69. Probst AJ (2020). Zusammen in Dunkelheit - mikrobielle Interaktionen in der Erdkruste. BIOspektrum 26:255-258

68. Bornemann TLV Adam PSTurzynski V, Schreiber U, Figueroa-Gonzalez PARahlff J, Köster D, Schmidt TC, Schunk R, Krauthausen B, Probst AJ (2020). Geological degassing enhances microbial metabolism in the continental subsurface. bioRxiv 980714



67. Al-Shayeb B, Sachdeva R, Chen L-X, Ward F, Munk P, Devoto A, Castelle CJ, Olm MR, Bouma-Gregson K, Amano Y, He C, Méheust R, Brooks B, Thomas A, Lavy A, Matheus-Carnevali P, Sun C, Goltsman DSA, Borton MA, Nelson TC, Kantor R, Jaffe AL, Keren R, Farag IF, Lei S, Finstad K, Amundson RA, Anantharaman K, Zhou J, Probst AJ, Power ME, Tringe SG, Li W-J, Wrighton K, Harrison S, Morowitz M, Relman DA, Doudna JA, Lehours A-C, Warren L,  Cate JHD, Santini JM, Banfield JF (2019). Clades of huge phage from across Earth’s ecosystems. bioRxiv 572362 | Nature 578(7795): 425-431

66. Probst AJ*, Elling FJ*, Castelle CJ, Zhu Q, Elvert M, Birarda G, Holman HY, Lane KR, Ladd B, Ryan MC, Woyke T, Hinrichs KU*, Banfield JF* (2019). Lipid analysis of CO2-rich subsurface aquifers suggests an autotrophy-based deep biosphere with lysolipids enriched in CPR bacteria. bioRxiv 465690 | ISME J epub ahead of print – *corresponding authors

65. Geesink P, Wegner CE, Probst AJ, Herrmann M, Dam HT, Kaster AK, Küsel K (2019). Genome-inferred spatio-temporal resolution of an uncultivated Roizmanbacterium reveals its ecological preferences in groundwater. Environ Microbiol 22(2): 726-737

64. Müller H, Marozava S, Probst AJ, Meckenstock RU (2019). Groundwater cable bacteria conserve energy by sulfur disproportionation. ISME J 14(2):623-634

63. Révész F, Figueroa-Gonzalez PAProbst AJ, Kriszt B, Banerjee S, Szoboszlay S, Maróti G, Táncsics A (2019). Microaerobic conditions caused the overwhelming dominance of Acinetobacter spp. and the marginalization of Rhodococcus spp. in diesel fuel/crude oil mixture-amended enrichment cultures. Arch Microbiol 202(2): 329-343

62. Monsees I, Klingl A, and Probst AJ (2019). Kleine Zellen, große Wirkung – Bakterien der Candidate Phyla Radiation. Biospektrum

61. Probst AJ and Vaishampayan P (2019). Are we there yet? Understanding interplanetary microbial hitchhikers using molecular methods. Current Issues in Molecular Biology 35: 33-52

60. Schwank KBornemann TLV, Dombrowski N, Spang A, Banfield JF, and Probst AJ (2019). An archaeal symbiont-host association from the deep terrestrial subsurface. ISME J 13(8): 2135-2139

59. Bourma-Gregson K, Olm MR, Probst AJ, Anantharaman K, Power ME, and Banfield JF (2019). Microbial diversity and metabolic potential in cyanotoxin producing cyanobacterial mats throughout a river network. bioRxiv 294421 | ISME J 13(6): 1618-1634



58. Liu X, Li M, Castelle CJ, Probst AJ, Zhou Z, Pan J, Liu Y, Banfield JF, and Gu JD (2018). Insights into the ecology, evolution, and metabolism of the widespread Woesearchaeotal lineages. Microbiome 6 (1): 102

57. Castelle C, Brown CT, Anantharaman K, Probst AJ, Huang RH, and Banfield JF (2018). Biosynthetic capacity, metabolic variety and unusual biology in the CPR and DPANN radiations. Nature Reviews in Microbiology 16 (10): 629-645

56. Sieber CMK, ProbstAJ, Sharon I, Sharrar A, Thomas BC, Hess M, Tringe SG, and Banfield JB (2016/17). Recovery of genomes from metagenoms via a dereplication aggregation and scoring strategy. bioRxiv, 107789 | Nature Microbiol, 3 (7): 836-843

55. Nocker A, Shah M, Dannenmann B, Schulze-Osthoff K, Wingender J, and Probst AJ (2018). Assessment of UV-C-induced water disinfection by differential PCR-based quantification of bacterial DNA damage. J Microbiol Met, pp. 89-95, Vol. 149

