Manuel Kleiner
Metaproteomics, Microbiome, Symbiosis, Metagenomics, Microbial Physiology, Carbon Fixation Pathways
Works (137)
2026 article
A Minimal Medium for Culturing Maize Root-Associated Microbes Based on a Plant Growth Medium
Garrell, A.-K., Vintila, S., Phillip, H., Beck, A. E., & Kleiner, M. (2026, January 15). Phytobiomes Journal, Vol. 1.
open access via doi.org (publisher)2025 article
A Minimal Medium for Culturing Maize Root-Associated Microbes Based on a Plant Growth Medium
Garrell, A.-K., Vintila, S., Phillip, H., Beck, A. E., & Kleiner, M. (2025, July 7).
2025 article
Adaptations in gut Bacteroidales facilitate stable co-existence with their lytic bacteriophages
Cortés-Martín, A., Buttimer, C., Maier, J. L., Tobin, C. A., Draper, L. A., Ross, R. P., … Shkoporov, A. N. (2025, May 23). Gut Microbes, Vol. 17.
2025 article
Allograft Inflammation is Reduced with Normothermic Machine Perfusion in Intestinal Transplantation
Aguirre, C. M. K., Jorge, E. G., Schaaf, C., Ludwig, E., Poisson, L., Stewart, A., … Gonzalez, L. (2025, January 1). Intestinal Failure.
2025 article
Assessing the diversity and functional profile of the “microbial proteome” in fermented foods
Winkler, L., Awan, A., Rideout, N. M., Kleiner, M., & Rideout, N. (2025, November 19). BioRxiv (Cold Spring Harbor Laboratory).
2025 article
Comparative Genomics of the Endosymbiont Cardinium Causing Reproductive Manipulation in Encarsia Parasitoid Wasps
Schultz, D. L., Stouthamer, C. M., Kelly, S. E., Mathieson, O. L., Kleiner, M., Hunter, M. S., & Schmitz‐Esser, S. (2025, October 28). MicrobiologyOpen.
2025 article
Comparative Performance of Scribe and Database Search Engines in Metaproteomic Profiling of a Ground-Truth Microbiome Dataset
Rajczewski, A. T., Mehta, S., Wagner, R., Gabriel, W., Johnson, J., Do, K., … Jagtap, P. D. (2025, May 20).
2025 article
Comparative performance of Scribe and database search engines in metaproteomic profiling of a ground-truth microbiome dataset
Rajczewski, A. T., Mehta, S., Wagner, R., Gabriel, W., Johnson, J., Do, K., … Jagtap, P. D. (2025, October 22). Journal of Proteomics.
2025 article
Comprehensive evaluation of statistical approaches for differential metaproteomics
Hinzke, T., Kunath, B. J., Blakeley-Ruiz, J. A., Korenek, A., Vintila, S., Wilmes, P., & Kleiner, M. (2025, December 10). (Vol. 12). Vol. 12.
2025 article
Data‐Independent Acquisition Mass Spectrometry as a Tool for Metaproteomics: Interlaboratory Comparison Using a Model Microbiome
Rajczewski, A. T., Blakeley‐Ruiz, J. A., Meyer, A., Vintila, S., McIlvin, M. R., Bossche, T. V. D., … Jagtap, P. D. (2025, April 10). PROTEOMICS, Vol. 4.
2025 article
Dietary protein from different sources escapes host digestion and is differentially modified by gut microbiota
Awan, A., Bartlett, A., Blakeley-Ruiz, J. A., Richie, T., Theriot, C. M., & Kleiner, M. (2025, January 1). Food & Function.
2025 article
Dietary protein source alters gut microbiota composition and function
Blakeley-Ruiz, J. A., Bartlett, A., McMillan, A. S., Awan, A., Walsh, M. V., Meyerhoffer, A. K., … Kleiner, M. (2025, January 1). The ISME Journal, Vol. 19.
2025 article
Differential metaproteomics of bacteria grown in vitro and in planta reveals functions used during growth on maize roots
Garrell, A.-K., Cheadle, J., Crook, N., Pal, G., Septer, A. N., Wagner, M. R., … Kleiner, M. (2025, June 2).
2025 article
Diverse bacteriohemerythrin genes of Methylomonas denitrificans FJG1 provide insight into the survival and activity of methanotrophs in low oxygen ecosystems
Weiblen, C., Kits, K. D., Kleiner, M., Sauvageau, D., & Stein, L. Y. (2025, September 25). (C. M. Cavanaugh, Ed.). MBio, Vol. 9.
Ed(s): C. Cavanaugh
2025 article
Evaluation of Parallel Accumulation-Serial Fragmentation methods for metaproteomics using a model microbiome
Shreshta, R., Rajczewski, A. T., Do, K., Willets, M., Kleiner, M., Griffin, T. J., & Jagtap, P. D. (2025, August 15).
