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Binde Doria H, Wagner V, Foucault Q, Pfenninger M (2024) Unveiling population-specific outcomes: Examining life cycle traits of different strains of Chironomus riparius exposed to microplastics and cadmium questions generality of ecotoxicological results. PLOS One, 19, e0304739.

Blattner LA, Kulanek D, Ruffener S, Ziegler H, Wymann HP, Wiemers M, Michalik P, Berner D (2024) Urbanization-associated range expansion genetically homogenizes a butterfly species. Current Biology, 34, 4589-4595.e4.

Borjizad Z, Mehrabi-Koushki M, Farokhinejad R, Safi A, Mu M, Thines M (2024) A new species of Bremia from the traditional crop Carthamus tinctorius from Iran. Tropical Plant Pathology, 49, 357-366.

Bukhman YV, Morin PA, Meyer S, Chu LF, Jacobsen JK, Antosiewicz-Bourget J, Mamott D, Gonzales M, Argus C, Bolin J, Berres ME, Fedrigo O, Steill J, Swanson SA, Jiang P, Rhie A, Formenti G, Phillippy AM, Harris RS, Wood JMD, Howe K, Kirilenko BM, Munegowda C, Hiller M, Jain A, Kihara D, Johnston JS, Ionkov A, Raja K, Toh H, Lang A, Wolf M, Jarvis ED, Thomson JA, Chaisson MJP, Stewart R, Gaut B (2024) A High-Quality Blue Whale Genome, Segmental Duplications, and Historical Demography. Molecular Biology and Evolution, 41, msae036.

Bulut B, Rigano L, Doria HB, Gemüth G, Pfenninger M (2024) A multigenerational study can detect the evolutionary response to BaP exposure in the non-biting freshwater midge Chironomus riparius. Chemosphere, 358, 142242.

Carranza J, Pérez‐González J, Anaya G, de Jong M, Broggini C, Zachos FE, McDevitt AD, Niedziałkowska M, Sykut M, Csányi SN, Bleier N, Csirke LZ, Røed K, Saint‐Andrieux C, Barboiron A, Gort‐Esteve A, Ruiz‐Olmo J, Seoane JM, Godoy JA, Mackiewicz P, de la Peña E, Vedel G, McFarlane SE, Pemberton J, Membrillo A (2024) Genome‐wide SNP assessment of contemporary European red deer genetic structure highlights the distinction of peripheral populations and the main admixture zones in Europe. Molecular Ecology, 33, e17508.

Courchamp F, Nieto-Blázquez MAE, Gómez-Suárez M, Pfenninger M, Koch K (2024) Impact of feralization on evolutionary trajectories in the genomes of feral cat island populations. PLOS One, 19, e0308724.

de Jong JF, de Jong MJ, Megens HJ, van Hooft P, Crooijmans RPMA, de Groot GA, Prins HHT (2024) An inbreeding perspective on the effectiveness of wildlife population defragmentation measures – a case study on wild boar (Sus scrofa) of Veluwe, The Netherlands. Frontiers in Ecology and Evolution, Section Conservation and Restoration Ecology, 11, 1158494.

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Dreyling L, Boch S, Lumbsch HT, Schmitt I (2024) Surveying lichen diversity in forests: A comparison of expert mapping and eDNA metabarcoding of bark surfaces. MycoKeys, 106, 153-172.

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Fordham DA, Brown SC, Canteri E, Austin JJ, Lomolino MV, Haythorne S, Armstrong E, Bocherens H, Manica A, Rey-Iglesia A, Rahbek C, Nogués-Bravo D, Lorenzen ED (2024) 52,000 years of woolly rhinoceros population dynamics reveal extinction mechanisms. Proceedings of the National Academy of Sciences of the United States of America PNAS, 121, e2316419121.

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Ketabchi M, Zafari D, Thines M, Khalilabad AA (2024) First report of Fusarium commune as the causal agent of leaf blight on Centella asiatica (Syn. Hydrocotyle asiatica L.) in Iran. Journal of Plant Pathology.

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Pfenninger M, Reuss F, KIebler A, Schönnenbeck P, Caliendo C, Gerber S, Cocchiararo B, Reuter S, Blüthgen N, Mody K, Mishra B, Bálint MS, Thines M, Feldmeyer B (2024) Correction: Genomic basis for drought resistance in European beech forests threatened by climate change. eLife, 13, e102872.

Poquita-Du RC, Otte JR, Calchera A, Schmitt I, Piganeau G (2024) Genome-Wide Comparisons Reveal Extensive Divergence Within the Lichen Photobiont Genus, Trebouxia. Genome Biology and Evolution, 16, evae219.

Powell A, Heckenhauer J, Pauls SU, Ríos-Touma B, Kuranishi RB, Holzenthal RW, Razuri-Gonzales E, Bybee S, Frandsen PB, Wheat C (2024) Evolution of Opsin Genes in Caddisflies (Insecta: Trichoptera). Genome Biology and Evolution, 16, evae185.

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Rosenkranz RRE, Vraggalas S, Keller M, Sankaranarayanan S, McNicoll FO, Löchli K, Bublak D, Benhamed M, Crespi M, Berberich T, Bazakos C, Feldbrügge M, Schleiff E, Müller-McNicoll M, Zarnack K, Fragkostefanakis S (2024) A plant-specific clade of serine/arginine-rich proteins regulates RNA splicing homeostasis and thermotolerance in tomato. Nucleic Acids Research, 52, 11466-11480.

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Singh G, Pasinato A, Yriarte ALPC, Pizarro D, Divakar PK, Schmitt I, Dal Grande F (2024) Are there conserved biosynthetic genes in lichens? Genome-wide assessment of terpene biosynthetic genes suggests ubiquitous distribution of the squalene synthase cluster. BMC Genomics, 25, 936.

Stelbrink BR, Kehlmaier C, Clewing C, Wilke T, Albrecht C (2024) A genetic snapshot before extinction: Museomics reveals the phylogenetic position of a critically endangered freshwater gastropod. Aquatic Conservation: Marine and Freshwater Ecosystems, 34, e4226.

Valim HF, Dal Grande F, Wong ELY, Schmitt I (2024) Circadian clock‐ and temperature‐associated genes contribute to overall genomic differentiation along elevation in lichenized fungi. Molecular Ecology, 33, e17252.

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Wolf M, Greve C, Schell T, Janke A, Schmitt T, Pauls SU, Aspöck H, Aspöck U, Booth W (2024) The de novo genome of the Black-necked Snakefly (Venustoraphidia nigricollis Albarda, 1891): A resource to study the evolution of living fossils. Journal of Heredity, 115, 112-119.

Wong ELY, Valim HF, Schmitt I (2024) Genome‐wide differentiation corresponds to climatic niches in two species of lichen‐forming fungi. Environmental Microbiology, 26, e16703.

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Hofmann B, Dreyling L, Dal Grande F, Otte JR, Schmitt I (2023) Habitat and tree species identity shape aboveground and belowground fungal communities in central European forests. Frontiers in Microbiology, Section Microbe and Virus Interactions with Plants, 14, 1067906.

Katche EI, Schierholt A, Schiessl SV, He F, Lv Z, Batley J, Becker HC, Mason AS, Kulathinal R (2023) Genetic factors inherited from both diploid parents interact to affect genome stability and fertility in resynthesized allotetraploid Brassica napus. G3 – Genes, Genomes, Genetics, 13, jkad136.

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Merges D, Dal Grande F, Valim H, Singh G, Schmitt I (2023) Gene abundance linked to climate zone: Parallel evolution of gene content along elevation gradients in lichenized fungi. Frontiers in Microbiology, Section Terrestrial Microbiology, 14, 1097787.

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Pfenninger M (2023) Book Review: Cryptic Species: Morphological Stasis, Circumscription, and Hidden Diversity. The Systematics Association Special Volume 89. The Quarterly Review of Biology, 98, 178.

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Dal Grande F, Jamilloux VR, Choisne N, Calchera A, Rolshausen G, Petersen M, Schulz M, Nilsson MA, Schmitt I (2022) Transposable Elements in the Genome of the Lichen-Forming Fungus Umbilicaria pustulata and Their Distribution in Different Climate Zones along Elevation. Biology, 11, 24.

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Dreyling L, Schmitt I, Dal Grande F (2022) Tree Size Drives Diversity and Community Structure of Microbial Communities on the Bark of Beech (Fagus sylvatica). Frontiers in Forests and Global Change, 5, 858382.

