1 Schäferna, K. Amphipoda balcanica, spolu s poznámkami o jiných sladkovodních Amphipodech. Mem Soc R Sci Boheme Prague 12, 1-111 (1922).
2 Martynov, A. B. Zur Kenntnis der Amphipoden der Krim. Zool. Jahrb. 60, 573-606 (1931).
3 Karaman, S. L. Beitrag zur Kenntnus der Susswasseramphiopden. Bull. Soc. Scien. Skoplje IX, 93-107 (1931).
4 Schellenberg, A. Schlussel und Diagnosen der dem Susswasser-Gammarus nahestehenden Einheiten ausschlisslich der Arten des Baikalsees und Australiens. Zool Anz 117, 267-280 (1937).
5 <Barnard&Karaman_1982_Gammaridean_classification_revision.PDF>.
6 Karaman, G. & Pinkster, S. Freshwater Gammarus species from Europe, North Africa and adjacent regions of Asia (CrustaceaAmphipoda). Part I.Gammarus pulex-group and related species. Bijdragen tot de Dierkunde 47, 1-97 (1977).
7 Karaman, G. & Pinkster, S. Freshwater Gammarus species from Europe, North Africa and adjacent regions of Asia (Crustacea Amphipoda). Part II.Gammarus roeseli-group and related species. Bijdragen tot de Dierkunde 47, 165-196 (1977).
8 Karaman, G. & Pinkster, S. Freshwater Gammarus species from Europe, North Africa and adjacent regions of Asia (Crustacea-Amphipoda). Part III. Gammarus balcanicus-group and related species. Bijdragen tot de Dierkunde 57, 207-260 (1987).
9 Jażdżewski, K. Remarks on Gammarus lacustris G.O. Sars,1863, with description of Gammarus varsoviensis n. sp. Bijdragen tot de Dierkunde 45, 71-86 (1975).
10 Jażdżewski, K. & Konopacka, A. Gammarus leopoliensis nov. sp. (Crustacea, Amphipoda) from Eastern Carpathians. Bulletin Zoölogisch Museum 11, 185-196 (1989).
11 Karaman, G. S. New species of the family Gammaridae from Ohrid Lake basin, Gammarus sketi, n. sp., with emphasis on the subterranean members of genus Gammarus Fabr. (Contribution to the knowledge of the Amphipoda 191.). Glasnik Odjeljenja prirodnih nauka, Crnogorska akademija nauka i umjetnosti 7, 53-71 (1989).
12 Iannilli, V. & Ruffo, S. Apennine and Sardinian species of Gammarus, with the description of Gammarus elvirae n. sp. (Crustacea Amphipoda, Gammaridae). Boll. Acc. Gioenia Sci. Nat 35, 519-532 (2002).
13 Alther, R., Fišer, C. & Altermatt, F. Description of a widely distributed but overlooked amphipod species in the European Alps. Zoological Journal of the Linnean Society, n/a-n/a, doi:10.1111/zoj.12477 (2016).
14 Grabowski, M., Wysocka, A. & Mamos, T. Molecular species delimitation methods provide new insight into taxonomy of the endemic gammarid species flock from the ancient Lake Ohrid. Zoological Journal of the Linnean Society 20, 1-14, doi:https://doi.org/10.1093/zoolinnean/zlw025 (2017).
15 Hupalo, K., Mamos, T., Wrzesinska, W. & Grabowski, M. First endemic freshwater Gammarus from Crete and its evolutionary history-an integrative taxonomy approach. PeerJ 6, e4457, doi:10.7717/peerj.4457 (2018).
16 Rudolph, K., Coleman, C. O., Mamos, T. & Grabowski, M. Description and post-glacial demography of Gammarus jazdzewskii sp. nov. (Crustacea: Amphipoda) from Central Europe. Systematics and Biodiversity 16, 587–603, doi:10.1080/14772000.2018.1470118 (2018).
17 Hou, Z., Sket, B. & Li, S. Phylogenetic analyses of Gammaridae crustacean reveal different diversification patterns among sister lineages in the Tethyan region. Cladistics 30, doi:10.1111/cla.12055 (2014).
