Additional file 2 of Microbiome dynamics during the HI-SEAS IV mission, and implications for future crewed missions beyond Earth
Creators: name: Mahnert, Alexander
name: Verseux, Cyprien
name: Schwendner, Petra
name: Koskinen, Kaisa
name: Kumpitsch, Christina
name: Blohs, Marcus
name: Wink, Lisa
name: Brunner, Daniela
name: Goessler, Theodora
name: Billi, Daniela
name: Moissl-Eichinger, Christine
Publisher: name: figshare
Year: 2021
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: FOS: Biological sciences

description: Additional file 1: Supplementary Table S1. 16S rRNA gene primers used for generating the amplicons for Illumina MiSeq sequencing. Supplementary Table S2. 16S rRNA gene primers used for quantitative PCR. Supplementary Table S3. qPCR primers for selected resistance genes. Supplementary Table S4. Selected numerical metadata from the HI-SEAS IV mission. Supplementary Figure S1. The HI-SEAS habitat and its surroundings. Supplementary Figure S2. Scheme of the HI-SEAS habitat, with sampling locations. The “Sea Can” annexed to the dome contained most food stocks and a workshop. Before exit from, and reentry into, the habitat for extravehicular activities, the crew members remained 5 minutes inside the airlock, with all doors closed. The area adjacent to the telemetry room was similarly used as an airlock, on rare occasions, for bringing large objects into or out of the habitat (door not represented here). The outside door and the door joining the airlock to the dome were never opened at the same time. KC: kitchen floor; MR: desk in the main room; TB: toilet bowl; BR: desk in bedroom. Supplementary Figure S3. Boxplot of sample richness (observed ASVs – amplicon sequence variants) of individual crew members and built environment locations of the HI-SEAS habitat. Supplementary Figure S4. Shannon diversity (H’) according to different sampling material. Supplementary Figure S5. Confusion matrix based on supervised learning methods (RandomForest classification) of predicted sample origins. Abbreviations for sampling locations inside the HI-SEAS habitat were: BR (bedroom), KC (kitchen floor), MR (main room), and TB (toilet bowl). Supplementary Figure S6. Linear mixed effect model of Shannon diversity in response of time and sampling environment (crew skin samples and built environment locations of the HI-SEAS habitat). Supplementary Figure S7. Volatility plot of species richness (observed ASVs – amplicon sequencing variants) in the built environment of the HI-SEAS habitat and its crew. Supplementary Figure S8. Volatility plot of Pielou’s evenness in the built environment of the HI-SEAS habitat and its crew. Supplementary Figure S9. Proportion plot of differential feature abundances using balances in gneiss on genus level for the post isolation control time point (days 336 – 400). The proportion plot shows taxa of the crew and the built environment, which could be responsible to explain the differences between the earlier and the later sampling event in each phase (green and orange bars). Differential numerator taxa are grouped to the top (background color in light blue) and differential denominator taxa are grouped to the bottom (background color in dark blue). Supplementary Figure S10. Volatility analysis based on linear regression models with time of Acinetobacter from different crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S11. Volatility analysis based on linear regression models with time of Staphylococcus from different crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S12. Volatility analysis based on linear regression models with time of Brevundimonas resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S13. Volatility analysis based on linear regression models with time of Kocuria resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S14. Volatility analysis based on linear regression models with time of Propionibacterium resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S15. Volatility analysis based on linear regression models with time of Streptococcus resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S16. Volatility analysis based on linear regression models with time of Kytococcus resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S17. Volatility analysis based on linear regression models with time of Dermacoccaceae resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S18. Volatility analysis based on linear regression models with time of Gardnerella resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S19. Volatility analysis based on linear regression models with time of Lactococcus resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S20. Volatility analysis based on linear regression models with time of Faecalibacterium resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S21. Volatility analysis based on linear regression models with time of Methanobrevibacter sp. from different crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S22. Volatility analysis based on linear regression models with time of Archaea and Bacteria from the crew and the HI-SEAS habitat. Supplementary Figure S23. Volatility analysis based on linear regression models with time of Enterobacteriaceae resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S24. Volatility analysis based on linear regression models with time of Enhydrobacter resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S25. Volatility analysis based on linear regression models with time of Pseudomonas resolved to different sampling environments (built environment and crew) as well as individual crew members and sampling locations within the HI-SEAS habitat. Supplementary Figure S26. Volatility analysis of archaeal 16S rRNA gene copies per m2 according to qPCR.