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Männer L, Mundinger C, Haase M (2022) Stay in shape: Assessing the adaptive potential of shell morphology and its sensitivity to temperature in the invasive New Zealand mud snail Potamopyrgus antipodarum through phenotypic plasticity and natural selection in Europe. Ecology and Evolution, 12, e9314.

Meegaskumbura M, Leeb C, Schuler L, Brühl CA, Theissinger K (2022) Low temperatures lead to higher toxicity of the fungicide folpet to larval stages of Rana temporaria and Bufotes viridis. PLOS ONE, 17, e0258631.

Mesihovic A, Ullrich S, Rosenkranz RRE, Gebhardt P, Bublak D, Eich H, Weber D, Berberich T, Scharf KD, Schleiff E, Fragkostefanakis S (2022) HsfA7 coordinates the transition from mild to strong heat stress response by controlling the activity of the master regulator HsfA1a in tomato. Cell Reports, 38, 110224.

Mishra B, Ulaszewski B, Meger J, Aury JM, Bodénès C, Lesur-Kupin I, Pfenninger M, Da Silva C, Gupta DK, Guichoux E, Heer K, Lalanne CL, Labadie K, Opgenoorth L, Ploch S, Le Provost GG, Salse JRM, Scotti I, Wötzel S, Plomion C, Burczyk JA, Thines M (2022) A Chromosome-Level Genome Assembly of the European Beech (Fagus sylvatica) Reveals Anomalies for Organelle DNA Integration, Repeat Content and Distribution of SNPs. Frontiers in Genetics, 12.

Nieto-Blázquez MAE, Schreiber D, Mueller SA, Koch K, Nowak C, Pfenninger M (2022) Human impact on the recent population history of the elusive European wildcat inferred from whole genome data. BMC Genomics, 23, 709.

Nieto‐Blázquez MAE, Quiroga MAP, Premoli AC, Roncal J, Taylor A (2022) Podocarpus in the palaeogeographically complex island of Hispaniola: A stepping‐stone colonization and conservation recommendations. Diversity and Distributions, 28, 214-226.

Nowicki M, Hadziabdic Guerry D, Trigiano RN, Runge F, Thines M, Boggess SL, Ristaino JB, Spring O (2022) Microsatellite markers from Peronospora tabacina, the cause of blue mold of tobacco, reveal species origin, population structure, and high gene flow. Phytopathology, 112, 422-434.

Pfenninger M, Foucault Q (2022) Population Genomic Time Series Data of a Natural Population Suggests Adaptive Tracking of Fluctuating Environmental Changes. Integrative and Comparative Biology, 62 (6), 1812-1826.

Ploch S, Kruse J, Choi YJ, Thiel H, Thines M (2022) Ancestral state reconstruction in Peronospora provides further evidence for host jumping as a key element in the diversification of obligate parasites. Molecular Phylogenetics and Evolution, 166, 107321.

Rodrigues Soares AE, Boroffka N, Schröder O, Sverchkov L, Benecke N, Günther T (2022) Ancient DNA from a 2700-year-old goitered gazelle (Gazella subgutturosa) supports gazelle hunting in Iron Age Central Asia. Royal Society Open Science, 9.

Roser LA, Erkoc P, Ingelfinger R, Henke M, Ulshöfer T, Schneider AK, Laux V, Geisslinger G, Schmitt I, Fürst R, Schiffmann S (2022) Lecanoric acid mediates anti-proliferative effects by an M phase arrest in colon cancer cells. Biomedicine & Pharmacotherapy, 148, 112734.

Schultz M, Schmitt I, Weber D, Dal Grande F (2022) Fungal Host Affects Photosynthesis in a Lichen Holobiont. Journal of Fungi, 8, 1267.

Sedaghatjoo S, Mishra B, Forster MK, Becker Y, Keilwagen J, Killermann B, Thines M, Karlovsky P, Maier W (2022) Comparative genomics reveals low levels of inter- and intraspecies diversity in the causal agents of dwarf and common bunt of wheat and hint at conspecificity of Tilletia caries and T. laevis. IMA Fungus, 13.

Singh G, Calchera A, Merges D, Valim H, Otte JR, Schmitt I, Dal Grande F (2022) A Candidate Gene Cluster for the Bioactive Natural Product Gyrophoric Acid in Lichen-Forming Fungi. Microbiology Spectrum 10(4):e0010922.

Stubbs RL, Theodoridis S, Mora‐Carrera E, Keller B, Yousefi N, Potente G, Léveillé‐Bourret T, Celep F, Kochjarová J, Tedoradze G, Eaton DAR, Conti E (2022) Whole‐genome analyses disentangle reticulate evolution of primroses in a biodiversity hotspot. New Phytologist, 237, 656-671.

Valim HF, Dal Grande F, Otte JR, Singh G, Merges D, Schmitt I (2022) Identification and expression of functionally conserved circadian clock genes in lichen-forming fungi. Scientific Reports, 12.

Wijayawardene NN, Phillips AJL, Santos Pereira D, Dai DQ, Aptroot A, Monteiro JS, Druzhinina IS, Cai F, Fan X, Selbmann L, Coleine C, Castañeda-Ruiz RF, Kukwa M, Flakus A, Fiuza PO, Kirk PM, Kumar KCR, Ileperuma Arachchi IS, Suwannarach N, Tang LZ, Boekhout T, Tan CS, Jayasinghe RPPK, Thines M (2022) Forecasting the number of species of asexually reproducing fungi (Ascomycota and Basidiomycota). Fungal Diversity, 114, 463-490.

Chueca LJ, Kochmann J, Schell T, Greve C, Janke A, Pfenninger M, Klimpel S (2021) De novo Genome Assembly of the Raccoon Dog (Nyctereutes procyonoides). Frontiers in Genetics, 12.

Chueca LJ, Schell T, Pfenninger M (2021) Whole-genome re-sequencing data to infer historical demography and speciation processes in land snails: the study of two Candidula sister species. Philosophical Transactions of the Royal Society B: Biological Sciences, 376.

Chueca LJ, Schell T, Pfenninger M (2021) De novo genome assembly of the land snail Candidula unifasciata (Mollusca: Gastropoda). G3 Genes|Genomes|Genetics, 11.

Coimbra RTF, Winter S, Kumar V, Koepfli KP, Gooley RM, Dobrynin P, Fennessy J, Janke A (2021) Whole-genome analysis of giraffe supports four distinct species. Current Biology, 31, 1-10.

Doria HB, Pfenninger M (2021) A multigenerational approach can detect early Cd pollution in Chironomus riparius. Chemosphere, 262, 127815.

Doria HB, Waldvogel AM, Pfenninger M (2021) Measuring mutagenicity in ecotoxicology: A case study of Cd exposure in Chironomus riparius. Environmental Pollution, 272, 116004.

Feldmeyer B, Choppin M, Graf S, Libbrecht R, Menzel F, Foitzik S (2021) Queen and worker phenotypic traits are associated with colony composition and environment in Temnothorax rugatulus (Hymenoptera: Formicidae), an ant with alternative reproductive strategies. Myrmecological News, 31.

Guerrina M, Theodoridis S, Minuto L, Conti E, Casazza G (2021) First evidence of post‐glacial contraction of Alpine endemics: Insights from Berardia subacaulis in the European Alps. Journal of Biogeography 49 (1), 79-93.

Hartke J, Waldvogel AM, Sprenger PP, Schmitt T, Menzel F, Pfenninger M, Feldmeyer B (2021) Little parallelism in genomic signatures of local adaptation in two sympatric, cryptic sister species. Journal of Evolutionary Biology, 34, 937-952.

Jayawardena RS, Hyde KD, de Farias ARG, Bhunjun CS, Ferdinandez HS, Manamgoda DS, Udayanga D, Herath IS, Thambugala KM, Manawasinghe IS, Gajanayake AJ, Samarakoon BC, Bundhun D, Gomdola D, Huanraluek N, Sun YR, Tang X, Promputtha I, Thines M (2021) What is a species in fungal plant pathogens? Fungal Diversity, 109, 239-266.

Jong MJ, Jong JF, Hoelzel AR, Janke A (2021) SambaR: An R package for fast, easy and reproducible population‐genetic analyses of biallelic SNP data sets. Molecular Ecology Resources 21 (4), 1369-1379.

Knöbel L, Nascimento-Schulze JC, Sanders T, Zeus D, Hiebentahl C, Barboza FR, Stuckas H, Melzner F (2021) Salinity driven selection and local adaptation in Baltic Sea Mytilid mussels. Frontiers in Marine Science 8, 692078.

