Publications

Preprints on bioRxiv are available here

Grubisic M, G Singer, MC Bruno, RHA van Grunsven, A Manfrin, MT Monaghan, F Hölker. in press.
A pigment composition analysis reveals community changes in pre-established stream periphyton under low-level artificial light at night
Limnologica

Honnen A-C, MT Monaghan. 2017.
City-dwellers and country folks: Lack of population differentiation along an urban-rural gradient in the mosquito Culex pipiens (Diptera: Culicidae)
Journal of Insect Science 17:107.

Grubisic M, G Singer, MC Bruno, RHA van Grunsven, A Manfrin, MT Monaghan, F Hölker. in press.
Artificial light at night decreases biomass and alters community composition of benthic primary producers in a sub-alpine stream
Limnology and Oceanography 10.1002/lno.10607

Manfrin A, G Singer, S Larsen, N Weiß, RHA van Grunsven, N-S Weiß, S Wohlfahrt, MT Monaghan*, F Hölker*. 2017.
Artificial light at night affects organism flux across ecosystem boundaries and drives community structure in the recipient ecosystem
Frontiers in Environmental Science 5:61.

Watanabe K, MT Monaghan. 2017.
Comparative tests of the species-genetic diversity correlation at neutral and non-neutral loci in four species of stream insect
Evolution 71:1755–1764.

Wurzbacher C, K Attermeyer, MT Kettner, C Flintrop, N Warthmann, S Hilt, H-P Grossart, MT Monaghan. 2017.
DNA metabarcoding of unfractionated water samples relates phyto-, zoo- and bacterioplankton dynamics and reveals a single-taxon bacterial bloom
Environmental Microbiology Reports 9:383–388.

Frenken T, E Alacid, SA Berger, EC Bourne, M Gerphagnon, H-P Grossart, AS Gsell, BW Ibelings, M Kagami, FC Küpper, PM Letcher, A Loyau, T Miki, JC Nejstgaard, S Rasconi, A Reñé, T Rohrlack, K Rojas-Jimenez, DS Schmeller, B Scholz, K Seto, T Sime-Ngando, A Sukenik, DB Van de Waal, S Van den Wyngaert, E Van Donk, J Wolinska, C Wurzbacher, R Agha. 2017.
Integrating chytrid fungal parasites into plankton ecology. Research gaps and needs
Environmental Microbiology 19:3802–3822.

Bonada N, SM Carlson, T Datry, D Finn, C Leigh, DA Lytle, MT Monaghan, PA Tedesco. 2017.
Genetic, evolutionary and biogeographical processes in intermittent rivers and ephemeral streams
pp. 405-431 in Intermittent Rivers and Ephemeral Streams: Ecology and Management (eds. T Datry, N Bonada, A Boulton) Academic Press (eBook ISBN 9780128039045; Paperback ISBN 9780128038352)

Wurzbacher C, A Fuchs, K Attermeyer, K Frindte, H-P Grossart, M Hupfer, P Casper, MT Monaghan. 2017.
Shifts among Eukarya, Bacteria, and Archaea define the vertical organization of a lake sediment
Microbiome 5:41.

Rutschmann S*, H Detering*, S Simon, J Fredslund, MT Monaghan. 2017.
DiscoMark: Nuclear marker discovery from orthologous sequences using draft genome data.
Molecular Ecology Resources 17:257-266.

Rutschmann S, H Detering, S Simon, DH Funk, J-L Gattolliat, SJ Hughes, PM Raposeiro, R DeSalle, M Sartori, MT Monaghan. 2017.
Colonization and diversification of aquatic insects on three Macaronesian archipelagos using 59 nuclear loci derived from a draft genome
Molecular Phylogenetics and Evolution 107:27-38.

Honnen A-C*, PR Johnston*, MT Monaghan. 2016.
Sex-specific gene expression in the mosquito Culex pipiens f. molestus in response to artificial light at night.
BMC Genomics 17:22.

Schroer S, K Felsmann, F Hölker, S Mummert, MT Monaghan, C Wurzbacher, K Premke. 2016.
The impact of outdoor lighting on ecosystem function – gaining information with a Citizen Science approach using a questionnaire.
Frontiers in Environmental Science – Conference Abstract: Austrian Citizen Science Conference 2016. 10.3389/conf.FENVS.2016.01.00008

Vuataz L, S Rutschmann, MT Monaghan*, M Sartori*. 2016.
Molecular phylogeny and timing of diversification in Alpine Rhithrogena (Ephemeroptera: Heptageniidae)
BMC Evolutionary Biology 16:194.

