The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism

Diatoms are unicellular algae with plastids acquired by secondary endosymbiosis. They are responsible for approximately 20% of global carbon fixation. We report the 34 million-base pair draft nuclear genome of the marine diatom Thalassiosira pseudonana and its 129 thousand-base pair plastid and 44 thousand-base pair mitochondrial genomes. Sequence and optical restriction mapping revealed 24 diploid nuclear chromosomes. We identified novel genes for silicic acid transport and formation of silica-based cell walls, high-affinity iron uptake, biosynthetic enzymes for several types of polyunsaturated fatty acids, use of a range of nitrogenous compounds, and a complete urea cycle, all attributes that allow diatoms to prosper in aquatic environments.     

Small bilaterian fossils from 40 to 55 million years before the cambrian

Ten phosphatized specimens of a small (<180 micrometers) animal displaying clear bilaterian features have been recovered from the Doushantuo Formation, China, dating from 40 to 55 million years before the Cambrian. Seen in sections, this animal (Vernanimalcula guizhouena gen. et sp. nov.) had paired coeloms extending the length of the gut; paired external pits that could be sense organs; bilateral, anterior-posterior organization; a ventrally directed anterior mouth with thick walled pharynx; and a triploblastic structure. The structural complexity is that of an adult rather than a larval form. These fossils provide the first evidence confirming the phylogenetic inference that Bilateria arose well before the Cambrian.     

Factors affecting mango (Mangifera indica L.) protoplast isolation and culture

The major factors influencing protoplast isolation and culture of mango (Mangifera indica L.) cv. Kensington Pride were investigated. The resultant protocol was used to compare plating efficiency among 4 mango cultivars. Most responses differed between proembryonic masses (PEMs) and leaf sources. Protoplast yields of 15.22 × 10⁶ g⁻¹ from PEMs and 8.68 × 10⁶ g⁻¹ from greenhouse-derived leaves were obtained in a solution of 0.7 M mannitol CPW plus 1.5% cellulase, 1% hemicellulase and 0.75% macerozyme for PEMs or 0.5 M mannitol CPW plus 1.5% cellulose, 1% hemicellulase and 1.5% macerozyme for leaves. Culture in Ca-alginate beads with initial plating densities (IPD) of 2.5 × 10⁴ Pp mL⁻¹ for PEMs and 2.5 × 10⁵ for leaves gave the highest plating efficiencies (FPE). For PEMs 1 mg L⁻¹ 2,4-d and 3.5 mg L⁻¹ kinetin gave an FPE of 2.85% whereas lower kinetin (2 mg L⁻¹) plus 0.5 mg L⁻¹ 6-BAP was most effective for leaves (FPE of 2.12%). Most protoplast mortality occurred during the first week of culture and was more severe in liquid culture. In Ca-alginate beads, protoplast survival at 14 days was higher for PEMs (30%) than leaf (21%) as was the frequency of cell division (17.6% compared to 13.6%). PEMs protoplasts continued development through embryogenesis to in vitro plantlet regeneration whereas leaf protoplasts underwent cell division up to 40-cell colonies but failed to proceed further. For PEMs, polyembryonic cvs. Kensington Pride and Keow Savoey produced higher FPE (1.95%) than monoembryonic cvs. Tommy Atkins and Keitt (1.75%). There was no effect of cultivar for leaf protoplasts.     

A reverse keystone species affects the landscape distribution of woodland avifauna: a case study using the Noisy Miner (<Emphasis Type="Italic">Manorina melanocephala</Emphasis>) and other Australian birds

We explored the effects of a purported ‘reverse keystone species’, the Noisy Miner (Manorina melanocephala) using a long-term, large-scale dataset. Specifically, we identify whether this aggressive bird affects the landscape distribution patterns of other avifauna, by displacing them into, or restricting their distribution to, less productive areas, and in so doing, adheres to ‘isoleg theory’. We sought to determine the effect of abundance of the Noisy Miner on the abundance of other birds (individual species and groups), and determine whether that effect was consistent with varying site productivity, using a negative binomial distribution with a logarithmic link function, and an offset variable to account for variations in search effort. Relationships between abundance of Noisy Miners and habitat variables were examined using a Poisson distribution with a logarithmic link function scaled for extra-variation (quasi-Poisson regression). We demonstrate that when Noisy Miner abundance is low, many small passerine species are more abundant on high productivity sites. However, as Noisy Miner abundance increases, small passerine abundance decreases, with this decrease most apparent on productive sites. The same patterns were not evident for birds considered ‘non-competitors’ of the Noisy Miner. We identify that both site productivity and vegetation structure influence the abundance of the Noisy Miner. We reveal that the species increasingly tolerates ‘less desirable’ habitat attributes with increasing site productivity. The preference of the Noisy Miner for productive areas is likely to have deleterious impacts on the long-term survival and reproductive success of other Australian woodland bird species, many of which have already undergone severe declines.     

