Publications

Publications

    2024

  • Valentin-Alvarado, Luis E.; Fakra, Sirine C.; Probst, Alexander J.; Giska, Jonathan R.; Jaffe, Alexander L.; Oltrogge, Luke M.; West-Roberts, Jacob; Rowland, Joel; Manga, Michael; Savage, David F.; Greening, Chris; Baker, Brett J.; Banfield, Jillian F.
    Autotrophic biofilms sustained by deeply sourced groundwater host diverse bacteria implicated in sulfur and hydrogen metabolism
    In: Microbiome Vol. 12 (2024) Nr. 1, 15
    Online Full Text: dx.doi.org/ (Open Access)
  • Ninck, Sabrina; Klaus, Thomas; Kochetkova, Tatiana V.; Esser, Sarah P.; Sewald, Leonard; Kaschani, Farnusch; Bräsen, Christopher; Probst, Alexander J.; Kublanov, Ilya V.; Siebers, Bettina; Kaiser, Markus
    Environmental activity-based protein profiling for function-driven enzyme discovery from natural communities
    In: Environmental Microbiomes Vol. 19 (2024) Nr. 1, 36
    Online Full Text: dx.doi.org/ (Open Access)
  • Novikova, Polina V; Bhanu Busi, Susheel; Probst, Alexander J.; May, Patrick; Wilmes, Paul
    Functional prediction of proteins from the human gut archaeome
    In: ISME Communications: New Developments in Microbial Ecology Vol. 4 (2024) Nr. 1,
    Online Full Text: dx.doi.org/ (Open Access)
  • Shah, Manan; Bornemann, Till; Nuy, Julia; Hahn, Martin W.; Probst, Alexander J.; Beisser, Daniela; Boenigk, Jens
    Genome-resolved metagenomics reveals the effect of nutrient availability on bacterial genomic properties across 44 European freshwater lakes
    In: Environmental Microbiology Vol. 26 (2024) Nr. 6, e16634
    Online Full Text: dx.doi.org/ (Open Access)
  • Lezcano, María Ángeles; Bornemann, Till; Sánchez-García, Laura; Carrizo, Daniel; Adam, Panagiotis; Esser, Sarah P.; Cabrol, Nathalie A.; Probst, Alexander J.; Parro, Víctor
    Hyperexpansion of genetic diversity and metabolic capacity of extremophilic bacteria and archaea in ancient Andean lake sediments
    In: Microbiome Vol. 12 (2024) Nr. 1, 176
    Online Full Text: dx.doi.org/ (Open Access)
  • Figueroa-Gonzalez, Perla Abigail; Bornemann, Till L. V.; Hinzke, Tjorven; Maaß, Sandra; Trautwein-Schult, Anke; Starke, Joern; Moore, Carrie J.; Esser, Sarah P.; Plewka, Julia; Hesse, Tobias; Schmidt, Torsten C.; Schreiber, Ulrich; Bor, Batbileg; Becher, Dörte; Probst, Alexander J.
    Metaproteogenomics resolution of a high-CO₂ aquifer community reveals a complex cellular adaptation of groundwater Gracilibacteria to a host-dependent lifestyle
    In: Microbiome Vol. 12 (2024) Nr. 1, 194
    Online Full Text: dx.doi.org/ (Open Access)
  • Lee, Kang Soo; Landry, Zachary; Athar, Awais; Alcolombri, Uria; Pramoj Na Ayutthaya, Pratchaya; Berry, David; de Bettignies, Philippe; Cheng, Ji-Xin; Csucs, Gabor; Cui, Li; Deckert, Volker; Dieing, Thomas; Dionne, Jennifer; Doskocil, Ondrej; D’Souza, Glen; García-Timermans, Cristina; Gierlinger, Notburga; Goda, Keisuke; Hatzenpichler, Roland; Henshaw, Richard J.; Huang, Wei E.; Iermak, Ievgeniia; Ivleva, Natalia P.; Kneipp, Janina; Kubryk, Patrick; Küsel, Kirsten; Lee, Tae Kwon; Lee, Sung Sik; Ma, Bo; Martínez-Pérez, Clara; Matousek, Pavel; Meckenstock, Rainer; Min, Wei; Mojzeš, Peter; Müller, Oliver; Kumar, Naresh; Nielsen, Per Halkjær; Notingher, Ioan; Palatinszky, Márton; Pereira, Fátima C.; Pezzotti, Giuseppe; Pilat, Zdenek; Plesinger, Filip; Popp, Jürgen; Probst, Alexander J.; Riva, Alessandra; Saleh, Amr. A. E.; Samek, Ota; Sapers, Haley M.; Schubert, Olga T.; Stubbusch, Astrid K. M.; Tadesse, Loza F.; Taylor, Gordon T.; Wagner, Michael; Wang, Jing; Yin, Huabing; Yue, Yang; Zenobi, Renato; Zini, Jacopo; Sarkans, Ugis; Stocker, Roman
    MicrobioRaman : an open-access web repository for microbiological Raman spectroscopy data
    In: Nature Microbiology (2024) Nr. 9, pp. 1152 - 1156
    Online Full Text: dx.doi.org/
  • Rocha, Ulisses; Coelho Kasmanas, Jonas; Kallies, René; Saraiva, Joao Pedro; Toscan, Rodolfo Brizola; Štefanič, Polonca; Bicalho, Marcos Fleming; Borim Correa, Felipe; Baştürk, Merve Nida; Fousekis, Efthymios; Viana Barbosa, Luiz Miguel; Plewka, Julia; Probst, Alexander J.; Baldrian, Petr; Stadler, Peter F.
    MuDoGeR : Multi-Domain Genome recovery from metagenomes made easy
    In: Molecular Ecology Resources Vol. 24 (2024) Nr. 2, e13904
    Online Full Text: dx.doi.org/ (Open Access)
  • Hanssen, Friederike; Gabernet, Gisela; Bäuerle, Famke; Stöcker, Bianca; Wiegand, Felix; Smith, Nicholas H.; Mertes, Christian; Neogi, Avirup Guha; Brandhoff, Leon; Ossowski, Anna; Altmueller, Janine; Becker, Kerstin; Petzold, Andreas; Sturm, Marc; Stöcker, Tyll; Sivalingam, Sugirthan; Brand, Fabian; Schmidt, Axel; Buness, Andreas; Probst, Alexander J.; Motameny, Susanne; Köster, Johannes
    NCBench : providing an open, reproducible, transparent, adaptable, and continuous benchmark approach for DNA-sequencing-based variant calling
    In: F1000Research Vol. 12 (2024) 1125
    Online Full Text: dx.doi.org/ (Open Access)
  • Táncsics, András; Bedics, Anna; Banerjee, Sinchan; Soares, André; Baka, Erzsébet; Probst, Alexander J.; Kriszt, Balázs
    Stable-isotope probing combined with amplicon sequencing and metagenomics identifies key bacterial benzene degraders under microaerobic conditions
    In: Biologia Futura (2024) in press
    Online Full Text: dx.doi.org/ (Open Access)
  • Wirbel, Jakob; Bhatt, Ami S.; Probst, Alexander J.
    The journey to understand previously unknown microbial genes
    In: Nature Vol. 626 (2024) Nr. 7998, pp. 267 - 269
    Online Full Text: dx.doi.org/ (Open Access)
  • Moore, Carrie Julia; Bornemann, Till; Figueroa-Gonzalez, Perla Abigail; Esser, Sarah P; Moraru, Liliana Cristina; Soares, André; Hinzke, Tjorven; Trautwein-Schult, Anke; Maaß, Sandra; Becher, Dörte; Starke, Joern; Plewka, Julia; Rothe, Lousia; Probst, Alexander J.
    Time-series metaproteogenomics of a high-CO2 aquifer reveals active viruses with fluctuating abundances and broad host ranges
    In: microLife Vol. 5 (2024) uqae011
    Online Full Text: dx.doi.org/ (Open Access)

