Where to from Brahmans in the Northern Australian herd? Maintaining the economic benefit of earlier infusions of Bos indicus.

The economic performance of a terminal crossbreeding system based on Brahman cows and a tropically adapted composite herd were compared to a straightbred Brahman herd. All systems were targeted to meet specifications of the grass-finished Japanese market. The production system modelled represented a typical individual central Queensland integrated breeding/finishing enterprise or a northern Australian vertically integrated enterprise with separate breeding and finishing properties. Due mainly to a reduced age of turnoff of Crossbred and Composite sale animals and an improved weaning rate in the Composite herd, Crossbred and Composite herds returned a gross margin of $7 and $24 per Adult Equivalent (AE) respectively above that of the Brahman herd. The benefits of changing 25% of the existing 85% of Brahmans in the northern Australian herd to either Crossbreds or Composites over a 10-year period were also examined. With no premium for carcass quality in Crossbred and Composite sale animals, annual benefits were $16 M and $61 M for Crossbreds and Composites in 2013. The cumulative Present Value (PV) of this shift over the 10-year period was $88 M and $342 M respectively, discounted at 7%. When a 5c per kg premium for carcass quality was included, differences in annual benefits rose to $30 M and $75 M and cumulative PVs to $168 M and $421 M for Crossbreds and Composites respectively.

Multi-trait assessment of early-in-life female, male and genomic measures for use in genetic selection to improve female reproductive performance of Brahman cattle

Early-in-life female and male measures with potential to be practical genetic indicators were chosen from earlier analyses and examined together with genomic measures for multi-trait use to improve female reproduction of Brahman cattle. Combinations of measures were evaluated on the genetic gains expected from selection of sires and dams for each of age at puberty (AGECL, i.e. first observation of a corpus luteum), lactation anoestrous interval in 3-year-old cows (LAI), and lifetime annual weaning rate (LAWR, i.e. the weaning rate of cows based on the number of annual matings they experienced over six possible matings). Selection was on an index of comparable records for each combination. Selection intensities were less than theoretically possible but assumed a concerted selection effort was able to be made across the Brahman breed. The results suggested that substantial genetic gains could be possible but need to be confirmed in other data. The estimated increase in LAWR in 10 years, for combinations without or with genomic measures, ranged from 8 to 12 calves weaned per 100 cows from selection of sires, and from 12 to 15 calves weaned per 100 cows from selection of sires and dams. Corresponding reductions in LAI were 60-103 days or 94-136 days, and those for AGECL were 95-125 or 141-176 days, respectively. Coat score (a measure of the sleekness or wooliness of the coat) and hip height in females, and preputial eversion and liveweight in males, were measures that may warrant wider recording for Brahman female reproduction genetic evaluation. Pregnancy-test outcomes from Matings 1 and 2 also should be recorded. Percentage normal sperm may be important to record for reducing LAI and scrotal size and serum insulin-like growth factor-I concentration in heifers at 18 months for reducing AGECL. Use of a genomic estimated breeding value (EBV) in combination with other measures added to genetic gains, especially at genomic EBV accuracies of 40%. Accuracies of genomic EBVs needed to approach 60% for the genomic EBV to be the most important contributor to gains in the combinations of measures studied.

Burrowing behaviour of signal crayfish, Pacifastacus leniusculus (Dana), in the River Great Ouse, England

Observations were made on crayfish burrows in five locations on the Great Ouse River. The burrow densities and the relative abundance of crayfish were observed. Also, laboratory experiments were carried out in order to study the characteristics and mechanisms of burrowing.

Ecologia térmica e comportamento de construção de abrigos de Liolaemus lutzae (Lacertilia, Liolaemidae) em três áreas de restinga no estado do Rio de Janeiro, sudeste do Brasil: os efeitos de fatores extrínsecos e intrínsecos

