Genotyping of Capreolus pygargus Fossil DNA from Denisova Cave Reveals Phylogenetic Relationships between Ancient and Modern Populations

BACKGROUND: The extant roe deer (Capreolus Gray, 1821) includes two species: the European roe deer (C. capreolus) and the Siberian roe deer (C. pygargus) that are distinguished by morphological and karyotypical differences. The Siberian roe deer occupies a vast area of Asia and is considerably less studied than the European roe deer. Modern systematics of the Siberian roe deer remain controversial with 4 morphological subspecies. Roe deer fossilized bones are quite abundant in Denisova cave (Altai Mountains, South Siberia), where dozens of both extant and extinct mammalian species from modern Holocene to Middle Pleistocene have been retrieved. METHODOLOGY/PRINCIPAL FINDINGS: We analyzed a 629 bp fragment of the mitochondrial control region from ancient bones of 10 Holocene and four Pleistocene Siberian roe deer from Denisova cave as well as 37 modern specimen belonging to populations from Altai, Tian Shan (Kyrgyzstan), Yakutia, Novosibirsk region and the Russian Far East. Genealogical reconstructions indicated that most Holocene haplotypes were probably ancestral for modern roe deer populations of Western Siberia and Tian Shan. One of the Pleistocene haplotypes was possibly ancestral for modern Yakutian populations, and two extinct Pleistocene haplotypes were close to modern roe deer from Tian Shan and Yakutia. Most modern geographical populations (except for West Siberian Plains) are heterogeneous and there is some tentative evidence for structure. However, we did not find any distinct phylogenetic signal characterizing particular subspecies in either modern or ancient samples. CONCLUSION/SIGNIFICANCE: Analysis of mitochondrial DNA from both ancient and modern samples of Siberian roe deer shed new light on understanding the evolutionary history of roe deer. Our data indicate that during the last 50,000 years multiple replacements of populations of the Siberian roe deer took place in the Altai Mountains correlating with climatic changes. The Siberian roe deer represent a complex and heterogeneous species with high migration rates and without evident subspecies structure. Low genetic diversity of the West Siberian Plain population indicates a recent bottleneck or founder effect

Environmental Control on Biotic Development in Siberia (Verkhoyansk Region) and Neighbouring Areas During Permian-Triassic Large Igneous Province Activity

We propose an updated ammonoid zonation for the Permian-Triassic boundary succession (the lower Nekuchan Formation) in the Verkhoyansk region of Siberia: (1) Otoceras concavum zone (uppermost Changhsingian); (2) Otoceras boreale zone (lowermost Induan); (3) Tompophiceras morpheous zone (lower Induan); and (4) Wordieoceras decipiens zone (lower Induan). The Tompophiceras pascoei zone, previously defined between the Otoceras boreale and Tompophiceras morpheous zones, is removed in our scheme. Instead of this the Tompophiceras pascoei epibole zone is proposed for the lower part of the Tompophiceras morpheous zone. New and previously published nitrogen isotope records are interpreted as responses to climatic fluctuations in the middle to higher palaeolatitudes of Northeastern Asia and these suggest a relatively cool climatic regime for the Boreal Superrealm; however the trend towards warming across the Permian-Triassic boundary transition is also seen. The evolutionary development and geographical differentiation of otoceratid ammonoids and associated groups are considered. It is likely that the Boreal Superrealm was their main refugium, where otocerid, dzhulfitid and some other ammonoids survived the major biotic crisis at the end of the Permian. The similarity of ontogenetic development of suture lines of Otoceras woodwardi Griesbach and O. boreale Spath gives some grounds for suggesting a monophyletic origin of the genus Otoceras, having bipolar distribution