54. Starr EP, Shi S, Blazewicz SJ, Probst AJ, Herman DJ, Firestone MA, and Banfield JF (2018). Stable isotope informed genome-resolved metagenomics reveals that Saccharibacteria utilize microbially processed plant derived carbon. bioRxiv 211649 | Microbiome 122, Vol. 6 (1)

53. West P, Probst AJ, Grigoriev I, Thomas BC, and Banfield JF (2017). Genome reconstruction of Eukaryotes from complex natural microbial communities. Genome Research, 569-580, Vol. 28 (4)

52. Probst AJ and Jillian Banfield (2018). Homologous recombination and transposon propagation shapes the population structure of an organism from the deep subsurface with minimal metabolism. Gen Biol Evol, evy067 - authors contributed equally

51. Schulze-Makuch D., Wagner d, Kounaves SP, Mangelsdorf K, Devine KG, de Vera JP, Schmitt-Kopplin P, Grossart HP, Parro V, Kaupenjohann M, Galy A, Schneider B, Airo A, Froesler J, Davila A, Arens F, Caceres L, Cornejo S, Carrizo D, Dartnell L, DiRuggiero J, Flury M, Ganzert L, Gessner M, Grathwohl P, Guan L, Heinz J, Hess M, Keppler F, Maus D, McKay CP, Meckenstock RU, Montgomery W, Oberlin EA, Probst AJ, Saenz J, Sattler T, Schirmack J, Sephton MA, Schloter M, Uhl J, Valenzuela B, Vesergaard G, Wörmer L, and Zamorano P (2017). A Transitory Microbial Habitat in the Hyperarid Atacama Desert. PNAS, Vol. 115 (11) 2670-2675

50. Probst AJ, Ladd B, Jarret J, Geller-McGrath DE, Sieber CMK, Emerson J, Anantharaman K, Thomas BC, Malmstrom RR, Stieglmeier M, Klingl A, Woyke T, Ryan MC, and Banfield JF (2018). Differential depth-based distribution of microbial function and novel symbionts through sediment-hosted aquifers in the deep terrestrial subsurface. Nature Microbiol, 328-336, Vol. 3

49. Marozava S, Mouttaki H, Müller H, Laban NA, Probst AJ, and Meckenstock RU (2018). Anaerobic degradation of 1-methylnaphthalene by a member of the Thermoanaerobacteraceae contained in an iron-reducing enrichment culture. Biodegradation, Vol. 29 (1) 23-39



48. Probst AJ, Hu P, Sun CL, Dubinsky EA, Sieber CMK, Banfield JF, and Andersen GL (2017). Reply to Delmont and Eren: Strain variants and population structure during the Deepwater Horizon oil spill. PNAS 114(43): E8950-E8952

47. Finstad KM, Probst AJ, Thomas BC, Andersen GL, Piceno YM, Demergasso C, Amundson RG, and Banfield JB (2016). Microbial Community Structure and the Persistence of Cyanobacterial Populations in Salt Crusts of the Hyperarid Atacama Desert from Genome-Resolved MetagenomicsFrontiers in Microbiol, Vol. 8 1435

46. Hu P, Dubinksy EA, Probst AJ, Wang J, Sieber MKC, Tom LM, Gardinali P, Banfield JF, and Andersen GL (2016). Experimental reproduction of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon-degradersPNAS, Vol. 114 (28):7432–7437

45. Hernsdorf AW, Amano Y, Miyakawa K, Ise K, Suzuki Y, Anantharaman K, Probst AJ, Burstein D, Thomas BC, and Banfield JF (2017). Potential for microbial H2 and metal transformations in deep terrestrial subsurface sediments: relevance for nuclear waste disposal. ISME J, Vol. 11 1915–1929

44. Moissl-Eichinger C, Probst AJ, Birarda G, Auerbach A, Koskinen K, Wolf P, and Holman H-Y (2017). Human age and skin physiology shape diversity and abundance of Archaea on skinScientific Reports, 7, 4039

43. Burstein D*, Harrington LB*, Strutt SC*, Probst AJ, Anantharaman K, Thomas BC, Doudna JA, and Banfield JB (2017). New CRISPR-Cas systems from uncultivated microbes. Nature, 237-241, Vol. 524(7640) – * authors contributed equally



42. Butterfield CN, Li Z, Andeer PF, Spaulding S, Thomas BC, Singh A, Hettich RL, Suttle KB, Probst AJ, Tringe SG, Northen T, Pan C, and Banfield JF (2016). Proteomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zonePeerJ, e2687, Vol. 4

