New Zealand's extinct giant eagle

No Abstract Availabl

Palaeoecological reconstructions depend on accurate species identification: Examples from South Island, New Zealand, Pachyornis (Aves: Dinornithiformes)

Accurate identification of fossil remains is fundamental to analysis of the composition of New Zealand extinct bird assemblages and their habitats (e.g. wet forest, dry forest, shrubland, seral vegetation, and low and high altitudes) through space and time. Until the advent of ancient genetic analyses in the early 1990s, identification of fossil bird remains was based perforce solely on morphology (Archey 1941; Oliver 1949; Worthy 1988) and morphometrics (Cracraft 1976a, b, c; Worthy 1987, 1989, 1992, 1994). Most research has been focused on moa (Aves: Dinornithiformes), a group of large (20– 200 kg) flightless palaeognathous birds (Worthy & Holdaway 2002) presently assigned to nine species in three families (Megalapterygidae; Dinornithidae; Emeidae) (Bunce et al. 2009). From the late 1990s (e.g. Cooper et al. 2001), the development of moa ancient DNA (aDNA) was rapid and greater reliance is now placed on use of aDNA analyses over morphology and morphometrics (Huynen et al. 2003; Bunce et al. 2005; Huynen et al. 2008; Allentoft et al. 2009; Bunce et al. 2009; Seabrook-Davison et al. 2009; Oskam et al. 2010; Allentoft et al. 2012; Rawlence et al. 2012; Holdaway et al. 2014; Huynen et al. 2014)

Profiling the dead: generating microsatellite data from fossil bones of extinct Megafauna — protocols, problems, and prospects

We present the first set of microsatellite markers developed exclusively for an extinct taxon. Microsatellite data have been analysed in thousands of genetic studies on extant species but the technology can be problematic when applied to low copy number (LCN) DNA. It is therefore rarely used on substrates more than a few decades old. Now, with the primers and protocols presented here, microsatellite markers are available to study the extinct New Zealand moa (Aves: Dinornithiformes) and, as with single nucleotide polymorphism (SNP) technology, the markers represent a means by which the field of ancient DNA can (preservation allowing) move on from its reliance on mitochondrial DNA. Candidate markers were identified using high throughput sequencing technology (GS-FLX) on DNA extracted from fossil moa bone and eggshell. From the ‘shotgun’ reads, >60 primer pairs were designed and tested on DNA from bones of the South Island giant moa (Dinornis robustus). Six polymorphic loci were characterised and used to assess measures of genetic diversity. Because of low template numbers, typical of ancient DNA, allelic dropout was observed in 36–70% of the PCR reactions at each microsatellite marker. However, a comprehensive survey of allelic dropout, combined with supporting quantitative PCR data, allowed us to establish a set of criteria that maximised data fidelity. Finally, we demonstrated the viability of the primers and the protocols, by compiling a full Dinornis microsatellite dataset representing fossils of c. 600–5000 years of age. A multi-locus genotype was obtained from 74 individuals (84% success rate), and the data showed no signs of being compromised by allelic dropout. The methodology presented here provides a framework by which to generate and evaluate microsatellite data from samples of much greater antiquity than attempted before, and opens new opportunities for ancient DNA research

Identification of an optimal sampling position for stable isotopic analysis of bone collagen of extinct moa (Aves: Emeidae)

Stable isotopic (δ13C; δ15N) analysis of bone collagen and other refractory biological materials is a mainstay of palaeoecological research, but comparability between individuals depends on homogeneity within the sample specimens. Long bones of extinct New Zealand moa display lines of arrested growth that reflect prolonged development over several years, leading to potential systematic inhomogeneity in stable isotopic enrichment within the bone. We tested whether the isotopic content within a Euryapteryx curtus tibiotarsus is homogeneous by measuring δ15N and δ13C values in 6 adjacent 1cm-diameter cortical bone cores arranged along the bone axis from each of the proximal and distal ends. We then measured isotopic ratios in 5 radial slices of a core from the mid-shaft of a Pachyornis elephantopus tibiotarsus to see if there was any depth (ontogenetic) effect at a single sampling point. The δ13C value increased with distance from the proximal bone end, but neither δ13C nor δ15N values in samples from the distal end of the bone were correlated with position. Within mid-shaft cortical bone, the δ13C value decreased with depth but δ15N values were constant. Sampling the entire depth of cortical bone from the caudal surface at the distal end of the tibiotarsus, if feasible, therefore provides a spatially homogenous material, free of maturation effects on stable isotopic composition. If for any reason that position cannot be sampled, the outer (radial) layer at the mid-shaft can be substituted

Former presence of a parakeet (Cyanoramphus sp.) on Campbell Island, New Zealand subantarctic, with notes on the island's fossil sites and fossil record

