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Steven Ahrendt - Publications

Affiliations: 
2011-2015 Genetics, Genomics, Bioinformatics University of California, Riverside, Riverside, CA, United States 
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26 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Jagtap SS, Liu J-J, Walukiewicz HE, Riley R, Ahrendt S, Koriabine M, Cobaugh K, Salamov A, Yoshinaga Y, Ng V, Daum C, Grigoriev IV, Slininger PJ, Dien BS, Jin Y-S, et al. Draft genome sequence of NRRL Y-64008, an oleaginous yeast capable of growing on lignocellulosic hydrolysates. Microbiology Resource Announcements. e0043523. PMID 37982613 DOI: 10.1128/MRA.00435-23  0.374
2023 Jagtap SS, Liu J-J, Walukiewicz HE, Pangilinan J, Lipzen A, Ahrendt S, Koriabine M, Cobaugh K, Salamov A, Yoshinaga Y, Ng V, Daum C, Grigoriev IV, Slininger PJ, Dien BS, et al. Near-complete genome sequence of NRRL Y-64009, an oleaginous yeast capable of growing on lignocellulosic hydrolysates. Microbiology Resource Announcements. e0042623. PMID 37906027 DOI: 10.1128/MRA.00426-23  0.342
2023 Sahu N, Indic B, Wong-Bajracharya J, Merényi Z, Ke HM, Ahrendt S, Monk TL, Kocsubé S, Drula E, Lipzen A, Bálint B, Henrissat B, Andreopoulos B, Martin FM, Bugge Harder C, et al. Vertical and horizontal gene transfer shaped plant colonization and biomass degradation in the fungal genus Armillaria. Nature Microbiology. PMID 37550506 DOI: 10.1038/s41564-023-01448-1  0.31
2023 Ettinger CL, Ostovar T, Yacoub M, Ahrendt S, Hice RH, Federici BA, Stajich JE. Genomes and transcriptomes help unravel the complex life cycle of the blastoclad fungus, , an obligate parasite of mosquitoes and microcrustaceans. Mycologia. 1-18. PMID 37494633 DOI: 10.1080/00275514.2023.2228182  0.573
2023 Sierra-Patev S, Min B, Naranjo-Ortiz M, Looney B, Konkel Z, Slot JC, Sakamoto Y, Steenwyk JL, Rokas A, Carro J, Camarero S, Ferreira P, Molpeceres G, Ruiz-Dueñas FJ, Serrano A, ... ... Ahrendt S, et al. A global phylogenomic analysis of the shiitake genus . Proceedings of the National Academy of Sciences of the United States of America. 120: e2214076120. PMID 36848567 DOI: 10.1073/pnas.2214076120  0.337
2022 Ahrendt SR, Mondo SJ, Haridas S, Grigoriev IV. MycoCosm, the JGI's Fungal Genome Portal for Comparative Genomic and Multiomics Data Analyses. Methods in Molecular Biology (Clifton, N.J.). 2605: 271-291. PMID 36520399 DOI: 10.1007/978-1-0716-2871-3_14  0.399
2022 Chang Y, Wang Y, Mondo S, Ahrendt S, Andreopoulos W, Barry K, Beard J, Benny GL, Blankenship S, Bonito G, Cuomo C, Desiro A, Gervers KA, Hundley H, Kuo A, et al. Evolution of zygomycete secretomes and the origins of terrestrial fungal ecologies. Iscience. 25: 104840. PMID 35996588 DOI: 10.1016/j.isci.2022.104840  0.55