2025 article
Evaluation of statistical approaches for differential metaproteomics: Reproducible code
Hinzke, T., Kunath, B. J., Blakeley-Ruiz, J. A., Korenek, A., Vintila, S., Wilmes, P., & Kleiner, M. (2025, December 10). Zenodo (CERN European Organization for Nuclear Research).
2025 article
Evaluation of statistical approaches for differential metaproteomics: Reproducible code
Hinzke, T., Kunath, B. J., Blakeley-Ruiz, J. A., Korenek, A., Vintila, S., Wilmes, P., & Kleiner, M. (2025, December 10). Zenodo (CERN European Organization for Nuclear Research).
2025 article
How thoughtful experimental design can empower biologists in the omics era
Wagner, M. R., & Kleiner, M. (2025, August 6). Nature Communications, Vol. 16.
2025 article
In vitro demonstration and in planta characterization of a condensed, reverse TCA (crTCA) cycle
Wilson, N., Smith-Moore, C., Xu, Y., Edwards, B., Hovary, C. L., Li, K., … Sederoff, H. (2025, June 9). Frontiers in Plant Science, Vol. 16.
2025 article
Large Quantities of Bacterial DNA and Protein in Common Dietary Protein Source Used in Microbiome Studies
Bartlett, A., Blakeley‐Ruiz, J. A., Richie, T., Theriot, C. M., & Kleiner, M. (2025, February 21). PROTEOMICS, Vol. 2.
2025 article
Metaproteomics-based stable isotope fingerprinting links intestinal bacteria to their carbon source and captures diet-induced substrate switching
Mordant, A., Blakeley-Ruiz, J. A., & Kleiner, M. (2025, January 1). The ISME Journal, Vol. 19.
2025 article
Reduction of apoptosis and preservation of stem-cell proliferation in intestinal transplantation allografts with normothermic machine perfusion
McKinney-Aguirre, C., Goya-Jorge, E., Schaaf, C., Ludwig, E., Stewart, A., Veerasammy, B., … Gonzalez, L. (2025, January 1). Intestinal Failure.
2025 article
Root-secreted proteins: an underexplored component of root exudates
Pal, G., Wagner, M. R., & Kleiner, M. (2025, August 28). Trends in Plant Science.
2025 article
Source of dietary protein alters the abundance of proteases, intestinal epithelial and immune proteins both directly and via interactions with the gut microbiota
Awan, A., Bartlett, A., Blakeley-Ruiz, J. A., Richie, T., Ziegler, A., & Kleiner, M. (2025, January 9).
2025 article
The Interaction Between Abiotic and Biotic Soil Factors Modulates Heterosis Expression in Maize
Clouse, K. M., Ellis, M. L., Ford, N. E., Hostetler, R., Balint-Kurti, P. J., Kleiner, M., & Wagner, M. R. (2025, September 16). Phytobiomes Journal.
2025 article
The ecology, evolution, and physiology of Cardinium: a widespread heritable endosymbiont of invertebrates
Mathieson, O. L., Schultz, D. L., Hunter, M. S., Kleiner, M., Schmitz-Esser, S., & Doremus, M. R. (2025, January 1). FEMS Microbiology Reviews, Vol. 49.
2025 article
The microbiologist's guide to metaproteomics
Bossche, T. V. D., Armengaud, J., Benndorf, D., Blakeley‐Ruiz, J. A., Brauer, M., Cheng, K., … Initiative, T. M. (2025, May 6). IMeta, Vol. 5.
2024 article
A pilot study of metaproteomics and DNA metabarcoding as tools to assess dietary intake in humans
Petrone, B. L., Bartlett, A., Jiang, S., Korenek, A., Vintila, S., Tenekjian, C., … Kleiner, M. (2024, December 12). Food & Function, Vol. 12.
2024 article
Adaptations in gut Bacteroidales facilitate stable co-existence with their lytic bacteriophages
Cortés-Martín, A., Buttimer, C., Maier, J. L., Tobin, C. A., Draper, L. A., Ross, R. P., … Shkoporov, A. N. (2024, November 17).
2024 article
An intranuclear bacterial parasite of deep-sea mussels expresses apoptosis inhibitors acquired from its host
Porras, M. Á. G., Assié, A., Tietjen, M., Violette, M., Kleiner, M., Gruber-Vodicka, H., … Leisch, N. (2024, September 6). Nature Microbiology, Vol. 9.
2024 article
Community standards and future opportunities for synthetic communities in plant–microbiota research
Northen, T. R., Kleiner, M., Torres, M., Kovács, Á. T., Nicolaisen, M. H., Krzyżanowska, D. M., … Garrido-Oter, R. (2024, October 30). Nature Microbiology, Vol. 9, pp. 2774–2784.
2024 article
Data-Independent Acquisition Mass Spectrometry as a Tool for Metaproteomics: Interlaboratory Comparison Using a Model Microbiome
Rajczewski, A. T., Blakeley-Ruiz, J. A., Meyer, A., Vintila, S., McIlvin, M. R., Bossche, T. V. D., … Jagtap, P. D. (2024, September 22).