18 Hou, Z. & Sket, B. A review of Gammaridae (Crustacea: Amphipoda): the family extent, its evolutionary history, and taxonomic redefinition of genera. Zoological Journal of the Linnean Society 176, 323-348, doi:10.1111/zoj.12318 (2016).
19 Sket, B. & Hou, Z. Family Gammaridae (Crustacea: Amphipoda), mainly its Echinogammarus clade in SW Europe. Further elucidation of its phylogeny and taxonomy. 61 (2018).
20 Mamos, T., Wattier, R., Burzyński, A. & Grabowski, M. The legacy of a vanished sea: a high level of diversification within a European freshwater amphipod species complex driven by 15 My of Paratethys regression. Molecular ecology 25, 795-810, doi:10.1111/mec.13499 (2016).
21 Mamos, T., Wattier, R., Majda, A., Sket, B. & Grabowski, M. Morphological vs. molecular delineation of taxa across montane regions in Europe: the case study of Gammarus balcanicus Schäferna, 1922 (Crustacea: Amphipoda). Journal of Zoological Systematics and Evolutionary Research 52, 237-248, doi:10.1111/jzs.12062 (2014).
22 Grabowski, M., Mamos, T., Bącela-Spychalska, K., Rewicz, T. & Wattier, R. A. Neogene paleogeography provides context for understanding the origin and spatial distribution of cryptic diversity in a widespread Balkan freshwater amphipod. PeerJ 5, e3016, doi:10.7717/peerj.3016 (2017).
23 Copilaş-Ciocianu, D., Zimţa, A.-A., Grabowski, M. & Petrusek, A. Survival in northern microrefugia in an endemic Carpathian gammarid (Crustacea: Amphipoda). Zoologica Scripta 47, 357-372, doi:10.1111/zsc.12285 (2018).
24 Copilaş-Ciocianu, D. & Petrusek, A. Phylogeography of a freshwater crustacean species complex reflects a long-gone archipelago. Journal of Biogeography 44, 421-432, doi:10.1111/jbi.12853 (2017).
25 Wattier, R. et al. Continental-scale patterns of hyper-cryptic diversity within the freshwater model taxon Gammarus fossarum (Crustacea, Amphipoda). Sci Rep 10, 16536, doi:10.1038/s41598-020-73739-0 (2020).
26 Meier, R. & Wheeler, Q. D. in The New Taxonomy (ed Q. D. Wheeler) 256 (CRC Press, 2008).
27 Coleman, C. O. Taxonomy in Times of the Taxonomic Impediment – Examples from the Community of Experts on Amphipod Crustaceans. J Crustacean Biol 35, 729-740, doi:10.1163/1937240x-00002381 (2015).
28 Puillandre, N., Brouillet, S. & Achaz, G. ASAP: assemble species by automatic partitioning. Molecular ecology resources 21, 609-620, doi:10.1111/1755-0998.13281 (2021).
29 Kondracki, J. Karpaty. (WSiP, 1989).
30 Mráz, P. & Ronikier, M. Biogeography of the Carpathians: evolutionary and spatial facets of biodiversity. Biological Journal of the Linnean Society 119, 528-559, doi:10.1111/bij.12918 (2016).
31 Balint, M. et al. in Biodiversity Hotspots. Distribution and Protection of Conservation Priority Areas 189-205 (Springer, 2011).
32 Schmitt, T. & Varga, Z. Extra-Mediterranean refugia: The rule and not the exception? Frontiers in zoology 9, doi:Artn 2210.1186/1742-9994-9-22 (2012).
33 Ronikier, M. Biogeography of high-mountain plants in the Carpathians: An emerging phylogeographical perspective. Taxon 60, 373-389, doi:https://doi.org/10.1002/tax.602008 (2011).
34 Hájková, P. et al. Using multi-proxy palaeoecology to test a relict status of refugial populations of calcareous-fen species in the Western Carpathians. The Holocene 25, 702-715, doi:10.1177/0959683614566251 (2015).
35 Malicky, H. Chorological patterns and biome types of European Trichoptera and other freshwater insects. Archiv für Hydrobiologie 96, 223-244 (1983).
36 Malicky, H. Arealdynamik und Biomgrundtypen am Beispiel der Köcherfliegen (Trichoptera). Entomologica Basiliensia 22, 235-259 (2000).
