Pinsky ML, Eikeset AM, Helmerson C, Bradbury IR, Bentzen P, Morris C, Gondek-Wyrozemska AT, Baalsrud HT, Brieuc MSO, Kjesbu OS, Godiksen JA, Barth JMI, Matschiner M, Stenseth NC, Jakobsen KS, Jentoft S, Star B (2021) Genomic stability through time despite decades of exploitation in cod on both sides of the Atlantic. Proceedings of the National Academy of Sciences, 118:e2025453118. pdf.

Matschiner M, Barth JMI, Tørresen OK, Star B, Baalsrud HT, Brieuc MSO, Pampoulie C, Bradbury I, Jakobsen KS, Jentoft S (2021) Origin and fate of supergenes in Atlantic cod. bioRxiv, doi:10.1101/2021.02.28.433253. pdf. code.

Koppetsch T, Neças P, Wipfler B (2021) A new chameleon of the Trioceros affinis species complex (Squamata: Chamaeleonidae) from Ethiopia. Zoosystematics and Evolution, 97:161-179. pdf.

Ronco F, Matschiner M, Böhne A, Boila A, Büscher H, El Taher A, Indermaur A, Malinsky M, Ricci V, Kahmen A, Jentoft S, Salzburger W (2021) Drivers and dynamics of a massive adaptive radiation in cichlid fishes. Nature, 589:76-81. pdf. code.


Matschiner M, Böhne A, Ronco F, Salzburger W (2020) The genomic timeline of cichlid fish diversification across continents. Nature Communications, 11:5859. pdf. code. files.

Böhme W, Koppetsch T (2020) Wann wurde das Seitenwinden wüstenbewohnender Vipern erstmals beschrieben? Und war die Spinnenschwanz-Viper (Pseudocerastes urarachnoides Bostanchi et al., 2006) vielleicht schon fast 2000 Jahre vorher bekannt? Sekretär, 20:81-89. pdf.

Malinsky M, Matschiner M, Svardal H (2020) Dsuite ‐ Fast D‐statistics and related admixture evidence from VCF files. Molecular Ecology Resources, 21:584-595. pdf.

Koppetsch T (2020) A new species of Trachylepis (Squamata: Scincidae) from the Amhara Region, Ethiopia, and a key to the Ethiopian Trachylepis. Zootaxa, 4859:113-126. pdf.

Roth O, Solbakken MH, Tørresen OK, Bayer T, Matschiner M, Baalsrud H, Hoff SNK, Brieuc MSO, Haase D, Hanel R, Reusch TBH, Jentoft S (2020) Evolution of male pregnancy associated with remodeling of canonical vertebrate immunity in seahorses and pipefishes. Proceedings of the National Academy of Sciences, 117:9431-9439. pdf.

Koppetsch T, Böhme W, Büsse S, Gorb SN (2020) Comparative epidermal microstructure anatomy and limb and tail osteology of eyelid geckos (Squamata: Eublepharidae): Implications of ecomorphological adaptations. Zoologischer Anzeiger, 287:45-60.

Barth JMI, Gubili C, Matschiner M (shared first co-author), Tørresen OK, Watanabe S, Egger B, Han Y-S, Feunteun E, Sommaruga R, Jehle R, Schabetsberger R (2020) Stable species boundaries despite ten million years of hybridization in tropical eels. Nature Communications, 11:1433. pdf. code.

Koppetsch T, Sánchez Romero G, Fischer E, Böhme W (2020) A new record of nectarivory for Tarentola delalandii (Duméril and Bibron, 1836) pollinating the introduced palm Dypsis lutescens (H. Wendl.) Beentje and J. Dransf. (Arecaceae) on Tenerife, Canary Islands. Herpetology Notes, 13:415-419. pdf.

El Taher A, Ronco F, Matschiner M, Salzburger W, Böhne A (2020) Dynamics of sex chromosome evolution in a rapid radiation of cichlid fishes. bioRxiv, doi:10.1101/2020.10.23.335596. pdf.

Koppetsch T, Wantania LL, Boneka FB, Böhme W (2020) Crossing the Weber Line: First record of the Giant Bluetongue Skink Tiliqua gigas (Schneider, 1801) (Squamata: Scincidae) from Sulawesi, Indonesia. Bonn zoological Bulletin, 69:185-189. pdf.

Fang B, Merilä, Matschiner M, Momigliano P (2020) Estimating uncertainty in divergence times among three-spined stickleback clades using the multispecies coalescent. Molecular Phylogenetics and Evolution, 142:106646. pdf.


Ceballos SG, Roesti M, Matschiner M, Fernández D, Damerau M, Hanel R, Salzburger W (2019) Phylogenomics of an extra-Antarctic notothenioid radiation reveals a previously unrecognized lineage and diffuse species boundaries. BMC Evolutionary Biology, 19:13. pdf.