Fatores extrínsecos afetam a ecologia térmica e o comportamento de lagartos no habitat, com as características ambientais locais podendo ocasionar alterações na temperatura corpórea (Tc) e no comportamento destes animais. Entretanto, fatores intrínsecos também representam uma importante influência para sua biologia, assim como fatores filogenéticos (históricos). Liolaemus lutzae (Liolaemidae) é uma espécie de lagarto com ocorrência restrita a restingas do estado do Rio de Janeiro (entre a Restinga da Marambaia no município do Rio de Janeiro e a restinga da Praia do Peró no município de Cabo Frio), vivendo exclusivamente na zona de vegetação halófila-psamófila-reptante a chamada área-de-praia da restinga (sujeita a altas temperaturas ambientais e ventos intensos constantes). Nessa área, onde vivem restritos a uma faixa de poucos metros de restinga, os indivíduos se abrigam escavando abrigos no substrato arenoso. Avaliei a importância de fontes ambientais de calor, da intensidade dos ventos, do sexo, da ontogenia, do comprimento rostro-cloacal (CRC) e da massa corpórea para a Tc e a taxa de atividade de lagartos L. lutzae (observando a ocorrência de variações sazonais), em estudos conduzidos no município de Arraial do Cabo, estado do Rio de Janeiro, sudeste do Brasil. Além disso, eu analisei se o comportamento de L. lutzae, direcionando as aberturas de seus abrigos foi afetado por fatores ambientais nas restingas da Reserva Ecológica Estadual de Jacarepiá e do Parque Natural Municipal de Grumari, ambas no estado do Rio de Janeiro. A atividade dos lagartos se estendeu durante o dia (0600h às 1800h), com máximo entre 1100h e 1300h (com variações sazonais). A Tc dos indivíduos foi 31,7  3,4 C, e variou ao longo do dia e sazonalmente. Em ambas as estações a Tc dos lagartos relacionaram-se às temperaturas do microhabitat (substrato e ar). A intensidade do vento influenciou a Tc dos lagartos (causando seu decréscimo), e a intensidade média do vento afetou o número de lagartos ativos (causando redução da atividade). Houve diferenças intersexuais no CRC, com os machos maiores do que as fêmeas, embora as fêmeas tenham tido maior massa corpórea relativa ao CRC correspondente, comparado aos machos. A Tc também diferiu inter-sexualmente (com machos mais quentes do que fêmeas) e ontogeneticamente (com jovens mais quentes do que adultos depois de removido o efeito do tamanho corpóreo). Houve relações entre a Tc e o CRC e entre a Tc e a massa corpórea, com lagartos maiores tendo Tc mais elevada (causada pela inércia térmica dos corpos). A variabilidade na Tc dos lagartos parece refletir a interação entre características ambientais locais, fatores intrínsecos e a filogenia da espécie. As aberturas dos abrigos foram localizadas principalmente próximas à linha de praia (possivelmente devido ao substrato menos compacto), predominantemente em terrenos inclinados e tiveram uma tendência de orientação influenciada pela inclinação do terreno. O comportamento de L. lutzae de orientar a entrada de seus abrigos para a direção descendente das inclinações pode ser vantajoso para torná-los menos vulneráveis a potenciais ameaças e distúrbios vindos da superfície.

Embankment damaging marine organisms and their control measures using calcium carbide

Five species of crabs and three species of fishes were the main marine organisms found damaging embankments owing to their burrowing nature. Among crabs, Scylla serrata was in the highest percentage, while among fishes, Boleopthalamus dussumieri was recorded in maximum percentage calcium carbide 10-15 per burrow was effective in eradicating the crabs.

Feeding habits of the sesarmid crab Perisesarma bidens (De Haan) in the mangroves of the Ryukyu Islands, Japan

Feeding habits of the sesarmid crab Perisesarma bidens (De Haan) was investigated in the mangroves of the Ryukyu Islands, Japan. Stomach content analysis showed that their diet consists mainly of mangrove leaves fragments, with small amounts of animal, algae and sediment matters, indicating that P. bidens is primarily detritivorous. The consumption rate of P. bidens was investigated under laboratory conditions by offering three different types of Kandelia candel mangrove leaves. Crab survived by eating green, yellow or brown leaves, preferring brown to either green or yellow leaves. Consumption rate of brown leaves was significantly higher when crabs were provided with green, yellow and brown leaves together, than when provided separately. It is considered that the brown leaves have a soft tissue, which is easily torn by the crab chelae and have apparently low C/N ratio. The C/N ratio of faeces, which indicated lower value than that of burrow leaves or sediments, derived from the symbiosis of bacteria in the stomach. The C/N ratio showed that sediments had C/N ratios 2/3 times lower than leaves sequestered in the burrow, indicating that mangrove sediments could have higher nutritional value than mangrove leaves. Perisesarma bidens showed significant consumption rates of mangrove detritus, therefore, it may have the important role as the grazer of mangrove detritus in view of the nutrient cycle in the mangroves.