41. Anantharaman K, Brown CT, Hug LA, Sharon I, Castelle CJ, Probst AJ, Thomas BC, Singh A, Wilkins MJ, Karaoz U, Brodie EL, Williams KH, Hubbard SS, and Banfield JF (2016). Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system. Nature Commun, 13219, Vol. 7

40. Bird JT, Baker BJ, Probst AJ, Podar M, and Lloyd KG (2016). Culture independent genomic comparisons reveal environmental adaptations for Altiarchaeales. Frontiers in Microbiol, 1221, Vol. 7

39. Probst AJ, Castelle C, Singh A, Brown CT, Anantharaman K, Sharon I, Hug LA, Emerson JB, Thomas BC, and Banfield JF (2016). Genomic resolution of a cold subsurface aquifer community provides metabolic insights for novel microbes adapted to high CO2 concentrationsEnv Microbiol, 459-474, Vol. 19(2)

38. Tischler C, Weikl F, Probst AJ, Stnadl M, Heinrich J, and Pritsch K (2016). Urban dust microbiome: Impact on later atopy and wheezingEnvironmental Health Perspectives, Epub ahead of print

37. Mayer T*, Blachowicz A*, Probst AJ, Vaishampayan P, Checkinska A, Swarmer T, de Leon P, and Venkateswaran K (2016). Microbial succession in an inflated Lunar/Mars analog habitat during a 30-day occupation by student astronauts. Microbiome, 22, Vol. 4 – *authors contributed equally

36. Weikl F, Tischer C, Probst AJ, Heinrich J, Pritsch K (2016). Fungal and bacterial communities in indoor dust follow different environmental determinants. PLoS One, e0154131

35. Hug LA, Baker BJ, Anantharaman K, Brown CT, Probst AJ, Castelle CJ, Butterfield CN, Hernsdorf AW, Amano Y, Ise K, Suzuki Y, Dudek N, Relman D, Finstad KM, Amundson R, Thomas BC, and Banfield JF (2015). A new view of the tree of lifeNature Microbiol, ArtNo 16048

34. Burstein D, Sun CL, Brown CT, Sharon I, Anantharaman K, Probst AJ, Thomas BC, and Banfield FJ (2016). Major bacterial lineages are essentially devoid of CRISPR-Cas viral defense systemsNature Commun, 10613, Vol. 7

33. Anantharaman K, Brown CT, Burstein D, Castelle CJ, Probst AJ, Thomas BC, Kenneth WH, Banfield JF (2016). Analysis of five complete genome sequences for members of the class Peribacteria in the recently recognized Peregrinibacteria bacterial phylumPeerJ, e1607



32. Weinmaier T*, Probst AJ*, LaDuc MT, Ciobanu D, Cheng J-F, Ivanova N, Rattei T, Vaishampayan P (2015). A viability-linked metagenomic analysis of cleanroom environments: eukarya, prokaryotes, and virusesMicrobiome, 62, Vol. 3 – *authors contributed equally

31. Checinska A, Probst AJ, Vaishampayan P, White JR, Kumar D, Stepanov VG, Fox GE, Nilsson HR, Pierson DL, Perry J, Venkateswaran K (2015). Microbiomes of the dust particles collected from the international space station and spacecraft assembly facilitiesMicrobiome, 50, Vol. 3

30. Mahnert A, Vaishampayan P, Probst AJ, Moissl-Eichinger C, Venkateswaran K, and Berg G (2015). Cleanroom maintenance significantly reduces abundance but not diversity of indoor microbiomesPLoS One, e0134848

29. Perras AK, Daum B, Ziegler C, Takahashi LK, Ahmed M, Wanner G, Klingl A, Leitinger G, Kolb-Lenz D, Gribarldo S, Auerbach A, Mora M, Probst AJ, Bellack A, Moissl-Eichinger C (2015). S-layer at second glance? Altiarchaeal grappling hooks (hami) resemble archaeal S-layer proteins in structure and sequenceFrontiers in Microbiol, 543, Vol. 6

28. Probst AJ and Moissl-Eichinger C (2015). “Altiarchaeales”: Uncultivated Archaea from the SubsurfaceLife, pp. 1381–1395, Vol 5

27. Andrade K, Logemann J, Heidelberg KB, Emerson JB, Comolli LR, Hug LA, Probst AJ, Keillar A, Thomas BC, Miller CS, Allen EE, Moreau JW, Brocks JJ, and Banfield JF (2015). Metagenomic and lipid analyses reveal a diel cycle in a hypersaline microbial ecosystemISME J, doi:10.1038