2024 article
Dietary protein from different sources escapes host digestion and is differentially modified by gut microbiota
Awan, A., Bartlett, A., Blakeley-Ruiz, J. A., Richie, T., Theriot, C. M., & Kleiner, M. (2024, June 27).
2024 article
Drought stress homogenizes maize growth responses to diverse natural soil microbiomes
Swift, J. F., Kolp, M. R., Carmichael, A., Ford, N. E., Hansen, P. M., Sikes, B. A., … Wagner, M. R. (2024, July 18). Plant and Soil, Vol. 7.
2024 article
Effective Seed Sterilization Methods Require Optimization Across Maize Genotypes
Parnell, J. J., Pal, G., Awan, A., Vintila, S., Houdinet, G., Hawkes, C. V., … Kleiner, M. (2024, April 22). Phytobiomes Journal, Vol. 7.
2024 article
Enterococcal quorum-controlled protease alters phage infection
Sheriff, E. K., Salvato, F., Andersen, S. E., Chatterjee, A., Kleiner, M., & Duerkop, B. A. (2024, January 1). FEMS Microbes, Vol. 5.
2024 article
Genomic and proteomic characterization of sulfate-reducing symbionts of gutless marine annelids
Grace, D. A., Kleiner, M., Mankowski, A., Cifuentes-Anticevic, J., Violette, M. J., Anda, V. D., … Liebeke, M. (2024, December 9).
2024 article
IPD3, a master regulator of arbuscular mycorrhizal symbiosis, affects genes for immunity and metabolism of non-host Arabidopsis when restored long after its evolutionary loss
Hornstein, E. D., Charles, M., Franklin, M., Edwards, B., Vintila, S., Kleiner, M., & Sederoff, H. (2024, February 18). Plant Molecular Biology, Vol. 114.
2024 article
Meta-omics reveals role of photosynthesis in Microbially Induced Carbonate Precipitation at a CO2-rich Geyser
Violette, M., Hyland, E., Burgener, L., Ghosh, A., Montoya, B., & Kleiner, M. (2024, July 20).
2024 article
Meta-omics reveals role of photosynthesis in microbially induced carbonate precipitation at a CO2-rich geyser
Violette, M. J., Hyland, E., Burgener, L., Ghosh, A., Montoya, B. M., & Kleiner, M. (2024, January 1). ISME Communications, Vol. 4.
2024 article
Metabolically-versatile Ca. Thiodiazotropha symbionts of the deep-sea lucinid clam Lucinoma kazani have the genetic potential to fix nitrogen
Ratinskaia, L., Malavin, S., Zvi-Kedem, T., Vintila, S., Kleiner, M., & Rubin-Blum, M. (2024, April 5).
2024 article
Metabolically-versatile Ca. Thiodiazotropha symbionts of the deep-sea lucinid clam Lucinoma kazani have the genetic potential to fix nitrogen
Ratinskaia, L., Malavin, S., Zvi-Kedem, T., Vintila, S., Kleiner, M., & Rubin-Blum, M. (2024, January 1). ISME Communications, Vol. 4.
2024 article
Metaproteomics and DNA metabarcoding as tools to assess dietary intake in humans
Petrone, B. L., Bartlett, A., Jiang, S., Korenek, A., Vintila, S., Tenekjian, C., … Kleiner, M. (2024, April 10).
2024 article
Pseudo-pac site sequences used by phage P22 in generalized transduction of Salmonella
Maier, J. L., Gin, C., Callahan, B., Sheriff, E. K., Duerkop, B. A., & Kleiner, M. (2024, June 24). (P. Secor, Ed.). PLoS Pathogens, Vol. 20.
Ed(s): P. Secor
2024 article
Stable isotope fingerprinting can directly link intestinal microorganisms with their carbon source and captures diet-induced substrate switching in vivo
Mordant, A., Blakeley-Ruiz, J. A., & Kleiner, M. (2024, December 11).
2023 article
De novo phytosterol synthesis in animals
Michellod, D., Bien, T., Birgel, D., Violette, M., Kleiner, M., Fearn, S., … Liebeke, M. (2023, May 4). Science, Vol. 380, pp. 520–526.
2023 article
Effective seed sterilization methods require optimization across maize genotypes
Parnell, J. J., Pal, G., Awan, A., Vintila, S., Houdinet, G., Hawkes, C. V., … Kleiner, M. (2023, December 15).
2023 article
Environmental legacy effects impact maize growth and microbiome assembly under drought stress
Swift, J. F., Kolp, M. R., Carmichael, A., Ford, N. E., Hansen, P. M., Sikes, B. A., … Wagner, M. R. (2023, April 12).
2023 article
Evaluation of ready-to-use freezer stocks of a synthetic microbial community for maize root colonization
Parnell, J. J., Vintila, S., Tang, C., Wagner, M. R., & Kleiner, M. (2023, May 10).