Effect of plateau zokors on vegetation characteristics and productivity of alpine meadow

This research was conducted on alpine meadow site at Menyuan county, Qinghai Province, People's Republic of China to determine the effects of native, subterranean rodent of Qinghai-Tibet grasslands, the plateau zokors (Myospalax baileyi), on seasonal above-and below-ground plant biomass, plant species diversity and productivity. Both total peaks of above-and below-ground biomass were the greatest (413.600 g/m~2 and 2297.502 g/m~2) in the patch no any plateau zokors colonized by plateau zokors over 10 years in August and October, respectively. Both above-and below-ground biomass were significantly increased in the patches where plateau zokors were removed or the burrow systems were abandoned for five years compared to the patches plateau zokors colonized over 10 years. However, both above-and below-ground biomass in abandoned patches were significantly lower than that in uncolonized patches. Monocotyledonous biomass was reduced greatly, but the non-palatable dicots were significantly increased in colonized patches. The palatable biomass of monocots and dicots were increased in abandoned patches. Total plant species diversity was the greatest in uncolonized patchesand least in abandoned patch. The total net primary production in colonized patches was reduced by 68.98% compared with uncolonized patches. Although the patches were without any plateau zokors disturbance for fives years, the total net primary production just reached 58.69% of the uncolonized patches. The above-ground net primary production in abandoned patches increased 28.74% and the below-ground increased 54.91% compared with the colonized patches. We suggest that plateau zokor-induced changes in plant above- and below-ground biomass and species diversity may lead to further alterations of nutrient cycling and trophic dynamics in this alpine meadow ecosystem.

Livestock grazing, plateau pikas and the conservation of avian biodiversity on the Tibetan plateau

On the Qinghai-Tibet plateau increased livestock numbers have resulted in degradation of the grasslands with potential impacts on native biodiversity. Concurrently, perceived increases in populations of native small mammals such as plateau pikas (Ochotona curzoniae) have led to poisoning programs, with uncertain impacts on species such as ground-nesting birds. We explored the relationships between the local seasonal abundance of small birds and (1) the density of pika burrows; (2) livestock grazing practices; and (3) local poisoning of pikas. Around Naqu prefecture, central Tibet, we used a nested experimental design to collect data from areas rested from grazing over summer, nearby areas with year-round grazing and areas subjected to pika poisoning. Additional data were collected from a site where grazing had not occurred for at least 4 years prior to the study. Poisoning pikas in spring had no detectable effect on the local abundance of birds the following autumn. However, two ground-nesting species, white-rumped and rufous-necked snowfinches, showed positive associations with the density of pika burrows, indicating that long-term 'pika poisoning could reduce the density of these species by reducing the density of pika burrows. Rufous-necked snowfinches and non ground-nesting species including horned larks and common hoopoes showed positive responses to reduced grazing pressure from livestock, particularly in the long-rested site, indicating current grazing levels could be having a negative impact on these species. Conservation of small passerine biodiversity in this system will require changed management practices for livestock and pikas that consider the complex three-way interaction between livestock grazing, pikas and small birds. (C) 2008 Elsevier Ltd. All rights reserved.

The impact of plateau zokor Myospalax fontanierii burrows on alpine meadow vegetation on the Qinghai-Xizang (Tibetan) plateau

The impact of burrows constructed by plateau zokors Myospalax fontanierii (Milne-Edwards, 1867) on alpine meadow vegetation on the Qinghai-Xizang (Tibetan) plateau was investigated. Plant samples taken from quadrats directly over active zokor burrows, back-filled burrows, adjacent burrow controls, and random sites from a field, in which no burrows or mounds occurred were compared. The biomass of plants (below- and above-ground) directly over shallow active burrows was significantly lower than on control plots. This reduction in biomass was not significantly different than that between deep active burrows and control plots. There were no significant differences between above- and below-ground plant biomass on areas perpendicular to active burrows when compared to random sites. Back-filling soil in burrows could promote the growth of above-ground monocotyledonous plants. However, the burrowing activities of zokors had a negative effect on biomass of dicotyledonous plants.