Wurzbacher, C, N Warthmann, EC Bourne, K Attermeyer, M Allgaier, JR Powell, H Detering, S Mbedi, H-P Grossart, MT Monaghan. 2016.
High habitat-specificity in fungal communities in oligo-mesotrophic, temperate Lake Stechlin
MycoKeys 16:17-44.

Hjalmarsson A, J Bergsten, MT Monaghan. 2015.
Dispersal is linked to habitat use in 59 species of water beetles (Coleoptera: Adephaga) on Madagascar.
Ecography 38:732-739.

Holzhauer SIJ, S Franke, CCM Kyba, A Manfrin, R Klenke, CC Voigt, D Lewanzik, M Oehlert, MT Monaghan, S Schneider, S Heller, H Kuechly, A Brüning, A-C Honnen, F Hölker. 2015.
Out of the dark: establishing a large-scale field experiment to assess the effects of artificial light at night on species and food webs.
Sustainability 7:15593-15616.

Hölker F, C Wurzbacher, C Weißenborn, MT Monaghan, SIJ Holzhauer, K Premke. 2015.
Microbial diversity and community respiration in freshwater sediments influenced by artificial light at night.
Philisophical Transactions of the Royal Society B

Rutschmann S, J-L Gattolliat, SJ Hughes, M Báez, M Sartori*, MT Monaghan*. 2014.
Evolution and island-endemism of morphologically cryptic Baetis and Cloeon species (Ephemeroptera, Baetidae) on the Canary Islands and Madeira.
Freshwater Biology 59:2516-2527.

Toussaint EFA, R Hall, MT Monaghan, K Sagata, S Ibalim, HV Shaverdo, AP Vogler, J Pons, M Balke. 2014.
The towering orogeny of New Guinea as a trigger of arthropod megadiversity.
Nature Communications 5:4001.

Dijkstra, K-D B, MT Monaghan, SU Pauls. 2014.
Freshwater biodiversity and aquatic insect diversification.
Annual Review of Entomology 59:143-163.

Danabalan, R, MT Monaghan, DJ Ponsonby, Y-M Linton. 2014.
Occurrence and host preference of Maculipennis Group mosquitoes in England and Wales.
Medical and Veterinary Entomology 28:169-178.

Gamboa M, MT Monaghan. 2014.
Association of adult female and male stoneflies (Plecoptera) from an Alpine river using wing morphometrics and mitochondrial DNA.
Aquatic Insects 36:1-8.

Geiger MF F Herder, MT Monaghan, V Almada, R Barbieri, M Bariche, P Berrebi, J Bohlen, M Casal-Lopez, G B Delmastro, GPJ Denys, A Dettai, I Doadrio, E Kalogianni, H Kärst, M Kottelat, M Kovačić, M Laporte, M Lorenzoni, Z Marčić, M Özuluğ, A Perdices, S Perea, H Persat, S Porcelotti, C Puzzi, J Robalo, R Šanda, M Schneider, V Šlechtová, M Stumboudi, S Walter, J Freyhof. 2014.
Spatial heterogeneity in the Mediterranean biodiversity hotspot affects barcoding accuracy of its freshwater fishes.
Molecular Ecology Resources 14:1210-1221.

Hughes JM, DS Finn, MT Monaghan, A Schultheis, BW Sweeney. 2014.
Basic and applied uses of molecular approaches in freshwater ecology.
Freshwater Science 33:168-171.

Pauls SU, M Alp, M Bálint, P Bernabò, F Čiampor Jr, Z Čiamporová-Zat’ovičová, DS Finn, J Kohout, F Leese, V Lencioni, I Paz-Vinas, MT Monaghan. 2014.
Integrating molecular tools into freshwater ecology: developments and opportunities.
Freshwater Biology 59:1559-1576.

Yaegashi S, K Watanabe, MT Monaghan, T Omura. 2014.
Fine-scale dispersal in a stream caddisfly inferred from spatial autocorrelation of microsatellite markers.
Freshwater Science 33:172-180.

Watanabe K, S Kazama, T Omura, MT Monaghan. 2014.
Adaptive genetic divergence along narrow environmental gradients in four stream insects.
PLoS ONE 9:e93055.

