab grad student to defend”.
The defense was attended by her thesis committee, students in the Ishaq lab, collaborators on this project, friends and family, and Izzy the dog (pictured, and yes, Sarah preferred this picture of her at her defense to a portrait of herself. Sarah will officially pass after a few revisions to her thesis and a formal acceptance by the committee members, which is standard for graduate defenses.
After wrapping up a few things in Maine, Sarah will be heading to Pennsylvania to take a position as Student Program Coordinator for middle and high school aged students at Albright College, where she obtained her Bachelor’s of Science. Congrats on the defense and on the next stage of your career!
“Weaving An Interdisciplinary Microbiome Career Using Threads From Different Ecosystems”.
Johanna Holman passed her Master’s of Science these defense (we knew she would succeed)!! Johanna has worked incredibly hard over the last two years to broaden her research skills and conduct several experiments, and her defense presentation was a wonderful way to see that progression all at once. She has also earned the designation of “first Ishaq Lab grad student to defend”. The defense was attended by her thesis committee, students in the Ishaq lab, collaborators on this project, and friends and family (who brought her a flower and broccoli bouquet that can be seen in the picture below). She will officially pass after a few revisions to her thesis and a formal acceptance by the committee members, which is standard for graduate defenses.
Johanna Holman beginning her master’s defense presentation.
Johanna has been accepted to the Nutrition PhD program at UMaine, and will continue working with Dr. Li and I, as well as the full research team. Based on those preliminary results, Johanna’s doctoral work will focus on developing that new mouse model, synthesizing information from both models, and using those results to develop diet intervention trials in human patients. After her PhD, Johanna intends to conduct research at an institution here in Maine, and to continue her work connecting the biochemistry of nutrition with gut microbiology and human health.
Prevention of Inflammatory Bowel Diseases by Broccoli Sourced and Microbially Produced Bioactives.
Johanna Holman at her ASM Microbe 2022 poster
Johanna Holman, graduate researcher in the Ishaq Lab
Weaving an interdisciplinary microbiome career using threads from different ecosystems.
Presented by Sarah Hosler in fulfillment of her Master’s of Science in Animal Science degree at the University of Maine. Jul 27, 2022 12:00 – 14:00 PM Eastern Time (US and Canada)
Register in advance to attend this presentation over Zoom, which will also be held in person in 206 Rogers Hall at the University of Maine (no RSVP required). After registering, you will receive a confirmation email containing information about joining the meeting.
About Sarah
Sarah officially joined my lab and started as a Master’s of Animal Science student at UMaine in fall 2020, which was during an extremely tumultuous time in history, and was only a year into my Assistant Professor position here at UMaine and before the lab had built up protocols, collaborations, samples, or momentum. Collectively, this meant that Sarah was part of my work to establish a laboratory and has been blazing that trail along with me. As such, in addition to the technical and analytical skills she has been learning, she has obtained a massive amount of professional development and leadership experience.
Sarah’s research interests are the interaction between the microbial community associated with various animal species, animal health or productivity, and the environment. This work is highly interdisciplinary, and requires extensive imagination and forethought into experimental designs which can capture biological, microbiological, and environmental data. This research theory is directly in line with the One Health in the Environment research group at UMaine, as well as the Microbes and Social Equity working group – an international research collaboration which I lead-, both of which Sarah has obtained mentorship from. This graduate work has focused on developing pilot studies and new research collaborations for three major projects/lines of scientific inquiry.
The first project centered around the tracking of Cryptosporidium parvum in different-aged dairy cattle populations as well as their pens at the University of Maine’s J.F. Witter Farm. Cryptosporidium is a small protozoan; a single-celled organism, and it is found in and around water and soil, as it spends most of its life cycle in those places. Humans and animals may ingest it through contaminated water or the fecal-oral route accidentally. In very young (such as calves) or immunocompromised individuals, an infection can occur, causing diarrhea and dehydration, and leading to death in many cases. Sarah has trained multiple undergraduates on sample collection and processing, as well as cell staining and microscopy, and the project has already collected dozens of samples. As this project will proceed for at least two years, it is not the main focus of Sarah’s thesis, however she will be an author on the eventual publication and she is leading a review manuscript on cryptosporidiosis which we will submit for peer review by fall 2022.
The second project investigated pathogens in wild rodent populations in Maine, in the context of heat stress and northward-shorting range changes due to climate changes. A pilot project collected biological data and samples from live-trapped flying squirrels and white-footed mice in six locations across Maine over summer 2021. The pilot project involved three additional investigators with complementary expertise, as well as their associated student mentees. To investigate disease potential, free catch fecal samples were collected from trapped animals to identify carriage of specific pathogens, and to isolate bacteria and assess heat tolerance. Sarah coordinated the training of undergraduate students in my and other labs, including sample collection and processing, microbial culture, DNA extraction, and more.
The third project project, and primary focus of her second year, investigated the microbial communities associated with sea scallops at different life stages and associated with tank surfaces at different points in a hatchery production run. Overall, there is a dramatic lack of research into the microbial communities involved in aquaculture and fisheries and how these might impact production as well as local ecosystems. Sarah processed a large number of samples for DNA extraction and sequencing preparation, as well as microbial culturing and biofilm assessment, and trained an undergraduate on the culturing work. This project and the piloting work Sarah did has led to a small grant award and a multiple-institutional collaboration. Sarah presented some of this preliminary work to aquaculture and fisheries industry professionals at the Northeast Aquaculture Conference & Exposition/ 41st Milford Aquaculture Seminar in Portland, and the American Society for Microbiology Microbe meetings. Sarah is currently writing this manuscript which will be submitted for peer review by the end of this summer.