37 Keresztes, L., Kolcsár, L.-P., Török, E. & Dénes, A.-L. in The Carpathians as speciation centres and barriers: from case studies to general patterns (eds L Keresztes & B. Markó) 168 (Cluj University Press, 2011).
38 Bozanova, J., Ciamporova Zat'ovicova, Z., Ciampor, F., Jr., Mamos, T. & Grabowski, M. The tale of springs and streams: how different aquatic ecosystems impacted the mtDNA population structure of two riffle beetles in the Western Carpathians. PeerJ 8, e10039, doi:10.7717/peerj.10039 (2020).
39 Copilas-Ciocianu, D., Rutova, T., Paril, P. & Petrusek, A. Epigean gammarids survived millions of years of severe climatic fluctuations in high latitude refugia throughout the Western Carpathians. Molecular phylogenetics and evolution 112, 218-229, doi:10.1016/j.ympev.2017.04.027 (2017).
40 Grabowski, M. & Mamos, T. Contact Zones, Range Boundaries, and Vertical Distribution of Three Epigean Gammarids (Amphipoda) in the Sudeten and Carpathian Mountains (Poland). Crustaceana 84, 153-168, doi:10.1163/001121611x554328 (2011).
41 Jażdżewski, K. Morfologia, taksonomia i występowanie w Polsce kiełży z rodzajów Gammarus Fabr. i Chaetogammarus Mart. (Crustacea, Amphipoda). 185 (Acta Universitatis Lodziensis, 1975).
42 Jażdżewski, K. & Konopacka, A. Notes on the Gammaridean Amphipoda of the Dniester River Basin and Eastern Carpathians. Crustaceana. Supplement, 72-89 (1988).
43 Zieliński, D. Life History of Gammarus balcanicus Schäferna, 1922 from the Bieszczady Mountains (Eastern Carpathians, Poland). Crustaceana 68(1), 61-72 (1995).
44 Zieliński, D. Life Cycle and Altitude Range of Gammarus leopoliensis Jażdżewski & Konopacka, 1989 (Amphipoda) in South-Eastern Poland. Crustaceana 71 (1998).
45 Konopacka A., J. K., Jędryczkowski W. in Monografie Bieszczadzkie t. VII (ed J. Razowski) (2001).
46 Straškraba, M. Předběžná zpráva o rozšíření rodu Gammarus v ČSR. Věstník Československé Společnosti Zoologické 17, 212-227 (1953).
47 Straškraba, M. Beitrag zur Kenntnis der Amphipodenfauna Karpatenrusslands (USSR). Věstník Československé Společnosti Zoologické 21, 256-272 (1957).
48 Micherdziński, W. Kiełże rodzaju Gammarus Fabricius (Amphipoda) w wodach Polski. Acta Zoologica Cracoviensia 4, 527-637 (1959).
49 Straškraba, M. Amphipoden der Tschechoslovakei nach den Sammlungen von. Prof. Hrabě. I. Věstník Československé Společnosti Zoologické 26, 117-145 (1962).
50 Provan, J. & Bennett, K. D. Phylogeographic insights into cryptic glacial refugia. Trends in ecology & evolution 23, 564-571, doi:10.1016/j.tree.2008.06.010 (2008).
51 Tzedakis, P. C., Emerson, B. C. & Hewitt, G. M. Cryptic or mystic? Glacial tree refugia in northern Europe. Trends in ecology & evolution 28, 696-704, doi:http://dx.doi.org/10.1016/j.tree.2013.09.001 (2013).
52 Harl, J., Duda, M., Kruckenhauser, L., Sattmann, H. & Haring, E. In Search of Glacial Refuges of the Land Snail <italic>Orcula dolium</italic> (Pulmonata, Orculidae) - An Integrative Approach Using DNA Sequence and Fossil Data. PloS one 9, e96012, doi:10.1371/journal.pone.0096012 (2014).
53 Juřičková, L., Horáčková, J. & Ložek, V. Direct evidence of central European forest refugia during the last glacial period based on mollusc fossils. Quaternary Research 82, 222-228, doi:http://dx.doi.org/10.1016/j.yqres.2014.01.015 (2014).