2023 article
Evaluation of ready-to-use freezer stocks of a synthetic microbial community for maize root colonization
Parnell, J. J., Vintila, S., Tang, C., Wagner, M. R., & Kleiner, M. (2023, December 12). (K. L. Hockett, Ed.). Microbiology Spectrum, Vol. 12.
Ed(s): K. Hockett
2023 article
Large Quantities of Bacterial DNA and Protein in Common Dietary Protein Source Used in Microbiome Studies
Bartlett, A., Blakeley-Ruiz, J. A., Richie, T., Theriot, C. M., & Kleiner, M. (2023, December 7).
2023 article
Mechanism of high energy efficiency of carbon fixation by sulfur-oxidizing symbionts revealed by single-cell analyses and metabolic modeling
Kleiner, M., Polerecky, L., Lott, C., Bergin, C., Häusler, S., Liebeke, M., … Dubilier, N. (2023, November 26).
2023 article
Metabolic handoffs between multiple symbionts may benefit the deep-sea bathymodioline mussels
Zvi-Kedem, T., Vintila, S., Kleiner, M., Tchernov, D., & Rubin-Blum, M. (2023, February 10).
2023 article
Metabolic handoffs between multiple symbionts may benefit the deep-sea bathymodioline mussels
Zvi-Kedem, T., Vintila, S., Kleiner, M., Tchernov, D., & Rubin-Blum, M. (2023, May 20). ISME Communications, Vol. 3.
2023 article
Re-engineering a lost trait: IPD3 , a master regulator of arbuscular mycorrhizal symbiosis, affects genes for immunity and metabolism of non-host Arabidopsis when restored long after its evolutionary loss
Hornstein, E. D., Charles, M., Franklin, M., Edwards, B., Vintila, S., Kleiner, M., & Sederoff, H. (2023, March 7).
2023 article
Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes
Kleiner, M., Kouris, A., Violette, M., Grace, D. A., Liu, Y., Korenek, A., … Strous, M. (2023, February 8). Microbiome, Vol. 11.
2022 article
De novo phytosterol synthesis in animals
Michellod, D., Bien, T., Birgel, D., Jensen, M., Kleiner, M., Fearn, S., … Liebeke, M. (2022, April 22). (Vol. 4). Vol. 4.
2022 article
Considerations for constructing a protein sequence database for metaproteomics
Blakeley-Ruiz, J. A., & Kleiner, M. (2022, January 1). Computational and Structural Biotechnology Journal, Vol. 20, pp. 937–952.
Contributors: J. Blakeley-Ruiz n
2022 article
Dietary protein and the intestinal microbiota: An understudied relationship
Bartlett, A., & Kleiner, M. (2022, October 9). IScience, p. [""].
2022 article
Elucidating Plant-Microbe-Environment Interactions Through Omics-Enabled Metabolic Modelling Using Synthetic Communities
Beck, A. E., Kleiner, M., & Garrell, A.-K. (2022, June 20). Frontiers in Plant Science, p. [""].
2022 article
Evaluation of Protein Extraction Methods for Metaproteomic Analyses of Root-Associated Microbes
Salvato, F., Vintila, S., Finkel, O. M., Dangl, J. L., & Kleiner, M. (2022, July 25). Molecular Plant-Microbe Interactions, Vol. 35, pp. 977–988.
2022 article
Fidelity varies in the symbiosis between a gutless marine worm and its microbial consortium
Sato, Y., Wippler, J., Wentrup, C., Ansorge, R., Sadowski, M., Gruber-Vodicka, H., … Kleiner, M. (2022, October 22). Microbiome, Vol. 10.
2021 article
Activation of the Type VI Secretion System in the Squid Symbiont Vibrio fischeri Requires the Transcriptional Regulator TasR and the Structural Proteins TssM and TssA
Smith, S., Salvato, F., Garikipati, A., Kleiner, M., & Septer, A. N. (2021, August 9). Journal of Bacteriology, Vol. 11.
2021 article
Bacterial symbiont subpopulations have different roles in a deep-sea symbiosis
Hinzke, T., Kleiner, M., Meister, M., Schlüter, R., Hentschker, C., Pané-Farré, J., … Markert, S. (2021, January 5). ELife, Vol. 10.
2021 article
Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows
Bossche, T. V. D., Kunath, B. J., Schallert, K., Schäpe, S. S., Abraham, P. E., Armengaud, J., … Muth, T. (2021, December 15). Nature Communications, Vol. 12.
2021 article
Evaluation of RNA later as a Field-Compatible Preservation Method for Metaproteomic Analyses of Bacterium-Animal Symbioses
Jensen, M., Wippler, J., & Kleiner, M. (2021, October 27). (J. A. Gralnick, Ed.). Microbiology Spectrum, Vol. 9.
