Melanie Massaro

Introduced mammalian predators induce behavioural changes in parental care in an endemic New Zealand bird.

The introduction of predatory mammals to oceanic islands has led to the extinction of many endemic birds. Although introduced predators should favour changes that reduce predation risk in surviving bird species, the ability of island birds to respond to such novel changes remains unstudied. We tested whether novel predation risk imposed by introduced mammalian predators has altered the parental behaviour of the endemic New Zealand bellbird (Anthornis melanura). We examined parental behaviour of bellbirds at three woodland sites in New Zealand that differed in predation risk: 1) a mainland site with exotic predators present (high predation risk), 2) a mainland site with exotic predators experimentally removed (low risk recently) and, 3) an off-shore island where exotic predators were never introduced (low risk always). We also compared parental behaviour of bellbirds with two closely related Tasmanian honeyeaters (Phylidonyris spp.) that evolved with native nest predators (high risk always). Increased nest predation risk has been postulated to favour reduced parental activity, and we tested whether island bellbirds responded to variation in predation risk. We found that females spent more time on the nest per incubating bout with increased risk of predation, a strategy that minimised activity at the nest during incubation. Parental activity during the nestling period, measured as number of feeding visits/hr, also decreased with increasing nest predation risk across sites, and was lowest among the honeyeaters in Tasmania that evolved with native predators. These results demonstrate that some island birds are able to respond to increased risk of predation by novel predators in ways that appear adaptive. We suggest that conservation efforts may be more effective if they take advantage of the ability of island birds to respond to novel predators, especially when the elimination of exotic predators is not possible.

Novel myco-like DNA viruses discovered in the faecal matter of various animals

A wide variety of novel single-stranded DNA (ssDNA) viruses have been found in faecal matter of chimpanzees, cows, rodents, bats, badgers, foxes and pigs over the last few years. Using a combination of rolling circle amplification coupled with restriction enzyme digests based approach as well as a next generation sequencing informed approach, we have recovered fourteen full genomes of ssDNA viruses which exhibit genomic features described for members of the recently proposed gemycircularvirus group from a wide variety of mammal and bird faecal samples across New Zealand. The fourteen novel ssDNA viruses (2122-2290nt) encode two major proteins, a replication associated protein (Rep) and a capsid protein (Cp) which are bi-directionally transcribed. Interestingly, the Rep of these novel viruses are similar to gemycircularviruses detected in insects, cassava leaves, and badger faecal matter, the novel viruses share sequence similarities with the mycovirus sclerotinia sclerotiorum hypovirulence-associated DNA virus 1 (SsHADV-1) and Rep-like sequences found in fungal genomes. Pairwise sequence similarities between the 14 novel genomes with other related viral isolates (gemycircularviruses) indicated that they share greater than 55.8% genome-wide identity. Additionally, they share between 55% and 59% pairwise identity with putative novel ssDNA virus genomes recently isolated from sewage baminivirus, niminivirus and nephavirus. Based on the similarities to SsHADV-1 and Rep-like sequences found in fungal genomes, these novel gemycircularviruses may infect fungi.

Sustainability and innovation in staple crop production in the US Midwest

An agroecosystem is constrained by environmental possibility and social choices, mainly in the form of government policies. To be sustainable, an agroecosystem requires production systems that are resilient to natural stressors such as disease, pests, drought, wind and salinity, and to human constructed stressors such as economic cycles and trade barriers. The world is becoming increasingly reliant on concentrated exporting agroecosystems for staple crops, and vulnerable to national and local decisions that affect resilience of these production systems. We chronicle the history of the United States staple crop agroecosystem of the Midwest region to determine whether sustainability is part of its design, or could be a likely outcome of existing policies particularly on innovation and intellectual property. Relative to other food secure and exporting countries (e.g. Western Europe), the US agroecosystem is not exceptional in yields or conservative on environmental impact. This has not been a trade-off for sustainability, as annual fluctuations in maize yield alone dwarf the loss of caloric energy from extreme historic blights. We suggest strategies for innovation that are responsive to more stakeholders and build resilience into industrialized staple crop production.

