DMRT gene cluster analysis in the platypus: new insights into genomic organization and regulatory regions

We isolated and characterized a cluster of platypus DMRT genes and compared their arrangement, location, and sequence across vertebrates. The DMRT gene cluster on human 9p24.3 harbors, in order, DMRT1, DMRT3, and DMRT2, which share a DM domain. DMRT1 is highly conserved and involved in sexual development in vertebrates, and deletions in this region cause sex reversal in humans. Sequence comparisons of DMRT genes between species have been valuable in identifying exons, control regions, and conserved nongenic regions (CNGs). The addition of platypus sequences is expected to be particularly valuable, since monotremes fill a gap in the vertebrate genome coverage. We therefore isolated and fully sequenced platypus BAC clones containing DMRT3 and DMRT2 as well as DMRT1 and then generated multispecies alignments and ran prediction programs followed by experimental verification to annotate this gene cluster. We found that the three genes have 58-66% identity to their human orthologues, lie in the same order as in other vertebrates, and colocate on 1 of the 10 platypus sex chromosomes, X5. We also predict that optimal annotation of the newly sequenced platypus genome will be challenging. The analysis of platypus sequence revealed differences in structure and sequence of the DMRT gene cluster. Multispecies comparison was particularly effective for detecting CNGs, revealing several novel potential regulatory regions within DMRT3 and DMRT2 as well as DMRT1. RT-PCR indicated that platypus DMRT1 and DMRT3 are expressed specifically in the adult testis (and not ovary), but DMRT2 has a wider expression profile, as it does for other mammals. The platypus DMRT1 expression pattern, and its location on an X chromosome, suggests an involvement in monotreme sexual development.     

Mouse arylamine N-acetyltransferase 2 (Nat2) expression during embryogenesis: a potential marker for the developing neuroendocrine system

Arylamine N-acetyltransferase (NAT) genes in humans and in rodents encode polymorphic drug metabolizing enzymes. Human NAT1 (and the murine equivalent mouse Nat2) is found early in embryonic development and is likely to have an endogenous role. We report the detailed expression of the murine gene (Nat2) and encoded protein in mouse embryos, using a transgenic mouse model bearing a lacZ transgene inserted into the coding region of mouse Nat2. In mouse embryos, the transgene was expressed in sensory epithelia, epithelial placodes giving rise to visceral sensory neurons, the developing pituitary gland, sympathetic chain and urogenital ridge. In Nat2^+/+ mice, the presence and activity of Nat2 protein was detected in these tissues and their adult counterparts. Altered expression of the human orthologue in breast tumours, in which there is endocrine signalling, suggests that human NAT1 should be considered as a potential biomarker for neuroendocrine tissues and tumours.     

The depth of Sooty Shearwater Ardenna grisea burrows varies with habitat and increases with competition for space

The Sooty Shearwater Ardenna grisea, an abundant but declining petrel, is one of many seabird species that construct breeding burrows, presumably because these confer protection from predators and the elements. Little is known about the causes of variation in Sooty Shearwater burrow architecture, which can differ markedly both within and between breeding sites. We hypothesize that burrow architecture varies in response to habitat type and competition for space. To address these hypotheses, we recorded Sooty Shearwater burrow dimensions on Kidney Island, the largest Sooty Shearwater colony in the Falkland Islands, South Atlantic, and modelled these as functions of burrow density (a proxy for competition) and habitat indices. Our models suggest that Sooty Shearwaters burrow further underground in response to competition for breeding space, and that soil underlying dense tussac grass Poa flabellata is more easily excavated than other substrates, indicating how vegetation restoration could aid the conservation of this species.     

Age estimation and otolith characteristics of an unusually old, red emperor snapper (Lutjanus sebae) captured off the Kimberley coast of north-western Australia

In October 2006, an unusually old, red emperor snapper, Lutjanus sebae , was captured using fish traps off the north coast of Western Australia. Despite being very old the specimen was not exceptionally large, measuring 516 mm fork length. Of particular note was the fact the specimen was female, as female L. sebae do not attain the large sizes at age of male fish. Interpretation of the sectioned sagittal otolith was used to estimate an age of approximately 40 years. This is the oldest recorded age for an individual L. sebae and further contributes towards the knowledge of the demography of this species. The advanced age recorded for this specimen also confirms the low rates of natural mortality for L. sebae and therefore low population productivity and supports the precautionary management arrangements for this species in north-western Australia.     

Extraordinary capture of a Randall's snapper Randallichthys filamentosus in the temperate south‐eastern Indian Ocean and its molecular phylogenetic relationship within the Etelinae

The capture of a rarely encountered Randall's snapper Randallichthys filamentosus (female, 587 mm fork length) from the upper continental slope (c. 350 m) off the south coast of Western Australia (c. 34·5° S; 122·5° E) in January 2014 represents its first record from the temperate Indian Ocean and a southern range extension. This record suggests that spawning of this predominantly tropical species may probably be occurring in the eastern Indian Ocean, considering the extensive, and unlikely, distance the progeny would have otherwise travelled from its typical distribution in the western and central Pacific Ocean.     

Habitat-mediated population limitation in a colonial central-place forager: the sky is not the limit for the black-browed albatross

Animal populations are frequently limited by the availability of food or of habitat. In central-place foragers, the cost of accessing these resources is distance-dependent rather than uniform in space. However, in seabirds, a widely studied exemplar of this paradigm, empirical population models have hitherto ignored this cost. In part, this is because non-independence among colonies makes it difficult to define population units. Here, we model the effects of both resource availability and accessibility on populations of a wide-ranging, pelagic seabird, the black-browed albatross Thalassarche melanophris. Adopting a multi-scale approach, we define regional populations objectively as spatial clusters of colonies. We consider two readily quantifiable proxies of resource availability: the extent of neritic waters (the preferred foraging habitat) and net primary production (NPP). We show that the size of regional albatross populations has a strong dependence, after weighting for accessibility, on habitat availability and to a lesser extent, NPP. Our results provide indirect support for the hypothesis that seabird populations are regulated from the bottom-up by food availability during the breeding season, and also suggest that the spatio-temporal predictability of food may be limiting. Moreover, we demonstrate a straightforward, widely applicable method for estimating resource limitation in populations of central-place foragers.