Baselga, A, T Fujisawa, A Crampton-Platt, J Bergsten, PG Foster, MT Monaghan, AP Vogler. 2013.
Whole-community DNA barcoding reveals a spatiotemporal continuum of biodiversity at species and genetic levels.
Nature Communications 4:1892.

Hilt, S, J Köhler, R Adrian, MT Monaghan, CD Sayer. 2013.
Clear, crashing, turbid and back – long-term macrophyte changes in a shallow lake.
Freshwater Biology 58:2027-2036.

Scharnweber, K, K Watanabe, J Syväranta, T Wanke, MT Monaghan, T Mehner. 2013.
Effects of predation pressure and resource use on morphological divergence in omnivorous prey fish.
BMC Evolutionary Biology 13:132.

Vuataz, L, M Sartori, J-L Gattolliat, MT Monaghan. 2013.
Endemism and diversification in freshwater insects of Madagascar revealed by coalescent and phylogenetic analysis of museum and field collections.
Molecular Phylogenetics and Evolution 66:979-991.

Bergsten, J, DT Bilton, T Fujisawa, M Elliott, MT Monaghan, M Balke, L Hendrich, J Geijer, J Herrmann, GN Foster, I Ribera, AN Nilsson, TG Barraclough, AP Vogler. 2012.
The effect of geographical scale of sampling on DNA barcoding.
Systematic Biology 61:851-869.

Dziallas, C, M Allgaier, MT Monaghan, H-P Grossart. 2012.
Act together – implications of symbioses in aquatic ciliates.
Frontiers in Microbiology 3:288.

Gamboa, M, RK Kimbirauskas, RW Merritt, MT Monaghan. 2012.
A molecular approach to identifying the natural prey of the African creeping water bug Naucoris, a potential reservoir of Mycobacterium ulcerans.
Journal of Insect Science 12:2.

Gerecke, R, MT Monaghan. 2012.
Eintagsfliegen (Ephemeroptera).
Schriften des Nationalparks Gesäuse 7:132-141.

Powell, JR, MT Monaghan, M Opik, MC Rillig. 2011.
Evolutionary criteria outperform operational approaches in producing ecologically relevant fungal species inventories.
Molecular Ecology 20:655-66.

Vuataz, L, A Wagner, M Sartori, MT Monaghan. 2011.
Toward a DNA Taxonomy of Alpine Rhithrogena (Ephemeroptera: Heptageniidae) using a mixed Yule-coalescent analysis of mitochondrial and nuclear DNA.
PLoS ONE 6:e19728.

Isambert, B, J Bergsten, MT Monaghan, H Andriamizehy, T Ranarilalatiana, M Ratsimbazafy, J-R Andriniainimanana, AP Vogler. 2011.
Contrasting patterns of endemism and evolutionary history in the freshwater biodiversity of Madagascar.
Biological Conservation 144:1902-1909.

Walz N, R Adrian, JJ Gilbert, MT Monaghan, G Weithoff, H Zimmermann-Timm. 2011.
Preface – Rotifera XII.
Hydrobiologia 662:1-4.

Monaghan, MT, SU Pauls, JM Hughes, CT Robinson. 2010.
Evolutionary ecology, systematics, speciation, and phylogeography in benthology – Preface.
Journal of the North American Benthological Society 29:1024-1036.

Mehner, T, K Pohlmann, C Elkin, MT Monaghan, B Nitz, J Freyhof. 2010.
Genetic population structure of sympatric and allopatric populations of Baltic ciscoes Coregonus albula complex, Teleostei, Coregonidae).
BMC Evolutionary Biology 10:85.

Gattolliat J-L, MT Monaghan. 2010.
DNA-based association of adults and larvae in Baetidae (Ephemeroptera) with the description of a new genus Adnoptilum in Madagascar.
Journal of the North American Benthological Society 29:1042-1057.

Watanabe K, MT Monaghan, Y Takemon, T Omura. 2010.
Dispersal ability determines the genetic effects of habitat fragmentation caused by reservoirs in three species of aquatic insect.
Aquatic Conservation – Marine and Freshwater Ecosystems 20:574-579.

Lozan, AI, SA Belokobylskij, C van Achterberg, MT Monaghan. 2010.
Diversity and distribution of Braconidae (Hymenoptera, Ichneumonoidea) in the Central European peatbogs of South Bohemia, Czech Republic.
Journal of Insect Science 10:16.