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Korb J, Meusemann K, Aumer D, Bernadou A, Elsner D, Feldmeyer B, Foitzik S, Heinze JR, Libbrecht R, Lin S, Majoe M, Monroy Kuhn JM, Nehring V, Negroni MA, Paxton RJ, Séguret AC, Stoldt M, Flatt T (2021) Comparative transcriptomic analysis of the mechanisms underpinning ageing and fecundity in social insects. Philosophical Transactions of the Royal Society B: Biological Sciences, 376, 20190728.

Koutroumpa K, Warren BH, Theodoridis S, Coiro M, Romeiras MM, Jiménez A, Conti E (2021) Geo-Climatic Changes and Apomixis as Major Drivers of Diversification in the Mediterranean Sea Lavenders (Limonium Mill.). Frontiers in Plant Science, 11.

Lagostina E, Andreev M, Dal Grande F, Grewe F, Lorenz A, Lumbsch HT, Rozzi R, Ruprecht U, Sancho LGA, Søchting U, Scur M, Wirtz N, Printzen C (2021) Effects of dispersal strategy and migration history on genetic diversity and population structure of Antarctic lichens. Journal of Biogeography, 48, 1635-1653.

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Menzel F, Feldmeyer B (2021) How does climate change affect social insects? Current Opinion in Insect Science, 46, 10-15.

Mirzaee MR, Ploch S, Thines M (2021) A new desert-dwelling oomycete, Pustula persica sp. nov., on Gymnarrhena micrantha (Asteraceae) from Iran. Mycoscience, 62, 239-243.

Mishra B, Ulaszewski B, Meger J, Ploch S, Burczyk J, Thines M (2021) A Comparison of Three Circular Mitochondrial Genomes of Fagus sylvatica from Germany and Poland Reveals Low Variation and Complete Identity of the Gene Space. Forests, 12, 571.

Mishra B, Ulaszewski B, Ploch S, Burczyk J, Thines M (2021) A Circular Chloroplast Genome of Fagus sylvatica Reveals High Conservation between Two Individuals from Germany and One Individual from Poland and an Alternate Direction of the Small Single-Copy Region. Forests, 12, 180.

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Negroni MA, Stoldt M, Oster M, Rupp AS, Feldmeyer B, Foitzik S (2021) Social organization and the evolution of life-history traits in two queen morphs of the ant Temnothorax rugatulus. Journal of Experimental Biology, 224.

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Nickel J, Schell T, Holtzem T, Thielsch A, Dennis SR, Schlick-Steiner BC, Steiner FM, Möst M, Pfenninger M, Schwenk K, Cordellier M, Lerat E (2021) Hybridization dynamics and extensive introgression in the Daphnia longispina species complex: new insights from a high-quality Daphnia galeata reference genome. Genome Biology and Evolution, 13, evab267.

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Sagor GHM, Inoue M, Kusano T, Berberich T (2021) Expression profile of seven polyamine oxidase genes in rice (Oryza sativa) in response to abiotic stresses, phytohormones and polyamines. Physiology and Molecular Biology of Plants, 27, 1353-1359.

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Schneider CM, Woehle C, Greve C, D’Haese CA, Wolf M, Hiller M, Janke A, Bálint MS, Huettel B (2021) Two high-quality de novo genomes from single ethanol-preserved specimens of tiny metazoans (Collembola). GigaScience, 10, giab035.

Schreiber D, Pfenninger M (2021) Genomic divergence landscape in recurrently hybridizing Chironomus sister taxa suggests stable steady state between mutual gene flow and isolation. Evolution Letters, 5, 86-100.

Schurack S, Depotter JRL, Gupta D, Thines M, Doehlemann G (2021) Comparative transcriptome profiling identifies maize line specificity of fungal effectors in the maize– Ustilago maydis interaction. The Plant Journal, 106, 733-752.

Sheffer MM, Hoppe A, Krehenwinkel H, Uhl G, Kuss AW, Jensen L, Jensen C, Gillespie RG, Hoff KJ, Prost S (2021) Chromosome-level reference genome of the European wasp spider Argiope bruennichi: a resource for studies on range expansion and evolutionary adaptation. GigaScience, 10.

Singh G, Armaleo D, Dal Grande F, Schmitt I (2021) Depside and Depsidone Synthesis in Lichenized Fungi Comes into Focus through a Genome-Wide Comparison of the Olivetoric Acid and Physodic Acid Chemotypes of Pseudevernia furfuracea. Biomolecules, 11, 1445.

Singh G, Calchera A, Schulz M, Drechsler M, Bode HB, Schmitt I, Dal Grande F (2021) Climate‐specific biosynthetic gene clusters in populations of a lichen‐forming fungus. Environmental Microbiology, 23, 4260-4275.

Sprenger PP, Hartke J, Schmitt T, Menzel F, Feldmeyer B, Tennessen JM (2021) Candidate genes involved in cuticular hydrocarbon differentiation between cryptic, parabiotic ant species. G3 Genes|Genomes|Genetics, 11.

Sprenger PP, Müsse C, Hartke J, Feldmeyer B, Schmitt T, Gebauer G, Menzel F (2021) Dinner with the roommates: trophic niche differentiation and competition in a mutualistic ant‐ant association. Ecological Entomology, 46, 562-572.

Stoldt M, Klein L, Beros S, Butter F, Jongepier E, Feldmeyer B, Foitzik S (2021) Parasite Presence Induces Gene Expression Changes in an Ant Host Related to Immunity and Longevity. Genes, 12, 95.

Theodoridis S, Rahbek C, Nogues‐Bravo D (2021) Exposure of mammal genetic diversity to mid‐21st century global change. Ecography, 44, 817-831.

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Vasiljevic N, Lim M, Humble E, Seah A, Kratzer A, Morf NV, Prost S, Ogden R (2021) Developmental validation of Oxford Nanopore Technology MinION sequence data and the NGSpeciesID bioinformatic pipeline for forensic genetic species identification. Forensic Science International: Genetics, 53, 102493.

Waldvogel AM, Pfenninger M (2021) Temperature-dependence of spontaneous mutation rates. Genome Research, 31, 1582-1589.

Weißbach S, Sys S, Hewel C, Todorov H, Schweiger S, Winter J, Pfenninger M, Torkamani A, Evans D, Burger J, Everschor-Sitte K, May-Simera HL, Gerber S (2021) Reliability of genomic variants across different next-generation sequencing platforms and bioinformatic processing pipelines. BMC Genomics, 22.

Westhaus S, Weber FA, Schiwy S, Linnemann V, Brinkmann M, Widera M, Greve C, Janke A, Hollert H, Wintgens T, Ciesek S (2021) Detection of SARS-CoV-2 in raw and treated wastewater in Germany – Suitability for COVID-19 surveillance and potential transmission risks. Science of The Total Environment, 751, 141750.

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Hoffmeister M, Gabriel D, Thines M, Maier W (2020) Epidemiology of sage downy mildew, Peronospora salviae-officinalis. European Journal of Plant Pathology, 156, 1147-1162.

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Schmidt H, Waldvogel AM, Hellmann SRL, Feldmeyer B, Hankeln T, Pfenninger M (2020) A high-quality genome assembly from short and long reads for the non-biting midge Chironomus riparius (Diptera). Genes, Genomes, Genetics, 10, 1151-1157.

Seah A, Lim MCW, McAloose D, Prost S, Seimon TA (2020) MinION-Based DNA Barcoding of Preserved and Non-Invasively Collected Wildlife Samples. Genes, 11, 445.

Sheffer MM, Uhl G, Prost S, Lueders T, Urich T, Bentsson MM (2020) Tissue- and Population-Level Microbiome Analysis of the Wasp Spider Argiope bruennichi Identified a Novel Dominant Bacterial Symbiont. Miccroorganisms, 19, E8.

Smith HB, Dal Grande F, Muggia L, Keuler R, Divakar PK, Grewe F, Schmitt I, Lumbsch HT, Leavitt SD (2020) Metagenomic data reveal diverse fungal and algal communities associated with the lichen symbiosis. Symbiosis, 82, 133-147.

Thines M, Buaya A, Ploch S, Naim YB, Cohen Y (2020) Downy mildew of lavender caused by Peronospora belbahrii in Israel. Mycological Progress, 19, 1537-1543.

von Reumont BRM, Lüddecke T, Timm T, Lochnit GN, Vilcinskas A, von Döhren JR, Nilsson MA (2020) Proteo-Transcriptomic Analysis Identifies Potential Novel Toxins Secreted by the Predatory, Prey-Piercing Ribbon Worm Amphiporus lactifloreus. Marine Drugs, 18, 407.

