Research output per year
Research output per year
- 37 results
Search results
-
2025
detectEVE: Fast, sensitive and precise detection of endogenous viral elements in genomic data
Brait, N., Hackl, T. & Lequime, S., 12-Feb-2025, (E-pub ahead of print) In: Molecular Ecology Resources. 8 p., e14083.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile5 Downloads (Pure) -
Distinct horizontal gene transfer potential of extracellular vesicles versus viral-like particles in marine habitats
Biller, S. J., Ryan, M. G., Li, J., Burger, A., Eppley, J. M., Hackl, T. & DeLong, E. F., 3-Mar-2025, In: Nature Communications. 16, 1, 12 p., 2126.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile2 Downloads (Pure) -
2024
A tale of caution: How endogenous viral elements affect virus discovery in transcriptomic data
Brait, N., Hackl, T., Morel, C., Exbrayat, A., Gutierrez, S. & Lequime, S., 8-Feb-2024, In: Virus Evolution. 10, 1, 28 p., vead088.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile4 Citations (Scopus)91 Downloads (Pure) -
Community context influences the conjugation efficiency of Escherichia coli
Bustamante, M., Koopman, F., Martens, J., Brons, J. K., DelaFuente, J., Hackl, T., Kuipers, O. P., van Doorn, G. S. & de Vos, M. G. J., 27-Jul-2024, In: FEMS Microbes. 5, xtae023.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile53 Downloads (Pure) -
Development of a genetic system for Haloferax gibbonsii LR2-5, model host for haloarchaeal viruses.
Tittes, C., Nijland, J., Schoentag, A. M. C., Hackl, T., Di Cianni, N., Marchfelder, A. & Quax, T. E. F., Apr-2024, In: Applied and environmental microbiology. 90, 4, 16 p., e0012924.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile85 Downloads (Pure) -
Diverse rhizosphere-associated Pseudomonas genomes from along a Wadden Island salt marsh transition zone
Mei, S., Wang, M., Salles, J. F. & Hackl, T., Dec-2024, In: Scientific Data. 11, 1, 7 p., 1140.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile29 Downloads (Pure) -
Endogenous virophages are active and mitigate giant virus infection in the marine protist Cafeteria burkhardae
Koslová, A., Hackl, T., Bade, F., Kasikovic, A. S., Barenhoff, K., Schimm, F., Mersdorf, U. & Fischer, M. G., 12-Mar-2024, In: Proceedings of the National Academy of Sciences. 121, 11, 11 p., e2314606121.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile6 Citations (Scopus)87 Downloads (Pure) -
Genome sequencing and molecular networking analysis of the wild fungus Anthostomella pinea reveal its ability to produce a diverse range of secondary metabolites
Iacovelli, R., He, T., Allen, J. L., Hackl, T. & Haslinger, K., 3-Jan-2024, In: Fungal Biology and Biotechnology. 11, 1, 18 p., 1.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile5 Citations (Scopus)83 Downloads (Pure) -
Novel isolates expand the physiological diversity of Prochlorococcus and illuminate its macroevolution
Becker, J. W., Pollak, S., Berta-Thompson, J. W., Becker, K. W., Braakman, R., Dooley, K. D., Hackl, T., Coe, A., Arellano, A., LeGault, K. N., Berube, P. M., Biller, S. J., Cubillos-Ruiz, A., Van Mooy, B. A. S. & Chisholm, S. W., 13-Nov-2024, In: mBio. 15, 11, 15 p., e0349723.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile8 Downloads (Pure) -
2023
Archaeal host cell recognition and viral binding of HFTV1 to its Haloferax host
