Publications

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 Trejos-Espeleta JC, Marin-Jaramillo JP, Schmidt SK, Sommers P, Bradley JA, Orsi W (2024) Principal role of fungi in soil carbon stabilization during early pedogenesis in the high Arctic.  PNAS   121 (28) e2402689121.   (https://doi.org/10.1073/pnas.240268912)

Coskun OK, Gomez-Saez GV, Beren M, Özcan D, Günay SD, Elkin V, Hoşgörmez H, Einsiedl F, Eisenreich W, Orsi W (2024) Quantifying genome-specific carbon fixation in a 750-meter deep subsurface hydrothermal microbial community. FEMS Microbiology Ecology   100(5): fiae062.   (https://doi.org/10.1093/femsec/fiae062)

Helmbrecht V, Weingart M, Klein F, Braun D, Orsi W (2023) White and green rust chimneys accumulate RNA in a ferruginous chemical garden. Geobiology 21: 758-769.    (DOI:10.1111/gbi.12572)

Weingart M, Chen S, Donat C, Helmbrecht V, Orsi W, Braun D, Alim K (2023) Alkaline vents recreated in two dimensions to study pH gradients, precipitation morphology, and molecular accumulation. Science Advances 9: eadi1884.  (DOI: 10.1126/sciadv.adi1884)

Coskun OK, Gomez-Saez GV, Beren M, Ozcan D, Hosgormez H, Einsiedl F, Orsi W (2023) Carbon metabolism and biogeography of candidate phylum “Candidatus Bipolaricaulota” in geothermal environments of Biga Peninsula, Turkey. Frontiers in Extreme Microbiology 14: 1063139.   (https://doi.org/10.3389/fmicb.2023.1063139)

Mincer TJ, Bos ER, Zettler ER, Zhao S, Asbun AA, Orsi W, Guzzetta VS, Amaral-Zettler LA (2023) Sargasso Sea Vibrio bacteria: Underexplored potential pathovars in a perturbed habitat. Water Research 242: 120033.   (https://doi.org/10.1016/j.watres.2023.120033)

Orsi W (2023) A rapid method for measuring ATP+ADP+AMP in marine sediment. Environmental Microbiology 12: 1549-1558.  (doi: 10.1111/1462-2920.16359)

Orsi W and Inagaki F (2023) Decoding geobiological evolution from microbiomes.  Science Advances 9: eadg5448.   (DOI: 10.1126/sciadv.adg5448)

Orsi W (2022) Quantitative microbial ecology: future challenges and opportunities. Environmental Microbiology 25: 91-96.   (https://doi.org/10.1111/1462-2920.16204)

Vuillemin A, Coskun OK, Orsi W (2022) Microbial activities and selection from surface ocean to subseafloor on the Namibian continental shelf. Applied and Environmental Microbiology 10: e0021622.   (doi: 10.1128/aem.00216-22)

Vargas S, Leiva L, Eitel M, Curdt F, Rohde S, Arnold C, Nickel M, Schupp P, Orsi W, Adamska M, Wörheide G (2022) Body-plan reorganization in a sponge correlates with microbiome change. Molecular Biology and Evolution 40: msad138.    (https://doi.org/10.1093/molbev/msad138)

Michaelis T, Wunderlich A, Coskun OK, Orsi W, Baumann T, Einsiedl F (2022) High resolution vertical biogeochemical profiles in the hyporheic zone reveal insights into microbial methane cycling. Biogeosciences 19: 4551-4569.   (https://doi.org/10.5194/bg-19-4551-2022)

Orsi W, Vuillemin, Coskun OK, Rodriguez P, Oertel Y, Niggemann J, Mohrholz V, Gomes-Saez G (2022) Carbon assimilating fungi from surface ocean to subseafloor revealed by coupled phylogenetic and stable isotope analysis. The ISME Journal 16: 1245-1261.    (https://doi.org/10.1038/s41396-021-01169-5)

Coskun OK, Vuillemin A, Schubotz F, Klein F, Sichel SE, Eisenreich W, Orsi W (2022) Quantifying the effects of hydrogen on carbon assimilation in a seafloor microbial community associated with ultramafic rocks. The ISME Journal 16: 257-271.   (https://doi.org/10.1038/s41396-021-01066-x)

Orsi W, Magritsch T, Vargas S, Coskun OK, Vuillemin A, Höhna S, Wörheide G, D’Hondt S, Shapiro J, Carini P (2021) Genome evolution in clonal bacterial populations isolated from million-year-old subseafloor sediment. mBio 12: e01150-21.   (https://doi.org/10.1128/mbio.01150-21)

Garber AI, Ramirez GA, McAllister SM, Orsi W, D’Hondt S (2021) Cryptic metabolisms in anoxic subseafloor sediment. Environmental Microbiology Reports 13: 696-701.   ( doi: 10.1111/1758-2229.12983)

