Soil carbon and nutrient pools in Douglas-fir plantations 5 years after manipulating biomass and competing vegetation in the Pacific Northwest

We assessed changes in mineral soil total carbon (C) and nutrient (exchangeable Ca, K, Mg, and total N) pools to 60 cm depth 5 years after manipulating biomass and competing vegetation at two contrasting Douglas-fir plantations (Matlock, WA, and Molalla, OR). Biomass treatments included whole-tree (WT) and bole-only (BO) harvest, and competing vegetation control (VC) treatments were applied as either initial or annual herbicide applications. There were main effects of biomass removal and VC on the absolute change in soil pools of some elements at both sites, but significant effects were more prevalent at the lower soil quality Matlock site than the Molalla site, and were generally confined to the top 15 cm of soil. In all cases, treatment effects were associated with increases in C and nutrients following BO and initial VC treatments combined with little change in soil pools following WT and annual VC treatments. At the Matlock site, total soil pools (0-60 cm) of C, N, and Ca significantly increased in the BO and initial VC treatments, and Mg increased and K decreased regardless of treatment. At the Molalla site, soil C and nutrient pools did not change in response to treatments, but total soil Mg increased in all treatments during the study period. Correlation analyses indicated little influence of soil nutrient pools on early growth at Matlock likely because soil water is more limiting than nutrient availability at that site, but vegetation growth was correlated to nutrient pools at Molalla indicating changes in pools associated with harvesting and treatment could influence crop development in the future. These early results indicate low potential for intensive management practices to reduce mineral soil pools of C and nutrients, but there is uncertainty on the long-term growth response because treatments may have influenced nutrient storage in pools other than mineral soil.     

Inheritance of red foliage in flowering dogwood (<Emphasis Type="Italic">Cornus florida</Emphasis> L.)

Flowering dogwood (Cornus florida L.) is an ornamental tree valued for its showy white, pink, or red spring bract display and red fall color. A “pseudo” F₂ flowering dogwood population was recently developed from a honeybee mediated cross of ‘Cherokee Brave’ × ‘Appalachian Spring’. The foliage color of 94 “pseudo” F₂ plants segregated into green- and red- leaved phenotypes and was visually rated for color on five spring dates over 3 years (2007–2009). Chi-square analyses of observed segregation of phenotypes indicated that a complementary gene interaction form of epistasis controls foliage color with a 9:7 two gene ratio. We propose the symbols rl ₁ and rl ₂ for the genes controlling this trait.     

Instrumental and sensory quality characteristics of blueberry fruit from twelve cultivars

We compared the instrumental and sensory quality characteristics of blueberry fruit from ten highbush (Vaccinium corymbosum L.) cultivars, Chanticleer, Weymouth, Hannah's Choice, Duke, Bluecrop, Coville, Berkeley, Bluegold, Elliott and Lateblue and two rabbiteye (Vaccinium virgatum Aiton) cultivars, Coastal and Montgomery, grown in New Jersey. Cultivars varied in sensory intensity and acceptability scores. Highbush cultivars, Coville and Hannah's Choice, scored highest among the cultivars in sensory scores for intensity of blue color, juiciness, sweetness and blueberry-like flavor and for acceptability of appearance, color, fruit size, sweet/tart balance, flavor and overall eating quality. In contrast, rabbiteye cultivars, Coastal and Montgomery, and the highbush cultivars, Elliott and Weymouth, scored lowest among the cultivars in sensory scores for intensity of bursting energy, skin toughness, texture during chewing, juiciness, and blueberry-like flavor and for acceptability of appearance, color, fruit size, flavor and overall eating quality. Analytical quality characteristics of surface color, size, compression firmness, soluble solids content (SSC), pH, titratable acidity (TA), SSC/TA ratio, and aromatic volatile concentration also varied among cultivars, but no instrumental measurement adequately predicted consumer acceptability scores. The overall eating quality of blueberry fruit was best correlated with flavor scores followed by sensory scores for intensity of juiciness, bursting energy and sweetness and for acceptability of appearance.     

Body size, niche breadth, and ecologically scaled responses to habitat fragmentation: mammalian predators in an agricultural landscape

The ability to make a priori assessments of a species' response to fragmentation, based on its distribution in the landscape, would serve as a valuable conservation and management tool. During 1997-1999, we monitored 717 scent stations to examine seasonal use of forest patches, corridors, and crop fields by coyotes (Canis latrans), domestic cats (Felis catus), foxes (Vulpes vulpes and Urocyon cinereoargenteus), raccoons (Procyon lotor), striped skunks (Mephitis mephitis), opossums (Didelphis virginiana), and long-tailed weasels (Mustela frenata). For each species we developed landscape-based ecologically scaled landscape indices (ELSI), and we modeled species spatial distribution across three spatial scales (landscape-level, element-level, and local habitat-level). Our results suggest that these predators view landscape fragmentation at different spatial scales and demonstrate strong interspecific differences in their response to elements of the landscape. All species except coyotes and domestic cats avoided agricultural fields. In general, predator species that were more mobile (i.e. high ESLI for landscape connectivity; coyotes) were characterized by landscape- and element-based logistic models. In contrast, models including local habitat features generally were most appropriate for less mobile or more stenophagous predators (e.g. long-tailed weasels). Our analysis extends the application of the ESLI concept to species assemblages that do not appear to function as metapopulations, and it highlights the importance of examining spatial scale and species-specific responses to habitat fragmentation. We discuss the relevance of these findings for defining ecological landscapes, understanding predator-prey interactions at multiple spatial scales, and conserving predator and prey populations in fragmented landscapes.     