    • 2023

  • Esser, Sarah P.; Rahlff, Janina; Zhao, Weishu; Predl, Michael; Plewka, Julia; Sures, Katharina; Wimmer, Franziska; Lee, Janey; Adam, Panagiotis; McGonigle, Julia; Turzynski, Victoria; Banas, Indra; Schwank, Katrin; Krupovic, Mart; Bornemann, Till L. V.; Figueroa-Gonzalez, Perla Abigail; Jarett, Jessica; Rattei, Thomas; Amano, Yuki; Blaby, Ian K.; Cheng, Jan-Fang; Brazelton, William J.; Beisel, Chase L.; Woyke, Tanja; Zhang, Ying; Probst, Alexander J.
    A predicted CRISPR-mediated symbiosis between uncultivated archaea
    In: Nature Microbiology Vol. 8 (2023) Nr. 9, pp. 1619 - 1633
    Online Full Text: dx.doi.org/
  • Meyer, Benjamin; Pannekens, Mark; Soares, André; Timmermann, Lara; Probst, Alexander J.; Hippelein, Martin; Bendinger, Bernd; Nocker, Andreas
    Bacterial populations in different parts of domestic drinking water systems are distinct and adapted to the given ambient temperatures
    In: Frontiers in Water Vol. 5 (2023) 1119951
    Online Full Text: dx.doi.org/ (Open Access)
  • Simon, Sophie A.; Schmidt, Katharina; Griesdorn, Lea; Soares, André R.; Bornemann, Till L. V.; Probst, Alexander J.
    Dancing the Nanopore limbo – Nanopore metagenomics from small DNA quantities for bacterial genome reconstruction
    In: BMC Genomics Vol. 24 (2023) Nr. 1, 727
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Sieber, Guido; Drees, Felix; Shah, Manan; Stach, Tom L.; Hohrenk-Danzouma, Lotta; Bock, Christina; Vosough, Maryam; Schumann, Mark; Sures, Bernd; Probst, Alexander J.; Schmidt, Torsten Claus; Beisser, Daniela; Boenigk, Jens
    Exploring the efficacy of metabarcoding and non-target screening for detecting treated wastewater
    In: Science of the Total Environment Vol. 903 (2023) 167457
    Online Full Text: dx.doi.org/ (Open Access)
  • Rahlff, Janina; Esser, Sarah P.; Plewka, Julia; Heinrichs, Mara Elena; Soares, André; Scarchilli, Claudio; Grigioni, Paolo; Wex, Heike; Giebel, Helge-Ansgar; Probst, Alexander J.
    Marine viruses disperse bidirectionally along the natural water cycle
    In: Nature Communications Vol. 14 (2023) Nr. 1, 6354
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Hanssen, Friederike; Gabernet, Gisela; Smith, Nicholas H.; Mertes, Christian; Neogi, Avirup Guha; Brandhoff, Leon; Ossowski, Anna; Altmueller, Janine; Becker, Kerstin; Petzold, Andreas; Sturm, Marc; Stöcker, Tyll; Sivalingam, Sugirthan; Brand, Fabian; Schmid, Axel; Buness, Andreas; Probst, Alexander J.; Motameny, Susanne; Köster, Johannes
    NCBench: providing an open, reproducible, transparent, adaptable, and continuous benchmark approach for DNA-sequencing-based variant calling
    In: F1000Research Vol. 12 (2023) 1125
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Pápai, Márton; Benedek, Tibor; Táncsics, András; Bornemann, Till L. V.; Plewka, Julia; Probst, Alexander J.; Hussein, Daood; Maróti, Gergely; Menashe, Ofir; Kriszt, Balázs
    Selective enrichment, identification, and isolation of diclofenac, ibuprofen, and carbamazepine degrading bacteria from a groundwater biofilm
    In: Environmental Science and Pollution Research (ESPR) Vol. 30 (2023) Nr. 15, pp. 44518 - 44535
    Online Full Text: dx.doi.org/ (Open Access)
  • Banas, Indra; Esser, Sarah P.; Turzynski, Victoria; Soares, André; Novikova, Polina; May, Patrick; Moraru, Cristina; Hasenberg, Mike; Rahlff, Janina; Wilmes, Paul; Klingl, Andreas; Probst, Alexander J.
    Spatio-functional organization in virocells of small uncultivated archaea from the deep biosphere
    In: ISME Journal Vol. 17 (2023) Nr. 10, pp. 1789 - 1792
    Online Full Text: dx.doi.org/ (Open Access)
  • Stach, Tom L.; Sieber, Guido; Shah, Manan; Simon, Sophie A.; Soares, André; Bornemann, Till L. V.; Plewka, Julia; Künkel, Julian; Becker, Christian; Meyer, Folker; Boenigk, Jens; Probst, Alexander J.
    Temporal disturbance of a model stream ecosystem by high microbial diversity from treated wastewater
    In: MicrobiologyOpen Vol. 12 (2023) Nr. 2, e1347
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Vos, Matthijs; Hering, Daniel; Gessner, Mark O.; Leese, Florian; Schäfer, Ralf B.; Tollrian, Ralph; Boenigk, Jens; Haase, Peter; Meckenstock, Rainer; Baikova, Daria; Bayat, Helena; Beermann, Arne; Beißer, Daniela; Beszteri, Bánk; Birk, Sebastian; Boden, Lisa; Brauer, Verena; Brauns, Mario; Buchner, Dominik; Burfeid-Castellanos, Andrea; David, Gwendoline; Deep, Aman; Doliwa, Annemie; Dunthorn, Micah; Enß, Julian; Escobar-Sierra, Camilo; Feld, Christian K.; Fohrer, Nicola; Grabner, Daniel; Hadziomerovic, Una; Jähnig, Sonja C.; Jochmann, Maik; Khaliq, Shaista; Kiesel, Jens; Kuppels, Annabel; Lampert, Kathrin P.; Le, T.T. Yen; Lorenz, Armin W.; Madariaga, Graciela Medina; Meyer, Benjamin; Pantel, Jelena H.; Pimentel, Iris Madge; Mayombo, Ntambwe Serge; Nguyen, Hong Hanh; Peters, Kristin; Pfeifer, Svenja M.; Prati, Sebastian; Probst, Alexander J.; Reiner, Dominik; Rolauffs, Peter; Schlenker, Alexandra; Schmidt, Torsten C.; Shah, Mana; Sieber, Guido; Stach, Tom Lennard; Tielke, Ann-Kathrin; Vermiert, Anna-Maria; Weiss, Martina; Weitere, Markus; Sures, Bernd
    The Asymmetric Response Concept explains ecological consequences of multiple stressor exposure and release
    In: Science of the Total Environment Vol. 872 (2023) 162196
    Online Full Text: dx.doi.org/
  • Turzynski, Victoria; Griesdorn, Lea; Moraru, Cristina; Soares, André; Simon, Sophie A.; Stach, Tom L.; Rahlff, Janina; Esser, Sarah P.; Probst, Alexander J.
    Virus-Host Dynamics in Archaeal Groundwater Biofilms and the Associated Bacterial Community Composition
    In: Viruses Vol. 15 (2023) Nr. 4, 910
    Online Full Text: dx.doi.org/ (Open Access)
  • Bornemann, Till L. V.; Esser, Sarah P.; Stach, Tom L.; Burg, Tim; Probst, Alexander J.
    uBin : A manual refining tool for genomes from metagenomes
    In: Environmental Microbiology Vol. 25 (2023) Nr. 6, pp. 1077 - 1083
    Online Full Text: dx.doi.org/ (Open Access)
  • Esser, Sarah; Turzynski, Victoria; Plewka, Julia; Moore, Carrie J.; Banas, Indra; Woyke, Tanja; Probst, Alexander J.
    Differential expression of core metabolic functions in Candidatus Altiarchaeum inhabiting distinct subsurface ecosystems
    (2023)
    Online Full Text: dx.doi.org/ (Open Access)