Waldvogel AM, Feldmeyer B, Rolshausen G, Exposito-Alonso M, Rellstab C, Kofler R, Mock T, Schmid K, Schmitt I, Bataillon T, Savolainen O, Bergland A, Flatt T, Guillaume F, Pfenninger M(2020) Evolutionary genomics can improve prediction of species’ responses to climate change. Evolution Letters.

Waldvogel AM, Schreiber D, Pfenninger M, Feldmeyer B (2020) Climate Change Genomics Calls for Standardized Data Reporting. Frontiers in Ecology and Evolution, 8.

Watsa M, Erkenswick GA, Pomerantz A, Prost S (2020) Portable sequencing as a teaching tool in conservation and biodiversity research. PLOS Biology, 18, e3000667.

Watsa M, Prost S (2020) Rigorous wildlife disease surveillance. Science, 369, 145-147.

Watzel J, Hacker C, Duchardt-Ferner E, Bode HB, Wöhnert J (2020) A New Docking Domain Type in the Peptide-Antimicrobial-Xenorhabdus Peptide Producing Nonribosomal Peptide Synthetase from Xenorhabdus bovienii. ACS Chemical Biology, 15, 982-989.

Xie ZJ, Yao, HF, Potapov M, Dong J, Wu DH, Scheu S, Sun X (2020) The complete mitochondrial genome of an enigmatic predaceous springtail Metisotoma macnamarai from northeast China. Mitochondrial DNA Part B Resources.

Zając KS, Hatteland BRA, Feldmeyer B, Pfenninger M, Filipiak A, Noble LR, Lachowska-Cierlik D (2020) A comprehensive phylogeographic study of Arion vulgaris Moquin-Tandon, 1855 (Gastropoda: Pulmonata: Arionidae) in Europe. Organisms Diversity & Evolution, 20, 37-50.

Alleman A, Stoldt M, Feldmeyer B, Foitzik S (2019) Tandem‐running and scouting behaviour are characterized by up‐regulation of learning and memory formation genes within the ant brain. Molecular Ecology, 28, 2342-2359.

Armaleo D, Müller O, Lutzoni FO, Andrésson LS, Blanc G, Bode HB, Collart FR, Dal Grande F, Dietrich F, Grigoriev IV, Joneson S, Kuo A, Larsen PE, Logsdon JM, Lopez D, Martin F, May SP, McDonald TR, Merchant SS, Miao V, Morin E, Oono R, Pellegrini M, Rubinstein N, Sanchez-Puerta MV, Savelkoul E, Schmitt I, Slot JC, Soanes D, Szövényi PT, Talbot NJ, Veneault-Fourrey C, Xavier BB (2019) The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata. BMC Genomics, 20.

Bandini D, Oertel B, Ploch S, Ali T, Vauras J, Schneider A, Scholler M, Eberhardt U, Thines M (2019) Revision of some central European species of Inocybe (Fr.: Fr.) Fr. subgenus Inocybe, with the description of five new species. Mycological Progress, 8, 247-294.

Bode E, Heinrich AK, Hirschmann M, Abebew D, Shi YN, Vo TD, Wesche F, Shi YM, Grün P, Simonyi S, Keller N, Engel Y, Wenski S, Bennet R, Beyer S, Bischoff I, Buaya A, Brandt S, Cakmak I, Çimen H, Eckstein S, Frank D, Fürst R, Gand M, Geisslinger G, Hazir S, Henke M, Heermann R, Lecaudey V, Schäfer W, Schiffmann S, Schüffler A, Schwenk R, Skaljac M, Thines E, Thines M, Ulshöfer T, Vilcinskas A, Wichelhaus TA, Bode HB (2019) Promoter Activation in Δhfq Mutants as an Efficient Tool for Specialized Metabolite Production Enabling Direct Bioactivity Testing. Angewandte Chemie International Edition, 58, 18957-18963.

Buaya A, Kraberg A, Thines M (2019) Dual culture of the oomycete Lagenisma coscinodisci Drebes and Coscinodiscus diatoms as a model for plankton/parasite interactions. Helgoland Marine Research, 73.

Cornetti L, Fields PD, Van Damme K, Ebert D (2019) A fossil-calibrated phylogenomic analysis of Daphnia and the Daphniidae. Molecular Phylogenetics and Evolution, 137, 250-262.

Dapporto L, Cini A, Vodă R, Dincă V, Wiemers M, Menchetti M, Magini G, Talavera G, Shreeve T, Bonelli S, Casacci LP, Balletto E, Scalercio S, Vila R (2019) Integrating three comprehensive data sets shows that mitochondrial DNA variation is linked to species traits and paleogeographic events in European butterflies. Molecular Ecology Resources, 19, 1623-1636.

Foucault Q, Wieser A, Waldvogel AM, Pfenninger M (2019) Establishing laboratory cultures and performing ecological and evolutionary experiments with the emerging model species Chironomus riparius. Journal of Applied Entomology, 143, 584-592.

Frank AC, Ebersberger S, Fink AF, Lampe S, Weigert A, Schmid T, Ebersberger I, Syed SN, Brüne B (2019) Apoptotic tumor cell-derived microRNA-375 uses CD36 to alter the tumor-associated macrophage phenotype. Nature Communications, 10.

Franke K, Karl I, Centeno TP, Feldmeyer B, Lassek C, Oostra V, Riedel K, Stanke M, Wheat CW, Fischer K (2019) Effects of adult temperature on gene expression in a butterfly: identifying pathways associated with thermal acclimation. BMC Evolutionary Biology, 19.

Goodman KR, Prost S, Bi K, Brewer MS, Gillespie RG (2019) Host and geography together drive early adaptive radiation of Hawaiian planthoppers. Molecular Ecology, 28, 4513-4528.

Gretzinger J, Molak M, Reiter E, Pfrengle S, et al. EA, Conard NJ, et al. EA, Drucker DG, et al. EA, Bocherens H, Schuenemann VJ (2019) Large-scale mitogenomic analysis of the phylogeography of the Late Pleistocene cave bear. Scientific Reports, 9, 10700.

Hagh Doust N, Safaie N, Schmitt I, Otte J, Bálint MS, Santini A (2019) Culture‐based methods using low‐temperature incubation revealed cold‐adapted fungal endophytes from semiarid forests. Forest Pathology, e12515.

Hartke J, Schell T, Jongepier E, Schmidt H, Sprenger PP, Paule J, Bornberg-Bauer E, Schmitt T, Menzel F, Pfenninger M, Feldmeyer B, Katz LA (2019) Hybrid Genome Assembly of a Neotropical Mutualistic Ant. Genome Biology and Evolution, 11, 2306-2311.

Hartke J, Sprenger PP, Sahm J, Winterberg H, Orivel JRM, Baur H, Beuerle T, Schmitt T, Feldmeyer B, Menzel F (2019) Cuticular hydrocarbons as potential mediators of cryptic species divergence in a mutualistic ant association. Ecology and Evolution, 9, 9160-9176.

Hassett BT, Thines M, Buaya A, Ploch S, Gradinger R (2019) A glimpse into the biogeography, seasonality, and ecological functions of arctic marine Oomycota. IMA Fungus, 1.

Hildebrandt A, Brüggemann M, Rücklé C, Boerner S, Heidelberger JB, Busch A, Hänel H, Voigt A, Möckel MM, Ebersberger S, Scholz A, Dold A, Schmid T, Ebersberger I, Roignant JY, Zarnack K, König J, Beli P (2019) The RNA-binding ubiquitin ligase MKRN1 functions in ribosome-associated quality control of poly(A) translation. Genome Biology, 20.

Jain A, von Haeseler A, Ebersberger I (2019) The evolutionary traceability of proteins. Genome Biology and Evolution, 11, 531-545.

Kaur R, Stoldt M, Jongepier E, Feldmeyer B, Menzel F, Bornberg-Bauer E, Foitzik S (2019) Ant behaviour and brain gene expression of defending hosts depend on the ecological success of the intruding social parasite. Philosophical Transactions of the Royal Society B: Biological Sciences, 374, 20180192.

Kohlmeier P, Alleman AR, Libbrecht R, Foitzik S, Feldmeyer B (2019) Gene expression is more strongly associated with behavioural specialization than with age or fertility in ant workers. Molecular Ecology, 28, 658-670.