Puzenat V, Escartin J, Martel JE, Barreyre T, Le Moine S,  Paraskevi N, Gracias N, Allemand P, Antoniou V, Coskun O, Garcia R, Grandjean P, Jørgensen SL, Magi L, Mandalakis M, Orsi W, Polymenakou P, Schouw A, Vallicrosa G, Vlasopoulos O. (2021) Shallow-water hydrothermalism at Milos (Greece): Nature, distribution, heat fluxes and impact on ecosystems. Marine Geology 438; 106521.    ( https://doi.org/10.1016/j.margeo.2021.106521 )

E Capo, C Giguet-Covex, A Rouillard, K Nota, P D Heintzman, A Vuillemin, D Ariztegui, F Arnaud, S Belle, S Bertilsson, C Bigler, R Bindler, AG Brown, CL Clarke, SE Crump, D Debroas, G Englund, GF Ficetola, RE Garner, J Gauthier, I Gregory-Eaves, L Heinecke, U Herzschuh, A Ibrahim, V Kisand, KH Kjær, Y Lammers, J Littlefair, E Messager, ME Monchamp, F Olajos, W Orsi, MW Pedersen, DP Rijal, J Rydberg, T Spanbauer, KR Stoof-Leichsenring, P Taberlet, L Talas, C Thomas, DA Walsh, Y Wang, E Willerslev, A van Woerkom, H H Zimmermann, MJL Coolen, LS Epp, I Domaizon, IG Alsos, L Parducci (2021) Lake sedimentary DNA research on past terrestrial and aquatic biodiversity: Overview and recommendations. Quarternary 4: 6.   (https://doi.org/10.3390/quat4010006)

Vuillemin A, Kerrigan Z, D’Hondt S, Orsi W (2020) Exploring the abundance, metabolic potential, and gene expression of subseafloor Chloroflexi in million-year-old oxic and anoxic abyssal clay. FEMS Microbiology Ecology 96: fiaa223.   (https://doi.org/10.1093/femsec/fiaa223)

Vuillemin A, Vargas S, Coskun O, Pockalny R, Murray R, Smith DC, D’Hondt S, Orsi W (2020) Atribacteria reproducing over millions of years in the Atlantic abyssal subseafloor. mBio 11:e01937-20.   (https://doi.org/10.1128/mbio.01937-20)

Orsi W, Morard R, Vuillemin A, Eitel M, Wörheide G, Milucka J, Kucera M. (2020) Anaerobic metabolism of Foraminifera thriving below the seafloor. The ISME Journal 14: 2580-2594.   (https://doi.org/10.1038/s41396-020-0708-1)

Orsi W, Vuillemin A, Rodriguez P, Coskun O, Gomez G, Mohrholz V, Lavik G, Ferdelman T 

(2020) Metabolic activity analyses demonstrate that Lokiarchaeon exhibits

homoacetogenesis in sulfidic marine sediments. Nature Microbiology 5: 248–255.   (https://doi.org/10.1038/s41564-019-0630-3)

Einsiedl F, Wunderlich A, Sebilo M, Coskun ÖK, Orsi W, Mayer B (2020) Biogeochemical evidence of anaerobic methane oxidation and anaerobic ammonium oxidation in a stratified lake using stable isotopes. Biogeosciences  17: 5149–5161.   (https://doi.org/10.5194/bg-17-5149-2020)

Orsi W, Schink B, Buckel W, Martin WF (2020) Physiological limits to life in anoxic subseafloor sediment. FEMS Microbiology Reviews 2: 219-231.   (https://doi.org/10.1093/femsre/fuaa004)

LaRowe DE, Arndt S, Bradley JA, Estes ER, Hoarfrost A, Lang SQ, Lloyd KG, Mahmoudi N, Orsi W, Shah Walter SR, Steen AD, Zhao R (2020) The fate of organic carbon in marine sedements – New insights from recent data and analysis. Earth-Science Reviews 204: 103146.    (https://doi.org/10.1016/j.earscirev.2020.103146)

Girard EB, Kaliwoda M, Schmahl WW, Wörheide G, Orsi W (2020) Biodegradation of textile  waste by marine bacterial communities enhanced by light. Environmental Microbiology Reports 12: 406-418.   (doi: 10.1111/1758-2229.12856)

Vuillemin A, Wankel SD, Coskun OK, Magritsch T, Vargas S, Estes ER, Spivack AJ, Smith 

DC, Pockalny R, Murray RW, D’Hondt S, Orsi W* (2019) Archaea dominate oxic

subseafloor communities over multimillion-year timescales. Science Advances 5:

eaaw4108.   (DOI: 10.1126/sciadv.aaw4108)