Ed(s): J. Gralnick
2021 article
Evaluation of RNA later ™ as a field-compatible preservation method for metaproteomic analyses of bacteria-animal symbioses
Jensen, M., Wippler, J., & Kleiner, M. (2021, June 17). (Vol. 6). Vol. 6.
2021 article
Evaluation of Sample Preservation and Storage Methods for Metaproteomics Analysis of Intestinal Microbiomes
Mordant, A., & Kleiner, M. (2021, December 15). (C. M. Khursigara, Ed.). Microbiology Spectrum, Vol. 9.
Ed(s): C. Khursigara
2021 article
Fidelity varies in the symbiosis between a gutless marine worm and its microbial consortium
Sato, Y., Wippler, J., Wentrup, C., Ansorge, R., Sadowski, M., Gruber-Vodicka, H., … Kleiner, M. (2021, January 30).
2021 article
Five key aspects of metaproteomics as a tool to understand functional interactions in host-associated microbiomes
Salvato, F., Hettich, R. L., & Kleiner, M. (2021, February 25). (D. A. Hogan, Ed.). PLoS Pathogens, Vol. 17, p. e1009245.
Ed(s): D. Hogan
2021 article
Life in the Dark: Phylogenetic and Physiological Diversity of Chemosynthetic Symbioses
Sogin, E. M., Kleiner, M., Borowski, C., Gruber-Vodicka, H. R., & Dubilier, N. (2021, August 5). Annual Review of Microbiology.
2021 journal article
Microbe-dependent heterosis in maize
Proceedings of the National Academy of Sciences, 118(30), e2021965118.
2021 article
Proteome and strain analysis of cyanobacterium Candidatus “Phormidium alkaliphilum” reveals traits for success in biotechnology
Ataeian, M., Vadlamani, A., Haines, M., Mosier, D., Dong, X., Kleiner, M., … Hawley, A. K. (2021, November 6). IScience, Vol. 24, p. 103405.
2021 article
Repeated losses and gains of bacterial symbionts in gutless marine annelids over 150 million years
Mankowski, A., Kleiner, M., Erséus, C., Leisch, N., Sato, Y., Volland, J.-M., … Gruber-Vodicka, H. R. (2021, April 28).
2021 article
Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes
Kleiner, M., Kouris, A., Jensen, M., Grace, D. A., Liu, Y., Korenek, A., … Strous, M. (2021, March 30). (Vol. 3). Vol. 3.
2020 article
Environmental Viscosity Modulates Interbacterial Killing during Habitat Transition
Speare, L., Smith, S., Salvato, F., Kleiner, M., & Septer, A. N. (2020, February 3). MBio, Vol. 11.
2020 article
High-Quality Draft Genome Sequences of Two Deltaproteobacterial Endosymbionts, Delta1a and Delta1b, from the Uncultured Sva0081 Clade, Assembled from Metagenomes of the Gutless Marine Worm Olavius algarvensis
Sato, Y., Wippler, J., Wentrup, C., Dubilier, N., & Kleiner, M. (2020, April 15). Microbiology Resource Announcements, Vol. 9.
2020 article
High-Quality Draft Genome Sequences of the Uncultured Delta3 Endosymbiont (Deltaproteobacteria) Assembled from Metagenomes of the Gutless Marine Worm Olavius algarvensis
MICROBIOLOGY RESOURCE ANNOUNCEMENTS, Vol. 9.
2020 article
High-Quality Draft Genome Sequences of the Uncultured Delta3 Endosymbiont (Deltaproteobacteria) Assembled from Metagenomes of the Gutless Marine Worm Olavius algarvensis
Sato, Y., Wippler, J., Wentrup, C., Woyke, T., Dubilier, N., & Kleiner, M. (2020, July 29). (F. J. Stewart, Ed.). Microbiology Resource Announcements, Vol. 7.
Ed(s): F. Stewart
2020 article
Metabolic differences between symbiont subpopulations in the deep-sea tubeworm Riftia pachyptila
Hinzke, T., Kleiner, M., Meister, M., Schlüter, R., Hentschker, C., Pané-Farré, J., … Markert, S. (2020, April 9).
2020 article
Microbe-dependent heterosis in maize
Wagner, M. R., Tang, C., Salvato, F., Clouse, K. M., Bartlett, A., Sermons, S., … Kleiner, M. (2020, May 7). (Vol. 5). Vol. 5.
2020 article
Microbial DNA on the move: sequencing based detection and analysis of transduced DNA in pure cultures and microbial communities
Kleiner, M., Bushnell, B., Sanderson, K. E., Hooper, L. V., & Duerkop, B. A. (2020, January 16).
2020 article
Transductomics: sequencing-based detection and analysis of transduced DNA in pure cultures and microbial communities
Kleiner, M., Bushnell, B., Sanderson, K. E., Hooper, L. V., & Duerkop, B. A. (2020, November 15). Microbiome, Vol. 8.
