Search

Using a combination of morphological and molecular data we recognize three new species of Puppet Toad, Sigalegalephrynus Smart, Sarker, Arifin, Harvey, Sidik, Hamidy, Kurniawan Smith, a recently described genus endemic to the highland forests of Sumatra, Indonesia. Phylogenetic analysis of mitochondrial DNA sequences recovered a monophyletic relationship among all Puppet Toads, with two distinct evolutionary clades, a northern and a southern. The northern clade includes Sigalegalephrynus gayoluesensis sp. nov., and S. burnitelongensis sp. nov., and the southern clade includes S. harveyi sp. nov., S. mandailinguensis, and S. minangkabauensis. With the discovery of these three new species, Sigalegalephrynus contains more endemic species than any other genus of toad in Indonesia. We used maximum entropy, implemented in MaxEnt, to identify suitable habitats and occurrence probability of additional undescribed new species from the island. The most important predictors of Sigalegalephrynus distribution were elevation (64.5%) and land cover (7.11%). Based on the probability of presence, it is likely that there are many more species of the genus awaiting discovery in Sumatra. Our analysis, based on IUCN Red List of Threatened Species category and criteria, shows that all of the five species of Sigalegalephrynus are in great risk of extinction and should be placed into the Endangered (EN) category of IUCN Red List.

Micryletta inornata (Boulenger 1890), the type species of the genus Micryletta, was originally described from the island of Sumatra in Indonesia. Subsequently, this species has been widely reported from Sundaland (Sumatra and Malay Peninsula), Indo-China, Northeast India and South Andaman, up to southern China and Taiwan. However, since the original description there has been no further report of this species from the type locality or the island. During a herpetofaunal survey in Sumatra, several specimens that are morphologically concordant with the original description and the syntypes of M. inornata were found, and thus the species was rediscovered after 125 years. Here, we provide a redescription of the species based on the freshly collected specimens, along with a detailed morphological and molecular comparison with known congeners. Further, using molecular data from the mitochondrial 16S rRNA gene, our study recovered the Sumatran M. inornata as a phylogenetically distinct lineage from all other populations previously referred to this species. This confirms that all known Micryletta 'inornata' populations from regions outside Sumatra constitute several other lineages representing either new species or previously available names currently considered as synonyms, consequently requiring taxonomic validation in the future.

In this data article we present species trees based on coalescent species delimitation results for North American whipsnakes, as well as metadata pertaining to the article "The effect of missing data on coalescent species delimitation and a taxonomic revision of whipsnakes (Colubridae: Masticophis)" (MPE-2017-76-R1). Species trees were constructed using SNP data generated from double-digest RADseq, filtered to 80% completeness between species. Tables correspond with the primary manuscript and serve as a repository of genetic sequence information for whipsnakes. These data can be downloaded and combined with future whipsnake datasets.

Snakes possess many extreme morphological and physiological adaptations. Identification of the molecular basis of these traits can provide novel understanding for vertebrate biology and medicine. Here, we study snake biology using the genome sequence of the Burmese python (Python molurus bivittatus), a model of extreme physiological and metabolic adaptation. We compare the python and king cobra genomes along with genomic samples from other snakes and perform transcriptome analysis to gain insights into the extreme phenotypes of the python. We discovered rapid and massive transcriptional responses in multiple organ systems that occur on feeding and coordinate major changes in organ size and function. Intriguingly, the homologs of these genes in humans are associated with metabolism, development, and pathology. We also found that many snake metabolic genes have undergone positive selection, which together with the rapid evolution of mitochondrial proteins, provides evidence for extensive adaptive redesign of snake metabolic pathways. Additional evidence for molecular adaptation and gene family expansions and contractions is associated with major physiological and phenotypic adaptations in snakes; genes involved are related to cell cycle, development, lungs, eyes, heart, intestine, and skeletal structure, including GRB2-associated binding protein 1, SSH, WNT16, and bone morphogenetic protein 7. Finally, changes in repetitive DNA content, guanine-cytosine isochore structure, and nucleotide substitution rates indicate major shifts in the structure and evolution of snake genomes compared with other amniotes. Phenotypic and physiological novelty in snakes seems to be driven by system-wide coordination of protein adaptation, gene expression, and changes in the structure of the genome.