Kotrade P, Sehr EM, Wischnitzki E, Brüggemann W (2019) Comparative transcriptomics-based selection of suitable reference genes for normalization of RT-qPCR experiments in drought-stressed leaves of three European Quercus species. Tree Genetics & Genomes, 15, UNSP 38.

Krehenwinkel H, Pomerantz A, Henderson JB, Kennedy SR, Lim JY, Swamy V, Shoobridge JD, Graham N, Patel NH, Gillespie RG, Prost S (2019) Nanopore sequencing of long ribosomal DNA amplicons enables portable and simple biodiversity assessments with high phylogenetic resolution across broad taxonomic scale. GigaScience, 8.

Mangaravite R, Silveira TC, Huamán‐Mera A, Oliveira LO, Muellner‐Riehl AN, Schnitzler J (2019) Genetic diversity of Cedrela fissilis (Meliaceae) in the Brazilian Atlantic Forest reveals a complex phylogeographic history driven by Quaternary climatic fluctuations. Journal of Systematics and Evolution, 57, 655-669.

Meyer C, Lopes BA, Caye-Eude AL, Cavé HLN, Arfeuille C, Cuccuini W, Sutton R, Venn NC, Oh SH, Tsaur G, Escherich G, Feuchtinger T, Kosasih HJ, Khaw SL, Ekert PG, Pombo-de-Oliveira MS, Bidet A, Djahanschiri B, Ebersberger I, Zaliova M, Zuna J, Zermanova Z, Juvonen V, Grümayer RP, Fazio G, Cazzaniga G, Larghero P, Emerenciano M, Marschalek R (2019) Human MLL/KMT2A gene exhibits a second breakpoint cluster region for recurrent MLL–USP2 fusions. Leukemia, 33, 2306-2340.

Müller R, Shinn CN, Waldvogel AM, Oehlmann JR, Ribeiro R, Moreira-Santos M (2019) Long-term effects of the fungicide pyrimethanil on aquatic primary producers in macrophyte-dominated outdoor mesocosms in two European ecoregions. Science of The Total Environment, 665, 982-994.

Negroni MA, Foitzik S, Feldmeyer B (2019) Long-lived Temnothorax ant queens switch from investment in immunity to antioxidant production with age. Scientific Reports, 9.

Pizarro D, Dal Grande F, Leavitt SD, Dyer PS, Schmitt I, Crespo A, Thorsten Lumbsch H, Divakar PK, Barluenga M (2019) Whole-Genome Sequence Data Uncover Widespread Heterothallism in the Largest Group of Lichen-Forming Fungi. Genome Biology and Evolution, 11, 721-730.

Radchuk V, Reed T, Teplitsky CL, van de Pol M, Charmantier A, Hassall C, Adamík P, Adriaensen F, Ahola MP, Arcese P, Miguel Avilés JS, Balbontin J, Berg KS, Borras A, Burthe S, Clobert J, Dehnhard N, de Lope F, Dhondt AA, Dingemanse NJ, Doi H, Eeva T, Fickel J, Filella I, Fossøy F, Goodenough AE, Hall SJG, Hansson B, Harris M, Hasselquist D, Hickler T, Joshi J, Kharouba H, Martínez JG, Mihoub JB, Mills JA, Molina-Morales M, Moksnes A, Ozgul A, Parejo D, Pilard P, Poisbleau M, Rousset F, Rödel MO, Scott D, Senar JC, Stefanescu C, Stokke BRG, Kusano T, Tarka M, Tarwater CE, Thonicke K, Thorley J, Wilting A, Tryjanowski P, Merilä J, Sheldon BC, Pape Møller A, Matthysen E, Janzen F, Dobson FS, Visser ME, Beissinger SR, Courtiol A, Kramer-Schadt S (2019) Adaptive responses of animals to climate change are most likely insufficient. Nature Communications, 10.

Rey-Iglesia A, García-Vázquez A, Treadaway EC, van der Plicht J, Baryshnikov GF, Szpak P, Bocherens H, Boeskorov GG, Lorenzen ED (2019) Evolutionary history and palaeoecology of Brown bear in North-East Siberia re-examined using ancient DNA and stable isotopes from skeletal remains. Scientific Reports, 9.

Sharma R, Ökmen B, Doehlemann G, Thines M (2019) Saprotrophic yeasts formerly classified as Pseudozyma have retained a large effector arsenal, including functional Pep1 orthologs. Mycological Progress, 18, 763-768.

Singh G, Kukwa M, Dal Grande F, Łubek A, Otte JR, Schmitt I (2019) A Glimpse into Genetic Diversity and Symbiont Interaction Patterns in Lichen Communities from Areas with Different Disturbance Histories in Białowieża Forest, Poland. Microorganisms, 7, 335.

Smith AB, Godsoe W, Rodríguez-Sánchez F, Wang HH, Warren D (2019) Niche Estimation Above and Below the Species Level. Trends in Ecology & Evolution, 34, 260-273.

Smith O, Dunshea GJ, Sinding MHS, Fedorov S, Germonpre M, Bocherens H, Gilbert MTP (2019) Ancient RNA from Late Pleistocene permafrost and historical canids shows tissue-specific transcriptome survival. PLOS Biology, 17, e3000166.

Sprenger PP, Hartke J, Feldmeyer B, Orivel JRM, Schmitt T, Menzel F (2019) Influence of Mutualistic Lifestyle, Mutualistic Partner, and Climate on Cuticular Hydrocarbon Profiles in Parabiotic Ants. Journal of Chemical Ecology, 45, 741-754.

Tanaka S, Schweizer G, Rössel N, Fukada F, Thines M, Kahmann R (2019) Neofunctionalization of the secreted Tin2 effector in the fungal pathogen Ustilago maydis. Nature Microbiology, 4, 251-257.

Thines M (2019) An evolutionary framework for host shifts – jumping ships for survival. New Phytologist, 224, 605-617.

Tietgen M, Kramer JS, Brunst S, Djahanschiri B, Wohra S, Higgins PG, Weidensdorfer M, Riedel-Christ S, Pos KM, Gonzaga A, Steglich M, Nübel U, Ebersberger I, Proschak E, Göttig S (2019) Identification of the novel class D β-lactamase OXA-679 involved in carbapenem resistance in Acinetobacter calcoaceticus. Journal of Antimicrobial Chemotherapy, 74, 1494-1502.

Vallet M, Baumeister TUH, Kaftan F, Grabe V, Buaya A, Thines M, Svatoš A, Pohnert G (2019) The oomycete Lagenisma coscinodisci hijacks host alkaloid synthesis during infection of a marine diatom. Nature Communications, 10.

Wieser A, Reuss F, Niamir A, Müller R, O’Hara RB, Pfenninger M (2019) Modelling seasonal dynamics, population stability, and pest control in Aedes japonicus japonicus (Diptera: Culicidae). Parasites & Vectors, 12, 142.

Winter S, Coimbra RTF, Bronec A, Hay C, Salb AL, Fennessy J, Janke A (2019) Species assignment and conservation genetics of giraffe in the Republic of Malawi. Conservation Genetics, 20, 665-670.

Aime MC, Castlebury LA, Abbasi M, Begerow D, Berndt R, Kirschner R, Marvanová L, Ono Y, Padamsee M, Scholler M, Thines M, Rossman AY (2018) Competing sexual and asexual generic names in Pucciniomycotina and Ustilaginomycotina (Basidiomycota) and recommendations for use. IMA Fungus, 9, 75-89.

Alleman A, Feldmeyer B, Foitzik S (2018) Comparative analyses of co-evolving host-parasite associations reveal unique gene expression patterns underlying slavemaker raiding and host defensive phenotypes. Scientific Reports, 8, 1951.

Arnason U, Lammers F, Kumar V, Nilsson MA, Janke A (2018) Whole-genome sequencing of the blue whale and other rorquals finds signatures for introgressive gene flow. Science Advances, 4, eaap9873.

Ashoub A, Müller N, Jiménez-Gómez JM, Brüggemann W (2018) Prominent alterations of wild barley leaf transcriptome in response to individual and combined drought acclimation and heat shock conditions. Physiologia Plantarum, 163, 18-29.

Bálint MS, Pfenninger M, Grossart HP, Taberlet P, Vellend M, Leibold MA, Englund GR, Bowler D (2018) Environmental DNA Time Series in Ecology. Trends in Ecology & Evolution, 33, 945-957.

