Effects of grazing exclusions on rangeland vegetation and soils, east central Idaho

Nineteen exclosures on sagebrush steppe and shadscale rangelands, varying in age from 18 to 38 years, were sampled for plant species richness, plant composition, indicators of soil erosion, ground cover, vegetative cover, and herb-low shrub layer screening cover. Features within the exclosures were compared with adjacent sites of the same size that were open to grazing by livestock and wildlife. Species richness typically was slightly greater inside exclosures than in adjacent grazed sites (median = 2 more species inside exclosures), but the difference was not significant ( P = 0.16). Similarity of plant community composition between exclosures and adjacent grazed sites ranged from 45% to 82%. Evidences of soil movement, soil pedestals, and soil flow patterns were all more pronounced outside exclosures than inside ( P ≤ 0.02), even though many sites were on flat to mild slopes (median slope = 12%). Meta-analysis of the 19 exclosure sites indicated that grazing exclusion resulted in less bare ground cover compared with adjacent grazed sites ( P ≤ 0.05). The effect of grazing exclusion on visible soil surface cryptogams was significant ( P ≤ 0.05), with generally greater cover inside exclosures. Cryptogam cover differences between grazed sites and exclosures tended to increase with the number of years of grazing exclusion ( r = 0.64, P = 0.046). Pseudoroegneria spicata , a principal livestock forage, averaged greater basal cover inside exclosures than outside on 4 of 10 sites where it occurred, although no exclosure sites had greater P. spicata cover on grazed sites. Meta-analysis of the 10 sites indicated that grazing exclusion resulted in greater P. spicata cover compared with adjacent grazed areas ( P ≤ 0.05). Poa secunda , a short-growing grass that initiates growth early in the spring and is not important livestock forage, averaged greater basal cover outside exclosures on 5 of 15 sites where it occurred. Meta-analysis of the 15 sites indicated a significant treatment effect ( P ≤ 0.05), with greater Poa secunda basal cover outside exclosures. Grazing exclusion resulted in greater screening cover in the herb-low shrub layer (0-0.5 m height; P ≤ 0.05). These results indicate that despite improved livestock grazing management over the past half century, livestock grazing still can limit the potential of native plant communities in sagebrush steppe ecosystems, and that the health of semiarid ecosystems can improve with livestock exclusion in the absence of other disturbances. A few exclosure sites were similar for the measured parameters, suggesting that these sites were ecologically stable and that exclusion of livestock grazing was not sufficient to move succession toward more pristine conditions, at least within the time periods studied. Managed disturbance such as fire or mechanical brush treatments may be necessary to restore herb productivity on these ecologically stable sites.     

The genome of the extremophile crucifer Thellungiella parvula

Thellungiella parvula is related to Arabidopsis thaliana and is endemic to saline, resource-poor habitats, making it a model for the evolution of plant adaptation to extreme environments. Here we present the draft genome for this extremophile species. Exclusively by next generation sequencing, we obtained the de novo assembled genome in 1,496 gap-free contigs, closely approximating the estimated genome size of 140 Mb. We anchored these contigs to seven pseudo chromosomes without the use of maps. We show that short reads can be assembled to a near-complete chromosome level for a eukaryotic species lacking prior genetic information. The sequence identifies a number of tandem duplications that, by the nature of the duplicated genes, suggest a possible basis for T. parvula's extremophile lifestyle. Our results provide essential background for developing genomically influenced testable hypotheses for the evolution of environmental stress tolerance.     

Composition of forest stands used by White-headed Woodpeckers for nesting in Washington