One significant late Holocene deposit of bird and other fossils was discovered during a brief survey of potential fossil sites on subantarctic Campbell I, New Zealand. The bones recovered included the first specimen of a Cyanoramphus parakeet from the island. Preliminary ancient DNA analysis of the parakeet bone confirmed its generic identification and may ultimately facilitate the re-introduction of a taxon that most closely resembles the genetic make-up of the extinct population. Some implications of the fossil record and value of the fossil sites are discussed

Ancient DNA analyses of early archaeological sites in New Zealand reveal extreme exploitation of moa (Aves: Dinornithiformes) at all life stages

The human colonisation of New Zealand in the late thirteenth century AD led to catastrophic impacts on the local biota and is among the most compelling examples of human over-exploitation of native fauna, including megafauna. Nearly half of the species in New Zealand' s pre-human avifauna are now extinct, including all nine species of large, flightless moa (Aves: Dinornithiformes). The abundance of moa in early archaeological sites demonstrates the significance of these megaherbivores in the diet of the first New Zealanders. Combining moa assemblage data, based on DNA identification of eggshell and bone, with morphological identification of bone (literature and museum catalogued specimens), we present the most comprehensive audit of moa to date from several significant 13th-15th century AD archaeological deposits across the east coast of the South Island. Mitochondrial DNA (mtDNA) was amplified from 251 of 323 (78%) eggshell fragments and 22 of 27 (88%) bone samples, and the analyses revealed the presence of four moa species: Anomalopteryx didiformis; Dinornis robustus; Emeus crassus and Euryapteryx curtus. The mtDNA, along with polymorphic microsatellite markers, enabled an estimate of the minimum number of individual eggs consumed at each site. Remarkably, in one deposit over 50 individual eggs were identified - a number that likely represents a considerable proportion of the total reproductive output of moa in the area and emphasises that human predation of all life stages of moa was intense. Molecular sexing was conducted on bones (n = 11). Contrary to previous ancient DNA studies from natural sites that consistently report an excess of female moa, we observed an excess of males (2.7:1), suggestive that males were preferential targets. This could be related to different behaviour between the two highly size-dimorphic sexes in moa. Lastly, we investigated the moa species from recovered skeletal and eggshell remains from seven Wairau Bar burials, and identified the presence of only the larger species of moa, E. curtus and D. robustus

Extinct New Zealand megafauna were not in decline before human colonization

The extinction of New Zealand's moa (Aves: Dinornithiformes) followed the arrival of humans in the late 13th century and was the final event of the prehistoric Late Quaternary megafauna extinctions. Determining the state of the moa populations in the preextinction period is fundamental to understanding the causes of the event. We sampled 281 moa individuals and combined radiocarbon dating with ancient DNA analyses to help resolve the extinction debate and gain insights into moa biology. The samples, which were predominantly from the last 4,000 years preceding the extinction, represent four sympatric moa species excavated from five adjacent fossil deposits. We characterized the moa assemblage using mitochondrial DNA and nuclear microsatellite markers developed specifically for moa. Although genetic diversity differed significantly among the four species, we found that the millennia preceding the extinction were characterized by a remarkable degree of genetic stability in all species, with no loss of heterozygosity and no shifts in allele frequencies over time. The extinction event itself was too rapid to bemanifested in the moa gene pools. Contradicting previous claims of a decline in moa before Polynesian settlement in New Zealand, our findings indicate that the populations were large and stable before suddenly disappearing. This interpretation is supported by approximate Bayesian computation analyses. Our analyses consolidate the disappearance of moa as the most rapid, human-facilitated megafauna extinction documented to date

A molecular characterization of a newly discovered megafaunal fossil site in North Canterbury, South Island, New Zealand

In January 2008 an assemblage of large fossil bones was unearthed in a field near Waikari, North Canterbury, South Island, New Zealand. We describe this new fossil site, Rosslea, and provide an inventory of the excavated material. The bones were generally well preserved although stained deep brown, typical of peat preservation. Eight Rosslea bones were 14C AMS dated and median calibrated ages ranged from 7839 to 1482 years BP. Ancient DNA was isolated from 14 bones and a single piece of eggshell. Genetic species identifications based on mitochondrial DNA matched those based on morphology, confirming that three species of extinct moa (Aves: Dinornithiformes) were present. Also, remains of an extinct South Island Adzebill (Aptornis defossor) were identified. The species composition in the Rosslea assemblage proved typical for the time and region but comparative analyses revealed that each of five major fossil deposits in the area displayed a significantly different relative abundance of moa taxa, despite their proximity and relative contemporaneity (all contain Holocene moa bones). Lastly, indications of DNA damage and failed attempts to amplify nuclear DNA indicated that DNA preservation at Rosslea was relatively poor compared to the preservation known from adjacent deposits