2019 article
A shared core microbiome in soda lakes separated by large distances
Zorz, J. K., Sharp, C., Kleiner, M., Gordon, P. M. K., Pon, R. T., Dong, X., & Strous, M. (2019, September 17). Nature Communications, Vol. 10.
2019 article
Chemosynthetic symbiont with a drastically reduced genome serves as primary energy storage in the marine flatworm Paracatenula
Jäckle, O., Seah, B. K. B., Tietjen, M., Leisch, N., Liebeke, M., Kleiner, M., … Gruber-Vodicka, H. R. (2019, April 8). Proceedings of the National Academy of Sciences, Vol. 116, pp. 8505–8514.
2019 article
Comparative proteomics of related symbiotic mussel species reveals high variability of host–symbiont interactions
Ponnudurai, R., Heiden, S. E., Sayavedra, L., Hinzke, T., Kleiner, M., Hentschker, C., … Markert, S. (2019, November 4). The ISME Journal.
2019 journal article
Genetic evidence for two carbon fixation pathways (the Calvin-Benson-Bassham Cycle and the Reverse Tricarboxylic Acid Cycle) in symbiotic and free-living bacteria
MSphere, 4(1), e00394–18.
Ed(s): S. Hallam
2019 article
Horizontal acquisition of a patchwork Calvin cycle by symbiotic and free-living Campylobacterota (formerly Epsilonproteobacteria)
Assié, A., Leisch, N., Meier, D. V., Gruber-Vodicka, H., Tegetmeyer, H. E., Meyerdierks, A., … Petersen, J. M. (2019, September 27). The ISME Journal, Vol. 14, pp. 104–122.
2019 article
Host-Microbe Interactions in the Chemosynthetic Riftia pachyptila Symbiosis
Hinzke, T., Kleiner, M., Breusing, C., Felbeck, H., Häsler, R., Sievert, S. M., … Markert, S. (2019, December 16). (D. Distel & E. G. Ruby, Eds.). MBio, Vol. 10.
2019 article
Host-microbe interactions in the chemosynthetic Riftia pachyptila symbiosis
Hinzke, T., Kleiner, M., Breusing, C., Felbeck, H., Häsler, R., Sievert, S. M., … Markert, S. (2019, May 27). (Vol. 5). Vol. 5.
2019 article
Metaproteomics: Much More than Measuring Gene Expression in Microbial Communities
Kleiner, M. (2019, May 20). MSystems, Vol. 4.
2019 article
More Is Not Always Better: Evaluation of 1D and 2D-LC-MS/MS Methods for Metaproteomics
Hinzke, T., Kouris, A., Hughes, R.-A., Strous, M., & Kleiner, M. (2019, February 14). Frontiers in Microbiology, Vol. 10.
2019 article
Sulfur-Oxidizing Symbionts without Canonical Genes for Autotrophic CO 2 Fixation
Seah, B. K. B., Antony, C. P., Huettel, B., Zarzycki, J., Borzyskowski, L. S., Erb, T. J., … Gruber-Vodicka, H. R. (2019, June 24). (S. J. Giovannoni, Ed.). MBio, Vol. 10.
Ed(s): S. Giovannoni
2019 article
Sulfur-oxidizing symbionts without canonical genes for autotrophic CO 2 fixation
Seah, B. K. B., Antony, C. P., Huettel, B., Zarzycki, J., Borzyskowski, L. S., Erb, T. J., … Gruber-Vodicka, H. R. (2019, February 5). (Vol. 2). Vol. 2.
2019 article
The Trichoplax microbiome: the simplest animal lives in an intimate symbiosis with two intracellular bacteria
Gruber-Vodicka, H. R., Leisch, N., Kleiner, M., Hinzke, T., Liebeke, M., McFall-Ngai, M., … Dubilier, N. (2019, March 5). (Vol. 3). Vol. 3.
2019 article
Two intracellular and cell type-specific bacterial symbionts in the placozoan Trichoplax H2
Gruber-Vodicka, H. R., Leisch, N., Kleiner, M., Hinzke, T., Liebeke, M., McFall-Ngai, M., … Dubilier, N. (2019, June 10). Nature Microbiology, Vol. 4, pp. 1465–1474.
2018 article
A metaproteomics method to determine carbon sources and assimilation pathways of species in microbial communities
Kleiner, M., Dong, X., Hinzke, T., Wippler, J., Thorson, E., Mayer, B., & Strous, M. (2018, January 9). (Vol. 1). Vol. 1.
2018 journal article
Author Correction: Chemosynthetic symbionts of marine invertebrate animals are capable of nitrogen fixation
Nature Microbiology, 3(8), 961–961.
2018 journal article
Centrifugation-based enrichment of bacterial cell populations for metaproteomic studies on bacteria-invertebrate symbioses
Springer, 1841, 319–334.