54 Väinölä, R. et al. Global diversity of amphipods (Amphipoda; Crustacea) in freshwater. Hydrobiologia 595, 241-255, doi:10.1007/s10750-007-9020-6 (2008).
55 Mamos, T. Freshwater Animal Diversity Assessment-co wiemy o bioróżnorodności w wodach słodkich świata. Wszechświat 111 (01-03), 58-59 (2011).
56 Zasadni, J. & Kłapyta, P. The Tatra Mountains during the Last Glacial Maximum. Journal of Maps 10, 440-456, doi:10.1080/17445647.2014.885854 (2014).
57 Sworobowicz, L., Mamos, T., Grabowski, M. & Wysocka, A. Lasting through the ice age: The role of the proglacial refugia in the maintenance of genetic diversity, population growth, and high dispersal rate in a widespread freshwater crustacean. Freshwater Biology 65, 1028-1046, doi:10.1111/fwb.13487 (2020).
58 Ratnasingham, S. & Hebert, P. bold: The Barcode of Life Data System (http://www.barcodinglife.org). Molecular Ecology Notes 7, 355-364, doi:10.1111/j.1471-8286.2007.01678.x (2007).
59 Weigand, H. et al. DNA barcode reference libraries for the monitoring of aquatic biota in Europe: Gap-analysis and recommendations for future work. The Science of the total environment 678, 499-524, doi:10.1016/j.scitotenv.2019.04.247 (2019).
60 Katouzian, A.-R. et al. Drastic underestimation of amphipod biodiversity in the endangered Irano-Anatolian and Caucasus biodiversity hotspots. Sci Rep-Uk 6, 22507, doi:10.1038/srep22507. http://www.nature.com/articles/srep22507#supplementary-information (2016).
61 Bickford, D. et al. Cryptic species as a window on diversity and conservation. Trends in ecology & evolution 22, 148-155, doi:10.1016/j.tree.2006.11.004 (2007).
62 Delić, T., Trontelj, P., Rendoš, M. & Fišer, C. The importance of naming cryptic species and the conservation of endemic subterranean amphipods. Sci Rep-Uk 7, 3391, doi:10.1038/s41598-017-02938-z (2017).
63 Maddison, W. P. Gene trees in species trees. Systematic biology 46, 523-536, doi:Doi 10.2307/2413694 (1997).
64 Nosil, P. Speciation with gene flow could be common. Molecular ecology 17, 2103-2106, doi:10.1111/j.1365-294X.2008.03715.x (2008).
65 Berner, D. & Salzburger, W. The genomics of organismal diversification illuminated by adaptive radiations. Trends in Genetics 31, 491-499, doi:10.1016/j.tig.2015.07.002 (2015).
66 Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. Basic Local Alignment Search Tool. J Mol Biol 215, 403-410, doi:DOI 10.1006/jmbi.1990.9999 (1990).
67 Katoh, K. & Standley, D. M. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Molecular biology and evolution 30, doi:10.1093/molbev/mst010 (2013).
68 Xia, X. DAMBE5: A Comprehensive Software Package for Data Analysis in Molecular Biology and Evolution. Molecular biology and evolution 30, 1720-1728, doi:10.1093/molbev/mst064 (2013).
69 Xia, X., Xie, Z., Salemi, M., Chen, L. & Wang, Y. An index of substitution saturation and its application. Molecular phylogenetics and evolution 26, 1-7, doi:https://doi.org/10.1016/S1055-7903(02)00326-3 (2003).
70 Kumar, S., Stecher, G., Li, M., Knyaz, C. & Tamura, K. MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Molecular biology and evolution 35, 1547-1549, doi:10.1093/molbev/msy096 (2018).
71 Saitou, N. & Nei, M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular biology and evolution 4, 406-425, doi:10.1093/oxfordjournals.molbev.a040454 (1987).
72 Kimura, M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of molecular evolution 16, doi:10.1007/bf01731581 (1980).
73 Felsenstein, J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution; international journal of organic evolution 39, 783 - 791 (1985).
74 Ratnasingham, S. & Hebert, P. D. A DNA-based registry for all animal species: the barcode index number (BIN) system. PloS one 8, e66213, doi:10.1371/journal.pone.0066213 (2013).