Schwarzer, S., Hackl, T., Oksanen, H. M. & Quax, T. E. F., 19-Feb-2023, In: mBio. 14, 1, 14 p., e0183322.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile5 Citations (Scopus)124 Downloads (Pure) -
Chitin utilization by marine picocyanobacteria and the evolution of a planktonic lifestyle
Capovilla, G., Braakman, R., Fournier, G. P., Hackl, T., Schwartzman, J., Lu, X., Yelton, A., Longnecker, K., Soule, M. C. K., Thomas, E., Swarr, G., Mongera, A., Payette, J. G., Castro, K. G., Waldbauer, J., Kujawinski, E. B., Cordero, O. & Chisholm, S. W. C. O. P., 16-May-2023, In: Proceedings of the National Academy of Sciences. 120, 20, e2213271120.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile6 Citations (Scopus)120 Downloads (Pure) -
Draft genomes of three closely related low light-adapted Prochlorococcus
Berta-Thompson, J. W., Thomas, E., Cubillos-Ruiz, A., Hackl, T., Becker, J. W., Coe, A., Biller, S. J., Berube, P. M. & Chisholm, S. W., 24-Feb-2023, In: BMC genomic data. 24, 1, p. 11 11.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile67 Downloads (Pure) -
Genomic and metabolomic analysis of the endophytic fungus Fusarium sp. VM-40 isolated from the medicinal plant Vinca minor
He, T., Li, X., Iacovelli, R., Hackl, T. & Haslinger, K., 27-Jun-2023, In: Journal of fungi (Basel, Switzerland). 9, 7, 26 p., 704.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile4 Citations (Scopus)111 Downloads (Pure) -
Large-scale invasion of unicellular eukaryotic genomes by integrating DNA viruses
Bellas, C., Hackl, T., Plakolb, M.-S., (Lounkova), K., Fischer, M. & Sommaruga, R., 18-Apr-2023, In: Proceedings of the National Academy of Sciences. 120, 16, 10 p., e2300465120.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile26 Citations (Scopus)156 Downloads (Pure) -
Novel and unusual genes for nitrogen and metal cycling in Planctomycetota- and KSB1-affiliated metagenome-assembled genomes reconstructed from a marine subsea tunnel
Suarez, C., Hackl, T., Wilen, B.-M., Persson, F., Hagelia, P., Jetten, M. S. M. & Dalcin Martins, P., 8-Jun-2023, In: FEMS Microbiology Letters. 370, p. 1-10 10 p., fnad049.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile9 Citations (Scopus)51 Downloads (Pure) -
Novel integrative elements and genomic plasticity in ocean ecosystems
Hackl, T., Laurenceau, R., Ankenbrand, M. J., Bliem, C., Cariani, Z., Thomas, E., Dooley, K. D., Arellano, A. A., Hogle, S. L., Berube, P., Leventhal, G. E., Luo, E., Eppley, J. M., Zayed, A. A., Beaulaurier, J., Stepanauskas, R., Sullivan, M. B., DeLong, E. F., Biller, S. J. & Chisholm, S. W., 5-Jan-2023, In: Cell. 186, 1, p. 47-62.e16Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile35 Citations (Scopus)298 Downloads (Pure) -
Updated virophage taxonomy and distinction from polinton-like viruses
Roux, S., Fischer, M., Hackl, T., Katz, L. A., Schulz, F. & Yutin, N., Jan-2023, In: Biomolecules. 13, 2, 21 p., 204.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile19 Citations (Scopus)104 Downloads (Pure) -
2022
Genetic engineering of marine cyanophages reveals integration but not lysogeny in T7-like cyanophages
Shitrit, D., Hackl, T., Laurenceau, R., Raho, N., Carlson, M. C. G., Sabehi, G., Schwartz, D. A., Chisholm, S. W. & Lindell, D., Feb-2022, In: ISME Journal. 16, 2, p. 488-499 12 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile24 Citations (Scopus)31 Downloads (Pure) -
Phosphonate production by marine microbes: Exploring new sources and potential function