    • 2022

  • Meyer, Benjamin H.; Adam, Panagiotis; Wagstaff, Ben A.; Kolyfetis, George E.; Probst, Alexander J.; Albers, Sonja V.; Dorfmueller, Helge C.
    Agl24 is an ancient archaeal homolog of the eukaryotic N-glycan chitobiose synthesis enzymes
    In: eLife Vol. 11 (2022) e67448
    Online Full Text: dx.doi.org/ (Open Access)
  • Overholt, Will A.; Trumbore, Susan; Xu, Xiaomei; Bornemann, Till L. V.; Probst, Alexander J.; Krüger, Markus; Herrmann, Martina; Thamdrup, Bo; Bristow, Laura A.; Taubert, Martin; Schwab, Valérie F.; Hölzer, Martin; Marz, Manja; Küsel, Kirsten
    Carbon fixation rates in groundwater similar to those in oligotrophic marine systems
    In: Nature Geoscience Vol. 15 (2022) Nr. 7, pp. 561 - 567
    Online Full Text: dx.doi.org/ (Open Access)
  • Whitman, William B.; Chuvochina, Maria; Hedlund, Brian P.; Hugenholtz, Philip; Konstantinidis, Konstantinos T.; Murray, Alison E.; Palmer, Marike; Parks, Donovan H.; Probst, Alexander J.; Reysenbach, Anna-Louise; Rodriguez-R, Luis M.; Rossello-Mora, Ramon; Sutcliffe, Iain; Venter, Stephanus N.
    Development of the SeqCode : A proposed nomenclatural code for uncultivated prokaryotes with DNA sequences as type
    In: Systematic and Applied Microbiology Vol. 45 (2022) Nr. 5, 126305
    Online Full Text: dx.doi.org/ (Open Access)
  • Monsees, Indra; Turzynski, Victoria; Esser, Sarah P.; Soares, Andre; Timmermann, Lara I.; Weidenbach, Katrin; Banas, Jarno; Kloster, Michael; Beszteri, Bank; Schmitz, Ruth A.; Probst, Alexander J.
    Erratum for Monsees et al., “Label-Free Raman Microspectroscopy for Identifying Prokaryotic Virocells”
    In: mSystems Vol. 7 (2022) Nr. 2, e00162-22
    Online Full Text: dx.doi.org/ (Open Access)
  • Neri, Uri; Wolf, Yuri I.; Roux, Simon; Camargo, Antonio Pedro; Lee, Benjamin; Kazlauskas, Darius; Chen, I. Min; Ivanova, Natalia; Zeigler Allen, Lisa; Paez-Espino, David; Bryant, Donald A.; Bhaya, Devaki; Narrowe, Adrienne B.; Probst, Alexander J.; Sczyrba, Alexander; Kohler, Annegret; Séguin, Armand; Shade, Ashley; Campbell, Barbara J.; Lindahl, Björn D.; Reese, Brandi Kiel; Roque, Breanna M.; DeRito, Chris; Averill, Colin; Cullen, Daniel; Beck, David A.C.; Walsh, David A.; Ward, David M.; Wu, Dongying; Eloe-Fadrosh, Emiley; Brodie, Eoin L.; Young, Erica B.; Lilleskov, Erik A.; Castillo, Federico J.; Martin, Francis M.; LeCleir, Gary R.; Attwood, Graeme T.; Cadillo-Quiroz, Hinsby; Simon, Holly M.; Hewson, Ian; Grigoriev, Igor V.; Tiedje, James M.; Jansson, Janet K.; Lee, Janey; VanderGheynst, Jean S.; Dangl, Jeff; Bowman, Jeff S.; Blanchard, Jeffrey L.; Bowen, Jennifer L.; Xu, Jiangbing; Banfield, Jillian F.; Deming, Jody W.; Kostka, Joel E.; Gladden, John M.; Rapp, Josephine Z.; Sharpe, Joshua; McMahon, Katherine D.; Treseder, Kathleen K.; Bidle, Kay D.; Wrighton, Kelly C.; Thamatrakoln, Kimberlee; Nusslein, Klaus; Meredith, Laura K.; Ramirez, Lucia; Buee, Marc; Huntemann, Marcel; Kalyuzhnaya, Marina G.; Waldrop, Mark P.; Sullivan, Matthew B.; Schrenk, Matthew O.; Hess, Matthias; Vega, Michael A.; O'Malley, Michelle A.; Medina, Monica; Gilbert, Naomi E.; Delherbe, Nathalie; Mason, Olivia U.; Dijkstra, Paul; Chuckran, Peter F.; Baldrian, Petr; Constant, Philippe; Stepanauskas, Ramunas; Daly, Rebecca A.; Lamendella, Regina; Gruninger, Robert J.; McKay, Robert M.; Hylander, Samuel; Lebeis, Sarah L.; Esser, Sarah P.; Acinas, Silvia G.; Wilhelm, Steven S.; Singer, Steven W.; Tringe, Susannah S.; Woyke, Tanja; Reddy, T.B.K.; Bell, Terrence H.; Mock, Thomas; McAllister, Tim; Thiel, Vera; Denef, Vincent J.; Liu, Wen-Tso; Martens-Habbena, Willm; Allen Liu, Xiao-Jun; Cooper, Zachary S.; Wang, Zhong; Krupovic, Mart; Dolja, Valerian V.; Kyrpides, Nikos C.; Koonin, Eugene V.; Gophna, Uri; O’Malley, Michelle A.
    Expansion of the global RNA virome reveals diverse clades of bacteriophages
    In: Cell Vol. 185 (2022) Nr. 21, pp. 4023 - 4037.e18
    Online Full Text: dx.doi.org/ (Open Access)
  • Bornemann, Till L. V.; Adam, Panagiotis; Turzynski, Victoria; Schreiber, Ulrich; Figueroa-Gonzalez, Perla Abigail; Rahlff, Janina; Köster, Daniel; Schmidt, Torsten Claus; Schunk, Ralf; Krauthausen, Bernhard; Probst, Alexander J.
    Genetic diversity in terrestrial subsurface ecosystems impacted by geological degassing
    In: Nature Communications Vol. 13 (2022) Nr. 1, 284
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Adam, Panagiotis; Kolyfetis, George E.; Bornemann, Till L.V.; Vorgias, Constantinos E.; Probst, Alexander J.
    Genomic remnants of ancestral methanogenesis and hydrogenotrophy in Archaea drive anaerobic carbon cycling
    In: Science Advances Vol. 8 (2022) Nr. 44, abm9651
    Online Full Text: dx.doi.org/ (Open Access)
  • Rahlff, Janina; Bornemann, Till L V; Lopatina, Anna; Severinov, Konstantin; Probst, Alexander J.
    Host-Associated Phages Disperse across the Extraterrestrial Analogue Antarctica
    In: Applied and Environmental Microbiology Vol. 88 (2022) Nr. 10, e0031522
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Monsees, Indra; Turzynski, Victoria; Esser, Sarah P.; Soares, André; Timmermann, Lara I.; Weidenbach, Katrin; Banas, Jarno; Kloster, Michael; Beszteri, Bank; Schmitz, Ruth A.; Probst, Alexander J.
    Label-Free Raman Microspectroscopy for Identifying Prokaryotic Virocells
    In: mSystems Vol. 7 (2022) Nr. 1, e01505-21
    Online Full Text: dx.doi.org/ (Open Access)
  • Pinto, Otávio H. B.; Bornemann, Till L. V.; Oliveira, Rafael S.; Frederico, Tayna D.; Quirino, Betania F.; Probst, Alexander J.; de Freitas, Mayanne A. M.; Thompson, Fabiano L.; Kruger, Ricardo H.
    Plume Layer Influences the Amazon Reef Sponge Microbiome Primary Producers
    In: Frontiers in Marine Science Vol. 9 (2022) 867234
    Online Full Text: dx.doi.org/ (Open Access)
  • Hedlund, Brian P; Chuvochina, Maria; Hugenholtz, Philip; Konstantinidis, Konstantinos T; Murray, Alison E; Palmer, Marike; Parks, Donovan H; Probst, Alexander J.; Reysenbach, Anna-Louise; Rodriguez-R, Luis M; Rossello-Mora, Ramon; Sutcliffe, Iain C; Venter, Stephanus N; Whitman, William B
    SeqCode : A nomenclatural code for prokaryotes described from sequence data
    In: Nature Microbiology Vol. 7 (2022) Nr. 10, pp. 1702 - 1708
    Online Full Text: dx.doi.org/ (Open Access)
  • Adam, Panagiotis S.; Bornemann, Till L. V.; Probst, Alexander J.
    Progress and Challenges in Studying the Ecophysiology of Archaea
    In: Archaea: Methods and Protocols / Ferreira-Cerca, Sébastien (Eds.) 2022, pp. 469 - 486
    Online Full Text: dx.doi.org/
  • Bornemann, Till L. V.; Adam, Panagiotis S.; Probst, Alexander J.
    Reconstruction of Archaeal Genomes from Short-Read Metagenomes
    In: Archaea: Methods and Protocols / Ferreira-Cerca, Sébastien (Eds.) 2022, pp. 487 - 527
    Online Full Text: dx.doi.org/