This graduate work was highly collaborative, and required a great deal of professionalism. Each of the three research projects that Sarah had been working on involves a primary team of faculty or animal science professionals, most of whom are on campus at UMaine but some of whom are remote at external institutions. Each of the three projects also involved 1 – 4 undergraduate students participating in the research. Not only did Sarah help me organize project team meetings, and facilitate those meetings, but she coordinated data collection and file management for those projects, as well as trained and oversaw undergraduates in the laboratory. These skills are so often overlooked in research training, and are often considered part of the background in science. However, as tenure-track faculty, I would argue that these organization and research coordination skills are the most valuable for advancing complicated projects.
Prevention of Inflammatory Bowel Diseases by Broccoli Sourced and Microbially Produced Bioactives.
Presented by Johanna Holman in fulfillment of her Master’s of Science in Nutrition degree at the University of Maine. Jul 25, 2022 09:30 – 10:30 AM Eastern Time (US and Canada)
Register in advance to attend this presentation over Zoom, which will also be held in person in 206 Rogers Hall at the University of Maine (no RSVP required). After registering, you will receive a confirmation email containing information about joining the meeting.
About Johanna
I met Johanna in the fall of 2019, when I was just establishing myself as a new Assistant Professor at UMaine and she was looking for an advisor for a graduate degree. Right away, she impressed me with her background and enthusiasm for research. I learned that Johanna began her undergraduate study as an art student before transitioning fluidly to science. The ability to design visual aids and graphical representations of data is hugely important to science and sadly, not always a skill that scientists are trained to do, and Johanna has made some incredible art for her research.
Once she became a science student during her undergraduate study, she worked in the laboratories of Drs. Yanyan Li, previously an Associate Professor (of nutrition) in the College of Science and Humanities, and Tao Zhang, Assistant Professor of Basic Pharmaceutical Sciences, both of Husson University in Bangor. There, she performed nutritional biochemistry, worked with mouse models, and developed an idea of what she wanted to study in graduate school and pursue as a career. Johanna continues to work closely with both researchers, especially now that Dr. Li has taken a position at UMaine.
Johanna and I continued to plan her graduate work and career goals, she officially joined my lab as a Master’s Student of Nutrition at UMaine in fall 2020, and immediately got to work. Not only did she begin preparations for the massive undertaking that is part of her project, but she began mentoring several undergraduates on and off campus, and started as a first time teaching assistant for the Chemistry department, which required navigating virtual labs. She served as a chemistry TA for academic year 20/21 and 21/22, with up to 60 students per semester. For the last year and a half, she has been coordinating a large-scale research project with investigators at 4 different institutions and undergraduate researchers from 3 different institutions, involving hundreds of samples – while being a masters student, a graduate teaching assistant, and mentoring undergrads in the lab, and all during a pandemic! She managed that all so well, that despite being a first-year graduate student, she was awarded a 2020-2021 University of Maine Graduate Student Employee of the Year award, and the 2022 Norris Charles Clements Graduate Student Award from the College of Natural Sciences, Forestry, and Agriculture.
Johanna’s project focuses on whether consumption of specific broccoli sprout preparations will elicit changes in the gut microbiota, to the effect of improving the production of microbiota-specific bioactives that have local anti-inflammatory effects, and promoting intestinal homeostasis by reducing dysbiosis. Broccoli sprouts represent an effective, and accessible way to add dietary intervention to existing treatment and prevention strategies for IBD patients. This project is a continuation of previous research on bioactive compounds in broccoli, completed in the labs of Drs. Yanyan Li and Tao Zhang at Husson University in Bangor. While some of the work may be similar, the skill set she has gained in her graduate work is entirely new. For the 2020/2021 winter break, Johanna was managing a 40-mouse study looking at DSS-treatment and different preparations of a broccoli sprout diet for 5 weeks, which resulted in hundreds of samples collected, hundreds of data time points, and enough follow-up laboratory and analysis work to keep her occupied for an entire year. She has learned how to culture bacteria in an anaerobic chamber, which is a notoriously fussy machine that requires regular attention, as well as to grow them under different conditions for biochemical analysis and enzyme activity. She is currently learning additional histology skills, DNA extraction, DNA sequencing library preparation, DNA sequence analysis, and more. Recently, she has participated in a pilot study to develop an immunological model of IBD, using IL-10 knockout mice. While IL-10 mice have been used to study IBD, they have never been applied in this way to study the interaction of diet, microbes, and disease.
She has presented this work at the American Society for Microbiology annual meeting, and at the UC Davis Research Experience for Undergraduates (REU) symposium, and has several conference presentations planned for 2022. Johanna has an author on a paper in early 2022 for work she contributed to as an undergraduate, and is preparing 3 manuscripts generated from her masters work which will be submitted for peer review at a scientific journal in 2022.
Johanna has been accepted to the Nutrition PhD program at UMaine, and will continue working with Dr. Li and I, as well as the full research team. Based on those preliminary results, Johanna’s doctoral work will focus on developing that new model, synthesizing information from both models, and using those results to develop diet intervention trials in human patients. After her PhD, Johanna intends to conduct research at an institution here in Maine, and to continue her work connecting the biochemistry of nutrition with gut microbiology and human health.