Acker, M., Hogle, S. L., Berube, P. M., Hackl, T., Coe, A., Stepanauskas, R., Chisholm, S. W. & Repeta, D. J., 15-Mar-2022, In: Proceedings of the National Academy of Sciences of the United States of America. 119, 11, 12 p., 2113386119.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile38 Citations (Scopus)22 Downloads (Pure) -
Siderophores as an iron source for picocyanobacteria in deep chlorophyll maximum layers of the oligotrophic ocean
Hogle, S. L., Hackl, T., Bundy, R. M., Park, J., Satinsky, B., Hiltunen, T., Biller, S., Berube, P. M. & Chisholm, S. W., Jun-2022, In: ISME Journal. 16, p. 1636–1646 11 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile24 Citations (Scopus)79 Downloads (Pure) -
2021
Gene expression during bacterivorous growth of a widespread marine heterotrophic flagellate
Massana, R., Labarre, A., Lopez-Escardo, D., Obiol, A., Bucchini, F., Hackl, T., Fischer, M. G., Vandepoele, K., Tikhonenkov, D. V., Husnik, F. & Keeling, P. J., Jan-2021, In: ISME Journal. 15, 1, p. 154-167 14 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile13 Citations (Scopus)8 Downloads (Pure) -
MOSGA 2: Comparative genomics and validation tools
Martin, R., Dressler, H., Hattab, G., Hackl, T., Fischer, M. G. & Heider, D., 2021, In: Computational and Structural Biotechnology Journal. 19, p. 5504-5509 6 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile7 Citations (Scopus)726 Downloads (Pure) -
Virophages and retrotransposons colonize the genomes of a heterotrophic flagellate
Hackl, T., Duponchel, S., Barenhoff, K., Weinmann, A. & Fischer, M. G., 26-Oct-2021, In: eLife. 10, 20 p., 72674.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile33 Citations (Scopus)42 Downloads (Pure) -
2020
Four high-quality draft genome assemblies of the marine heterotrophic nanoflagellate Cafeteria roenbergensis
Hackl, T., Martin, R., Barenhoff, K., Duponchel, S., Heider, D. & Fischer, M. G., 21-Jan-2020, In: Scientific Data. 7, 1, 9 p., 29.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile16 Citations (Scopus)10 Downloads (Pure) -
Genomes of the Venus flytrap and close relatives unveil the roots of plant carnivory
Palfalvi, G., Hackl, T., Terhoeven, N., Shibata, T. F., Nishiyama, T., Ankenbrand, M., Becker, D., Foerster, F., Freund, M., Iosip, A., Kreuzer, I., Saul, F., Kamida, C., Fukushima, K., Shigenobu, S., Tamada, Y., Adamec, L., Hoshi, Y., Ueda, K. & Winkelmann, T. & 7 others, , 22-Jun-2020, In: Current Biology. 30, 12, p. 2312-2320.e5 14 p.Research output: Contribution to journal › Article › Academic › peer-review
Open AccessFile58 Citations (Scopus)31 Downloads (Pure) -
MOSGA: Modular Open-Source Genome Annotator
Martin, R., Hackl, T., Hattab, G., Fischer, M. G. & Heider, D., 1-Dec-2020, In: Bioinformatics. 36, 22-23, p. 5514-5515 2 p.Research output: Contribution to journal › Article › Academic › peer-review
11 Citations (Scopus) -
2018
chloroExtractor: Extraction and assembly of the chloroplast genome from whole genome shotgun data
Ankenbrand, M. J., Pfaff, S., Terhoeven, N., Qureischi, M., Gündel, M., Weiß, C. L., Hackl, T. & Förster, F., 16-Jan-2018, In: The Journal of Open Source Software. 3, 21, 3 p., 464.Research output: Contribution to journal › Article › Academic › peer-review
Open Access -
Improving draft genome contiguity with reference-derived in silico mate-pair libraries
