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The disjunctive distribution (Europe–Caucasus–Asia) and species diversification across Eurasia for the genus  Allium  sect.  Daghestanica  has fascinating attractions for researchers aiming to understanding the development and history of modern Eurasia flora. However, no any studies have been carried out to address the evolutionary history of this section. Based on the nrITS and cpDNA fragments (trnL–trnF and rpl32–trnL), the evolutionary history of the third evolutionary line (EL3) of the genus  Allium  was reconstructed and we further elucidated the evolutionary line of sect.  Daghestanica  under this background. Our molecular phylogeny recovered two highly supported clades in sect.  Daghestanica : the Clade I includes Caucasian–European species and Asian  A. maowenense ,  A. xinlongense  and  A. carolinianum  collected in Qinghai; the Clade II comprises Asian yellowish tepal species,  A. chrysanthum ,  A. chrysocephalum ,  A. herderianum ,  A. rude  and  A. xichuanense . The divergence time estimation and biogeography inference indicated that Asian ancestor located in the Qinghai–Tibetan Plateau (QTP) and the adjacent region could have migrated to Caucasus and Europe distributions around the Late Miocene and resulted in further divergence and speciation; Asian ancestor underwent the rapid radiation in the QTP and the adjacent region most likely due to the heterogeneous ecology of the QTP resulted from the orogeneses around 4–3 million years ago (Mya). Our study provides a picture to understand the origin and species diversification across Eurasia for sect.  Daghestanica .

Out of the Qinghai–Tibetan Plateau and rapid radiation across Eurasia for Allium section Daghestanica (Amaryllidaceae)