The type specimens and type localities of the orangutans,genus Pongo Lacépède, 1799 (Primates: Hominidae)

Uncertain type localities undermine orangutan nomenclature. Bequeathed to the British Museum, the holotype of Pongo pygmaeus, according to Hans Sloane’s catalogue, came from Borneo and died in China. The historical evidence makes Banjarmasin its most probable type locality. William Montgomerie, Assistant Surgeon at Singapore from 1819–1827, and Senior Surgeon from 1832, supplied the holotype of Simia morio. In 1836 an adult female orangutan reached Singapore alive from Pontianak, Borneo. The holotypes of S. morio, S. hendrikzii, S. straussii and P[ithecus] owenii probably had the same origin, as pirate attacks endangered visits to other Bornean coasts. Absent from Brunei and north Sarawak, Malaysia, throughout the Holocene, orangutans occur there only as Pleistocene subfossils at Niah. Pan vetus (the Piltdown mandible) probably came from Paku, Sarawak. We identify Pongo borneo Lacépède, 1799 as an objective senior synonym of P. wurmbii Tiedemann, 1808, correcting its type locality from Sukadana to near Pontianak. This is the earliest name for the western subspecies (previously thought nominotypical) unless Pithecus curtus, probably from the Sadong River, Sarawak, represents a separate subspecies. If so, the name Pongo borneo would transfer to the southern population west of the Kahayan River, genetically distinguished at species level from the Sumatran orangutan, P. abelii.     

What are universities for?

Governments worldwide rightly regard universities as fundamental to the achievement of many national priorities. But it is the paper’s contention that many misunderstand their true benefit to society. Investments in universities are increasingly based on the belief that the science labs in particular of research-intensive universities can be the source of a continuous stream of people and ideas that will spawn innovative and fast growing companies to form the nexus of the knowledge-based economy. This belief is a source of misconceived policies that offer only ultimate disillusion. It is the totality of the university enterprise that is important, as the only place where that totality of ourselves and our world is brought together, and which makes it the strongest provider of the rational explanation and meaning that societies need. In research, universities create new possibilities; in teaching, they shape new people. Its graduates learn to seek the true meaning of things: to distinguish between the true and the merely seemingly true, to verify for themselves what is stable in that very unstable compound that often passes for knowledge. It is the complex, interacting whole of the university that is the source of the separate economic, social, cultural and utilitarian benefits valued by society. It needs to be understood, valued and managed as a whole. These perceptions are a direct challenge to not only to governments but to university administrators who have been either cowed or seduced into the slipshod thinking that is leading to demands that universities cannot satisfy, whilst obscuring their most important contributions. The challenge to both is to permit autonomy without oppressive accountability, and to give staff and students the freedom to think, speculate and research. These are the very conditions of the personal and collective creativity that are the sources of a university’s deepest benefits to its society.     

Turbidite deposition in the southern South China Sea during the last glacial: Evidence from grain-size and major elements records

High-resolution grain size and major element geochemical measurements were performed on the marine sediments of Core MD05-2895 to help understand the formation of turbidite sequences. Grain-size results show that these turbidite sediments contain more coarse sediment grains than normal marls. The coarse sediment grains are mostly derived from relict sediments on the Sunda Shelf. Relict sediments are composed mainly of quartz, feldspar, tephra and a few titaniferous or ferruginous heavy minerals. Corresponding to the concentration of these minerals, increases in Si/Al, K/Al, Ti/Al and Fe/Al ratios are observed in the turbidite layers. As all the observed turbidite sequences were deposited during the last glacial, the occurrence of these turbidity events is implied to be closely related to instabilities in sea-level-induced sediment supply. We suggest that deposition of sediment particles from a single turbidity current is usually controlled by a counterbalance between gravity and buoyancy, with the interaction of individual grains being of minor importance.     

Localization and the possible role of plasminogen activators and inhibitors in early stages of placentation

The distribution of mRNAs of tissue type (t) and urokinase type (u) plasminogen activator (PA) plus their corresponding inhibitors, type-1 (PAI-1) and type-2 (PAI-2) have been studied in the tissues of human first and second trimester placentae by in situ hybridization. The results show that: (ⅰ) All the molecules, tPA, uPA, PAI-1 and PAI-2, were identified in the blood vessels, the majority of extravillous trophoblastic cells of the decidual layer between Rohr’s and Nitabuch’s stria and in the trophoblast cells lining the chorionic plate, basal plate, intercotyledonary septae and cytotrophoblast cells of the chorionic villous tree. (ⅱ) No expression of such probes was observed in the basal and chorionic plate, glandular cells of the decidua, the septal tissues or the villous core mesenchyme. The co-distribution of the molecules observed suggests that the co-ordinated expression of the activators and inhibitors in various cells of the placental tissue may play a role in angiogenesis related to conversion of spiral arteries into utero-placental arteries and establishment of a chorio-decidual blood flow during early stages of placentation.     