Effects of plateau zokors (Myospalax Fontanierii) on plant community and soil in an alpine meadow

Effects of plateau zokors (Myospalax fontanierii) on seasonal above- and belowground plant biomass, plant species diversity, and soil moisture and organic matter were examined at an alpine meadow site in Qinghai Province, People's Republic of China. Above- and belowground biomass increased significantly in areas where zokors were removed or burrow systems were abandoned for 5 years compared with areas that zokors had occupied for >10 years. Biomass of monocotyledons was reduced greatly, but biomass of nonpalatable dicotyledons increased significantly, in occupied areas. Diversity of dicotyledons, monocotyledons, and total plants in unoccupied areas was significantly greater than in occupied or abandoned areas. Vegetation cover and height in occupied areas were significantly less than in unoccupied and abandoned areas. No consistent effect by zokors on soil moisture and organic matter was observed.

Social and ecological influences on dispersal and philopatry in the plateau pika (Ochotona curzoniae)

Benefits and costs of dispersal and philopatry of the social plateau pika (Ochotona curzoniae) were studied on the Tibetan plateau for 3 years. Although short-lived, plateau pikas live in cohesive family groups that occupy burrow systems in sedge meadow habitat Most (57.8%) plateau pikas were philopatric, and dispersal movements were extremely restricted. No juvenile females or adult pikas moved more than two family ranges between years; the greatest observed dispersal distances were by two juvenile males that moved five family ranges from the family of their birth. Traversing unfamiliar habitat was not a cost of pika dispersal because most dispersers settled in families that they could easily visit before dispersal. Dispersal movements appeared to result in equalization of density among pika families, an expected result if competition for environmental resources influenced dispersal. Males did not disperse to gain advantages in competition for mates, as evidenced by their moving to families with significantly fewer females. Females, however, moved to families with significantly more males. Males provide abundant paternal care, and significantly more offspring per female survived to become adults from families with more adult males per adult female. Evidence concerning the influence of inbreeding avoidance on natal dispersal was indirect. Some males exhibited natal philopatry; thus some families had opportunity for close inbreeding. Males and females that dispersed had no opposite-sex relatives in their new families. Philopatric pikas may have benefited by remaining in families that exhibited low local densities, and philopatric females might have benefited from social cooperation with relatives.

Soft sediment ecology of Lough Hyne Marine Reserve - spatial and temporal patterns

Distribution of soft sediment benthic fauna and the environmental factors affecting them were studied, to investigate changes across spatial and temporal scales. Investigations took place at Lough Hyne Marine Reserve using a range of methods. Data on the sedimentation rates of organic and inorganic matter were collected at monthly intervals for one year at a number of sites around the Lough, by use of vertical midwater-column sediment traps. Sedimentation of these two fractions were not coupled; inorganic matter sedimentation depended on hydrodynamic and weather factors, while the organic matter sedimentation was more complex, being dependent on biological and chemical processes in the water column. The effects of regular hypoxic episodes on benthic fauna due to a natural seasonal thermocline were studied in the deep Western Trough, using camera-equipped remotely-operated vehicle to follow transects, on a three-monthly basis over one year. In late summer, the area below the thermocline of the Western Trough was devoid of visible fauna. Decapod crustaceans were the first taxon to make use of ameliorating oxygen conditions in autumn, by darting below the thermocline depth, most likely to scavenge. This was indicated by tracks that they left on the surface of the Trough floor. Some species, most noticeably Fries’ goby Lesueurigobius friesii, migrated below the thermocline depth when conditions were normoxic and established semi-permanent burrows. Their population encompassed all size classes, indicating that this habitat was not limited to juveniles of this territorial species. Recolonisation by macrofauna and burrowing megafauna was studied during normoxic conditions, from November 2009 to May 2010. Macrofauna displayed a typical post-disturbance pattern of recolonisation with one species, the polychaete Scalibregma inflatum, occurring at high abundance levels in March 2010. In May, this population had become significantly reduced and a more diverse community was established. The abundance of burrowing infauna comprising decapods crabs and Fries’ gobies, was estimated by identifying and counting their distinctive burrow structures. While above the summer thermocline depth, burrow abundance increased in a linear fashion, below the thermocline depth a slight reduction of burrow abundance occurred in May, when oxygen conditions deteriorated again. The majority of the burrows occurring in May were made by Fries’ gobies, which are thought to encounter low oxygen concentrations in their burrows. Reduction in burrow abundance of burrowing shrimps Calocaris macandreae and Callianassa subterranea (based on descriptions of burrow structures from the literature), from March to May, might be related to their reduced activity in hypoxia, leading to loss of structural burrow maintenance. Spatial and temporal changes to macrofaunal assemblage structures were studied seasonally for one year across 5 sites in the Lough and subject to multivariate statistical analysis. Assemblage structures were significantly correlated with organic matter levels in the sediment, the amounts of organic matter settling out of the water column one month before macrofaunal sampling took place as well as current speed and temperature. This study was the first to investigate patterns and processes in the Lough soft sediment ecology across all 3 basins on a temporal and spatial scale. An investigation into the oceanographic aspects of the development, behaviour and break-down of the summer thermocline of Lough Hyne was performed in collaboration with researchers from other Irish institutions.