A leakiness index for assessing landscape function using remote sensing

The cover, number, size, shape, spatial arrangement and orientation of vegetation patches are attributes that have been used to indicate how well landscapes function to retain, not ‘leak’, vital system resources such as rainwater and soil. We derived and tested a directional leakiness index (DLI) for this resource retention function. We used simulated landscape maps where resource flows over map surfaces were directional and where landscape patch attributes were known. Although DLI was most strongly related to patch cover, it also logically related to patch number, size, shape, arrangement and orientation. If the direction of resource flow is multi-directional, a variant of DLI, the multi-directional leakiness index (MDLI) can be used. The utility of DLI and MDLI was demonstrated by applying these indices to three Australian savanna landscapes differing in their remotely sensed vegetation patch attributes. These leakiness indices clearly positioned these three landscapes along a function-dysfunction continuum, where dysfunctional landscapes are leaky (poorly retain resources). This revised version was published online in July 2006 with corrections to the Cover Date.     

Australian sperm whales from different whaling stocks belong to the same population

1. Understanding the factors driving population structure in marine mammals is needed to evaluate the impacts of previous exploitation, current anthropogenic threats, conservation status, and success of population recovery efforts.
2. Sperm whales are characterized by a worldwide distribution, low genetic diversity, complex patterns of social and genetic structure that differ significantly within and between ocean basins, and a long history of being commercially whaled. In Australia, sperm whales from the (International Whaling Commission assigned) southern hemisphere ‘Division 5’ stock were very heavily exploited by whaling.
3. The present study assessed the potential effects of whaling on the genetic diversity of sperm whales in Australia and the population genetic structure of these whales within a global context. A combination of historical and contemporary sperm whale samples (n = 157) were analysed across six regions, from south-eastern Australia (‘Division 6’ stock in the Pacific Ocean) to south-western Australia (‘Division 5’ stock in the Indian Ocean).
4. Sperm whales sampled from the ‘Division 5’ and ‘Division 6’ stocks belong to the same population based on nuclear and mitochondrial DNA (mtDNA) analyses. Four novel sperm whale mtDNA haplotypes were identified in animals from Australian waters. Levels of genetic diversity were low in Australian sperm whales but were similar to those previously reported for populations in the Indian and Pacific Oceans.
5. Given the genetic distinctiveness of sperm whales in Australian waters from other regions in the Pacific and Indian Oceans, and the lack of recovery in population numbers, further scientific studies are needed to increase our understanding of population dynamics and the effectiveness of threat management strategies in this species.

     

Yeast Rtt109 promotes genome stability by acetylating histone H3 on lysine 56

Posttranslational modifications of the histone octamer play important roles in regulating responses to DNA damage. Here, we reveal that Saccharomyces cerevisiae Rtt109p promotes genome stability and resistance to DNA-damaging agents, and that it does this by functionally cooperating with the histone chaperone Asf1p to maintain normal chromatin structure. Furthermore, we show that, as for Asf1p, Rtt109p is required for histone H3 acetylation on lysine 56 (K56) in vivo. Moreover, we show that Rtt109p directly catalyzes this modification in vitro in a manner that is stimulated by Asf1p. These data establish Rtt109p as a member of a new class of histone acetyltransferases and show that its actions are critical for cell survival in the presence of DNA damage during S phase.     

Did cooling oceans trigger Ordovician biodiversification? Evidence from conodont thermometry

The Ordovician Period, long considered a supergreenhouse state, saw one of the greatest radiations of life in Earth's history. Previous temperature estimates of up to approximately 70 degrees C have spawned controversial speculation that the oxygen isotopic composition of seawater must have evolved over geological time. We present a very different global climate record determined by ion microprobe oxygen isotope analyses of Early Ordovician-Silurian conodonts. This record shows a steady cooling trend through the Early Ordovician reaching modern equatorial temperatures that were sustained throughout the Middle and Late Ordovician. This favorable climate regime implies not only that the oxygen isotopic composition of Ordovician seawater was similar to that of today, but also that climate played an overarching role in promoting the unprecedented increases in biodiversity that characterized this period.     

Phosphorylation of retinoblastoma protein by viral protein with cyclin-dependent kinase function

As obligate intracellular parasites, viruses expertly modify cellular processes to facilitate their replication and spread, often by encoding genes that mimic the functions of cellular proteins while lacking regulatory features that modify their activity. We show that the human cytomegalovirus UL97 protein has activities similar to cellular cyclin-cyclin-dependent kinase (CDK) complexes. UL97 phosphorylated and inactivated the retinoblastoma tumor suppressor, stimulated cell cycle progression in mammalian cells, and rescued proliferation of Saccharomyces cerevisiae lacking CDK activity. UL97 is not inhibited by the CDK inhibitor p21 and lacks amino acid residues conserved in the CDKs that permit the attenuation of kinase activity. Thus, UL97 represents a functional ortholog of cellular CDKs that is immune from normal CDK control mechanisms.