    • 2021

  • Heise, Julia; Müller, Hubert; Probst, Alexander J.; Meckenstock, Rainer
    Ammonium Removal in Aquaponics Indicates Participation of Comammox Nitrospira
    In: Current Microbiology Vol. 78 (2021) Nr. 3, pp. 894 - 903
    Online Full Text: dx.doi.org/ (Open Access)
  • Murray, Alison E.; Freudenstein, John; Gribaldo, Simonetta; Hatzenpichler, Roland; Hugenholtz, Philip; Kämpfer, Peter; Konstantinidis, Konstantinos T.; Lane, Christopher E.; Papke, R. Thane; Parks, Donovan H.; Rossello-Mora, Ramon; Stott, Matthew B.; Sutcliffe, Iain C.; Thrash, J. Cameron; Venter, Stephanus N.; Whitman, William B.; Acinas, Silvia G.; Amann, Rudolf I.; Anantharaman, Karthik; Armengaud, Jean; Baker, Brett J.; Barco, Roman A.; Bode, Helge B.; Boyd, Eric S.; Brady, Carrie L.; Carini, Paul; Chain, Patrick S. G.; Colman, Daniel R.; DeAngelis, Kristen M.; de los Rios, Maria Asuncion; Estrada-de los Santos, Paulina; Dunlap, Christopher A.; Eisen, Jonathan A.; Emerson, David; Ettema, Thijs J. G.; Eveillard, Damien; Girguis, Peter R.; Hentschel, Ute; Hollibaugh, James T.; Hug, Laura A.; Inskeep, William P.; Ivanova, Elena P.; Klenk, Hans-Peter; Li, Wen-Jun; Lloyd, Karen G.; Löffler, Frank E.; Makhalanyane, Thulani P.; Moser, Duane P.; Nunoura, Takuro; Palmer, Marike; Parro, Victor; Pedrós-Alió, Carlos; Probst, Alexander J.; Smits, Theo H. M.; Steen, Andrew D.; Steenkamp, Emma T.; Spang, Anja; Stewart, Frank J.; Tiedje, James M.; Vandamme, Peter; Wagner, Michael; Wang, Feng-Ping; Yarza, Pablo; Hedlund, Brian P.; Reysenbach, Anna-Louise
    Author Correction: Roadmap for naming uncultivated Archaea and Bacteria
    In: Nature Microbiology Vol. 6 (2021) Nr. 1, pp. 136
    Online Full Text: dx.doi.org/ (Open Access)
  • Hwang, Yunha; Rahlff, Janina; Schulze-Makuch, Dirk; Schloter, Michael; Probst, Alexander J.
    Diverse viruses carrying genes for microbial extremotolerance in the atacama desert hyperarid soil
    In: mSystems Vol. 6 (2021) Nr. 3, e00385-21
    Online Full Text: dx.doi.org/ (Open Access)
  • Yang, Sizhong; Liebner, Susanne; Walz, Josefine; Knoblauch, Christian; Bornemann, Till L. V.; Probst, Alexander J.; Wagner, Dirk; Jetten, Mike S. M.; in ‘t Zandt, Michiel H.
    Effects of a long-term anoxic warming scenario on microbial community structure and functional potential of permafrost-affected soil
    In: Permafrost and Periglacial Processes Vol. 32 (2021) Nr. 4, pp. 641 - 656
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander
    Eine Reise zum Untergrund der Erde : Über die Interaktionen von Mikroorganismen und ihre Infektionen in tiefen Regionen der Erdkruste
    In: Unikate: Berichte aus Forschung und Lehre (2021) Nr. 56 : "Junge Wilde" - Die nächste Generation, pp. 56 - 65
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Turzynski, Victoria; Monsees, Indra; Moraru, Cristina; Probst, Alexander J.
    Imaging techniques for detecting prokaryotic viruses in environmental samples
    In: Viruses Vol. 13 (2021) Nr. 11, 2126
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Hwang, Yunha; Schulze-Makuch, Dirk; Arens, Felix L.; Saenz, Johan S.; Adam, Panagiotis; Sager, Christof; Bornemann, Till L. V.; Zhao, Weishu; Zhang, Ying; Airo, Alessandro; Schloter, Michael; Probst, Alexander J.
    Leave no stone unturned : individually adapted xerotolerant Thaumarchaeota sheltered below the boulders of the Atacama Desert hyperarid core
    In: Microbiome Vol. 9 (2021) Nr. 1, 234
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Rahlff, Janina; Turzynski, Victoria; Esser, Sarah P.; Monsees, Indra; Bornemann, Till L. V.; Figueroa-Gonzalez, Perla Abigail; Schulz, Frederik; Woyke, Tanja; Klingl, Andreas; Moraru, Cristina; Probst, Alexander J.
    Lytic archaeal viruses infect abundant primary producers in Earth’s crust
    In: Nature Communications Vol. 12 (2021) Nr. 1, 4642
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Schulze-Makuch, Dirk; Lipus, Daniel; Arens, Felix L.; Baqué, Mickael; Bornemann, Till; Devere, Jean-Pierre; Flury, Markus; Frösler, Jan; Heinz, Jacob; Hwang, Yunha; Kounaves, Samuel P.; Mangelsdorf, Kai; Meckenstock, Rainer; Pannekens, Mark; Probst, Alexander J.; Sáenz, Johan S.; Schirmack, Janosch; Schloter, Michael; Schmitt-Kopplin, Philippe; Schneider, Beate; Uhl, Jenny; Vestergaard, Gisle; Valenzuela, Bernardita; Zamorano, Pedro; Wagner, Dirk
    Microbial hotspots in lithic microhabitats inferred from dna fractionation and metagenomics in the atacama desert
    In: Microorganisms Vol. 9 (2021) Nr. 5, 1038
    Online Full Text: dx.doi.org/ (Open Access)
  • Benedek, Tibor; Szentgyörgyi, Flóra; Gergócs, Veronika; Menashe, Ofir; Gonzalez, Perla Abigail Figueroa; Probst, Alexander J.; Kriszt, Balázs; Táncsics, András
    Potential of Variovorax paradoxus isolate BFB1_13 for bioremediation of BTEX contaminated sites
    In: AMB Express Vol. 11 (2021) Nr. 1, 126
    Online Full Text: dx.doi.org/ (Open Access)
  • Starr, Evan P.; Shi, Shengjing; Blazewicz, Steven J.; Koch, Benjamin J.; Probst, Alexander J.; Hungate, Bruce A.; Pett-Ridge, Jennifer; Firestone, Mary K.; Banfield, Jillian F.
    Stable-Isotope-Informed, Genome-Resolved Metagenomics Uncovers Potential Cross-Kingdom Interactions in Rhizosphere Soil
    In: mSphere Vol. 6 (2021) Nr. 5, e00085 - 21
    Online Full Text: dx.doi.org/ (Open Access)
  • Chaudhari, Narendrakumar M.; Overholt, Will A.; Figueroa-Gonzalez, Perla Abigail; Taubert, Martin; Bornemann, Till L. V.; Probst, Alexander J.; Hölzer, Martin; Marz, Manja; Küsel, Kirsten
    The economical lifestyle of CPR bacteria in groundwater allows little preference for environmental drivers
    In: Environmental Microbiomes Vol. 16 (2021) Nr. 1, 24
    Online Full Text: dx.doi.org/ (Open Access)
  • Kieft, Kristopher; Breister, Adam M.; Huss, Phil; Linz, Alexandra M.; Zanetakos, Elizabeth; Zhou, Zhichao; Rahlff, Janina; Esser, Sarah P.; Probst, Alexander J.; Raman, Srivatsan; Roux, Simon; Anantharaman, Karthik
    Virus-associated organosulfur metabolism in human and environmental systems
    In: Cell Reports Vol. 36 (2021) Nr. 5, 109471
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Klingl, Andreas; Boenigk, Jens; Schlechter, Jana; Wirth, Reinhard; Flemming, Hans-Curt
    Spezielle Physiologie der Prokaryoten
    In: Boenigk, Biologie: Der Begleiter in und durch das Studium / Boenigk, Jens (Eds.) 2021, pp. 547 - 580
    Online Full Text: dx.doi.org/