Ed(s): D. Becher
2018 article
Comparative Proteomics of Three Species of Ammonia-Oxidizing Bacteria
Zorz, J. K., Kozlowski, J. A., Stein, L. Y., Strous, M., & Kleiner, M. (2018, May 14). Frontiers in Microbiology.
2018 article
Horizontal acquisition of a patchwork Calvin cycle by symbiotic and free-living Campylobacterota (formerly Epsilonproteobacteria)
Assié, A., Leisch, N., Meier, D. V., Gruber-Vodicka, H., Tegetmeyer, H. E., Meyerdirks, A., … Petersen, J. M. (2018, October 8). (Vol. 10). Vol. 10.
2018 article
Metaproteomics method to determine carbon sources and assimilation pathways of species in microbial communities
Kleiner, M., Dong, X., Hinzke, T., Wippler, J., Thorson, E., Mayer, B., & Strous, M. (2018, May 29). Proceedings of the National Academy of Sciences, Vol. 6, pp. E5576–5584.
2018 article
Murine colitis reveals a disease-associated bacteriophage community
Duerkop, B. A., Kleiner, M., Paez-Espino, D., Zhu, W., Bushnell, B., Hassell, B., … Hooper, L. V. (2018, July 20). Nature Microbiology, Vol. 3, pp. 1023–1031.
2018 article
Synergy of Sodium Nitroprusside and Nitrate in Inhibiting the Activity of Sulfate Reducing Bacteria in Oil-Containing Bioreactors
Fida, T. T., Voordouw, J., Ataeian, M., Kleiner, M., Okpala, G., Mand, J., & Voordouw, G. (2018, May 16). Frontiers in Microbiology, Vol. 9.
2017 article
Assessing species biomass contributions in microbial communities via metaproteomics
Kleiner, M., Thorson, E., Sharp, C. E., Dong, X., Liu, D., Li, C., & Strous, M. (2017, November 10). Nature Communications, Vol. 4.
2017 article
Assessing species biomass contributions in microbial communities via metaproteomics
Kleiner, M., Thorson, E., Sharp, C. E., Dong, X., Liu, D., Li, C., & Strous, M. (2017, April 25). (Vol. 4). Vol. 4.
2017 article
Fast and Simple Analysis of MiSeq Amplicon Sequencing Data with MetaAmp
Dong, X., Kleiner, M., Sharp, C. E., Thorson, E., Li, C., Liu, D., & Strous, M. (2017, August 3). Frontiers in Microbiology, Vol. 8.
2017 article
Fast and simple analysis of MiSeq amplicon sequencing data with MetaAmp
Dong, X., Kleiner, M., Sharp, C. E., Thorson, E., Li, C., Liu, D., & Strous, M. (2017, April 27). BioRxiv (Cold Spring Harbor Laboratory), Vol. 4.
2017 article
Genome sequence of the sulfur-oxidizing Bathymodiolus thermophilus gill endosymbiont
Ponnudurai, R., Sayavedra, L., Kleiner, M., Heiden, S. E., Thürmer, A., Felbeck, H., … Markert, S. (2017, September 2). Standards in Genomic Sciences.
2017 dataset
Metaproteomics of phototrophic biomats from two soda lakes in the Canadian Rocky Mountains
http://www.ebi.ac.uk/pride/archive/projects/PXD006343
2017 journal article
Normalization of metatranscriptomic and metaproteomic data for differential gene expression analyses: The importance of accounting for organism abundance
PeerJ Preprints, 5, e2846v1.
2017 article
Normalization of metatranscriptomic and metaproteomic data for differential gene expression analyses: The importance of accounting for organism abundance
Kleiner, M. (2017, March 2). (Vol. 3). Vol. 3.
2017 dataset
Quantification of mock microbial communities with metagenomes, 16S rRNA gene amplicons and metaproteomics
http://www.ebi.ac.uk/pride/archive/projects/PXD006118
2017 dataset
Re-analysis of an ultra-deep and quantitative saliva proteome
http://www.ebi.ac.uk/pride/archive/projects/PXD006366
2017 journal article
Short-chain alkanes fuel mussels and sponge Cycloclasticus symbionts from deep-sea gas and oil seeps
Nature Microbiology, 2, 17093.
2016 dataset
Bathymodiolus azoricus host-symbiont proteomics
http://www.ebi.ac.uk/pride/archive/projects/PXD004061
2016 journal article
Chemosynthetic sulphur-oxidizing symbionts of marine invertebrate animals are capable of nitrogen fixation
Nature Microbiology, 2, 16195.
2016 journal article
Closely coupled evolutionary history of ecto- and endosymbionts from two distantly-related animal phyla
Molecular Ecology, 25(13), 3203–3223.
2016 dataset
Differential proteomics of Lenisia limosa (Breviatea) and its epibiotic Arcobacter symbiont
http://www.ebi.ac.uk/pride/archive/projects/PXD003275
2016 journal article
Environmental Breviatea harbor mutualistic Arcobacter epibionts
Nature, 534(7606), 254–258.