75 Puillandre, N., Lambert, A., Brouillet, S. & Achaz, G. ABGD, Automatic Barcode Gap Discovery for primary species delimitation. Molecular ecology 21, 1864-1877, doi:DOI 10.1111/j.1365-294X.2011.05239.x (2012).
76 Bouckaert, R. et al. BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis. Plos Comput Biol 15, e1006650, doi:10.1371/journal.pcbi.1006650 (2019).
77 Bouckaert, R. R. & Drummond, A. J. bModelTest: Bayesian phylogenetic site model averaging and model comparison. BMC evolutionary biology 17, 42, doi:10.1186/s12862-017-0890-6 (2017).
78 Rambaut, A., Drummond, A. J., Xie, D., Baele, G. & Suchard, M. A. Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7. Systematic biology 67, 901-904, doi:10.1093/sysbio/syy032 (2018).
79 Pons, J. et al. Sequence-Based Species Delimitation for the DNA Taxonomy of Undescribed Insects. Systematic biology 55, 595-609, doi:10.1080/10635150600852011 (2006).
80 Ezard, T., Fujisawa, T. & Barraclough, T. G. SPLITS: SPecies' LImits by Threshold Statistics. R package version 1.0-18/r45 Available from: URL http://R-Forge.R-project.org/projects/splits/ (2009).
81 Team, R. C. R: A language and environment for statistical computing, <https://www.R-project.org/> (2020).
82 Zhang, J., Kapli, P., Pavlidis, P. & Stamatakis, A. A general species delimitation method with applications to phylogenetic placements. Bioinformatics 29, 2869-2876, doi:10.1093/bioinformatics/btt499 (2013).
83 Kapli, P. et al. Multi-rate Poisson tree processes for single-locus species delimitation under maximum likelihood and Markov chain Monte Carlo. Bioinformatics 33, 1630-1638, doi:10.1093/bioinformatics/btx025 (2017).
84 Jones, G. Algorithmic improvements to species delimitation and phylogeny estimation under the multispecies coalescent. Journal of Mathematical Biology 74, 447-467, doi:10.1007/s00285-016-1034-0 (2017).
85 Jones, G., Aydin, Z. & Oxelman, B. DISSECT: an assignment-free Bayesian discovery method for species delimitation under the multispecies coalescent. Bioinformatics 31, 991-998, doi:10.1093/bioinformatics/btu770 (2015).
86 Rabosky, D. L. Automatic Detection of Key Innovations, Rate Shifts, and Diversity-Dependence on Phylogenetic Trees. PloS one 9, e89543, doi:10.1371/journal.pone.0089543 (2014).
87 Rabosky, D. L. et al. BAMMtools: an R package for the analysis of evolutionary dynamics on phylogenetic trees. Methods in Ecology and Evolution 5, 701-707, doi:10.1111/2041-210X.12199 (2014).
88 Rozas, J. et al. DnaSP 6: DNA Sequence Polymorphism Analysis of Large Data Sets. Molecular biology and evolution 34, 3299-3302, doi:10.1093/molbev/msx248 (2017).
89 Heled, J. & Drummond, A. Bayesian inference of population size history from multiple loci. BMC evolutionary biology 8, 289 (2008).
90 Leigh, J. W. & Bryant, D. POPART: full-feature software for haplotype network construction. Methods in Ecology and Evolution 6, 1110-1116, doi:10.1111/2041-210X.12410 (2015).
91 Flot, J. F., Couloux, A. & Tillier, S. Haplowebs as a graphical tool for delimiting species: a revival of Doyle's "field for recombination" approach and its application to the coral genus Pocillopora in Clipperton. BMC evolutionary biology 10, doi:Artn 37210.1186/1471-2148-10-372 (2010).
92 Stephens, M., Smith, N. J. & Donnelly, P. A New Statistical Method for Haplotype Reconstruction from Population Data. The American Journal of Human Genetics 68, 978-989, doi:https://doi.org/10.1086/319501 (2001).
93 Spöri, Y. & Flot, J.-F. HaplowebMaker and CoMa: Two web tools to delimit species using haplowebs and conspecificity matrices. Methods in Ecology and Evolution 11, 1434-1438, doi:https://doi.org/10.1111/2041-210X.13454 (2020).