A novel papillomavirus in Adélie penguin (Pygoscelis adeliae) faeces sampled at the Cape Crozier colony, Antarctica.

Papillomaviruses are epitheliotropic viruses that have circular dsDNA genomes encapsidated in non-enveloped virions. They have been found to infect a variety of mammals, reptiles and birds, but so far they have not been found in amphibians. Using a next-generation sequencing de novo assembly contig-informed recovery, we cloned and Sanger sequenced the complete genome of a novel papillomavirus from the faecal matter of Adélie penguins (Pygoscelis adeliae) nesting on Ross Island, Antarctica. The genome had all the usual features of a papillomavirus and an E9 ORF encoding a protein of unknown function that is found in all avian papillomaviruses to date. This novel papillomavirus genome shared ~60 % pairwise identity with the genomes of the other three known avian papillomaviruses: Fringilla coelebs papillomavirus 1 (FcPV1), Francolinus leucoscepus papillomavirus 1 (FlPV1) and Psittacus erithacus papillomavirus 1. Pairwise identity analysis and phylogenetic analysis of the major capsid protein gene clearly indicated that it represents a novel species, which we named Pygoscelis adeliae papillomavirus 1 (PaCV1). No evidence of recombination was detected in the genome of PaCV1, but we did detect a recombinant region (119 nt) in the E6 gene of FlPV1 with the recombinant region being derived from ancestral FcPV1-like sequences. Previously only paramyxoviruses, orthomyxoviruses and avian pox viruses have been genetically identified in penguins; however, the majority of penguin viral identifications have been based on serology or histology. This is the first report, to our knowledge, of a papillomavirus associated with a penguin species.

A new isolate of beak and feather disease virus from endemic wild red-fronted parakeets (Cyanoramphus novaezelandiae) in New Zealand

Psittacine beak and feather disease (PBFD) is a viral disease distributed worldwide with a potentially critical impact on many rare parrots. While efforts have been made to determine its prevalence in wild and captive psittacines, only limited work has been done to document complete genomes of its causative agent, beak and feather disease virus (BFDV). Here, we describe five full genomes of BFDV isolated from wild specimens of an endemic New Zealand parrot, the red-fronted parakeet (Cyanoramphus novaezelandiae). The isolates share >99% nucleotide similarity amongst themselves and ~91–92% similarity to BFDV isolates from southern Africa, Europe and Australia. A maximum-likelihood (ML) phylogenetic tree including 42 other full-genome sequences indicated that the five isolates from red-fronted parakeets represent an undescribed genotype of BFDV. These isolates are evolutionarily most closely related to the Cacatuini isolates from Thailand and the Lorinae isolates from Australia in the rep gene ML tree; however, in the cp ML tree, the evolutionary relationship is closer to viruses found in the Psittacini.

Human-assisted spread of a maladaptive behavior in a critically endangered bird.

Conservation management often focuses on counteracting the adverse effects of human activities on threatened populations. However, conservation measures may unintentionally relax selection by allowing the ‘survival of the not-so-fit’, increasing the risk of fixation of maladaptive traits. Here, we report such a case in the critically-endangered Chatham Island black robin (Petroica traversi) which, in 1980, was reduced to a single breeding pair. Following this bottleneck, some females were observed to lay eggs on the rims of their nests. Rim eggs left in place always failed to hatch. To expedite population recovery, rim eggs were repositioned inside nests, yielding viable hatchlings. Repositioning resulted in rapid growth of the black robin population, but by 1989 over 50% of all females were laying rim eggs. We used an exceptional, species-wide pedigree to consider both recessive and dominant models of inheritance over all plausible founder genotype combinations at a biallelic and possibly sex-linked locus. The pattern of rim laying is best fitted as an autosomal dominant Mendelian trait. Using a phenotype permutation test we could also reject the null hypothesis of non-heritability for this trait in favour of our best-fitting model of heritability. Data collected after intervention ceased shows that the frequency of rim laying has strongly declined, and that this trait is maladaptive. This episode yields an important lesson for conservation biology: fixation of maladaptive traits could render small threatened populations completely dependent on humans for reproduction, irreversibly compromising the long term viability of populations humanity seeks to conserve.