2016 article
Metabolic and physiological interdependencies in the Bathymodiolus azoricus symbiosis
Ponnudurai, R., Kleiner, M., Sayavedra, L., Petersen, J. M., Moche, M., Otto, A., … Markert, S. (2016, November 1). The ISME Journal, Vol. 11, pp. 463–477.
2016 dataset
Proteomics of Candidatus Thiodiazotropha endoloripes, the chemosynthetic symbiont of the lucinid clam Loripes lucinalis from the Bay of Fetovaia
http://www.ebi.ac.uk/pride/archive/projects/PXD004536
2016 dataset
Proteomics of Cycloclasticus endosymbiont of deep-sea mussel Bathymodiolus heckerae from Campeche Knolls, southern Gulf of Mexico
http://www.ebi.ac.uk/pride/archive/projects/PXD005351
2016 article
Spontaneous Reversions of an Evolutionary Trait Loss Reveal Regulators of a Small RNA That Controls Multicellular Development in Myxobacteria
Yu, Y.-T. N., Kleiner, M., & Velicer, G. J. (2016, September 13). (C. W. Mullineaux, Ed.). Journal of Bacteriology, Vol. 198, pp. 3142–3151.
Ed(s): C. Mullineaux
2016 article
Transcriptomic and proteomic insights into innate immunity and adaptations to a symbiotic lifestyle in the gutless marine worm Olavius algarvensis
Wippler, J., Kleiner, M., Lott, C., Gruhl, A., Abraham, P. E., Giannone, R. J., … Dubilier, N. (2016, November 21). BMC Genomics, Vol. 17.
2016 dataset
Transcriptomic and proteomic insights into innate immunity and adaptations to a symbiotic lifestyle in the gutless marine worm Olavius algarvensis
https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=77bbe652de0b4439b9a9e89016f99c93
2015 journal article
Abundant toxin-related genes in the genomes of beneficial symbionts from deep-sea hydrothermal vent mussels
ELife, 4, e07966.
2015 journal article
Evaluation of methods to purify virus-like particles for metagenomic sequencing of intestinal viromes
BMC Genomics, 16(7), 7.
2015 journal article
MiL-FISH: Multi-labelled oligonucleotides for fluorescence in situ hybridisation improve visualization of bacterial cells
Applied and Environmental Microbiology, 82(1), 62–70.
2015 journal article
Use of carbon monoxide and hydrogen by a bacteria-animal symbiosis from seagrass sediments
Environmental Microbiology, 17(12), 5023–5035.
2014 journal article
Identification and activity of acetate-assimilating bacteria in diffuse fluids venting from deep-sea hydrothermal systems
FEMS Microbiology Ecology, 90(3), 731–746.
2013 article
Metaproteomics Reveals Abundant Transposase Expression in Mutualistic Endosymbionts
Kleiner, M., Young, J. C., Shah, M., VerBerkmoes, N. C., & Dubilier, N. (2013, June 19). MBio, Vol. 4.
Contributors: * , J. Young*, M. Shah *, N. VerBerkmoes* & N. Dubilier *
2012 article
Convergent and divergent evolution of metabolism in sulfur-oxidizing symbionts and the role of horizontal gene transfer
Current Opinion in Microbiology, Vol. 15, pp. 621–631.
2012 journal article
Convergent and divergent evolution of metabolism in sulfur-oxidizing symbionts and the role of horizontal gene transfer
Current Opinion in Microbiology, 15(5), 621–631.
2012 article
Metaproteomics of a gutless marine worm and its symbiotic microbial community reveal unusual pathways for carbon and energy use
Kleiner, M., Wentrup, C., Lott, C., Teeling, H., Wetzel, S., Young, J., … Dubilier, N. (2012, April 18). Proceedings of the National Academy of Sciences, Vol. 109, pp. E1173–E1182.
Contributors: * , C. Wentrup*, C. Lott *, H. Teeling *, S. Wetzel*, J. Young*, Y. Chang *, M. Shah *
2011 article
Status quo in physiological proteomics of the uncultured Riftia pachyptila endosymbiont
Markert, S., Gardebrecht, A., Felbeck, H., Sievert, S. M., Klose, J., Becher, D., … Schweder, T. (2011, June 7). PROTEOMICS, Vol. 11, pp. 3106–3117.
Contributors: S. Markert *, A. Gardebrecht*, H. Felbeck*, S. Sievert *, J. Klose*, D. Becher *, D. Albrecht *, A. Thurmer
2011 article
TheOlavius algarvensisMetagenome Revisited: Lessons Learned from the Analysis of the Low‐Diversity Microbial Consortium of a Gutless Marine Worm
Kleiner, M., Woyke, T., Ruehland, C., & Dubilier, N. (2011, September 16). Handbook of Molecular Microbial Ecology II, pp. 319–333.
Employment
Updated: September 24th, 2023 12:41
2017 - present