In this study, I examined the composition of managed ponderosa pine ( Pinus ponderosa ) forests used by nesting White-headed Woodpeckers ( Picoides albolarvatus ) along the eastern slope of the Cascade Range in Washington. I sampled trees and snags using the point-centered quarter method to assess species composition, tree and snag density, and stand basal area in 16 forest stands containing White-headed Woodpecker nests. All stands had a history of timber management and 2 had been burned and salvage-logged. Mean live-tree density (≥10.16 cm dbh) was 182.3 trees · ha –1 (SE = 13.52), mean snag density (≥10.16 cm dbh) was 11.5 snags · ha –1 (SE = 1.92), and mean stand basal area was 17.2 m 2 · ha –1 (SE = 1.58). Ponderosa pine had the highest importance value (mean = 220.9, SE = 17.25) of any tree species in all but 2 stands. Mean dbh of ponderosa pines was 33.0 cm (SE = 0.26) and ranged from 26.1 to 50.2 cm within stands. Mean density of ponderosa pine was greatest in the 20.3–30.5 cm dbh size class and lowest in the 50.8–61.0 cm and >61.0 cm dbh size classes. Tree density was up to 5.3 times greater than densities believed to be typical of ponderosa pine forests prior to fire suppression. Snag densities were within the range estimated for historical dry forests of the eastern Cascades, yet only 50% of all snags sampled had a dbh >25.4 cm. Although White-headed Woodpeckers are considered strongly associated with old-growth ponderosa pine, my results suggest that they may be more adaptable to using forests dominated by smaller diameter trees. En este estudio, examiné la composición de los bosques manejados de pino ponderosa ( Pinus ponderosa ), utilizados para anidamiento por el pájaro carpintero cabeciblanco ( Picoides albolarvatus ), a lo largo de la vertiente oriental de la cordillera Cascade del Estado de Washington. Muestreé árboles vivos y muertos usando el método de cuadrantes al punto central en 16 rodales con nidos del pájaro carpintero cabeciblanco para evaluar la composición de especies, la densidad de árboles vivos y muertos y el área basal del rodal. Todas las áreas tenían una historia de manejo maderable y 2 habían sido quemadas y taladas para recuperar madera. La densidad promedio de árboles vivos (≥10.16 cm DAP) fue 182.3 árboles · ha –1 (DE = 13.52), la densidad promedio de árboles muertos (≥10.16 cm DAP) fue 11.5 árboles muertos · ha –1 (DE = 1.92) y el área basal promedio de los rodales fue 17.2 m 2 · ha –1 (DE = 1.58). El pino ponderosa tuvo el valor de importancia más alto (promedio = 220.9, DE = 17.25) de las especies de árboles en todos, menos 2 rodales. El DAP promedio de los pinos ponderosa fue 33.0 cm (DE = 0.26) y variaba de 26.1 a 50.2 cm dentro de rodales. La densidad promedio del pino ponderosa fue la mayor en la clase de 20.3–30.5 cm DAP y menor de las clases de 50.8–61.0 cm y >61.0 cm DAP. La densidad de árboles fue hasta 5.3 veces mayor que las consideradas típicas para bosques de pino ponderosa antes de la intervención para prevenir incendios. Las densidades de árboles muertos estuvo dentro del rango estimado para los bosques secos históricos del oriente de la cordillera Cascade, no obstante sólo 50% de los árboles muertos muestreados tuvieron un DAP >25.4 cm. Aunque se considera que los pájaros carpinteros cabeciblancos están estrechamente asociados con bosques primarios de pino ponderosa, mis resultados sugieren que podrían ser más adaptados a usar bosques donde predominan árboles de diámetro menor.     

Effects of arthropods on root:shoot ratio and biomass production in undisturbed and modified mountain shrub habitats

In 1987 the effects of arthropods on root:shoot ratios and biomass production were examined in southeastern Wyoming mountain shrub habitats that were undisturbed or had undergone conventional shrub management by mowing, burning, or herbicide application during the previous year. In habitats with and without shrub canopy, treatment with insecticides generally increased foliage biomass and consistently decreased root biomass, regardless of the shrub management practice. In open areas the effects of insecticide treatments on the root and shoot biomass were relatively greater in undisturbed plots than in any of the managed plots. With only one exception, the root:shoot ratio increased following application of insecticide.     

Dax1 is required for testis determination

The orphan nuclear receptor, Dax1, was originally proposed to act as an 'anti-testis' factor. We find, however, that Nr0b1 (also called Dax1 and Ahch, which encodes Dax1) is in fact required for testis differentiation.     

Systematic variation in gene expression patterns in human cancer cell lines

We used cDNA microarrays to explore the variation in expression of approximately 8,000 unique genes among the 60 cell lines used in the National Cancer Institute's screen for anti-cancer drugs. Classification of the cell lines based solely on the observed patterns of gene expression revealed a correspondence to the ostensible origins of the tumours from which the cell lines were derived. The consistent relationship between the gene expression patterns and the tissue of origin allowed us to recognize outliers whose previous classification appeared incorrect. Specific features of the gene expression patterns appeared to be related to physiological properties of the cell lines, such as their doubling time in culture, drug metabolism or the interferon response. Comparison of gene expression patterns in the cell lines to those observed in normal breast tissue or in breast tumour specimens revealed features of the expression patterns in the tumours that had recognizable counterparts in specific cell lines, reflecting the tumour, stromal and inflammatory components of the tumour tissue. These results provided a novel molecular characterization of this important group of human cell lines and their relationships to tumours in vivo.