Microbial Life at Planetary Limits: Mining Extreme Microbiomes for Space and Earth Solutions
Project Details
Program
Environmental Science and Engineering
Field of Study
Bioscience, Microbial Ecology, Environmental Biotechnology, Astrobiology, Genomics, Bioinformatics, Environmental Engineering, Instrumentation and Planetary Simulation
Division
Biological and Environmental Sciences and Engineering
Faculty Lab Link
Project Description
Extreme environments are natural laboratories for discovering microbial diversity, stress-adaptation mechanisms, and biological functions with applications on Earth and beyond. Deserts, hypersaline systems, volcanic soils, oil-impacted environments, mangroves, deep-sea brines, and hydrothermal systems host microorganisms capable of tolerating combinations of stress such as desiccation, salinity, radiation, nutrient limitation, hydrocarbons, metals, pressure, and temperature fluctuations.
This project will use KAUST’s Planetary Simulation Chamber and the MEGB Lab microbial culture collection to explore how selected extremophilic microorganisms and microbial communities respond to controlled environmental and planetary-analog stresses. The project will combine microbial cultivation, chamber-based exposure experiments, genome and metagenome mining, and sequence-to-function analysis to identify microbial traits relevant to astrobiology, environmental biotechnology, bioremediation, plant growth under arid and saline conditions, plastic biotransformation, and microbial-based solutions.
Depending on the student’s background, the internship may focus on one or more integrated modules: calibration and characterization of the Planetary Simulation Chamber; exposure of selected isolates or microbial communities to mild Mars-like or extreme environmental conditions; recovery and characterization of stress-tolerant microorganisms; and computational mining of genomes and metagenomes for stress-response genes, biosynthetic gene clusters, mobile genetic elements, hydrocarbon-degradation pathways, plant-growth-promoting traits, and plastic-active enzymes.
The student will gain hands-on experience at the interface of microbial ecology, extremophile biology, astrobiology, environmental microbiology, planetary simulation, genomics, metagenomics, and bioinformatics. The project contributes to a broader effort to explore extreme microbial diversity as a source of biological insight and microbial-based solutions for a hotter Earth and future space exploration.
About the Researcher
Alexandre Rosado
Professor, Bioscience
Affiliations
Education Profile
- Ph.D. Microbiology, Federal University of Rio de Janeiro, Brazil/ Wageningen University and Research (WUR)-Plant Research International, The Netherlands 1997
- M.Sc. Microbiology, Federal University of Rio de Janeiro, Brazil 1993BSc Biology, Gama Filho University, Brazil 1989
Research Interests
Professor Rosado is an environmental microbiologist specialized in Basic and Applied Microbiology, Synthetic microbial communities, Microbiome Science, Microbiome Manipulation and Microbiology of Extreme Environments (source of new biotechnological products). His main research interests are centered around the study of microbial diversity, evolution and new microbial metabolisms, using conventional tools associated to multi-omics approaches to understand the evolutionary history, ecological roles, and physiological capacity and capabilities of free-living and symbiotic microorganisms, including those found at the extremes of where life exists. Regarding extremophiles (microbes from extreme environments), he also is interested in Astrobiology,A A exploring concepts and fundamentals on how the use of extremophiles can be beneficial for crops and other biotechnological developments and, in turn, can also generate technologies with potential application in space colonization. Currently, there are important programs developed by space agencies from different nations and these concepts are within some objectives of the 2030 vision for the kingdom. Rosado's research is inter- and multidisciplinary, at the interface of basic and applied (biotechnology/nature-based solutions) aspects of environmental processes.A The main questions that guide his research are the following: What novel genes / genomes, microorganisms, interaction mechanisms and host x microbial metabolism are present in different ecosystems? Can we use them to promote environmental and human health? How can we define the health of these organisms and ecosystems? What are the microbial components of different environmental samples, including those from extreme ecosystems, and how are these communities affected by environmental (and global) changes and anthropogenic factors?A A How can we minimize these impacts by manipulating microbial communities and / or organisms? To try to answer some of these questions, his group applies a plethora of techniques. Complex problems need multidisciplinary approaches. This may allow us to model, manipulate and ""design"" metabolic pathways in natural and synthetic microbial systems using innovative technologies, which can generate revolutionary and unique biotechnological products, opening up different possibilities to explore new biotechnological products and providing insights into new enzymes, new metabolism and evolutionary paths.Selected Publications
- Schultz, J.; Rosado, A.S. 2020. Extreme environments: A source of biosurfactant for biotechnological applications. Extremophiles, 24(2):189-206. doi: 10.1007/s00792-019-01151-2.
- Sarah M. Allard, Matthew T. Costa, Ashley N. Bulseco, VA©ronique Helfer, Laetitia G. E. Wilkins, Christiane HassenrA¼ck, Karsten Zengler, Martin Zimmer, Natalia Erazo, Jorge L. Mazza Rodrigues, Norman Duke, VA¢nia M. M. Melo, Inka Vanwonterghem, Howard Junca, Huxley M. Makonde, Diego Javier JimA©nez, Tallita C. L. Tavares, Marco Fusi, Daniele Daffonchio, Carlos M. Duarte, Raquel S. Peixoto, Alexandre S. Rosado, Jack A. Gilbert, Jeff Bowman. 2020. Introducing the Mangrove Microbiome Initiative: Identifying Microbial Research Priorities and Approaches To Better Understand, Protect, and Rehabilitate Mangrove Ecosystems mSystems, 5 (5) e00658-20; DOI: 10.1128/mSystems.00658-20
- Van Elsas, J.D., Trevors, J., Rosado, A.S., Nannipieri, P. 2019. Modern Soil Microbiology, 3th Edition. Taylor & Francis Group, Boca Raton, Florida, U.S.A. CRC Press -2019. 472 Pg - ISBN 9781498763530 - CAT# K28975
- Lopez JV, Peixoto RS, Rosado AS. Inevitable Future: Space Colonization Beyond Earth with Microbes First. FEMS Microbiol Ecol. 22. pii: fiz127. doi: 10.1093/femsec/fiz127. 2019 (Editor's Choice article)
- Teixeira, L.; Peixoto, Raquel S.; Cury, J.C.; Sul, W.J.; Pellizari, V.H.; Tiedje, J.; Rosado, A.S. 2010. Bacterial diversity in rhizosphere soil from Antarctic vascular plants of Admiralty Bay, maritime Antarctica. The ISME Journal, 989-1001.
Desired Project Deliverables
-Calibrated and documented experimental workflow for selected Planetary Simulation Chamber conditions.
-Cultivation and/or recovery data for selected extremophilic isolates or microbial communities exposed to environmental or planetary-analog stresses.
-DNA extraction, sequencing preparation, and/or genome/metagenome analysis of selected samples, depending on project duration and student background.
-Bioinformatic summary of candidate microbial traits, including stress-response genes, biosynthetic gene clusters, hydrocarbon-degradation pathways, plant-growth-promoting traits, plastic-active enzymes, and potential biosignature-related features.
-Final internship report and short presentation summarizing methods, results, interpretation, and recommended next steps.
Recommended Student Background
Background in microbiology, biotechnology, molecular biology, bioengineering, environmental science, chemistry,
Interest in microbial ecology, extremophiles, astrobiology, environmental biotechnology, planetary simulation,
Basic laboratory experience with microbial cultivation, DNA extraction, PCR, sequencing preparation, environmen
Experience or strong interest in bioinformatics, genome/metagenome analysis, Python/R, sensor calibration, envi