Barth MB, Buchwalder K, Kawahara AY, Zhou X, Liu S, Krezdorn N, Rotter B, Horres R, Hundsdoerfer AK (2018) Functional characterization of the Hyles euphorbiae hawkmoth transcriptome reveals strong expression of phorbol ester detoxification and seasonal cold hardiness genes. Frontiers in Zoology, 15, 20.

Bennett RM, Devanadera MK, Dedeles GR, Thines M (2018) A revision of Salispina, its placement in a new family, Salispinaceae (Rhipidiales), and description of a fourth species, S. hoi sp. nov. IMA Fungus, 9, 259-269.

Blaschke U, Suwono B, Zafari S, Ebersberger I, Skiebe E, Jeffries CM, Svergun DI, Wilharm G (2018) Recombinant production of A1S_0222 from Acinetobacter baumannii ATCC 17978 and confirmation of its DNA-(adenine N6)-methyltransferase activity. Protein Expression and Purification, 151, 78-85.

Brandrud TE, Schmidt-Stohn G, Liimatainen K, Niskanen T, Frøslev TG, Soop K, Bojantchev D, Kytövuori I, Jeppesen TS, Bellù F, Saar GN, Oertel B, Ali T, Thines M, Dima BL (2018) Cortinarius sect. Riederi: taxonomy and phylogeny of the new section with European and North American distribution. Mycological Progress, 17, 1323-1354.

Choi YJ, Kruse J, Thines M (2018) Hyaloperonospora erucae sp. nov. (Peronosporaceae; Oomycota), the downy mildew pathogen of arugula (Eruca sativa). European Journal of Plant Pathology, 151, 549-555.

Chueca L, Gomez-Moliner B, Madeira M, Pfenninger M (2018) Molecular phylogeny of Candidula (Geomitridae) land snails inferred from mitochondrial and nuclear markers reveals the polyphyly of the genus. Molecular Phylogenetics and Evolution, 118, 257-268.

Dal Grande F, Meiser A, Greshake Tzovaras B, Otte JR, Ebersberger I, Schmitt I (2018) The draft genome of the lichen-forming fungus Lasallia hispanica (Frey) Sancho & A. Crespo. Lichenologist, 50, 329-340.

Dal Grande F, Rolshausen G, Divakar PK, Crespo A, Otte J, Schleuning M, Schmitt I (2018) Environment and host identity structure communities of green algal symbionts in lichens. New Phytologist, 217, 277-289.

Forslund K, Pereira C, Capella-Gutierrez S, Sousa da Silva A, Altenhoff A, Huerta-Cepas J, Muffato M, Patricop M, Vandepoele K, Ebersberger I, Blake J, Breis JTF, Boeckmann B, Gabaldon T, Sonnhammer E, Dessimoz C, Lewis S (2018) Gearing up to handle the mosaic nature of life in the quest for orthologs. Bioinformatics, 34, 323-329.

Foucault Q, Wieser A, Waldvogel AM, Feldmeyer B, Pfenninger M (2018) Rapid adaptation to high temperatures in Chironomus riparius. Ecology and Evolution, 8, 12780-12789.

Glynou K, Nam B, Thines M, Maciá-Vicente JG (2018) Facultative root‐colonizing fungi dominate endophytic assemblages in roots of nonmycorrhizal Microthlaspi species. New Phytologist, 217, 1190-1202.

Gupta DK, Rühl M, Mishra B, Kleofas V, Hofrichter M, Herzog R, Pecyna MJ, Sharma R, Kellner H, Hennicke F, Thines M (2018) The genome sequence of the commercially cultivated mushroom Agrocybe aegerita reveals a conserved repertoire of fruiting-related genes and a versatile suite of biopolymer-degrading enzymes. BMC Genomics, 19, 48.

Gupta S, Jain A, Syed SN, Snodgrass RG, Pflüger-Müller B, Leisegang MS, Weigert A, Brandes RP, Ebersberger I, Brüne B, Namgaladze D (2018) IL-6 augments IL-4-induced polarization of primary human macrophages through synergy of STAT3, STAT6 and BATF transcription factors. OncoImmunology, 7, e1494110.

Kelleher ES, Azevedo RBR, Zheng Y (2018) The Evolution of Small-RNA-Mediated Silencing of an Invading Transposable Element. Genome Biology and Evolution, 3038-3057.

Kersken D, Kocot K, Janussen D, Schell T, Pfenninger M, Martinez Arbizu P (2018) First insights into the phylogeny of deep-sea glass sponges (Hexactinellida) from polymetallic nodule fields in the Clarion-Clipperton Fracture Zone (CCFZ), northeastern Pacific. Hydrobiologia, 811, 283-293.

Kohlmeier P, Feldmeyer B, Foitzik S (2018) Vitellogenin-like A–associated shifts in social cue responsiveness regulate behavioral task specialization in an ant. PLOS Biology, 16, e2005747.

Kruse J, Dietrich W, Zimmermann H, Klenke F, Richter U, Richter H, Thines M (2018) Ustilago species causing leaf-stripe smut revisited. IMA Fungus, 9, 49-73.

Kukwa M, Schmitt I, Ertz D (2018) Ochrolechia incarnata comb. nov. (Lecanoromycetes, Ascomycota), a distinct species of the O. parella group from Europe and Macaronesia. Phytotaxa, 371, 119.

Lendvay B, Bálint MS, Pál I, Vincze I, Orbán I, Magyari EK (2018) Plant macrofossils from lake sediment as the material to assess ancient genetic diversity: Did deforestation influence Norway spruce (Picea abies) in the South Carpathians? Quaternary International, 477, 106-116.

Mathieson I, Alpaslan Roodenberg S, Szécsényi-Nagy A, Rohland N, Mallick S, Broomandkhoshbacht N, Cheronet O, Fernandes D, Ferry M, Gamarra B, Haak W, Harney E, Michel M, Nägele K, Novak M, Olade I, Oppenheimer J, Patterson N, Posth C, Sirak K, Stewardson K, Vai S, Alexandrov S, Alt KW, Andreescu R, Ash A, Atanassova N, Bacvarov K, Bocherens H, Bolus M, Boroneant A, Boyadzhiev Y, Budnik A, Burmaz J, Chohadzhiev S, Conard NJ, Cottiaux R, Cupillard C, Drucker DG, Elenski N, Francken M, Galabova B, Ganetovski G, Gely B, Hajdu T, Harvati K, et. al. EA, Krause J, Pinhasi R, Reich D (2018) The Genomic History of Southeastern Europe. Nature, 555, 197-210.

Menzel F, Zumbusch M, Feldmeyer B (2018) How ants acclimate: Impact of climatic conditions on the cuticular hydrocarbon profile. Functional Ecology, 32, 657-666.

Merges D, Balint M, Schmitt I, Böhning-Gaese K, Neuschulz EL (2018) Spatial patterns of pathogenic and mutualistic fungi across the elevational range of a host plant. Journal of Ecology, 106, 1545-1557.

Milián-García Y, Russello MA, Castellanos-Labarcena J, Cichon M, Kumar V, Espinosa G, Rossi N, Mazzotti F, Hekkala E, Amato G, Janke A (2018) Genetic evidence supports a distinct lineage of American crocodile (Crocodylus acutus) in the Greater Antilles. PeerJ, 6, e5836.

Mirzaee MR, Ploch S, Nigrelli L, Sajedi S, Thines M (2018) First confirmed report of white blister rust disease caused by Albugo candida on Isatis emarginata. Journal of Plant Pathology, 100, 587-587.

Mishra B, Choi YJ, Thines M (2018) Phylogenomics of Bartheletia paradoxa reveals its basal position in Agaricomycotina and that the early evolutionary history of basidiomycetes was rapid and probably not strictly bifurcating. Mycological Progress, 17, 333-341.

Mishra B, Gupta DK, Pfenninger M, Hickler T, Langer E, Nam B, Paule J, Sharma R, Ulaszewski B, Warmbier J, Burczyk J, Thines M (2018) A reference genome of the European beech (Fagus sylvatica L.). GigaScience, 7, giy063.

Moros-Nicolás C, Chevret P, José Izquierdo-Rico M, Holt W, Esteban-Díaz D, López-Béjar M, Martínez-Nevado E, Nilsson MA, Ballesta J, Avilés M (2018) Composition of marsupial zona pellucida: a molecular and phylogenetic approach. Reproduction, Fertility and Development, 30, 721-733.

Müller R, Knautz T, Vollroth S, Berger R, Kreß A, Reuss F, Groneberg DA, Kuch U (2018) Larval superiority of Culex pipiens to Aedes albopictus in a replacement series experiment: prospects for coexistence in Germany. Parasites & Vectors, 11, 80.