26. Probst AJ*, Weinmaier T*, DeSantis TZ, SantoDomingo J, and Ashbolt N (2015). New perspectives on microbial community distortion after whole-genome amplificationPLoS One, e0124158 – *authors contributed equally

25. Moissl-Eichinger C, Auerbach AK, Probst AJ, Mahnert A, Tom L, Piceno Y, Andersen GL, Venkateswaran K, Rettberg P, Barczyk S, Pukall R, Berg G (2015). Quo vadis? Microbial profiling revealed strong effects of cleanroom maintenance and routes of contamination in indoor environmentsScientific Reports, 9156, Vol. 5

24. Probst AJ, Lum PY, John B, Dubinsky EA, Piceno YM, Tom LM, Andersen GL, and DeSantis TZ (2015). Microarray of 16S rRNA gene probes for quantifying population differences across microbiome samples. In: Microarrays: Current Technology, Innovations and Applications. Editor: Zhili He, Horizon Scientific Press and Caister Academic Press, Chapter 5, pp. 99–119

23. Probst AJ (2015). Neue Archaeen aus der Tiefe setzen Treibhausgas umBioSpektrum, p. 351, Vol 21



22. Probst AJ, Weinmaier T, Raymann K, Perras A, Emerson JB, Rattei T, Wanner G, Klingl A, Berg IA, Yoshinaga M, Viehweger B, Hinrichs K-U, Thomas BC, Meck S, Auerbach AK, Heise M, Schintlmeister A, Schmid M, Wagner M, Gribaldo S, Banfield JF*, and Moissl-Eichinger C* (2014). Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurfaceNature Commun, 5497, Vol 5 – *co-corresponding authors

21. Perras AK, Wanner G, Klingl A, Mora M, Auerbach AK, Heinz V, Probst AJ, Huber H, Rachel R, Meck S, Moissl-Eichinger C (2014). Grappling archaea: ultrastructural analyses of an uncultivated, cold-loving archaeon, and its biofilmFrontiers in Microbiol, 397, Vol. 5

20. Probst AJ*, Birarda B*, Holman H-YN, DeSantis TZ, Wanner G, Andersen GL, Perras AK, Meck S, Völkel J, Bechtel HA, Wirth R, and Moissl-Eichinger C (2014). Coupling genetic and chemical microbiome profiling reveals Heterogeneity of Archaeome and Bacteriome in Subsurface Biofilms that are Dominated by the Same Archaeal SpeciesPLoS One, e99801, Vol. 9 – *authors contributed equally

19. Miezeiewski M, Schnaufer T, Muravsky M, Wang S, Caro-Aguilar I, Secore S, Thiriot DS, Hsu C, Rogers I, DeSantis TZ, Kuczynski J, Probst AJ, Chehoud C, Steger R, Warrington J, Bodmer J-L, Hinrichs JH (2014). An in virto culture model to study the dynamics of colonic microbiota in syrian golden hamster and their susceptibility to infection with Clostridium difficileISME J, 321–332, Vol. 9, No. 2

18. Bauermeister A, Mahnert A, Auerbach A, Böker A, Flier N, Weber C, Probst AJ, Moissl-Eichinger C, Haberer K (2014). Quantification of encapsulated bioburden in spacecraft polymer materials by cultivation-dependent and molecular methodsPLoS One, e94265, Vol. 9

17. Krebs JE*, Vaishampayan P*, Probst AJ*, Tom LM, Marteinsson VT, Andersen GL, and Venkateswaran K (2014). Microbial community structures of novel icelandic hot spring systems revealed by PhyloChip G3 analysisAstrobiology, pp. 220-240, Vol. 14, No. 3 – *authors contributed equally



16. Moissl-Eichinger C, Pukall R, Probst AJ, Stieglmeier M, Schwendner P, Mora M, Barczyk S, Bohmeier M, and Rettberg P (2013). Lessons Learned from the Microbial Analysis of the Herschel Spacecraft during Assembly, Integration, and Test OperationsAstrobiology, pp. 1125–1139, Vol. 13, No. 12.