Monaghan, MT, R Wild, M Elliot, T Fujisawa, M Balke, DJG Inward, DC Lees, R Ranaivosolo, P Eggleton, TG Barraclough, AP Vogler. 2009.
Accelerated species inventory on Madagascar using coalescent-based models of species delineation.
Systematic Biology 58:298-311.

Monaghan, MT, M Sartori. 2009.
Genetic contributions to the study of taxonomy, ecology, and evolution of mayflies (Ephemeroptera): review and future perspectives.
Aquatic Insects 31 Suppl. 1:19-39.

Papadopoulou, A, MT Monaghan, TG Barraclough, AP Vogler. 2009.
Sampling error does not invalidate the Yule-coalescent model for species delimitation. A response to Lohse (2009).
Systematic Biology 58:442-444.

Mehner, T, K Pohlmann, C Elkin, MT Monaghan, J Freyhof. 2009.
Genetic mixing from enhancement stocking in commercially exploited vendace populations.
Journal of Applied Ecology 46:1340-1349.

Gattolliat, J-L, H Barber-James, MT Monaghan 2009.
New species and generic delimitation of the Afrotropical Baetidae (Ephemeroptera) genera Bugilliesia Lugo-Ortiz & McCafferty 1996, Cheleocloeon Wuilot & Gillies 1993 and Delouardus Lugo-Ortiz & McCafferty 1999 (Baetidae; Ephemeroptera)
Aquatic Insects 31:167-186.

Tabacchi, E, J Steiger, D Corenblit, MT Monaghan, A-M. Planty-Tabacchi. 2009.
Implications of biological and physical diversity for resilience and resistance patterns within Highly Dynamic River Systems.
Aquatic Sciences 71:279-289.

Papadapoulou, A, J Bergsten, T Fujisawa, MT Monaghan, TG Barraclough, AP Vogler. 2008.
Speciation and DNA barcodes – testing the effects of dispersal on the formation of discrete sequence clusters.
Philosophical Transactions of the Royal Society of London B Biological Sciences 363:2987-2996.

Watanabe, K, MT Monaghan, Y Takemon, T Omura. 2008.
Biodilution of heavy metals in a stream macroinvertebrate food web: evidence from stable isotope analysis.
Science of the Total Environment 394:57-67.

Lozan, A, MT Monaghan, K Spitzer, J Jaros, M Zurovcova, V Broz. 2008.
Genetic confirmation that the parasitic wasp Cotesia glomerata (L.) (Braconidae, Hymenoptera) is a new threat to endemic butterflies of the Canary Islands.
Conservation Genetics 9:1431-1437.

Shaverdo, H, MT Monaghan, DC Lees, R Ranaivosolo, M Balke. 2008.
A new genus of Malagasy endemic diving beetles and description of a highly unusual species based on morphology and DNA sequence data (Dytiscidae: Copelatinae).
Systematics and Biodiversity 6:43-51.

Gattolliat, J-L, SJ Hughes, MT Monaghan, M Sartori. 2008.
Revision of Madeiran mayflies (Insecta, Ephemeroptera).
Zootaxa 1957:52-68.

Watanabe, K, MT Monaghan, T Omura. 2008.
Longitudinal patterns of genetic diversity and larval density of the riverine caddisfly Hydropsyche orientalis (Trichoptera).
Aquatic Sciences 70:377-387.

Gattolliat, J-L, MT Monaghan, M Sartori, J-M Elouard, H Barber-James, FC deMoor, P Derleth, O Glaizot, AP Vogler. 2008.
A molecular analysis of the Afrotropical Baetidae.
pp 219-232 In International Advances in the Ecology, Zoogeography and Systematics of Mayflies and Stoneflies (eds. FR Hauer, JA Stanford, RL Newell) University of California Press, Berkeley.

Monaghan, MT, DG Inward, T Hunt, AP Vogler. 2007.
A molecular phylogenetic analysis of the Scarabaeinae (dung beetles).
Molecular Phylogenetics and Evolution 45:674-692.

Ahrens, D, MT Monaghan, AP Vogler. 2007.
DNA-based taxonomy for associating adults and larvae in multi-species assemblages of chafers (Coleoptera: Scarabaeidae).
Molecular Phylogenetics and Evolution 44:436-449.