Identification of an avian polyomavirus associated with Adélie penguins (Pygoscelis adeliae).

Little is known about viruses associated with Antarctic animals, although they are probably widespread. We recovered a novel polyomavirus from Adélie penguin (Pygoscelis adeliae) faecal matter sampled in a subcolony at Cape Royds, Ross Island, Antarctica. The 4988 nt Adélie penguin polyomavirus (AdPyV) has a typical polyomavirus genome organization with three ORFs that encoded capsid proteins on the one strand and two non-structural protein-coding ORFs on the complementary strand. The genome of AdPyV shared ~60 % pairwise identity with all avipolyomaviruses. Maximum-likelihood phylogenetic analysis of the large T-antigen (T-Ag) amino acid sequences showed that the T-Ag of AdPyV clustered with those of avipolyomaviruses, sharing between 48 and 52 % identities. Only three viruses associated with Adélie penguins have been identified at a genomic level, avian influenza virus subtype H11N2 from the Antarctic Peninsula and, respectively, Pygoscelis adeliae papillomavirus and AdPyV from capes Crozier and Royds on Ross Island.

THE INFLUENCE OF LAYING DATE AND MATERNAL AGE ON EGGSHELL THICKNESS AND PORE DENSITY IN YELLOW-EYED PENGUINS

Abstract In many bird species, eggs laid late in the breeding season hatch after a shorter incubation period than eggs that were laid early. The proximate mechanisms that cause these seasonal declines in incubation length remain poorly understood. We tested in Yellow-eyed Penguins (Megadyptes antipodes), Hipfners hypothesis that late-laid eggs have thinner eggshells with a higher pore density that allow embryos to develop more rapidly than in early-laid eggs. In this species incubation length declines with increasing female age, so we also investigated whether eggshell thickness and pore density varies with female age. In addition, differences in shell thickness and pore density between first- and second-laid eggs of the same clutch were examined. Eggshell thickness did not change with laying date and was not related to length of incubation. In contrast, pore density increased with laying date and was negatively related to incubation length in first-laid eggs. Eggshell thickness and pore density increased with female age. Second-laid eggs had a lower pore density and approximately 900 fewer pores than first-laid eggs of the same clutch. Our study suggests that embryos of late-laid eggs may be able to develop faster than embryos of early-laid eggs because of a greater capacity for gas exchange. Further work on eggshell porosity could provide answers to some long-standing questions about the evolutionary advantages of seasonal declines in incubation periods and their underlying mechanisms. Influencia de la Fecha de Puesta y Edad Maternal en el Espesor y la Densidad de Poros de la Cáscara de Huevos en Megadyptes antipodes Resumen. En muchas especies de aves, los huevos puestos hacia fines de la estación reproductiva eclosionan luego de un período de incubación más breve que los huevos puestos más temprano. Los mecanismos próximos que causan estas disminuciones estacionales del período de incubación permanecen aún poco entendidos. Aquí evaluamos la hipótesis de Hipfner en Megadyptes antipodes, la cual sostiene que los huevos puestos tardíamente tienen cáscara más delgadas y mayor densidad de poros que los huevos puestos más temprano, lo que permite que los embriones se desarrollen más rápidamente. En esta especie, el período de incubación disminuye a medida que aumenta la edad de la hembra, por lo que también investigamos si el espesor de la cáscara del huevo y la densidad de poros varían con la edad de la hembra. De modo adicional, examinamos las diferencias en el espesor de la cáscara y en la densidad de poros entre huevos de la primera y la segunda puesta dentro de una misma nidada. El espesor de la cáscara del huevo no varió con la fecha de puesta y no se relacionó con la duración del período de incubación. En contraste, la densidad de poros incrementó con la fecha de puesta y se relacionó negativamente con la duración del período de incubación en los huevos de la primera puesta. El espesor de la cáscara y la densidad de poros incrementaron con la edad de la hembra. Los huevos de la segunda puesta tuvieron una densidad de poros menor y aproximadamente 900 poros menos que los huevos de la primera puesta para una misma nidada. Nuestro estudio sugiere que los embriones de huevos puestos tardíamente pueden ser capaces de desarrollarse más rápido que los embriones de huevos puestos tempranamente debido a una mayor capacidad de intercambio de gases. Estudios adicionales de la porosidad de la cáscara del huevo podrían ofrecer respuestas a preguntas irresueltas sobre las ventajas evolutivas de las disminuciones estacionales de los períodos de incubación y sobre sus mecanismos subyacentes.