    • 2020

  • Probst, Alexander J.; Vaishampayan, Parag
    Are we There Yet? Understanding Interplanetary Microbial Hitchhikers using Molecular Methods
    In: Current Issues in Molecular Biology Vol. 38 (2020) pp. 33 - 52
    Online Full Text: dx.doi.org/ (Open Access)
  • Al-Shayeb, Basem; Sachdeva, Rohan; Chen, Lin-Xing; Ward, Fred; Munk, Patrick; Devoto, Audra; Castelle, Cindy J.; Olm, Matthew R.; Bouma-Gregson, Keith; Amano, Yuki; He, Christine; Méheust, Raphaël; Brooks, Brandon; Thomas, Alex; Lavy, Adi; Matheus-Carnevali, Paula; Sun, Christine; Goltsman, Daniela S. A.; Borton, Mikayla A.; Sharrar, Allison; Jaffe, Alexander L.; Nelson, Tara C.; Kantor, Rose; Keren, Ray; Lane, Katherine R.; Farag, Ibrahim F.; Lei, Shufei; Finstad, Kari; Amundson, Ronald; Anantharaman, Karthik; Zhou, Jinglie; Probst, Alexander J.; Power, Mary E.; Tringe, Susannah G.; Li, Wen-Jun; Wrighton, Kelly; Harrison, Sue; Morowitz, Michael; Relman, David A.; Doudna, Jennifer A.; Lehours, Anne-Catherine; Warren, Lesley; Cate, Jamie H. D.; Santini, Joanne M.; Banfield, Jillian F.
    Clades of huge phages from across Earth’s ecosystems
    In: Nature Vol. 578 (2020) Nr. 7795, pp. 425 - 431
    Online Full Text: dx.doi.org/ (Open Access)
  • Lang, Annemarie; Czech, Laura; Probst, Alexander J.
    Die Leiden der jungen Wissenschaftler
    In: Biospektrum Vol. 26 (2020) Nr. 5, pp. 572 - 576
    Online Full Text: dx.doi.org/
  • Geesink, Patricia; Wegner, Carl-Eric; Probst, Alexander J.; Herrmann, Martina; Dam, Hang T.; Kaster, Anne-Kristin; Küsel, Kirsten
    Genome-inferred spatio-temporal resolution of an uncultivated Roizmanbacterium reveals its ecological preferences in groundwater
    In: Environmental Microbiology Vol. 22 (2020) Nr. 2, pp. 726 - 737
    Online Full Text: dx.doi.org/ (Open Access)
  • Müller, Hubert; Marozava, Sviatlana; Probst, Alexander J.; Meckenstock, Rainer
    Groundwater cable bacteria conserve energy by sulfur disproportionation
    In: ISME Journal Vol. 14 (2020) Nr. 2, pp. 623 - 634
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Elling, Felix J.; Castelle, Cindy J.; Zhu, Qingzeng; Elvert, Marcus; Birarda, Giovanni; Holman, Hoi-Ying N.; Lane, Katherine R.; Ladd, Bethany; Ryan, M. Cathryn; Woyke, Tanja; Hinrichs, Kai-Uwe; Banfield, Jillian F.
    Lipid analysis of CO₂-rich subsurface aquifers suggests an autotrophy-based deep biosphere with lysolipids enriched in CPR bacteria
    In: ISME Journal Vol. 14 (2020) pp. 1547 - 1560
    Online Full Text: dx.doi.org/ (Open Access)
  • Révész, Fruzsina; Figueroa-Gonzalez, Perla Abigail; Probst, Alexander J.; Kriszt, Balázs; Banerjee, Sinchan; Szoboszlay, Sándor; Maróti, Gergely; Táncsics, András
    Microaerobic conditions caused the overwhelming dominance of Acinetobacter spp. and the marginalization of Rhodococcus spp. in diesel fuel/crude oil mixture-amended enrichment cultures
    In: Archives of Microbiology Vol. 202 (2020) Nr. 2, pp. 329 - 342
    Online Full Text: dx.doi.org/ (Open Access)
  • Rahlff, Janina; Giebel, Helge-Ansgar; Stolle, Christian; Wurl, Oliver; Probst, Alexander J.; Herlemann, Daniel P. R.
    Overlooked diversity of ultramicrobacterial minorities at the air-sea interface
    In: Atmosphere Vol. 11 (2020) Nr. 11, pp. 1214
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Murray, Alison E.; Freudenstein, John; Gribaldo, Simonetta; Hatzenpichler, Roland; Hugenholtz, Philip; Kämpfer, Peter; Konstantinidis, Konstantinos T.; Lane, Christopher E.; Papke, R. Thane; Parks, Donovan H.; Rossello-Mora, Ramon; Stott, Matthew B.; Sutcliffe, Iain C.; Thrash, J. Cameron; Venter, Stephanus N.; Whitman, William B.; Acinas, Silvia G.; Amann, Rudolf I.; Anantharaman, Karthik; Armengaud, Jean; Baker, Brett J.; Barco, Roman A.; Bode, Helge B.; Boyd, Eric S.; Brady, Carrie L.; Carini, Paul; Chain, Patrick S. G.; Colman, Daniel R.; DeAngelis, Kristen M.; de los Rios, Maria Asuncion; Estrada-de los Santos, Paulina; Dunlap, Christopher A.; Eisen, Jonathan A.; Emerson, David; Ettema, Thijs J. G.; Eveillard, Damien; Girguis, Peter R.; Hentschel, Ute; Hollibaugh, James T.; Hug, Laura A.; Inskeep, William P.; Ivanova, Elena P.; Klenk, Hans-Peter; Li, Wen-Jun; Lloyd, Karen G.; Löffler, Frank E.; Makhalanyane, Thulani P.; Moser, Duane P.; Nunoura, Takuro; Palmer, Marike; Parro, Victor; Pedrós-Alió, Carlos; Probst, Alexander J.; Smits, Theo H. M.; Steen, Andrew D.; Steenkamp, Emma T.; Spang, Anja; Stewart, Frank J.; Tiedje, James M.; Vandamme, Peter; Wagner, Michael; Wang, Feng-Ping; Hedlund, Brian P.; Reysenbach, Anna-Louise
    Roadmap for naming uncultivated Archaea and Bacteria
    In: Nature Microbiology Vol. 5 (2020) Nr. 8, pp. 987 - 994
    Online Full Text: dx.doi.org/ (Open Access)
  • Figueroa-Gonzalez, Perla Abigail; Bornemann, Till L. V.; Adam, Panagiotis; Plewka, Julia; Révész, Fruzsina; von Hagen, Christian A.; Táncsics, András; Probst, Alexander J.
    Saccharibacteria as Organic Carbon Sinks in Hydrocarbon-Fueled Communities
    In: Frontiers in Microbiology Vol. 11 (2020) pp. 587782
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Probst, Alexander J.
    Zusammen in Dunkelheit — mikrobielle Interaktionen in der Erdkruste
    In: Biospektrum Vol. 26 (2020) Nr. 3, pp. 255 - 258
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Nuy, Julia; Bornemann, Till; Beisser, Daniela; Probst, Alexander J.; Boenigk, Jens
    Comparing Community Measures in Lake Microbial Ecology: Metagenomes and Metatranscriptomes and Amplicons, oh my!
    (2020)
    Online Full Text: dx.doi.org/ (Open Access)

    • 2019

  • Schwank, Katrin; Bornemann, Till L. V.; Dombrowski, Nina; Spang, Anja; Banfield, Jillian F.; Probst, Alexander J.
    An archaeal symbiont-host association from the deep terrestrial subsurface
    In: ISME Journal Vol. 13 (2019) pp. 2135 - 2139
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Bouma-Gregson, Keith; Olm, Matthew R.; Probst, Alexander J.; Anantharaman, Karthik; Power, Mary E.; Banfield, Jillian F.
    Impacts of microbial assemblage and environmental conditions on the distribution of anatoxin-a producing cyanobacteria within a river network
    In: ISME Journal Vol. 13 (2019) Nr. 6, pp. 1618 - 1634
    Online Full Text: dx.doi.org/ (Open Access)
  • Monsees, Indra; Klingl, Andreas; Probst, Alexander J.
    Kleine Zellen, große Wirkung — Bakterien der Candidate Phyla Radiation
    In: Biospektrum Vol. 25 (2019) Nr. 7, pp. 719 - 721
    Online Full Text: dx.doi.org/

