Showing papers on "Geoemydidae published in 2007"

Conservation phylogenetics of the Asian box turtles (Geoemydidae, Cuora): mitochondrial introgression, numts, and inferences from multiple nuclear loci

Abstract: Asian box turtles (genus Cuora, family Geoemydidae) comprise a clade of 12 aquatic and semiaquatic nominate species distributed across southern China and Southeast Asia. Over the last two decades, turtles throughout Asia have been harvested at an unsustainable rate to satisfy demands for food, traditional Chinese medicine, and the pet trade. Con- sequently, all species of Cuora were recently placed on the IUCN Red List, nine are currently listed as criti- cally endangered by the IUCN, and all species are listed in Appendix II of CITES. We compiled a 67-specimen mitochondrial (~1,650 base pairs (bp) from two mitochondrial genes) and a 40-specimen nuclear-plus-mitochondrial (~3,900 bp total, three nuclear introns plus an additional ~860 bp mitochon- drial gene fragment) DNA data set to reconstruct the phylogeny of Cuora species and to assess genetic diversity and species boundaries for several of the most problematic taxa. Our sampling included 23 C. trifas- ciata ,1 7C. zhoui and 1-4 individuals of the remaining 10 species of Cuora. Maximum likelihood, maximum parsimony and Bayesian analyses all recovered similar, well resolved trees. Within the Cuora clade, mito- chondrial and nuclear sequence data indicated that both C. zhoui and C. mccordi represent old lineages with little or no history of interspecific gene flow, suggesting that they are good genealogical species. Based on mtDNA, Cuora pani was paraphyletic and C. trifasciata was composed of two highly divergent lineages that were not each other's closest relatives; both cases of non-monophyly were due to a mtDNA sequence that was widespread and identical in C. aurocapitata, C. pani and C. trifasciata. However, when combined with nuclear DNA results, our data indicate that C. trifasciata is a single, monophyletic taxon, and that mitochondrial introgression and nuclear-mitochondrial pseudogenes have led to a complex pattern of mitochondrial gene relationships that does not reflect species-level histories. Our results imply that captive ''assurance colonies'' of both C. trifasciata and C. pani should be genotyped to identify pure, non-hybrid members of both taxa, and we recommend that introgressed and pure taxa be man- aged as independent entities until the full evolutionary histories of these critically endangered turtles are resolved.

Phylogeny and taxonomy of endangered South and South‐east Asian freshwater turtles elucidated by mtDNA sequence variation (Testudines: Geoemydidae: Batagur, Callagur, Hardella, Kachuga, Pangshura)

Abstract: Using DNA sequences of the mitochondrial cytochrome b gene, we investigated phylogeny and taxonomy of South and South-east Asian turtles of all species and subspecies of the genera Batagur, Callagur, Hardella, Kachuga and Pangshura. We found three major clades: (i) a moderately to well-supported clade containing all large riverine species assigned so far to Batagur, Callagur and Kachuga; (ii) a well-supported monophylum comprising the four Pangshura species; and (iii) Hardella that could constitute either the sister-taxon of Pangshura or of a clade comprising Batagur, Callagur, Kachuga and Pangshura. The genus Kachuga is clearly polyphyletic. Therefore, we recommend placing all Batagur, Callagur and Kachuga species in one genus. According to the International Code of Zoological Nomenclature Batagur Gray, 1856, being originally erected at higher rank, takes precedence over the simultaneously published name Kachuga Gray, 1856, and the younger name Callagur Gray, 1870, resulting in an expanded genus Batagur. Indonesian and Malaysian Batagur baska proved to be highly distinct from our sequences of this species from the Sundarbans (Bangladesh, adjacent India), suggesting that a previously unidentified species is involved. This finding is of high conservation relevance in the critically endangered B. baska. The currently recognized subspecies within Hardella thurjii, Pangshura smithii and P. tentoria do not correspond well with mtDNA clades. Considering that the two subspecies of H. thurjii are likely to be based only on individual ontogenetic differences, we propose abandoning the usage of subspecies within H. thurjii. In the Ghaghra River, Uttar Pradesh (India) we detected shared haplotypes in P. smithii and P. tentoria, implying that the unusual morphological characters of the Ghaghra River population of P. tentoria could be the result of interspecific hybridization.

Ocadia nipponica, a new species of aquatic turtle (Testudines: Testudinoidea: Geoemydidae) from the Middle Pleistocene of Chiba Prefecture, central Japan

Abstract: A new species of the genus Ocadia (Testudines; Testudinoidea; Geoemydidae), O. nipponica, is described on the basis of a nearly complete skeleton from the Middle Pleistocene Kiyokawa Formation of the Shimosa Group at Sodegaura City, Chiba Prefecture, central Japan. O. nipponica is distinguished from O. sinensis (Gray) by its more extensive secondary palate, smoother shell surface, narrower second and third vertebral scutes, and larger size (carapace up to 33 cm long). Considering that the living species O. sinensis is distributed in the coastal area of eastern to southeastern Asia in subtropical to tropical climates, the new fossil species may have been thrived in warmer paleoclimatic conditions for the Japanese Islands in the Pleistocene age than hitherto have been estimated on the basis of floral evidences.

A New Species of the Genus Geoemyda (Chelonii: Geoemydidae) from the Upper Pleistocene of Tokunoshima Island, the Central Ryukyus, Japan

Abstract: Turtle fossils discovered from the putative Upper Pleistocene fissure-filling deposit on Tokunoshima Island of the Amami Group is described as a new species, Geoemyda amamiensis (Chelonii: Geoemydidae). These fossils include a carapace exclusive of peripherals and a few other elements, fragments of a neural, a costal, eight peripherals, an anterior half of the plastron, two epiplastra, and an incomplete right humerus. Geoemyda amamiensis most resembles G. japonica, an extant species endemic to three islands of the Okinawa Group, but is distinguished from the latter by the presence in dorsal view of a short anterior projection in the entoplastron. These two species seem to have split from each other through vicariance within the central Ryukyus.