A 60-million-year Cenozoic history of western Amazonian ecosystems in Contamana, eastern Peru

Weprovide a synopsis of ~60million years of life history in Neotropical lowlands, based on a comprehensive survey of the Cenozoic deposits along the Quebrada Cachiyacu near Contamana in PeruvianAmazonia. The 34 fossilbearing localities identified have yielded a diversity of fossil remains, including vertebrates,mollusks, arthropods, plant fossils, and microorganisms, ranging from the early Paleocene to the lateMiocene–?Pliocene (N20 successive levels). This Cenozoic series includes the base of the Huchpayacu Formation (Fm.; early Paleocene; lacustrine/ fluvial environments; charophyte-dominated assemblage), the Pozo Fm. (middle + ?late Eocene; marine then freshwater environments; most diversified biomes), and complete sections for the Chambira Fm. (late Oligocene–late early Miocene; freshwater environments; vertebrate-dominated faunas), the Pebas Fm. (late early to early late Miocene; freshwater environments with an increasing marine influence; excellent fossil record), and Ipururo Fm. (late Miocene–?Pliocene; fully fluvial environments; virtually no fossils preserved). At least 485 fossil species are recognized in the Contamana area (~250 ‘plants’, ~212 animals, and 23 foraminifera). Based on taxonomic lists from each stratigraphic interval, high-level taxonomic diversity remained fairly constant throughout themiddle Eocene–Miocene interval (8-12 classes), ordinal diversity fluctuated to a greater degree, and family/species diversity generally declined, with a drastic drop in the early Miocene. The Paleocene–?Pliocene fossil assemblages from Contamana attest at least to four biogeographic histories inherited from (i) Mesozoic Gondwanan times, (ii) the Panamerican realm prior to (iii) the time of South America’s Cenozoic “splendid isolation”, and (iv) Neotropical ecosystems in the Americas. No direct evidence of any North American terrestrial immigrant has yet been recognized in the Miocene record at Contamana.Facultad de Ciencias Naturales y Muse

Nasal compartmentalization in Kogiidae (Cetacea, Physeteroidea): Insights from a new late Miocene dwarf sperm whale from the Pisco Formation

Facial compartmentalization in the skull of extant pygmy whales (Kogiidae) is a unique feature among cetaceans that allows for the housing of a wide array of organs responsible for echolocation. Recent fossil findings indicate a remarkable disparity of the facial bone organization in Miocene kogiids, but the significance of such a rearrangement for the evolution of the clade has been barely explored. Here we describe Kogia danomurai sp. nov., a late Miocene (c. 5.8 Ma) taxon from the Pisco Formation (Peru), based on a partially preserved skull with a new facial bone pattern. Phylogenetic analysis recovers K. danomurai as the most basal representative of the extant genus Kogia, displaying a combination of derived (incipiently developed and excavated sagittal facial crest) and plesiomorphic features (high position of the temporal fossa, and antorbital notch not transformed into a narrow slit). Furthermore, when compared with the extant Kogia, the facial patterning found in K. danomurai indicates differential development among the facial organs, implying different capabilities of sound production relative to extant Kogia spp. Different facial bone patterns are particularly notable within the multi‐species kogiid assemblage of the Pisco Formation, which suggests causal connections between different patterns and feeding ecologies (e.g. nekton piscivory and benthic foraging). At c. 5.8 Ma, K. danomurai was part of a cetacean community composed of clades typical of the late Miocene, and of other early representatives of extant taxa, a mixture probably representing an initial shift of the coastal faunas toward the ecosystem dynamics of the present‐day south‐eastern Pacific

Prey scarcity and competition led to extinction of ancient monster shark

It lived millions of years ago and was three times as large as the great white shark: the megalodon. So far its extinction has been explained with the onset of an ice age. However, researchers at the University of Zurich have now come to the conclusion that responsibility for the decline of the monster shark lays not with the climate, but with other species. Is there anyone out there who doesn’t know Jaws, the film about the great white shark and the devastation it wreaked? But there have been even bigger and more dangerous sharks in the past: The largest shark in the history of the planet, Carcharocles megalodon, lived between 23 million and 2.6 million years ago, reaching body lengths of up to 18 meters and probably feeding on marine mammals. Then it became extinct. In the past, climate changes have generally been blamed for its disappearance. Now, for the first time, researchers from the University of Zurich have examined the geographical distribution of the megalodon over time and arrived at the following conclusion: The giant shark became extinct because the diversity of its prey decreased and new predators appeared as competitors

Interordinal Gene Capture, the Phylogenetic Position of Steller\u27s Sea Cow Based on Molecular and Morphological Data, and the Macroevolutionary History of Sirenia