    • 2018

  • Marozava, Sviatlana; Mouttaki, Housna; Müller, Hubert; Abu Laban, Nidal; Probst, Alexander J.; Meckenstock, Rainer
    Anaerobic degradation of 1-methylnaphthalene by a member of the Thermoanaerobacteraceae contained in an iron-reducing enrichment culture
    In: Biodegradation Vol. 29 (2018) Nr. 1, pp. 23 - 39
    Online Full Text: dx.doi.org/ (Open Access)
  • Nocker, Andreas; Shah, Mili; Dannenmann, Benjamin; Schulze-Osthoff, Klaus; Wingender, Jost; Probst, Alexander J.
    Assessment of UV-C-induced water disinfection by differential PCR-based quantification of bacterial DNA damage
    In: Journal of Microbiological Methods Vol. 149 (2018) pp. 89 - 95
    Online Full Text: dx.doi.org/
  • Castelle, Cindy J.; Brown, Christopher T.; Anantharaman, Karthik; Probst, Alexander J.; Huang, Raven H.; Banfield, Jillian F.
    Biosynthetic capacity, metabolic variety and unusual biology in the CPR and DPANN radiations
    In: Nature Reviews Microbiology Vol. 16 (2018) Nr. 10, pp. 629 - 645
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Probst, Alexander J.; Ladd, Bethany; Jarett, Jessica K.; Geller-Mcgrath, David E.; Sieber, Christian M. K.; Emerson, Joanne B.; Anantharaman, Karthik; Thomas, Brian C.; Malmstrom, Rex R.; Stieglmeier, Michaela; Klingl, Andreas; Woyke, Tanja; Ryan, M. Cathryn; Banfield, Jillian F.
    Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface
    In: Nature Microbiology Vol. 3 (2018) Nr. 3, pp. 328 - 336
    Online Full Text: dx.doi.org/ (Open Access)
  • West, Patrick T.; Probst, Alexander J.; Grigoriev, Igor V.; Thomas, Brian C.; Banfield, Jillian F.
    Genome-reconstruction for eukaryotes from complex natural microbial communities
    In: Genome Research Vol. 28 (2018) Nr. 4, pp. 569 - 580
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Probst, Alexander J.; Banfield, Jillian F.
    Homologous Recombination and Transposon Propagation Shape the Population Structure of an Organism from the Deep Subsurface with Minimal Metabolism
    In: Genome Biology and Evolution Vol. 10 (2018) Nr. 4, pp. 1115 - 1119
    Online Full Text: dx.doi.org/ (Open Access)
  • Liu, Xiaobo; Li, Meng; Castelle, Cindy J; Probst, Alexander J.; Zhou, Zhichao; Pan, Jie; Liu, Yang; Banfield, Jillian F; Gu, Ji-Dong
    Insights into the ecology, evolution, and metabolism of the widespread Woesearchaeotal lineages
    In: Microbiome Vol. 6 (2018) 102
    Online Full Text: dx.doi.org/ (Open Access)
  • Sieber, Christian M.K.; Probst, Alexander J.; Sharrar, Allison; Thomas, Brian C.; Hess, Matthias; Tringe, Susannah G.; Banfield, Jillian F.
    Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy
    In: Nature Microbiology Vol. 3 (2018) Nr. 7, pp. 836 - 843
    Online Full Text: dx.doi.org/ (Open Access)
  • Starr, Evan P; Shi, Shengjing; Blazewicz, Steven J; Probst, Alexander J.; Herman, Donald J; Firestone, Mary K; Banfield, Jillian F
    Stable isotope informed genome-resolved metagenomics reveals that Saccharibacteria utilize microbially-processed plant-derived carbon.
    In: Microbiome Vol. 6 (2018) 122
    Online Full Text: dx.doi.org/ (Open Access)
  • Schulze-Makuch, Dirk; Wagner, Dirk; Kounaves, Samuel P.; Mangelsdorf, Kai; Devine, Kevin G.; De Vera, Jean-Pierre; Schmitt-Kopplin, Philippe; Grossart, Hans-Peter; Parro, Victor; Kaupenjohann, Martin; Galy, Albert; Schneider, Beate; Airo, Alessandro; Frösler, Jan; Davila, Alfonso F.; Arens, Felix L.; Cáceres, Luis; Cornejo, Francisco Solís; Carrizo, Daniel; Dartnell, Lewis; DiRuggiero, Jocelyne; Flury, Markus; Ganzert, Lars; Gessner, Mark O.; Grathwohl, Peter; Guan, Lisa; Heinz, Jacob; Hess, Matthias; Keppler, Frank; Maus, Deborah; McKay, Christopher P.; Meckenstock, Rainer; Montgomery, Wren; Oberlin, Elizabeth A.; Probst, Alexander J.; Sáenz, Johan S.; Sattler, Tobias; Schirmack, Janosch; Sephton, Mark A.; Schloter, Michael; Uhl, Jenny; Valenzuela, Bernardita; Vestergaard, Gisle; Wörmer, Lars; Zamorano, Pedro
    Transitory microbial habitat in the hyperarid Atacama Desert
    In: Proceedings of the National Academy of Sciences of the United States of America (PNAS) Vol. 115 (2018) Nr. 11, pp. 2670 - 2675
    Online Full Text: dx.doi.org/ (Open Access)
  • Bouma-Gregson, Keith; Olm, Matthew R.; Probst, Alexander J.; Anantharaman, Karthik; Power, Mary E.; Banfield, Jillian F.
    Microbial diversity and metabolic potential in cyanotoxin producing cyanobacterial mats throughout a river network
    (2018)
    Online Full Text: dx.doi.org/ (Open Access)

    • 2017

  • Probst, Alexander J.; Castelle, Cindy J.; Singh, Andrea; Brown, Christopher T.; Anantharaman, Karthik; Sharon, Itai; Hug, Laura A.; Burstein, David; Emerson, Joanne B.; Thomas, Brian C.; Banfield, Jillian F.
    Genomic resolution of a cold subsurface aquifer community provides metabolic insights for novel microbes adapted to high CO₂ concentrations
    In: Environmental Microbiology Vol. 19 (2017) Nr. 2, pp. 459 - 474
    Online Full Text: dx.doi.org/ (Open Access)
  • Moissl-Eichinger, Christine; Probst, Alexander J.; Birarda, Giovanni; Auerbach, Anna; Koskinen, Kaisa; Wolf, Peter; Holman, Hoi-Ying N.
    Human age and skin physiology shape diversity and abundance of Archaea on skin
    In: Scientific Reports Vol. 7 (2017) Nr. 1, 4039
    Online Full Text: dx.doi.org/ (Open Access)
  • Finstad, Kari M.; Probst, Alexander J.; Thomas, Brian C.; Andersen, Gary L.; Demergasso, Cecilia; Echeverría, Alex; Amundson, Ronald G.; Banfield, Jillian F.
    Microbial community structure and the persistence of cyanobacterial populations in salt crusts of the hyperarid atacama desert from genome-resolved Metagenomics
    In: Frontiers in Microbiology Vol. 8 (2017) 1435
    Online Full Text: dx.doi.org/ (Open Access)
  • Burstein, David; Harrington, Lucas B.; Strutt, Steven C.; Probst, Alexander J.; Anantharaman, Karthik; Thomas, Brian C.; Doudna, Jennifer A.; Banfield, Jillian F.
    New CRISPR-Cas systems from uncultivated microbes
    In: Nature Vol. 542 (2017) Nr. 7640, pp. 237 - 241
    Online Full Text: dx.doi.org/ (Open Access)
  • Hernsdorf, Alex W.; Amano, Yuki; Miyakawa, Kazuya; Ise, Kotaro; Suzuki, Yohey; Anantharaman, Karthik; Probst, Alexander J.; Burstein, David; Thomas, Brian C.; Banfield, Jillian F.
    Potential for microbial H 2 and metal transformations associated with novel bacteria and archaea in deep terrestrial subsurface sediments
    In: ISME Journal Vol. 11 (2017) Nr. 8, pp. 1915 - 1929
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Hu, Ping; Sun, Christine L.; Dubinsky, Eric A.; Sieber, Christian M. K.; Banfield, Jillian F.; Andersen, Gary L.
    Reply to delmont and eren : strain variants and population structure during the Deepwater Horizon oil spill
    In: Proceedings of the National Academy of Sciences of the United States of America (PNAS) Vol. 114 (2017) Nr. 43, pp. E8950 - E8952
    Online Full Text: dx.doi.org/ Online Full Text (Open Access)
  • Hu, Ping; Dubinsky, Eric A.; Probst, Alexander J.; Wang, Jian; Sieber, Christian M. K.; Tom, Lauren M.; Gardinali, Piero R.; Banfield, Jillian F.; Atlas, Ronald M.; Andersen, Gary L.
    Simulation of Deepwater Horizon oil plume reveals substrate specialization within a complex community of hydrocarbon degraders
    In: Proceedings of the National Academy of Sciences of the United States of America (PNAS) Vol. 114 (2017) Nr. 28, pp. 7432 - 7437
    Online Full Text: dx.doi.org/ (Open Access)
  • Birarda, Giovanni; Probst, Alexander J.; Holman, Hoi-Ying
    Rapid and label-free infrared imaging for microbial community screening and profiling [Patentschrift]
    (2017)
    Online Full Text

    • 2016

  • Hug, Laura A.; Baker, Brett J.; Anantharaman, Karthik; Brown, Christopher T.; Probst, Alexander J.; Castelle, Cindy J.; Butterfield, Cristina N.; Hernsdorf, Alex W.; Amano, Yuki; Ise, Kotaro; Suzuki, Yohey; Dudek, Natasha; Relman, David A.; Finstad, Kari M.; Amundson, Ronald; Thomas, Brian C.; Banfield, Jillian F.
    A new view of the tree of life
    In: Nature Microbiology Vol. 1 (2016) Nr. 5, 16048
    Online Full Text: dx.doi.org/ (Open Access)
  • Anantharaman, Karthik; Brown, Christopher T.; Burstein, David; Castelle, Cindy J.; Probst, Alexander J.; Thomas, Brian C.; Williams, Kenneth H.; Banfield, Jillian F.
    Analysis of five complete genome sequences for members of the class Peribacteria in the recently recognized Peregrinibacteria bacterial phylum
    In: PeerJ Vol. 2016 (2016) Nr. 1, e1607
    Online Full Text: dx.doi.org/ (Open Access)
  • Bird, Jordan T.; Baker, Brett J.; Probst, Alexander J.; Podar, Mircea; Lloyd, Karen G.
    Culture independent genomic comparisons reveal environmental adaptations for altiarchaeales
    In: Frontiers in Microbiology Vol. 7 (2016) 1221
    Online Full Text: dx.doi.org/ (Open Access)
  • Weikl, Fabian; Tischer, Christina; Probst, Alexander J.; Heinrich, Joachim; Markevych, Iana; Jochner, Susanne; Pritsch, Karin
    Fungal and bacterial communities in indoor dust follow different environmental determinants
    In: PLoS ONE Vol. 11 (2016) Nr. 4, e0154131
    Online Full Text: dx.doi.org/ (Open Access)
  • Burstein, David; Sun, Christine L.; Brown, Christopher T.; Sharon, Itai; Anantharaman, Karthik; Probst, Alexander J.; Thomas, Brian C.; Banfield, Jillian F.
    Major bacterial lineages are essentially devoid of CRISPR-Cas viral defence systems
    In: Nature Communications Vol. 7 (2016) 10613
    Online Full Text: dx.doi.org/ (Open Access)
  • Mayer, Teresa; Blachowicz, Adriana; Probst, Alexander J.; Vaishampayan, Parag; Checinska, Aleksandra; Swarmer, Tiffany; Leon, Pablo de; Venkateswaran, Kasthuri
    Microbial succession in an inflated lunar/Mars analog habitat during a 30-day human occupation
    In: Microbiome Vol. 4 (2016) 22
    Online Full Text: dx.doi.org/ (Open Access)
  • Butterfield, Cristina N.; Li, Zhou; Andeer, Peter F.; Spaulding, Susan; Thomas, Brian C.; Singh, Andrea; Hettich, Robert L.; Suttle, Kenwyn B.; Probst, Alexander J.; Tringe, Susannah G.; Northen, Trent; Pan, Chongle; Banfield, Jillian F.
    Proteogenomic analyses indicate bacterial methylotrophy and archaeal heterotrophy are prevalent below the grass root zone
    In: PeerJ Vol. 2016 (2016) Nr. 11, e2687
    Online Full Text: dx.doi.org/ (Open Access)
  • Anantharaman, Karthik; Brown, Christopher T.; Hug, Laura A.; Sharon, Itai; Castelle, Cindy J.; Probst, Alexander J.; Thomas, Brian C.; Singh, Andrea; Wilkins, Michael J.; Karaoz, Ulas; Brodie, Eoin L.; Williams, Kenneth H.; Hubbard, Susan S.; Banfield, Jillian F.
    Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
    In: Nature Communications Vol. 7 (2016) 13219
    Online Full Text: dx.doi.org/ (Open Access)
  • Tischer, Christina; Weikl, Fabian; Probst, Alexander J.; Standl, Marie; Heinrich, Joachim; Pritsch, Karin
    Urban dust microbiome : Impact on later atopy and wheezing
    In: Environmental Health Perspectives Vol. 124 (2016) Nr. 12, pp. 1919 - 1923
    Online Full Text: dx.doi.org/ (Open Access)
  • Moissl-Eichinger, Christine; Perras, Alexandra; Probst, Alexander J.
    Microbial nano-tool [Patentschrift]
    (2016)
    Online Full Text