A Dynamic Factor Approach to Mortality Modeling

Longevity risk has become one of the major risks facing the insurance and pensions markets globally. The trade in longevity risk is underpinned by accurate forecasting of mortality rates. Using techniques from macroeconomic forecasting we propose a dynamic factor model of mortality that fits and forecasts age‐specific mortality rates parsimoniously. We compare the forecasting quality of this model against the Lee–Carter model and its variants. Our results show the dynamic factor model generally provides superior forecasts when applied to international mortality data. We also show that existing multifactorial models have superior fit but their forecasting performance worsens as more factors are added. The dynamic factor approach used here can potentially be further improved upon by applying an appropriate stopping rule for the number of static and dynamic factors. Copyright © 2013 John Wiley & Sons, Ltd.     

Use and selection of brood-rearing habitat by Sage Grouse in south central Washington

Sage Grouse ( Centrocercus urophasianus ) brood-habitat use was examined during 1992 and 1993 at the Yakima Training Center in Yakima and Kittitas counties, Washington. During the 2 yr we followed 30 broods, of which 12 persisted to 1 August (￣ x = approximately 1.5 chicks/brood). Food forb cover was greater at all brood locations than at random locations. Hens with broods in big sagebrush/bunchgrass habitat ( Artemisia tridentata/Agropyron spicatum ) selected for greater food forb cover, total forb cover, and lower shrub heights; broods in altered big sagebrush/bunchgrass habitats selected greater tall grass cover and vertical cover height; broods in grassland showed no preference for any measured vegetation characteristics. During the early rearing period (post-hatching-6 wk) each year, broods selected sagebrush/bunchgrass. Broods in 1993 made greater use of grasslands than in 1992 and selected grassland during the late brood-rearing period (7-12 wk). Broods selected for sagebrush/bunchgrass during the midday, but 52% of brood locations in the afternoon were in grassland. Tall grass cover was greater at morning (0500-1000 h) and afternoon (1501-2000 h) brood locations than at midday (1001-1500 h) and random locations. Midday brood locations had greater shrub cover and height than morning and afternoon locations. Selection of habitat components was similar to the results of other studies, but habitat conditions coupled with a possible lack of alternate brood-rearing cover types resulted in low survival of chicks.     

Strict evolutionary conservation followed rapid gene loss on human and rhesus Y chromosomes

The human X and Y chromosomes evolved from an ordinary pair of autosomes during the past 200-300 million years. The human MSY (male-specific region of Y chromosome) retains only three percent of the ancestral autosomes' genes owing to genetic decay. This evolutionary decay was driven by a series of five 'stratification' events. Each event suppressed X-Y crossing over within a chromosome segment or 'stratum', incorporated that segment into the MSY and subjected its genes to the erosive forces that attend the absence of crossing over. The last of these events occurred 30 million years ago, 5 million years before the human and Old World monkey lineages diverged. Although speculation abounds regarding ongoing decay and looming extinction of the human Y chromosome, remarkably little is known about how many MSY genes were lost in the human lineage in the 25 million years that have followed its separation from the Old World monkey lineage. To investigate this question, we sequenced the MSY of the rhesus macaque, an Old World monkey, and compared it to the human MSY. We discovered that during the last 25 million years MSY gene loss in the human lineage was limited to the youngest stratum (stratum 5), which comprises three percent of the human MSY. In the older strata, which collectively comprise the bulk of the human MSY, gene loss evidently ceased more than 25 million years ago. Likewise, the rhesus MSY has not lost any older genes (from strata 1-4) during the past 25 million years, despite its major structural differences to the human MSY. The rhesus MSY is simpler, with few amplified gene families or palindromes that might enable intrachromosomal recombination and repair. We present an empirical reconstruction of human MSY evolution in which each stratum transitioned from rapid, exponential loss of ancestral genes to strict conservation through purifying selection.     

The dynamic disulphide relay of quiescin sulphydryl oxidase

Protein stability, assembly, localization and regulation often depend on the formation of disulphide crosslinks between cysteine side chains. Enzymes known as sulphydryl oxidases catalyse de novo disulphide formation and initiate intra- and intermolecular dithiol/disulphide relays to deliver the disulphides to substrate proteins. Quiescin sulphydryl oxidase (QSOX) is a unique, multi-domain disulphide catalyst that is localized primarily to the Golgi apparatus and secreted fluids and has attracted attention owing to its overproduction in tumours. In addition to its physiological importance, QSOX is a mechanistically intriguing enzyme, encompassing functions typically carried out by a series of proteins in other disulphide-formation pathways. How disulphides are relayed through the multiple redox-active sites of QSOX and whether there is a functional benefit to concatenating these sites on a single polypeptide are open questions. Here we present the first crystal structure of an intact QSOX enzyme, derived from a trypanosome parasite. Notably, sequential sites in the disulphide relay were found more than 40?? apart in this structure, too far for direct disulphide transfer. To resolve this puzzle, we trapped and crystallized an intermediate in the disulphide hand-off, which showed a 165° domain rotation relative to the original structure, bringing the two active sites within disulphide-bonding distance. The comparable structure of a mammalian QSOX enzyme, also presented here, shows further biochemical features that facilitate disulphide transfer in metazoan orthologues. Finally, we quantified the contribution of concatenation to QSOX activity, providing general lessons for the understanding of multi-domain enzymes and the design of new catalytic relays.