2022 Jagtap SS, Liu JJ, Walukiewicz HE, Pangilinan J, Lipzen A, Ahrendt S, Koriabine M, Cobaugh K, Salamov A, Yoshinaga Y, Ng V, Daum C, Grigoriev IV, Slininger PJ, Dien BS, et al. Near-Complete Genome Sequence of Zygosaccharomyces rouxii NRRL Y-64007, a Yeast Capable of Growing on Lignocellulosic Hydrolysates. Microbiology Resource Announcements. e0005022. PMID 35442079 DOI: 10.1128/mra.00050-22  0.392
2022 Sun YF, Lebreton A, Xing JH, Fang YX, Si J, Morin E, Miyauchi S, Drula E, Ahrendt S, Cobaugh K, Lipzen A, Koriabine M, Riley R, Kohler A, Barry K, et al. Phylogenomics and Comparative Genomics Highlight Specific Genetic Features in Species. Journal of Fungi (Basel, Switzerland). 8. PMID 35330313 DOI: 10.3390/jof8030311  0.48
2022 Ciobanu D, Chan S, Ahrendt S, Quandt CA, Benny GL, Smith ME, James TY, Cheng JF. Protocol for single-cell isolation and genome amplification of environmental microbial eukaryotes for genomic analysis. Star Protocols. 3: 100968. PMID 35059648 DOI: 10.1016/j.xpro.2021.100968  0.366
2021 Franco MEE, Wisecaver JH, Arnold AE, Ju YM, Slot JC, Ahrendt S, Moore LP, Eastman KE, Scott K, Konkel Z, Mondo SJ, Kuo A, Hayes RD, Haridas S, Andreopoulos B, et al. Ecological generalism drives hyperdiversity of secondary metabolite gene clusters in xylarialean endophytes. The New Phytologist. PMID 34797921 DOI: 10.1111/nph.17873  0.44
2021 Guerreiro MA, Ahrendt S, Pangilinan J, Chen C, Yan M, Lipzen A, Barry K, Grigoriev IV, Begerow D, Nowrousian M. Draft genome sequences of strains CBS6241 and CBS6242 of the basidiomycetous yeast Filobasidium floriforme. G3 (Bethesda, Md.). PMID 34791213 DOI: 10.1093/g3journal/jkab398  0.411
2021 Wu G, Miyauchi S, Morin E, Kuo A, Drula E, Varga T, Kohler A, Feng B, Cao Y, Lipzen A, Daum C, Hundley H, Pangilinan J, Johnson J, Barry K, ... ... Ahrendt S, et al. Evolutionary innovations through gain and loss of genes in the ectomycorrhizal Boletales. The New Phytologist. PMID 34767630 DOI: 10.1111/nph.17858  0.372
2021 Ciobanu D, Clum A, Ahrendt S, Andreopoulos WB, Salamov A, Chan S, Quandt CA, Foster B, Meier-Kolthoff JP, Tang YT, Schwientek P, Benny GL, Smith ME, Bauer D, Deshpande S, et al. A single-cell genomics pipeline for environmental microbial eukaryotes. Iscience. 24: 102290. PMID 33870123 DOI: 10.1016/j.isci.2021.102290  0.438
2021 Hage H, Miyauchi S, Virágh M, Drula E, Min B, Chaduli D, Navarro D, Favel A, Norest M, Lesage-Meessen L, Bálint B, Merényi Z, de Eugenio L, Morin E, Martínez AT, ... ... Ahrendt S, et al. Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay. Environmental Microbiology. PMID 33538380 DOI: 10.1111/1462-2920.15423  0.464
2020 Grigoriev IV, Hayes RD, Calhoun S, Kamel B, Wang A, Ahrendt S, Dusheyko S, Nikitin R, Mondo SJ, Salamov A, Shabalov I, Kuo A. PhycoCosm, a comparative algal genomics resource. Nucleic Acids Research. PMID 33104790 DOI: 10.1093/nar/gkaa898  0.445
2020 Miyauchi S, Hage H, Drula E, Lesage-Meessen L, Berrin JG, Navarro D, Favel A, Chaduli D, Grisel S, Haon M, Piumi F, Levasseur A, Lomascolo A, Ahrendt S, Barry K, et al. Conserved white rot enzymatic mechanism for wood decay in the Basidiomycota genus Pycnoporus. Dna Research : An International Journal For Rapid Publication of Reports On Genes and Genomes. PMID 32531032 DOI: 10.1093/Dnares/Dsaa011  0.325