Nilsson MA, Zheng Y, Kumar V, Phillips MJ, Janke A (2018) Speciation generates mosaic genomes in kangaroos. Genome Biology and Evolution, 10, 33-44.

Park JH, Thines M, Lee HB, Shin HD, Choi YJ (2018) Bremia polycephala and Bremia sawadae spp. nov. (Peronosporaceae; Oomycota), parasitic to Northeast Asian Asteraceae. Nova Hedwigia, 107, 303-314.

Paul F, Otte JR, Schmitt I, Dal Grande F (2018) Comparing Sanger sequencing and high-throughput metabarcoding for inferring photobiont diversity in lichens. Scientific Reports, 8, 8624.

Paul F, Otte JR, Schmitt I, Grande FD (2018) Author Correction: Comparing Sanger sequencing and high-throughput metabarcoding for inferring photobiont diversity in lichens. Scientific Reports, 8, 17229.

Ploch S, Choi YJ, Thines M (2018) The only known white blister rust on a basal angiosperm is a member of the genus Albugo. Organisms Diversity & Evolution, 18, 63-69.

Reuss F, Wieser A, Niamir A, Bálint MS, Kuch U, Pfenninger M, Müller R (2018) Thermal experiments with the Asian bush mosquito (Aedes japonicus japonicus) (Diptera: Culicidae) and implications for its distribution in Germany. Parasites & Vectors, 11, 81.

Rolshausen G, Dal Grande F, Sadowska-Des AD, Otte J, Schmitt I (2018) Quantifying the climatic niche of symbiont partners in a lichen symbiosis indicates mutualist-mediated niche expansions. Ecography, 41, 1380-1392.

Santonja M, Foucault Q, Rancon AS, Gauquelin T, Fernandez C, Baldy V, Mirleau P (2018) Contrasting responses of bacterial and fungal communities to plant litter diversity in a Mediterranean oak forest. Soil Biology & Biochemistry, 125, 27-36.

Sapp M, Ploch S, Fiore-Donne AM, Bonkowski M, Rose LE (2018) Protists are an integral part of the Arabidopsis thaliana microbiome. Environmental microbiology, 20, 30-43.

Scharf KD, Berberich T, Ebersberger I, Nover L (2018) Corrigendum to “The plant heat stress transcription factor (Hsf) family: Structure, function and evolution” [BBAGRM 1819 (2) 104–119]. Biochimica et Biophysica Acta (BBA) – Gene Regulatory Mechanisms, 1861, 60.

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Tills O, Truebano M, Feldmeyer B, Pfenninger M, Morgenroth H, Schell T, Rundle SD (2018) Transcriptomic responses to predator kairomones in embryos of the aquatic snail Radix balthica. Ecology and Evolution, 8, 11071-11082.

Tran NV, Greshake Tzovaras B, Ebersberger I, Schwartz R (2018) PhyloProfile: dynamic visualization and exploration of multi-layered phylogenetic profiles. Bioinformatics, 34, 3041-3043.

Waldvogel A, Wieser A, Schell T, Patel S, Schmidt H, Hankeln T, Feldmeyer B, Pfenninger M (2018) The genomic footprint of climate adaptation in Chironomus riparius. Molecular Ecology, 27, 1439-1456.

Winter S, Fennessy J, Janke A (2018) Limited introgression supports division of giraffe into four species. Ecology and Evolution, 8, 10156-10165.

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Bennett R, de Cock AWAM, Levesque CA, Thines M (2017) Calycofera gen. nov., an estuarine sister taxon to Phytopythium, Peronosporaceae. Mycological Progress, 16, 947-954.

Bennett R, Thines M (2017) Confirmation that Phytophthora insolita (Peronosporaceae) is present as a marine saprotroph on mangrove leaves and first report of the species for the Philippines. Nova Hedwigia, 105, 185-196.

Bennett RM, Dedeles GR, Thines M (2017) Phytophthora elongata (Peronosporaceae) is present as an estuarine species in Philippine mangrove. Mycosphere, 8, 959-967.

Blank-Landeshammer B, Kollipara L, Biss K, Pfenninger M, Malcow S, Shuvaev K, Zahedi RP, Sickmann A (2017) Combining de novo peptide sequencing algorithms, a synergistic approach to boost both identifications and confidence in bottom-up proteomics. Journal of Proteome Research, 16, 3209-3218.

Buaya A, Ploch S, Hanic L, Nam B, Nigrelli L, Kraberg A, Thines M (2017) Phylogeny of Miracula helgolandica gen. et sp. nov. and Olpidiopsis drebesii sp. nov., two basal oomycete parasitoids of marine diatoms, with notes on the taxonomy of Ectrogella-like species. Mycological Progress, 16, 1041-1050.

Choi YJ, Thines M, Choi IY, Shin HD (2017) Perofascia is not monotypic: the description of the second taxon affecting the South American crop maca (Lepidium meyenii). Mycological Progress, 16, 857-864.

Choi YJ, Wong J, Runge F, Mishra B, Michelmore R, Thines M (2017) BrRxLR11 – a new phylogenetic marker with high resolution in the downy mildew genus Bremia and related genera. Mycological Progress, 16, 185-190.

Dal Grande F, Sharma R, Meiser A, Rolshausen G, Büdel B, Mishra B, Thines M, Otte J, Pfenninger M, Schmitt I (2017) Adaptive differentiation coincides with local bioclimatic conditions along an elevational cline in populations of a lichen-forming fungus. BMC Evolutionary Biology, 17, 93.

Dodt W, Gallus S, Phillips MJ, Nilsson MA (2017) Resolving kangaroo phylogeny and overcoming retrotransposon ascertainment bias. Scientific Reports, 7, 16811.

Dostál P, Fischer M, Chytrý M, Prati D (2017) No evidence for larger leaf trait plasticity in ecological generalists compared to specialists. Journal of Biogeography, 44, 511-521.

Feldmeyer B, Elsner D, Alleman A, Foitzik S (2017) Species-specific genes under selection characterize the coevolution of slavemaker and host lifestyles. BMC Evolutionary Biology, 17, 237.

Fellows Yates JA, Drucker DEG, Reiter E, Heumos S, Welker F, Münzel SC, Wojtal P, Lázničková-Galetová M, Conard NJ, Herbig A, Bocherens H, Krause J (2017) Central European Woolly Mammoth Population Dynamics: Insights from Late Pleistocene Mitochondrial Genomes. Scientific Reports, 7, 17714.

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Gent DH, Cohen Y, Runge F (2017) Homothallism in Pseudoperonospora humuli. Plant Pathology, 66, 1508-1516.

Glynou K, Tahir A, Kia SH, Thines M, Maciá-Vicente JG (2017) Genotypic diversity in root-endophytic fungi reflects efficient dispersal and environmental adaptation. Molecular Ecology, 36, 4618-4630.

Gomez-Zeledon J, Grasse W, Runge F, Land A, Spring O (2017) TaqMan qPCR pushes boundaries for the analysis of millennial wood. Journal of Archaeological Science, 79, 53-61.

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Herrmann M, Henning-Lucass N, Cordellier M, Schwenk K (2017) A genotype-phenotype association approach to reveal thermal adaptation in Daphnia galeata. Journal of Experimental Zoology Part A – Ecological Genetics and Physiology, 327, 53-65.

Hof C, Fritz SA, Prinzinger R, Pfenninger M, Böhning-Gaese K, Khaliq I (2017) Phylogenetic signals in thermal traits remain stronger in the tropics if we can believe published physiological data. A reply to McKechnie et al., “Data quality problems undermine analyses of endotherm upper critical temperatures”. Journal of Biogeography, 44, 2427-2431.

Hof C, Khaliq I, Prinzinger R, Böhning-Gaese K, Pfenninger M (2017) Global patterns of thermal tolerances and vulnerability of endotherms to climate change remain robust irrespective of varying data suitability criteria. Proceedings of the Royal Society B-Biological Sciences, 284, 20170232.

Iloh AC, Schmidt M, Muellner-Riehl AN, Ogundipe OT, Paule J (2017) Pleistocene refugia and genetic diversity patterns in West Africa: Insights from the liana Chasmanthera dependens (Menispermaceae). PLOS One, 12, e0170511.

Khaliq I, Böhning-Gaese K, Prinzinger R, Pfenninger M, Hof C (2017) The influence of thermal tolerances on geographical ranges of endotherms. Global Ecology and Biogeography, 26, 650-668.