    • 2015

  • Weinmaier, Thomas; Probst, Alexander J.; La Duc, Myron T.; Ciobanu, Doina; Cheng, Jan-Fang; Ivanova, Natalia; Rattei, Thomas; Vaishampayan, Parag
    A viability-linked metagenomic analysis of cleanroom environments : eukarya, prokaryotes, and viruses
    In: Microbiome Vol. 3 (2015) Nr. 1,
    Online Full Text: dx.doi.org/ (Open Access)
  • Miezeiewski, Matthew; Schnaufer, Todd; Muravsky, Michele; Wang, Su; Caro-Aguilar, Ivette; Secore, Susan; Thiriot, David S.; Hsu, Charlie; Rogers, Irene; Desantis, Todd; Kuczynski, Justin; Probst, Alexander J.; Chehoud, Christel; Steger, Rachel; Warrington, Janet; Bodmer, Jean-Luc; Heinrichs, Jon H.
    An in vitro culture model to study the dynamics of colonic microbiota in Syrian golden hamsters and their susceptibility to infection with Clostridium difficile
    In: ISME Journal Vol. 9 (2015) Nr. 2, pp. 321 - 332
    Online Full Text: dx.doi.org/ (Open Access)
  • Mahnert, Alexander; Vaishampayan, Parag; Probst, Alexander J.; Auerbach, Anna; Moissl-Eichinger, Christine; Venkateswaran, Kasthuri; Berg, Gabriele
    Cleanroom maintenance significantly reduces abundance but not diversity of indoor microbiomes
    In: PLoS ONE Vol. 10 (2015) Nr. 8, e0134848
    Online Full Text: dx.doi.org/ (Open Access)
  • Andrade, Karen; Logemann, Jörn; Heidelberg, Karla B; Emerson, Joanne B; Comolli, Luis R; Hug, Laura A; Probst, Alexander J.; Keillar, Angus; Thomas, Brian C; Miller, Christopher S; Allen, Eric E; Moreau, John W; Brocks, Jochen J; Banfield, Jillian F
    Metagenomic and lipid analyses reveal a diel cycle in a hypersaline microbial ecosystem
    In: ISME Journal Vol. 9 (2015) Nr. 12, pp. 2697 - 2711
    Online Full Text: dx.doi.org/
  • Checinska, Aleksandra; Probst, Alexander J.; Vaishampayan, Parag; White, James R.; Kumar, Deepika; Stepanov, Victor G.; Fox, George E.; Nilsson, Henrik R.; Pierson, Duane L.; Perry, Jay; Venkateswaran, Kasthuri
    Microbiomes of the dust particles collected from the International Space Station and Spacecraft Assembly Facilities
    In: Microbiome Vol. 3 (2015) Nr. 1,
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.
    Neue Archaeen aus der Tiefe setzen Treibhausgas um
    In: Biospektrum Vol. 21 (2015) Nr. 3, pp. 351
    Online Full Text: dx.doi.org/
  • Probst, Alexander J.; Weinmaier, Thomas; DeSantis, Todd Z.; Santo Domingo, Jorge W.; Ashbolt, Nicholas
    New perspectives on microbial community distortion after whole-genome amplification
    In: PLoS ONE Vol. 10 (2015) Nr. 5, 0124158
    Online Full Text: dx.doi.org/
  • Moissl-Eichinger, Christine; Auerbach, Anna K.; Probst, Alexander J.; Mahnert, Alexander; Tom, Lauren; Piceno, Yvette; Andersen, Gary L.; Venkateswaran, Kasthuri; Rettberg, Petra; Barczyk, Simon; Pukall, Rüdiger; Berg, Gabriele
    Quo vadis? : Microbial profiling revealed strong effects of cleanroom maintenance and routes of contamination in indoor environments
    In: Scientific Reports Vol. 5 (2015) 9156
    Online Full Text: dx.doi.org/ (Open Access)
  • Perras, Alexandra K.; Daum, Bertram; Ziegler, Christine; Takahashi, Lynelle K.; Ahmed, Musahid; Wanner, Gerhard; Klingl, Andreas; Leitinger, Gerd; Kolb-Lenz, Dagmar; Gribaldo, Simonetta; Auerbach, Anna; Mora, Maximilian; Probst, Alexander J.; Bellack, Annett; Moissl-Eichinger, Christine
    S-layers at second glance? : Altiarchaeal grappling hooks (hami) resemble archaeal S-layer proteins in structure and sequence
    In: Frontiers in Microbiology Vol. 6 (2015) 543
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Moissl-Eichinger, Christine
    “Altiarchaeales” : Uncultivated archaea from the subsurface
    In: Life Vol. 5 (2015) Nr. 2, pp. 1381 - 1395
    Online Full Text: dx.doi.org/ (Open Access)

    • 2014

  • Probst, Alexander J.; Weinmaier, Thomas; Raymann, Kasie; Perras, Alexandra; Emerson, Joanne B.; Rattei, Thomas; Wanner, Gerhard; Klingl, Andreas; Berg, Ivan A.; Yoshinaga, Marcos; Viehweger, Bernhard; Hinrichs, Kai-Uwe; Thomas, Brian C.; Meck, Sandra; Auerbach, Anna K.; Heise, Matthias; Schintlmeister, Arno; Schmid, Markus; Wagner, Michael; Gribaldo, Simonetta; Banfield, Jillian F.; Moissl-Eichinger, Christine
    Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface
    In: Nature Communications Vol. 5 (2014) 5497
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Birarda, Giovanni; Holman, Hoi-Ying N.; DeSantis, Todd Z.; Wanner, Gerhard; Andersen, Gary L.; Perras, Alexandra K.; Meck, Sandra; Völkel, Jörg; Bechtel, Hans A.; Wirth, Reinhard; Moissl-Eichinger, Christine
    Coupling genetic and chemical microbiome profiling reveals heterogeneity of archaeome and bacteriome in subsurface biofilms that are dominated by the same archaeal species
    In: PLoS ONE Vol. 9 (2014) Nr. 6, e99801
    Online Full Text: dx.doi.org/ (Open Access)
  • Perras, Alexandra K.; Wanner, Gerhard; Klingl, Andreas; Mora, Maximilian; Auerbach, Anna K.; Heinz, Veronika; Probst, Alexander J.; Huber, Harald; Rachel, Reinhard; Meck, Sandra; Moissl-Eichinger, Christine
    Grappling archaea: Ultrastructural analyses of an uncultivated, cold-loving archaeon, and its biofilm
    In: Frontiers in Microbiology Vol. 5 (2014) Nr. AUG, 397
    Online Full Text: dx.doi.org/ (Open Access)
  • Krebs, Jordan E.; Vaishampayan, Parag; Probst, Alexander J.; Tom, Lauren M.; Marteinsson, Viggó Thór; Andersen, Gary L.; Venkateswaran, Kasthuri
    Microbial Community Structures of Novel Icelandic Hot Spring Systems Revealed by PhyloChip G3 Analysis
    In: Astrobiology Vol. 14 (2014) Nr. 3, pp. 229 - 240
    Online Full Text: dx.doi.org/ (Open Access)
  • Bauermeister, Anja; Mahnert, Alexander; Auerbach, Anna; Böker, Alexander; Flier, Niwin; Weber, Christina; Probst, Alexander J.; Moissl-Eichinger, Christine; Haberer, Klaus
    Quantification of Encapsulated Bioburden in Spacecraft Polymer Materials by Cultivation-Dependent and Molecular Methods
    In: PLoS ONE Vol. 9 (2014) Nr. 4, e94265
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Lum, Pek Yee; John, Bettina; Dubinsky, Eric A.; Piceno, Yvette M.; Tom, Lauren M.; Andersen, Gary L.; He, Zhili; DeSantis, Todd Z.
    Microarray of 16S rRNA Gene Probes for Quantifying Population Differences Across Microbiome Samples
    In: Microarrays: current technology, innovations and applications / He, Zhili (Eds.) 2014