Coskun O, Özen V, Wankel S, Orsi W (2019) Quantifying population specific growth in  benthic bacterial communities under low oxygen using H218O. The ISME Journal 13, 

1546-1559.   (https://doi.org/10.1038/s41396-019-0373-4)

Ortega-Arbulu AS, Pichler M, Vuillemin A, Orsi W (2019) Effects of organic matter and low oxygen on the mycobenthos in a coastal lagoon. Environmental Microbiology 21: 374-

388.  ( doi:10.1111/1462-2920.14469  )

Orsi W*(2018) Ecology and evolution of seafloor and subseafloor microbial communities.  Nature Reviews Microbiology 16, 671-683. [Recommended by Faculty of 1000]    (https://doi.org/10.1038/s41579-018-0046-8)

Coskun OK, Pichler M, Vargas S, Gilder S, Orsi W (2018) Linking uncultivated microbial  populations with benthic carbon turnover using quantitative stable isotope probing.  Applied and Environmental Microbiology 84(18): e01083-18.   (https://doi.org/10.1128/AEM.01083-18)

Pichler M, Coskun O, Ortega AS, Conci N, Wörheide G, Vargas S, Orsi W (2018) A 16S rRNA gene sequencing and analysis protocol for the Illumina MiniSeq platform. MicrobiologyOpen e00611.    (doi: 10.1002/mbo3.611)

Vuillemin A, Horn F, Friese A, Winkel M, Alawi M, Wagner D, Henny C, Orsi W, Crowe SA,  Kallmeyer J (2018) Metabolic potential of microbial communities from ferruginous  sediments. Environmental Microbiology 20, 4297-4313.   (doi: 10.1111/1462-2920.14343)

Vuillemin A, Ariztegui D, Horn F, Kallmeyer J, Orsi W, the PASADO Science Team (2018) Microbial community composition along a 50,000 year lacustrine sediment sequence. FEMS Microbiology Ecology 94, fiy029.  (DOI:10.1093/femsec/fiy029 )

Kose SH, Grice K, Orsi W, Ballal M, Coolen MJL (2018) Metagenomics of pigmented and cholesterol gallstones: the putative role of bacteria. Scientific Reports 8, 11218.     (DOI:               10.1038/s41598-018-29571-8  )

Giosan L, Orsi W, Coolen M, Wuchter C, Dunlea AG, Thirumalai K, Munoz S, Clift PD, Donnelly JP, Galy V, Fuller DQ (2018) Neoglacial climate anomalies and the Harappan Metamorphosis. Climate of the Past 14, 1669-1686.   (https://doi.org/10.5194/cp-14-1669-2018)

More KD, Orsi W, Galy V, Giosan L, He L, Grice K, Coolen MJL (2018) A 43 kyr record of  protist communities and their response to oxygen minimum zone variability in the  Northeastern Arabian Sea. Earth and Planetary Science Letters 496, 248-256.

Orsi W, Richards TA, Francis WR (2018) Predicted microbial secretomes and their target substrates in marine sediments. Nature Microbiology 3: 32-37.   (https://doi.org/10.1038/s41564-017-0047-9)

Orsi W, Wilken S, del Campo J, Heger T, James E, Richards TA, Keeling PJ, Worden AZ,  Santoro AE (2018) Identifying protist consumers of photosynthetic picoeukaryotes in the  surface ocean using stable isotope probing. Environmental Microbiology 20, 815-827   (doi: 10.1111/1462-2920.14018)

He K, Gilder SA, Orsi W, Zhao X, Petersen N (2017) Constant flux of spatial niche partitioning through high-resolution sampling of magnetotactic bacteria. Applied and Environmental Microbiology 83(20) e01382-17.   (https://doi.org/10.1128/AEM.01382)

Orsi W, Coolen MJ, Wuchter C, He L, More KD, Irigoien X, Chust G, Johnson C, Hemingway JD, Lee M, Galy V, Giosan L (2017) Climate oscillations reflected in the microbiome of Arabian Sea sediments. Scientific Reports 7: 6040.    (https://doi.org/10.1038/s41598-017-05590-9)

Orsi W, Jørgensen BB, Biddle JF (2016) Transcriptional analysis of sulfate reducing and chemolithoautotrophic sulfur oxidizing bacteria in the deep subseafloor. Environmental Microbiology Reports 8, 452-460.   (DOI: 10.1111/1758-2229.12387  )

Orsi W, Smith JM, Liu S, Liu Z, Sakamoto CM, Wilken S, Poirier C, Richards TA, Keeling PJ, Worden AZ, Santoro AE (2016) Diverse, uncultivated bacteria and archaea underlying the cycling of dissolved protein in the ocean. The ISME Journal 10, 2158-2173. [Recommended by Faculty of 1000]   (https://doi.org/10.1038/ismej.2016.20)