Kia SH, Glynou K, Nauss T, Thines M, Piepenbring M, Maciá-Vicente JG (2017) Influence of phylogenetic conservatism and trait convergence on the interactions between fungal root endophytes and plants. ISME Journal, 11, 777-790.

Kohlmeier P, Negroni MA, Kever M, Emmling S, Stypa H, Feldmeyer B, Foitzik S (2017) Intrinsic worker mortality depends on behavioral caste and the queens‘ presence in a social insect. The Science of Nature – Naturwissenschaften, 104, 34.

Kokko H, Chaturvedi A, Croll D, Fischer MC, Guillaume F, Karrenberg S, Kerr B, Rolshausen G, Stapley J (2017) Can Evolution Supply What Ecology Demands? Trends in Ecology & Evolution, 32, 187-197.

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Kruse J, Choi YJ, Thines M (2017) New smut-specific primers for the ITS barcoding of Ustilaginomycotina. Mycological Progress, 16, 213-221.

Kruse J, Doehlemann G, Kemen E, Thines M (2017) Asexual and sexual morphs of Moesziomyces revisited. IMA Fungus, 8, 117-129.

Kruse J, Mishra B, Choi YJ, Sharma R, Thines M (2017) New smut-specific primers for multilocus genotyping and phylogenetics of Ustilaginaceae. Mycological Progress, 16, 917-925.

Kumar V, Lammers F, Bidon T, Pfenninger M, Kolter L, Nilsson MA, Janke A (2017) The evolutionary history of bears is characterized by gene low across species. Scientific Reports, 7, 46487.

Lagostina E, Dal Grande F, Ott S, Printzen C (2017) Fungus-specific SSR markers in the Antarctic lichens Usnea antarctica and U. aurantiacoatra (Parmeliaceae, Ascomycota). Applications in Plant Sciences, 5, 1-5.

Lammers F, Gallus S, Janke A, Nilsson MA (2017) Phylogenetic Conflict in Bears Identified by Automated Discovery of Transposable ElementInsertions in Low Coverage Genomes. Genome Biology and Evolution, 9, 2862-2878.

Lammers F, Janke A, Ruecklé C, Zizka V, Nilsson MA (2017) Screening for the ancient polar bear mitochondrial genome reveals low integration of mitochondrial pseudogenes (numts) in bears. Mitochondrial DNA Part B Resources, 2, 251-254.

Lange JA, Sharma R, Schmidt SI, Bahrdt S, Horn HG, Alguero-Muniz M, Nam B, Achterberg EP, Boersma M, Thines M, Schwenk K (2017) Community barcoding reveals little effect of ocean acidification on the composition of coastal plankton communities: evidence from a long-term mesocosm study in the Gullmar Fjord, Skagerrak. PLOS One, 12, e0175808.

Lorberau KE, Botnen SS, Mundra S, Aas AB, Rozema J, Eidesen PB, Kauserud H (2017) Does warming by open-top chambers induce change in the root-associated fungal community of the arctic dwarf shrub Cassiope tetragona (Ericaceae)? Mycorrhiza, 27, 513-524.

Mak SST, Gopalakrishnan S, Carøe C, Geng C, Liu SF, et. al. EA, Bocherens H, et. al. EA, Gilbert MTP (2017) Comparative performance of the BGISEQ-500 versus Illumina HISeq2500 sequencing platforms for palaeogenomic sequencing. Gigascience, 6, 1-13.

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Moretti A, Pavanelli J, Nolasco P, Leisegang M, Tanaka L, Fernandes C, Wosniak JJ, Kajihara D, Dias M, Fernandes D, Jo H, Tran N, Ebersberger I, Brandes R, Bonatto D, Laurindo R (2017) Conserved gene microsynteny unveils functional interaction between protein disulfide isomerase and Rho Guanine-dissociation inhibitor families. Scientific Reports, 7, 17262.

Oppold A, Schmidt H, Rose M, Hellmann L, Dolze F, Ripp F, Weich B, Schmidt-Ott U, Schmidt E, Kofler R, Hankeln T, Pfenninger M (2017) Chironomus riparius (Diptera) genome sequencing reveals the impact of minisatellite transposable elements on population divergence. Molecular Ecology, 2017, 3256-3275.

Paule J, Wagner ND, Weising K, Zizka G (2017) Ecological range shift in the polyploid members of the South American genus Fosterella (Bromeliaceae). Annals of Botany, 120, 233-243.

Petrželová I, Choi YJ, Jemelková M, Doležalová I, Kruse J, Thines M, Kitner M (2017) Confirmation of Peronospora agrimoniae as a distinct species. European Journal of Plant Pathology, 47, 887-896.

Reiners TE, Fuchs M, Hailer F, Janke A, Nowak C (2017) Establishing species-specific sexing markers suitable for non- invasive samples of species lacking genomic resources: an example using the highly endangered common hamster Cricetus cricetus. Conservation Genetics Resources, 9, 253-255.

Rieder V, Blank-Landeshammer B, Stuhr M, Schell T, Biss K, Kollipara L, Meyer A, Pfenninger M, Westphal H, Sickmann A (2017) DISMS2: A flexible algorithm for direct proteome-wide distance calculation of LC-MS/MS runs. BMC Bioinformatics, 18, 148.

Rottstock T, Kummer V, Fischer M, Joshi J (2017) Rapid transgenerational effects in Knautia arvensis in response to plant-community diversity. Journal of Ecology, 105, 714-725.

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Schell T, Feldmeyer B, Schmidt H, Greshake B, Tills O, Truebano M, Rundle SD, Paule J, Ebersberger I, Pfenninger M (2017) An Annotated Draft Genome for Radix auricularia (Gastropoda, Mollusca). Genome Biology and Evolution, 9, 585-592.

Schmidt H, Malik A, Bicker A, Poetzsch G, Avivi A, Shams I, Hankeln T (2017) Hypoxia tolerance, longevity and cancer-resistance in the mole rat Spalax – a liver transcriptomics approach. Scientific Reports, 7, 14348.

Segev U, Burkert L, Feldmeyer B, Foitzik S (2017) Pace-of-life in a social insect: behavioral syndromes in ants shift along a climatic gradient. Behavioral Ecology, 28, 1149-1159.

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Stuckas H, Knöbel L, Schade H, Breusing C, Hinrichsen HH, Bartel M, Langguth C, Melzner F (2017) Combining hydrodynamic modelling with genetics: Can passive larval drift shape the genetic structure of Baltic Mytilus populations? Molecular Ecology, 26, 2765-2782.

Szivak I, Mikes T, Szalontai B, Kucinic M, Vučković I, Vadkerti E, Kisfali P, Pauls SU, Balint M (2017) Ecological divergence of Chaetopteryx rugulosa species complex (Insecta, Trichoptera) linked to climatic niche diversification. Hydrobiologia, 794, 31-47.

Tahir A, Muñoz-Fuentes V, Buch AK, Celik A, Dutbayev A, Gabrielyan I, Glynou K, Khaliq I, Kitner M, Nigrelli L, Ploch S, Runge F, Schmuker A, Solovyeva I, Xia X, Vakhrusheva L, Maciá-Vicente JG, Nowak C, Thines M (2017) Genetic patterns reflecting Pleistocene range dynamics in the annual calcicole plant Microthlaspi erraticum across its Eurasian range. Flora, 236-237, 132-142.

Tobias N, Wolff H, Djahanschiri B, Grundmann F, Kronenwerth M, Shi Y, Simonyi S, Grün P, Shapiro-Ilan D, Pidot S, Stinear T, Ebersberger I, Bode HB (2017) Natural product diversity associated with the nematode symbionts Photorhabdus and Xenorhabdus. Nature Microbiology, 2, 1676-1685.

Tucker CM, Cadotte MW, Carvalho S, Davies TJ, Ferrier S, Fritz SA, Grenyer R, Helmus MR, Jin LS, Mooers AO, Pavoine S, Purschke O, Redding D, Rosauer DF, Winter M, Mazel F (2017) A guide to phylogenetic metrics for conservation, community ecology and macroecology. Biological Reviews, 92, 698-715.

Winter S, Friedman ALL, Astrin JJ, Gottsberger B, Letsch H (2017) Timing and host plant associations in the evolution of the weevil tribe Apionini (Apioninae, Brentidae, Curculionoidea, Coleoptera) indicate an ancient co-diversification pattern of beetles and flowering plants. Molecular Phylogenetics and Evolution, 107, 179-190.

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