Grau, J. H., Hackl, T., Koepfli, K. P. & Hofreiter, M., 21-Apr-2018, In: Gigascience. 7, 5, 6 p., giy029.Research output: Contribution to journal › Article › Academic › peer-review
Open Access18 Citations (Scopus) -
Marine microbial metagenomes sampled across space and time
Biller, S. J., Berube, P. M., Dooley, K., Williams, M., Satinsky, B. M., Hackl, T., Hogle, S. L., Coe, A., Bergauer, K., Bouman, H. A., Browning, T. J., De Corte, D., Hassler, C., Hulston, D., Jacquot, J. E., Maas, E. W., Reinthaler, T., Sintes, E., Yokokawa, T. & Chisholm, S. W., 2018, In: Scientific Data. 5, 7 p., 180176.Research output: Contribution to journal › Article › Academic › peer-review
Open Access127 Citations (Scopus) -
reper: Genome-wide identification, classification and quantification of repetitive elements without an assembled genome
Terhoeven, N., Schultz, J. & Hackl, T., 8-Feb-2018, In: The Journal of Open Source Software. 3, 22, 4 p., 527.Research output: Contribution to journal › Article › Academic › peer-review
Open Access -
Single cell genomes of Prochlorococcus, Synechococcus, and sympatric microbes from diverse marine environments
Berube, P. M., Biller, S. J., Hackl, T., Hogle, S. L., Satinsky, B. M., Becker, J. W., Braakman, R., Collins, S. B., Kelly, L., Berta-Thompson, J., Coe, A., Bergauer, K., Bouman, H. A., Browning, T. J., De Corte, D., Hassler, C., Hulata, Y., Jacquot, J. E., Maas, E. W. & Reinthaler, T. & 5 others, , 2018, In: Scientific Data. 5, 11 p., 180154.Research output: Contribution to journal › Article › Academic › peer-review
Open Access61 Citations (Scopus) -
2017
AliTV-interactive visualization of whole genome comparisons
Ankenbrand, M. J., Hohlfeld, S., Hackl, T. & Foerster, F., 12-Jun-2017, In: Peerj computer science. 3, 10 p., 116.Research output: Contribution to journal › Article › Academic › peer-review
61 Citations (Scopus) -
Metagenomic binning of a marine sponge microbiome reveals unity in defense but metabolic specialization
Slaby, B. M., Hackl, T., Horn, H., Bayer, K. & Hentschel, U., 1-Nov-2017, In: ISME Journal. 11, 11, p. 2465-2478 14 p.Research output: Contribution to journal › Article › Academic › peer-review
Open Access114 Citations (Scopus) -
2016
Host genome integration and giant virus-induced reactivation of the virophage mavirus
Fischer, M. G. & Hackl, T., 7-Dec-2016, In: Nature. 540, 7632, p. 288-291 4 p.Research output: Contribution to journal › Article › Academic › peer-review
102 Citations (Scopus) -
2014
proovread: Large-scale high-accuracy PacBio correction through iterative short read consensus
Hackl, T., Hedrich, R., Schultz, J. & Förster, F., 28-May-2014, In: Bioinformatics. 30, 21, p. 3004-3011 8 p.Research output: Contribution to journal › Article › Academic › peer-review
375 Citations (Scopus) -
2012
ITS2 database IV: interactive taxon sampling for internal transcribed spacer 2 based phylogenies
Koetschan, C., Hackl, T., Müller, T., Wolf, M., Förster, F. & Schultz, J., Jun-2012, In: Molecular Phylogenetics and Evolution. 63, 3, p. 585-588 4 p.Research output: Contribution to journal › Article › Academic › peer-review
132 Citations (Scopus) -
The ITS2 Database
Merget, B., Koetschan, C., Hackl, T., Förster, F., Dandekar, T., Müller, T., Schultz, J. & Wolf, M., 12-Mar-2012, In: Journal of visualized experiments : JoVE. 61, 5 p., e3806 |.Research output: Contribution to journal › Article › Academic › peer-review
Open Access55 Citations (Scopus)