Böhme W, Jacobs HJ, Koppetsch T, Schmitz A (2019) The Kei Islands monitor lizard (Squamata: Varanidae: Varanus: Euprepiosaurus) as a distinct morphological, taxonomic, and conservation unit. Russian Journal of Herpetology, 26:272-280. pdf.

Varadharajan S, Rastas P, Löytynoja A, Matschiner M, Calboli FCF, Guo B, Nederbragt AJ, Jakobsen KS, Merilä J (2019) A high-quality assembly of the nine-spined stickleback (Pungitius pungitius) genome. Genome Biology and Evolution, 11:3291-3308. pdf.

Koppetsch T, Böhme W (2019) Ein Fall von intrasexuellem Kannibalismus bei Weibchen der Europäischen Gottesanbeterin Mantis religiosa, Linnaeus, 1758 (Mantodea: Mantidae). Entomologische Zeitschrift, 129:3-6.

Matschiner M, Salzburger W (2019) Evolution: Genomic signatures of mimicry and mimicry of genomic signatures. Current Biology, 29:R363-R365. pdf.

Koppetsch T, Böhme W, Koch A (2019) A new species of Dibamus Duméril & Bibron, 1839 (Squamata: Dibamidae) from Pulau Manado Tua, Northern Sulawesi, Indonesia. Zootaxa , 4555:331-345. pdf.

Musilova Z, Cortesi F, Matschiner M, Davies WIL, Patel JS, Stieb SM, de Busserolles F, Malmstrøm M, Tørresen OK, Brown CJ, Mountford JK, Hanel R, Stenkamp DL, Jakobsen KS, Carleton KL, Jentoft S, Marshall J, Salzburger W (2019) Vision using multiple distinct rod opsins in deep-sea fishes. Science, 364:588-592. pdf. code. files.

Bouckaert R, Vaughan TG, Barido-Sottani J, Duchêne S, Fourment M, Gavryushkina A, Heled J, Jones G, Kühnert D, de Maio N, Matschiner M, Mendes FK, Müller NF, Ogilvie H, du Plessis L, Popinga A, Rambaut A, Rasmussen D, Siveroni I, Suchard MA, Wu C-H, Xie W, Zhang C, Stadler T, Drummond AJ (2019) BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis. PLOS Computational Biology, 15:e1006650. pdf.

Matschiner M (2019) Selective sampling of species and fossils influences age estimates under the fossilized birth-death model. Frontiers in Genetics, 10:1064. pdf. code.

Matschiner M (2019) Gondwanan vicariance or trans-Atlantic dispersal of cichlid fishes: a review of the molecular evidence. Hydrobiologia, 832:9-37. pdf.

Langangen Ø, Färber L, Stige LC, Diekert FK, Barth JMI, Matschiner M, Berg PR, Star B, Stenseth NC, Jentoft S, Durant JM (2019) Ticket to spawn: Combining economic and genetic data to evaluate the effect of climate and demographic structure on spawning distribution in Atlantic cod. Global Change Biology, 25:134-143. pdf.


Böhme W, Wistuba R, Koppetsch T (2018) Nachweis der Brandmaus, Apodemus agrarius (Pallas, 1771), am Südufer des Neusiedlersees, NW Ungarn. Säugetierkundliche Informationen, Jena, 11:35-38. pdf.

Malmstrøm M, Britz R, Matschiner M, Tørresen OK, Hadiaty RK, Yaakob N, Tan YH, Jakobsen KS, Salzburger W, Rüber L (2018) The most developmentally truncated fishes show extensive Hox gene loss and miniaturized genomes. Genome Biology and Evolution, 10:1088-1103. pdf.

Runemark A, Trier CN, Eroukhmanoff F, Hermansen JS, Matschiner M, Ravinet M, Elgvin TO, Saetre GP (2018) Variation and constraints in hybrid genome formation. Nature Ecology and Evolution, 2:549-556. pdf.

Stange M, Sánchez-Villagra MR, Salzburger W, Matschiner M (2018) Bayesian divergence-time estimation with genome-wide SNP data of sea catfishes (Ariidae) supports Miocene closure of the Panamanian Isthmus. Systematic Biology, 67:681-699. pdf. code.

Toljagić O, Voje KL, Matschiner M, Liow LH, Hansen T (2018) Millions of years behind: slow adaptation of ruminants to grasslands. Systematic Biology, 67:145-157. pdf.


Koppetsch T, Böhme W (2017) Erstnachweis von Hemidactylus pseudomuriceus Henle & Böhme, 2003 (Squamata: Gekkonidae) aus der Zentralafrikanischen Republik (RCA). SAURIA, Berlin, 2017, 39:63-67-38. pdf.

Baalsrud HT, Voje KL, Tørresen OK, Solbakken MH, Matschiner M, Malmstrøm M, Hanel R, Salzburger W, Jakobsen KS, Jentoft S (2017) Evolution of hemoglobin genes in codfishes influenced by ocean depth. Scientific Reports, 7:7956. pdf.