The recently extinct (ca. 1768) Steller\u27s sea cow (. Hydrodamalis gigas) was a large, edentulous North Pacific sirenian. The phylogenetic affinities of this taxon to other members of this clade, living and extinct, are uncertain based on previous morphological and molecular studies. We employed hybridization capture methods and second generation sequencing technology to obtain \u3e30. kb of exon sequences from 26 nuclear genes for both H. gigas and Dugong dugon. We also obtained complete coding sequences for the tooth-related enamelin (. ENAM) gene. Hybridization probes designed using dugong and manatee sequences were both highly effective in retrieving sequences from H. gigas (mean. =. 98.8% coverage), as were more divergent probes for regions of ENAM (99.0% coverage) that were designed exclusively from a proboscidean (African elephant) and a hyracoid (Cape hyrax). New sequences were combined with available sequences for representatives of all other afrotherian orders. We also expanded a previously published morphological matrix for living and fossil Sirenia by adding both new taxa and nine new postcranial characters. Maximum likelihood and parsimony analyses of the molecular data provide robust support for an association of H. gigas and D. dugon to the exclusion of living trichechids (manatees). Parsimony analyses of the morphological data also support the inclusion of H. gigas in Dugongidae with D. dugon and fossil dugongids. Timetree analyses based on calibration density approaches with hard- and soft-bounded constraints suggest that H. gigas and D. dugon diverged in the Oligocene and that crown sirenians last shared a common ancestor in the Eocene. The coding sequence for the ENAM gene in H. gigas does not contain frameshift mutations or stop codons, but there is a transversion mutation (. AG to CG) in the acceptor splice site of intron 2. This disruption in the edentulous Steller\u27s sea cow is consistent with previous studies that have documented inactivating mutations in tooth-specific loci of a variety of edentulous and enamelless vertebrates including birds, turtles, aardvarks, pangolins, xenarthrans, and baleen whales. Further, branch-site dN/dS analyses provide evidence for positive selection in ENAM on the stem dugongid branch where extensive tooth reduction occurred, followed by neutral evolution on the Hydrodamalis branch. Finally, we present a synthetic evolutionary tree for living and fossil sirenians showing several key innovations in the history of this clade including character state changes that parallel those that occurred in the evolutionary history of cetaceans

Interordinal gene capture, the phylogenetic position of Steller's sea cow based on molecular and morphological data, and the macroevolutionary history of Sirenia

The recently extinct (ca. 1768) Steller’s sea cow (Hydrodamalis gigas) was a large, edentulous North Pacific sirenian. The phylogenetic affinities of this taxon to other members of this clade, living and extinct, are uncertain based on previous morphological and molecular studies. We employed hybridization capture methods and second generation sequencing technology to obtain >30 kb of exon sequences from 26 nuclear genes for both H. gigas and Dugong dugon. We also obtained complete coding sequences for the tooth-related enamelin (ENAM) gene. Hybridization probes designed using dugong and manatee sequences were both highly effective in retrieving sequences from H. gigas (mean = 98.8% coverage), as were more divergent probes for regions of ENAM (99.0% coverage) that were designed exclusively from a proboscidean (African elephant) and a hyracoid (Cape hyrax). New sequences were combined with available sequences for representatives of all other afrotherian orders. We also expanded a previously published morphological matrix for living and fossil Sirenia by adding both new taxa and nine new postcranial characters. Maximum likelihood and parsimony analyses of the molecular data provide robust support for an association of H. gigas and D. dugon to the exclusion of living trichechids (manatees). Parsimony analyses of the morphological data also support the inclusion of H. gigas in Dugongidae with D. dugon and fossil dugongids. Timetree analyses based on calibration density approaches with hard- and soft-bounded constraints suggest that H. gigas and D. dugon diverged in the Oligocene and that crown sirenians last shared a common ancestor in the Eocene. The coding sequence for the ENAM gene in H. gigas does not contain frameshift mutations or stop codons, but there is a transversion mutation (AG to CG) in the acceptor splice site of intron 2. This disruption in the edentulous Steller’s sea cow is consistent with previous studies that have documented inactivating mutations in tooth-specific loci of a variety of edentulous and enamelless vertebrates including birds, turtles, aardvarks, pangolins, xenarthrans, and baleen whales. Further, branch-site dN/dS analyses provide evidence for positive selection in ENAM on the stem dugongid branch where extensive tooth reduction occurred, followed by neutral evolution on the Hydrodamalis branch. Finally, we present a synthetic evolutionary tree for living and fossil sirenians showing several key innovations in the history of this clade including character state changes that parallel those that occurred in the evolutionary history of cetaceans.No Full Tex