Preferential incubation positions for different sized eggs and their influence on incubation period and hatching asynchrony in Snares crested (Eudyptes robustus) and yellow-eyed penguins (Megadyptes antipodes)

In crested penguins (Eudyptes spp.), second-laid eggs typically hatch before first eggs. Amongst a variety of factors that have been considered as mechanisms underlying this reversal, has been the idea that crested penguins can adjust the degree of hatching asynchrony by manipulating egg positions (i.e. placing the smaller first egg in the supposedly thermally disadvantaged anterior position) during incubation (termed Preferential Incubation Hypothesis). We tested this in the Snares crested penguin (Eudyptes robustus) and the closely related, but synchronously-hatching, yellow-eyed penguin (Megadyptes antipodes). Snares crested penguins were more likely to place their first eggs, which are smaller than second eggs, in the anterior incubation position than were yellow-eyed penguins, which have a clutch of two similar-sized eggs. But when yellow-eyed penguins, a non-brood reducing species, were provided with an artificial size-dimorphic clutch, they also placed smaller eggs more frequently in the anterior position, suggesting that a general preference exists among penguins to place smaller eggs in the anterior position. Egg temperatures of small first eggs of Snares crested penguins were higher in the anterior than in the posterior position. Large first eggs in lesser size-dimorphic clutches experienced high temperature differences in relation to position, while small first eggs in greater size-dimorphic clutches were incubated at similar temperatures. In yellow-eyed penguins, large eggs within clutches generally had higher egg temperatures than small eggs. Incubation periods of second eggs declined with increasing egg size. Egg-size variation, rather than egg positioning behaviour, influenced hatching patterns in Snares crested penguins. In lesser size-dimorphic clutches, second eggs were more likely to hatch first while in greater size-dimorphic clutches, small first eggs were more likely to hatch at the same time or before the second eggs. This was similar in yellow-eyed penguins, where second eggs hatched earlier in clutches with large first eggs. Our data contradicts the Preferential Incubation Hypothesis and we conclude that this hypothesis is unlikely to explain the reversed hatching asynchrony in crested penguins.

Differential effects of exotic predator-control on nest success of native and introduced birds in New Zealand

The introduction of mammalian predators has been detrimental to many native birds in New Zealand. One solution to this problem has been the creation of “mainland islands” in which exotic predators are systematically removed. Although mainland islands have been effective in increasing some native bird populations, few studies have measured the effect of predator-control on nest success nor what effect control measures have on sympatric populations of introduced birds. We measured the effect of predator-control on nest survival rates in both native and introduced passerines in a mainland island near Kaikoura, New Zealand. Nest survival was significantly higher in Waimangarara Bush (the site with experimental predator-control) than in Kowhai Bush (the site with no predator-control) and this pattern was found in both groups of birds. However, mammalian predator-control increased nest success of native species significantly more than nest success of introduced species. This suggests that native birds benefit disproportionately from control of introduced predators, most likely because they lack behavioural defences against mammalian predators that are present among the introduced birds.