A group of temperate grassland plant species, referred to as the ‘Mansen elements,’ is found in Japan and extensively distributed in the grasslands of continental East Asia. It has been considered that these species are remnants of once-expanded grasslands in Japan during a colder geological era. However, the detailed phylogeographic history, including migration age and distributional changes within Japan for these species, remains unresolved. To elucidate the phylogeographic history of the Mansen elements, we investigated the genetic structure and phylogeny of the populations of
Pulsatilla cernua, one of the Mansen elements, using single-nucleotide polymorphisms (SNPs) obtained from multiplexed inter-simple sequence repeat genotyping by sequencing (MIG-seq). The phylogenetic analysis indicates a continental origin and migration route via the Korean Peninsula for
P. cernua. The DIYABC and the genetic structure analyses suggest that the divergence between the continental and Japanese populations occurred in the late stage of the Last Glacial Period (LGP). Although the estimated divergence time is not fully constrained, it is suggested that an initial expansion in Japan occurred before the Last Glacial Maximum (LGM). This once-expanded distribution area was subsequently fragmented during the coldest climate, followed by a secondary expansion after the LGP. This represents the first documented instance among the Mansen element species in which secondary range expansion brought fragmented populations into secondary contact.
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