Different energy sources for three symbiont-dependent bivalve molluscs at the Lagatchve hydrothermal site (Mid Atlantic Ridge)

The vent mussel Bathymodiolus puteoserpentis, a large vesicomyid clam and a smaller thyasirid were collected from an area of sediment subject to diffuse hydrothermal flow. The mussels live on the surface, the vesicomyids are partly buried and the thyasirids burrow in the sediment. The fine structure of the gills differs in the three bivalves. Bathymodiolus puteoserpentis hosts two types of bacterial symbiont, one methanotrophic, and another probably thiotrophic. The other two bivalves have single types of symbiont of different shapes. Stable isotope ratios of carbon and nitrogen indicate thiotrophy in the vesicomyid and thyasirid, but a predominance of methanotrophy in the mussel. This is the first time that such an assemblage has been found at a hydrothermal site on the Mid-Atlantic Ridge (MAR), with the different faunistic elements exploiting different energy resources

Impacts of bioturbation on temporal variation in bacterial and archaeal nitrogen-cycling gene abundance in coastal sediments

In marine environments, macrofauna living in or on the sediment surface may alter the structure, diversity and function of benthic microbial communities. In particular, microbial nitrogen (N)-cycling processes may be enhanced by the activity of large bioturbating organisms. Here, we study the effect of the burrowing mud shrimp Upogebia deltaura upon temporal variation in the abundance of genes representing key N-cycling functional guilds. The abundance of bacterial genes representing different N-cycling guilds displayed different temporal patterns in burrow sediments in comparison with surface sediments, suggesting that the burrow provides a unique environment where bacterial gene abundances are influenced directly by macrofaunal activity. In contrast, the abundances of archaeal ammonia oxidizers varied temporally but were not affected by bioturbation, indicating differential responses between bacterial and archaeal ammonia oxidizers to environmental physicochemical controls. This study highlights the importance of bioturbation as a control over the temporal variation in nitrogen-cycling microbial community dynamics within coastal sediments.

Polychaete burrows harbour distinct microbial communities in oil-contaminated coastal sediments

Previous studies have shown that the bioturbating polychaete Hediste (Nereis) diversicolor can affect the composition of bacterial communities in oil-contaminated sediments, but have not considered diversity specifically within bioturbator burrows or the impact on microbial eukaryotes. We tested the hypothesis that H. diversicolor burrows harbour different eukaryotic and bacterial communities compared with un-bioturbated sediment, and that bioturbation stimulates oil degradation. Oil-contaminated sediment was incubated with or without H. diversicolor for 30 days, after which sediment un-affected by H. diversicolor and burrow DNA/RNA samples were analysed using quantitative reverse transcription PCR (Q-RT-PCR) and high-throughput sequencing. Fungi dominated both burrow and un-bioturbated sediment sequence libraries; however, there was significant enrichment of bacterivorous protists and nematodes in the burrows. There were also significant differences between the bacterial communities in burrows compared with un-bioturbated sediment. Increased activity and relative abundance of aerobic hydrocarbon-degrading bacteria in the burrows coincided with the significant reduction in hydrocarbon concentration in the bioturbated sediment. This study represents the first detailed assessment of the effect of bioturbation on total microbial communities in oil-contaminated sediments. In addition, it further shows that bioturbation is a significant factor in determining microbial diversity within polluted sediments and plays an important role in stimulating bioremediation.