Barth JMI, Damerau M, Matschiner M, Jentoft S, Hanel R (2017) Genomic differentiation and demographic histories of Atlantic and Indo-Pacific yellowfin tuna (Thunnus albacares) populations. Genome Biology and Evolution, 9:1084-1098. pdf.

Malmstrøm M, Matschiner M, Tørresen OK, Jakobsen KS, Jentoft S (2017) Whole genome sequencing data and de novo draft assemblies for 66 teleost species. Scientific Data, 4:160132. pdf.

Matschiner M, Musilová Z, Barth JMI, Starostová Z, Salzburger W, Steel M, Bouckaert R (2017) Bayesian phylogenetic estimation of clade ages supports trans-Atlantic dispersal of cichlid fishes. Systematic Biology, 66:3-22. pdf.

Meyer BS, Matschiner M (shared first co-author), Salzburger W (2017) Disentangling incomplete lineage sorting and introgression to refine species-tree estimates for Lake Tanganyika cichlid fishes. Systematic Biology, 66:531-550. pdf.


Malmstrøm M, Matschiner M (shared first co-author), Tørresen OK, Star B, Snipen LG, Hansen TF, Baalsrud HT, Nederbragt AJ, Hanel R, Salzburger W, Stenseth NC, Jakobsen KS, Jentoft S (2016) Evolution of the immune system influences speciation rates in teleost fishes. Nature Genetics, 48:1204-1210. pdf. code.

Gante HF, Matschiner M, Malmstrøm M, Jakobsen KS, Jentoft S, Salzburger W (2016) Genomics of speciation and introgression in Princess cichlid fishes from Lake Tanganyika. Molecular Ecology, 25:6143-6161. pdf. files.

Matschiner M (2016) Fitchi: haplotype genealogy graphs based on the Fitch algorithm. Bioinformatics, 32:1250-1252. pdf.


Meyer BS, Matschiner M, Salzburger W (2015) A tribal level phylogeny of Lake Tanganyika cichlid fishes based on a genomic multi-marker approach. Molecular Phylogenetics and Evolution, 83:56-71. pdf.

Colombo M, Damerau M, Hanel R, Salzburger W, Matschiner M (2015) Diversity and disparity through time in the adaptive radiation of Antarctic notothenioid fishes. Journal of Evolutionary Biology, 28:376-394. pdf.

Matschiner M, Colombo M, Damerau M, Ceballos S, Hanel R, Salzburger W (2015) The adaptive radiation of notothenioid fishes in the waters of Antarctica. In: Extremophile Fishes (eds Riesch R, Tobler M, Plath M), pp. 35-57. Springer International Publishing, Switzerland. pdf.


Damerau M, Matschiner M, Salzburger W, Hanel R (2014) Population divergences despite long pelagic larval stages: lessons from crocodile icefishes (Channichthyidae). Molecular Ecology, 23:284-299. pdf.

Barth JMI, Matschiner M, Robertson BR (2013) Phylogenetic position and subspecies divergence of the endangered New Zealand Dotterel (Charadrius obscurus). PLOS ONE, 8:e78068. pdf.

Damerau M, Matschiner M, Salzburger W, Hanel R (2012) Comparative population genetics of seven notothenioid fish species in the southern Scotia Arc, Antarctica. Polar Biology 35:1073-1086. pdf.

Palandaçiç A, Matschiner M, Zupançiç P, Sloj A (2012) Fish migrate underground: the example of Delminichthys adspersus (Cyprinidae). Molecular Ecology, 21:1658-1671. pdf.

Sands C, Arntz W, Janussen D, Agrawal S, Damerau M, Hauquier F, Havermans C, Hirse T, Matschiner M, Knust R, Koschnick N, Mintenbeck K, Montiel A, Rath L, Robert H, Rose A, Rossi S, Storch D, Uriz I, Wang C (2012) Biodiversity, biogeography, phylogeography and phylogenetics in a latitudinal cline. Reports on Polar and Marine Research 644: 13-46. pdf.

Rutschmann S, Matschiner M, Damerau M, Muschick M, Lehmann MF, Hanel R, Salzburger W (2011) Parallel ecological diversification in Antarctic notothenioid fishes as evidence for adaptive radiation. Molecular Ecology 20:4707-4721. pdf.

Matschiner M, Hanel R, Salzburger W (2011) On the origin and trigger of the notothenioid adaptive radiation. PLOS ONE 6:e18911. pdf.

Matschiner M, Hanel R, Salzburger W (2010) Phylogeography and speciation processes in marine fishes and fishes from large freshwater lakes. In: Phylogeography: Concepts, Intraspecific Patterns and Speciation Processes (ed Rutgers DS), pp. 1-29. Nova Science Publishers, New York. pdf.

Matschiner M, Hanel R, Salzburger W (2009) Gene flow by larval dispersal in the Antarctic notothenioid fish Gobionotothen gibberifrons. Molecular Ecology 18:2574-2587. pdf.

Matschiner M, Salzburger W (2009) TANDEM: integrating automated allele binning into genetics and genomics workflows. Bioinformatics, 25:1982-1983. pdf.

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