Consequences of adult and juvenile movement for marine protected areas

Adult and juvenile mobility has a considerable influence on the functioning of marine protected areas. It is recognized that adult and juvenile movement reduces the core benefits of protected areas, namely protecting the full age–structure of marine populations, while at the same time perhaps improving fisheries yield over the no-reserve situation through export of individuals from protected areas. Nevertheless, the study of the consequences of movement on protected area functioning is unbalanced. Significant attention has been paid to the influence of certain movement patterns, such as diffusive movement and home ranges, while the impacts of others, such as density-dependent movements and ontogenetic migrations, have been relatively ignored. Here we review the diversity of density-independent and density-dependent movement patterns, as well as what is currently known about their consequences for the conservation and fisheries effects of marine protected areas. We highlight a number of ‘partially addressed’ issues in marine protected area research, such as the effects of reserves targeting specific life phases, and a number of essentially unstudied issues, such as density-dependent movements, nomadism, ontogenetic migrations, behavioral polymorphism and ‘dynamic’ reserves that adjust location as a realtime response to habitat changes. Assessing these issues will be essential to creating effective marine protected area networks for mobile species and accurately assessing reserve impacts on these species.     

Elephant-induced structural changes in the vegetation and habitat selection by large herbivores in an African savanna

African elephants can affect the quality of the habitat of other species by breaking or uprooting trees and shrubs in savannas. Their effect on vegetation has been widely studied but less is known about the effects of such vegetation changes on other animals. We studied how changes in the vegetation caused by elephants influence the selection of microhabitats by five African herbivore species (giraffe, kudu, steenbok, impala, and zebra) in Hwange National Park, Zimbabwe. There was no clear significant effect of overall elephant-induced vegetation changes on microhabitat selection except for the small species (steenbok and impala) that used vegetation modified by elephants preferentially. This is consistent with a medium-term browsing facilitation hypothesis. More subtle possible effects were detected for larger browsers (giraffe and kudu). They selected areas with broken and uprooted plants and avoided coppiced areas. All of the browsers selected sites characterized by plants uprooted and broken by elephants, which were associated with a higher visibility, and ultimately a better probability of detecting an approaching predator, suggesting that perceived predation risk plays an important role in microhabitat selection. These results illustrate how elephants can initiate indirect effects that influence microhabitat selection by other herbivores. Understanding the indirect effects of elephants through changes in food availability and predation risk thus needs further investigation. The results of this study do not provide support for the hypothesis that elephant-induced changes in the structure of habitats have caused the declines in the populations of the other herbivores in the study area.     

A review of the conservation threats to carnivorous plants

Over half of the carnivorous plant species assessed by the International Union for the Conservation of Nature (IUCN) are listed as threatened (i.e. vulnerable, endangered, or critically endangered), but the threats to carnivorous plants have not previously been quantified systematically. In this review, we quantify the conservation threats to carnivorous plant taxa worldwide. Using the IUCN Red List, a literature search of Web of Knowledge, and the National Red Lists database, we collected data on the threats to 48 species of carnivorous plants from nine genera. The most common threat was habitat loss from agriculture, followed by the collection of wild plants, pollution, and natural systems modifications. A principal coordinate analysis revealed that species within a genus often faced similar threats, and an indicator species analysis found positive associations among species in the genus Sarracenia and agricultural activities, over-collection, invasive species, and pollution. Future research should further quantify the effects of pollution on carnivorous plants, and more thoroughly examine the potential role of carnivorous plants as indicator species for wetland health. More research is also needed to quantify the extinction risk for many carnivorous plants, as presently only around 17% of species have been assessed by the IUCN. Ensuring the conservation of carnivorous plants will help maintain the important ecosystem services they provide and prevent secondary extinctions of specialist species that rely on them.