The subterranean genus Niphargus is one of the most species-rich genera among freshwater amphipods in the world, distributed in the Western Palearctic. Thus far, taxonomic and phylogenetic research has focused mainly on the European half of the genus range. In this study, 25 populations of Niphargus from Iran, Lebanon and the Crimean Peninsula were investigated. Bayesian inference based on 28S, H3 and COI gene sequences suggests that populations from the area belong to four different clades. Three species from Crimea and one species from Iran are nested at basal nodes, indicating their rather ancient origin. The rest of the species are younger and belong to two separate clades. One Crimean species is a sister-species to east Romanian species. The second clade includes one species from Lebanon and all but one population from Iran. The origin of this clade corresponds to marine transgression between the Black Sea and Mediterranean approximately 12 Mya. This clade was further investigated taxonomically. Revision of qualitative morphological traits and unilocus species delimitation methods using COI suggest that this clade comprises 12-16 species, of which only three have been described so far. Multilocus coalescence delimitation methods (using fragments of COI, 28S, H3 and ITS) strongly supported 11 of these species. The remaining populations comprise at least two species complexes that require further and more detailed taxonomic research.

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Two new species of the genus Niphargus Schiödte, 1849 are described and named (Niphargus alisadri sp. nov. and Niphargus daniali sp. nov.) from two caves in Iran. Their taxonomic status within the genus Niphargus is discussed in comparison to several known species from Iran (N. valachicus, N. khayyami and N. khwarizmi), Turkey (N. tauri), Israel (N. itus) and Iraq (N. nadarini).http://www.zoobank.org/urn:lsid:zoobank.org:pub:E401A157-90CB-4C66-9C0C-3FEE06E42A04

Four new species from the amphipod genus Niphargus are described, namely N. borisi sp. nov., N. bisitunicus sp. nov., N. darvishi sp. nov. and N. sharifi sp. nov. All four species of this predominantly subterranean genus were collected from springs in the Western region of Iran (Zagros region), which is the eastern borderline of the genus range. The species are morphologically diagnosed, described and illustrated. With these newly described species, the total number of Niphargus species in the Middle East reaches twenty-three. In order to facilitate the identification of Niphargus species in the region and to make future taxonomy of the genus easier, we have compiled a database in DEscription Language for TAxonomy (DELTA) using 23 diagnostic traits for these 23 species and subspecies identified in the Middle East. The database is available on the web as supplementary material whereas the dichotomous identification key automatically generated from the database for routine use is provided as a part of the paper.