Vogler, AP, MT Monaghan. 2007.
Recent advances in DNA taxonomy.
Journal of Zoological Systematics and Evolutionary Research 45:1-10.

Monaghan, MT, M Balke, J Pons, AP Vogler. 2006.
Beyond barcodes: complex DNA taxonomy of a South Pacific Island radiation.
Proceedings of the Royal Society of London B Biological Sciences 273:887-893.

Monaghan, MT, M Balke, TR Gregory, AP Vogler. 2005.
DNA-based species delineation in tropical beetles using mitochondrial and nuclear markers.
Philosophical Transactions of the Royal Society of London B Biological Sciences 360:1925-1933.

Monaghan, MT, J-L Gattolliat, M Sartori, J-M Elouard, H James, P Derleth, O Glaizot, FC de Moor, AP Vogler. 2005.
Trans-oceanic and endemic origins of the small minnow mayflies (Ephemeroptera, Baetidae) of Madagascar.
Proceedings of the Royal Society of London B Biological Sciences 272:1829-1836.

Monaghan, MT, CT Robinson, P Spaak, JV Ward. 2005.
Macroinvertebrate species richness and nestedness in fragmented alpine streams: implications for freshwater conservation.
Aquatic Sciences 67:454-464.

Giller, P, H Hillebrand, U-G Berninger, MO Gessner, S Hawkins, P Inchausti, C Inglis, H Leslie, B Malmqvist, MT Monaghan, PJ Morin, G O’Mullan. 2004.
Biodiversity effects on ecosystem functioning: emerging issues and their experimental test in aquatic environments.
Oikos 104:423-436.

Gili, M, MT Monaghan, P Spaak. 2004.
Amplified fragment length polymorphism (AFLP) reveals species-specific markers in the Daphnia galeata-hyalina species complex.
Hydrobiologia 526:63-71.

Robinson, CT, U Uehlinger, MT Monaghan 2004.
Stream ecosystem response to multiple experimental floods from a reservoir.
River Research and Applications 20:359-377.

Robinson, CT, U Uehlinger, MT Monaghan 2003.
Effects of a multi-year experimental flood regime on macroinvertebrates downstream of a reservoir.
Aquatic Sciences 65:210-222.

Georgian, T, JD Newbold, SA Thomas, MT Monaghan, GW Minshall, CE Cushing. 2003.
Comparison of corn pollen and natural fine particulate matter transport in streams: can pollen be used as a seston surrogate?
Journal of the North American Benthological Society 22:2-16.

Monaghan, MT, P Spaak, CT Robinson, JV Ward. 2002.
Population genetic structure of 3 Alpine stream insects: influences of gene flow, demographics, and habitat fragmentation.
Journal of the North American Benthological Society 21:114-131.

Monaghan, MT, M Hieber, CT Robinson, P Spaak, JV Ward. 2002.
Spatial patterns of Ephemeroptera, Plecoptera, and Trichoptera species diversity in fragmented alpine streams.
Verh. Internat. Verein. Limnol. (Proceedings of the International Limnological Society) 28:1429-1435.

Monaghan, MT, P Spaak, CT Robinson, JV Ward. 2001.
Genetic differentiation of Baetis alpinus Pictet (Ephemeroptera: Baetidae) in fragmented alpine streams.
Heredity 86:395-403.

Monaghan, MT, SA Thomas, GW Minshall, JD Newbold, CE Cushing. 2001.
The influence of filter-feeding benthic macroinvertebrates on the transport and deposition of particulate organic matter and diatoms in two streams.
Limnology and Oceanography 46:1091-1099.

Thomas, SA, JD Newbold, MT Monaghan, GW Minshall, T Georgian, CE Cushing. 2001.
The influence of particle size on the deposition of seston in streams.
Limnology and Oceanography 46:1415-1424.

Winder, M, MT Monaghan, P Spaak. 2001.
Have human impacts changed alpine zooplankton diversity over the past 100 years?
Arctic, Antarctic, and Alpine Research 33:467-475.

Minshall, GW, SA Thomas, JD Newbold, MT Monaghan, CE Cushing. 2000.
Physical influences on organic particle transport and deposition in streams.
Journal of the North American Benthological Society 19:1-16.

Royer, TV, MT Monaghan, GW Minshall. 1999.
Processing of native and exotic leaf litter in two Idaho (USA) streams.
Hydrobiologia 400:123-128.
*equal contributions

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