2019 Casado López S, Peng M, Daly P, Andreopoulos B, Pangilinan J, Lipzen A, Riley R, Ahrendt S, Ng V, Barry K, Daum C, Grigoriev IV, Hildén KS, Mäkelä MR, de Vries RP. Draft Genome Sequences of Three Monokaryotic Isolates of the White-Rot Basidiomycete Fungus Dichomitus squalens. Microbiology Resource Announcements. 8. PMID 31048399 DOI: 10.1128/MRA.00264-19  0.414
2019 Wu B, Gaskell J, Zhang J, Toapanta C, Ahrendt S, Grigoriev IV, Blanchette RA, Schilling JS, Master E, Cullen D, Hibbett DS. Evolution of substrate-specific gene expression and RNA editing in brown rot wood-decaying fungi. The Isme Journal. PMID 30718807 DOI: 10.1038/S41396-019-0359-2  0.33
2018 Ahrendt SR, Quandt CA, Ciobanu D, Clum A, Salamov A, Andreopoulos B, Cheng JF, Woyke T, Pelin A, Henrissat B, Reynolds NK, Benny GL, Smith ME, James TY, Grigoriev IV. Leveraging single-cell genomics to expand the fungal tree of life. Nature Microbiology. PMID 30297742 DOI: 10.1038/S41564-018-0261-0  0.463
2018 Wu B, Gaskell J, Held BW, Toapanta C, Vuong T, Ahrendt S, Lipzen A, Zhang J, Schilling JS, Master E, Grigoriev IV, Blanchette RA, Cullen D, Hibbett DS. Substrate-Specific Differential Gene Expression and RNA editing in the Brown Rot Fungus . Applied and Environmental Microbiology. PMID 29884757 DOI: 10.1128/Aem.00991-18  0.355
2018 Mäkelä MR, Peng M, Granchi Z, Chin-A-Woeng T, Hegi R, van Pelt SI, Ahrendt S, Riley R, Hainaut M, Henrissat B, Grigoriev IV, de Vries RP, Hildén KS. Draft Genome Sequence of the Basidiomycete White-Rot Fungus Phlebia centrifuga. Genome Announcements. 6. PMID 29622620 DOI: 10.1128/Genomea.01414-17  0.501
2017 Mondo SJ, Dannebaum RO, Kuo RC, Louie KB, Bewick AJ, LaButti K, Haridas S, Kuo A, Salamov A, Ahrendt SR, Lau R, Bowen BP, Lipzen A, Sullivan W, Andreopoulos BB, et al. Widespread adenine N6-methylation of active genes in fungi. Nature Genetics. PMID 28481340 DOI: 10.1038/Ng.3859  0.556
2017 Ahrendt SR, Medina EM, Chang CA, Stajich JE. Exploring the binding properties and structural stability of an opsin in the chytrid Spizellomyces punctatus using comparative and molecular modeling. Peerj. 5: e3206. PMID 28462022 DOI: 10.7717/Peerj.3206  0.495
2013 Bates ST, Ahrendt S, Bik HM, Bruns TD, Caporaso JG, Cole J, Dwan M, Fierer N, Gu D, Houston S, Knight R, Leff J, Lewis C, Maestre JP, McDonald D, et al. Meeting report: fungal its workshop (october 2012). Standards in Genomic Sciences. 8: 118-23. PMID 23961317 DOI: 10.4056/Sigs.3737409  0.506
2013 James TY, Pelin A, Bonen L, Ahrendt S, Sain D, Corradi N, Stajich JE. Shared signatures of parasitism and phylogenomics unite Cryptomycota and microsporidia. Current Biology : Cb. 23: 1548-53. PMID 23932404 DOI: 10.1016/J.Cub.2013.06.057  0.552
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