    • 2013

  • Probst, Alexander J.; Auerbach, Anna K.; Moissl-Eichinger, Christine;
    Neufeld, Josh (Eds.)
    Archaea on Human Skin
    In: PLoS ONE Vol. 8 (2013) Nr. 6, pp. e65388
    Online Full Text: dx.doi.org/ (Open Access)
  • Moissl-Eichinger, Christine; Pukall, Rüdiger; Probst, Alexander J.; Stieglmeier, Michaela; Schwendner, Petra; Mora, Maximilian; Barczyk, Simon; Bohmeier, Maria; Rettberg, Petra
    Lessons Learned from the Microbial Analysis of the Herschel Spacecraft during Assembly, Integration, and Test Operations
    In: Astrobiology Vol. 13 (2013) Nr. 12, pp. 1125 - 1139
    Online Full Text: dx.doi.org/
  • Vaishampayan, Parag; Probst, Alexander J.; La Duc, Myron T; Bargoma, Emilee; Benardini, James N; Andersen, Gary L; Venkateswaran, Kasthuri
    New perspectives on viable microbial communities in low-biomass cleanroom environments
    In: ISME Journal Vol. 7 (2013) Nr. 2, pp. 312 - 324
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Holman, Hoi-Ying N; DeSantis, Todd Z; Andersen, Gary L; Birarda, Giovanni; Bechtel, Hans A; Piceno, Yvette M; Sonnleitner, Maria; Venkateswaran, Kasthuri; Moissl-Eichinger, Christine
    Tackling the minority : sulfate-reducing bacteria in an archaea-dominated subsurface biofilm
    In: ISME Journal Vol. 7 (2013) Nr. 3, pp. 635 - 651
    Online Full Text: dx.doi.org/ (Open Access)

    • 2012

  • McDonald, Daniel; Price, Morgan N; Goodrich, Julia; Nawrocki, Eric P; DeSantis, Todd Z; Probst, Alexander J.; Andersen, Gary L; Knight, Rob; Hugenholtz, Philip
    An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
    In: ISME Journal Vol. 6 (2012) Nr. 3, pp. 610 - 618
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Mahnert, Alexander; Weber, Christina; Haberer, Klaus; Moissl-Eichinger, Christine
    Detecting inactivated endospores in fluorescence microscopy using propidium monoazide
    In: International Journal of Astrobiology Vol. 11 (2012) Nr. 2, pp. 117 - 123
    Online Full Text: dx.doi.org/ (Open Access)
  • Weiner, Agnes; Schopf, Simone; Wanner, Gerhard; Probst, Alexander J.; Wirth, Reinhard
    Positive, Neutral and Negative Interactions in Cocultures between Pyrococcus furiosus and Different Methanogenic Archaea
    In: Microbiology Insights Vol. 5 (2012)
    Online Full Text: dx.doi.org/ (Open Access)
  • Venkateswaran, K.; LaDuc, MT; Vaishampayan, P.; Osman, S.; Kwan, K.; Bargoma, E.; Probst, Alexander J.; Cooper, M.; Benardini, JN; Spry, JA
    Genetic Inventory Task : Final Report
    In: JPL Publication Pasadena Vol. 12-12 (2012) 117 S.

    • 2011

  • Cooper, Moogega; La Duc, Myron T.; Probst, Alexander J.; Vaishampayan, Parag; Stam, Christina; Benardini, James N.; Piceno, Yvette M.; Andersen, Gary L.; Venkateswaran, Kasthuri
    Comparison of Innovative Molecular Approaches and Standard Spore Assays for Assessment of Surface Cleanliness
    In: Applied and Environmental Microbiology Vol. 77 (2011) Nr. 15, pp. 5438 - 5444
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Facius, Rainer; Wirth, Reinhard; Wolf, Marco; Moissl-Eichinger, Christine
    Recovery of Bacillus Spore Contaminants from Rough Surfaces : a Challenge to Space Mission Cleanliness Control
    In: Applied and Environmental Microbiology Vol. 77 (2011) Nr. 5, pp. 1628 - 1637
    Online Full Text: dx.doi.org/ (Open Access)
  • Wirth, Reinhard; Bellack, Annett; Bertl, Markus; Bilek, Yvonne; Heimerl, Thomas; Herzog, Bastian; Leisner, Madeleine; Probst, Alexander J.; Rachel, Reinhard; Sarbu, Christina; Schopf, Simone; Wanner, Gerhard
    The Mode of Cell Wall Growth in Selected Archaea Is Similar to the General Mode of Cell Wall Growth in Bacteria as Revealed by Fluorescent Dye Analysis
    In: Applied and Environmental Microbiology Vol. 77 (2011) Nr. 5, pp. 1556 - 1562
    Online Full Text: dx.doi.org/ (Open Access)

    • 2010

  • Vaishampayan, Parag; Probst, Alexander J.; Krishnamurthi, Srinivasan; Ghosh, Sudeshna; Osman, Shariff; McDowall, Alasdair; Ruckmani, Arunachalam; Mayilraj, Shanmugam; Venkateswaran, Kasthuri
    Bacillus horneckiae sp. nov., isolated from a spacecraft-assembly clean room
    In: International Journal of Systematic and Evolutionary Microbiology (IJSEM) Vol. 60 (2010) Nr. 5, pp. 1031 - 1037
    Online Full Text: dx.doi.org/ (Open Access)
  • Hazen, Terry C.; Dubinsky, Eric A.; DeSantis, Todd Z.; Andersen, Gary L.; Piceno, Yvette M.; Singh, Navjeet; Jansson, Janet K.; Probst, Alexander J.; Borglin, Sharon E.; Fortney, Julian L.; Stringfellow, William T.; Bill, Markus; Conrad, Mark E.; Tom, Lauren M.; Chavarria, Krystle L.; Alusi, Thana R.; Lamendella, Regina; Joyner, Dominique C.; Spier, Chelsea; Baelum, Jacob; Auer, Manfred; Zemla, Marcin L.; Chakraborty, Romy; Sonnenthal, Eric L.; D'Haeseleer, Patrik; Holman, Hoi-Ying N.; Osman, Shariff; Lu, Zhenmei; Van Nostrand, Joy D.; Deng, Ye; Zhou, Jizhong; Mason, Olivia U.; D’haeseleer, Patrik
    Deep-sea oil plume enriches indigenous oil-degrading bacteria
    In: Science Vol. 330 (2010) Nr. 6001, pp. 204 - 208
    Online Full Text: dx.doi.org/ (Open Access)
  • Probst, Alexander J.; Vaishampayan, Parag; Osman, Shariff; Moissl-Eichinger, Christine; Andersen, Gary L.; Venkateswaran, Kasthuri
    Diversity of Anaerobic Microbes in Spacecraft Assembly Clean Rooms
    In: Applied and Environmental Microbiology Vol. 76 (2010) Nr. 9, pp. 2837 - 2845
    Online Full Text: dx.doi.org/ (Open Access)
  • Venkateswaran, Kasthuri J.; Probst, Alexander J.; Vaishampayan, Parang A.; Ghosh, Sudeshna; Osman, Shariff
    Isolation of Resistance-Bearing Microorganisms
    In: NASA Tech Briefs: Engineering Solutions for Design & Manufacturing (2010)
    Online Full Text
  • Probst, Alexander J.; Facius, Rainer; Wirth, Reinhard; Moissl-Eichinger, Christine
    Validation of a Nylon-Flocked-Swab Protocol for Efficient Recovery of Bacterial Spores from Smooth and Rough Surfaces
    In: Applied and Environmental Microbiology Vol. 76 (2010) Nr. 15, pp. 5148 - 5158
    Online Full Text: dx.doi.org/ (Open Access)