15. Probst AJ, Auerbach AK, and Moissl-Eichinger C (2013). Archaea on human skinPLoS One, e65388, Vol. 8

14. Probst AJ, Holman H-YN, DeSantis TZ, Andersen GL, Bechtel HA, Sonnleitner M, Venkateswaran K, and Moissl-Eichinger C (2013). Tackling the minority: Sulfate-reducing bacteria in an archaea-dominated subsurface biofilmISME J, pp. 635–651, Vol. 7



13. Vaishampayan P*, Probst AJ*, LaDuc MT*, Bargoma E, Bernadini JN, Andersen GL, Venkateswaran K (2012). New perspectives on viable microbial communities in low-biomass cleanroom environmentsISME J, pp. 312–324, Vol. 7 – *authors contributed equally

12. Probst A, Mahnert A, Weber C, Haberer K, and Moissl-Eichinger C (2012). Detecting inactivated endospores in fluorescence microscopy using propidium monoazideInt J Astrobiol, p. 117–123, Vol. 11, No. 2

11. Weiner A, Schopf S, Wanner G, Probst A, and Wirth R (2012). Positive, neutral and negative interactions in cocultures between Pyrococcus furiosus and different methanogenic ArchaeaMicrobiol Insights, pp. 1–10, Vol. 4

10. Venkateswaran K*, LaDuc MT*, Vaishampayan P*, Osman S, Kwan K, Bargoma E, Probst A, Cooper M, Benardini JN, and Spry JA (2012). Genetic Inventory Task: Final Report, Volume 2, JPL Publication 12-12, Jet Propulsion Laboratory, California Institute of Technology, Pasadena, CA – *main contributors



9. McDonald D, Price MN, Goodrich J, Nawrocki EP, DeSantis TZ, Probst A, Andersen GL, Eddy SR, Arkin A, Knight R, and Hugenholtz P (2011). An Improved Greengenes Taxonomy for Bacteria and Archaea with explicit ranksISME J, pp. 610–618, Vol., No. 3

8. Cooper M, LaDuc MT, Probst A, Vaishampayan P, Stam C, Benardini JN, Piceno YM, Andersen GL, and Venkateswaran K (2011). Comparison of Innovative Molecular Approaches and Standard Spore Assays for Assessment of Surface CleanlinessAppl Environ Microbiol, pp. 5438–5444, Vol. 77, No. 15

7. Probst A, Facius R, Wirth R, Wolf M, and Moissl-Eichinger C (2011). Recovery of Bacillus spores from rough surfaces: A challenge to cleanliness control of space missionsAppl Environ Microbiol, pp. 1628–37, Vol. 77, No. 5

6. Wirth R, Bellack A, Bertl M, Bilek Y, Heimerl T, Herzog B, Leisner M, Probst A, Rachel R, Sarbu C, Schopf S, and Wanner G (2011). The Mode of Cell Wall Growth in Selected Archaea Follows the General Mode of Cell Wall Growth in Bacteria — An Analysis using Fluorescent DyesAppl Environ Microbiol, pp. 1556–1562, Vol. 77, No. 5



5. Hazen TC, Dubinsky EA, DeSantis TZ, Andersen GL, Piceno YM, Singh N, Jansson JR, Probst A, Borglin SE, Fortney JL, Stringfellow WT, Bill M, Conrad MS, Tom LM, Chavarria KL, Alusi TR, Lamendella R, Joyner DC, Spier C, Baelum J, Auer M, Zemla ML, Chakraborty R, Sonnenthal RL, D'haeseleer P, Holman H-YN, Osman S, Lu Z, Van Nostrand JD, Deng Y, Zhou J, and Mason OU (2010). Deep-Sea Oil Plume Enriches Indigenous Oil-Degrading BacteriaScience, pp. 204–208, Vol. 330, No. 6001

4. Probst A, Facius R, Wirth R, and Moissl-Eichinger C (2010). Validation of the Nylon-Flocked Swab for Efficient Recovery of Bacterial Spores from Smooth and Rough SurfacesAppl Environ Microbiol, pp. 5148–5158, Vol. 76, No. 15

3. Probst A, Vaishampayan P, Osman S, Moissl-Eichinger C, Andersen G, and Venkteswaran K (2010). Diversity of Anaerobic Microbes in Spacecraft Assembly Clean RoomsAppl Environ Microbiol, pp. 2837–2845, Vol. 76, No. 9

2. Vaishampayan P, Probst A, Krishnamurthi S, Ghosh S, Osman S, McDowall A, Ruckmani A, Mayilraj S, and Venkateswaran K (2010). Bacillus horneckiae sp. nov., isolated from a spacecraft assembly clean roomInt J Syst Evol Microbiol, pp. 1031–1037, Vol. 60

1. Venkateswaran K, Probst A, Vaishampayan PA, and Ghosh S (2010). NASA New Technology Report: Isolation of Resistance-bearing MicroorganismsNASA Tech Briefs, 03/2010



2. Moissl-Eichinger C, Huber R, Perras A, Probst AJ (2015). „Microbial nano-tool“. European patent application, EP15166985.0, Publikationsziffer: WO2016180762 A1

1. Birarda G, Probst AJ, Holman H-YN (2014). „Rapid and label-free infrared imaging for microbial community screening and profiling."  U.S. patent no. 992735


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