Genome-wide identification and characterization of novel long non-coding RNA in Ruminal tissue affected with sub-acute Ruminal acidosis from Holstein cattle

Veterinary Research Communications - Sub-acute ruminal acidosis is a type of metabolic disorder in which affected cattle show a considerable depression of rumen pH. This leads to a dramatic decline...     

Screening mycorrhiza species for plant growth,P and Zn uptake in pepper seedling grown under greenhouse conditions

We screened the mycorrhizal species for an inoculum protocol would green pepper seedling production and compensate for nutrient deficiency. Three greenhouse studies (on three successive years) were conducted under nursery conditions using five arbuscular mycorrhizal (AM) fungi and their mixture. The AM fungi, Glomus mosseae, G. clarum, G. caledonium, G. intraradices and G. etunicatum propagated on maize roots were used. The AM fungi were inoculated to seed stages and half of the seed stages inoculated plants were re-inoculated at the seedling stages. In Experiment I, plants were harvested once and in Experiments II and III, plants were harvested twice at different developmental stages.     

Endosperm structure affects the malting quality of barley (Hordeum vulgare L.)

Twenty-seven barley (Hordeum vulgare L.) samples collected from growing sites in Scandinavia in 2001 and 2002 were examined to study the effect of endosperm structure on malting behavior. Samples were micromalted, and several malt characteristics were measured. Samples were classified as having a mealier or steelier endosperm on the basis of light transflectance (LTm). Because endosperm structure is greatly dependent on protein content, three barley sample pairs with similar protein contents were chosen for further analysis. During malting, the steelier barley samples produced less root mass, but showed higher respiration losses and higher activities of starch-hydrolyzing enzymes. Malts made from steelier barley had a less friable structure, with more urea-soluble D hordein and more free amino nitrogen and soluble protein. The reason for these differences may lie in the structure or localization of the hordeins as well as the possible effects of endosperm packing on water uptake and movement of enzymes.     

Previous exposure advances the degradation of an anthropogenic s-triazine regardless of soil origin

Purpose

Previous investigations—field samplings and laboratory experiments—support the hypothesis that the degradation of s-triazines is enhanced in previously exposed as compared to pristine soils in terrestrial environments. Despite this, bottlenecks of soil sampling and various soil modification practices in microcosm studies have made it difficult to guarantee that previous contamination history enhances contaminant degradation regardless of soil origin in terrestrial ecosystems. We test the hypothesis that the degradation of simazine (2-chloro-4,6-bis(ethylamino)-s-triazine) is enhanced in previously exposed soils as compared to pristine soils in 10 l buckets at the mesocosm scale.

Materials and methods

We collected soil at three separate sites consisting of a previously exposed and a pristine field. At every field, soil was collected at three separate plots and simazine degradation (days 0 and 65) and the response to atzB degrader gene primers (days 0 and 110) were followed. We analyzed the results using analysis of covariance (ANCOVA). Previous exposure and field site were assessed as fixed factors and initial simazine concentration and abiotic soil conditions as covariates.

Results and discussion

After the 65-day exposure, remaining simazine concentrations depended on previous exposure but not on collection site. The response to atzB gene primers was positive in all mesocosms where simazine degradation had been rapid. Soil moisture, pH, and organic matter content were insignificant. If soil moisture was not included in the ANCOVA model, previous exposure did not appear as a significant factor.

Conclusions

The results support the hypothesis that simazine is degraded more rapidly in previously exposed soils as compared to pristine environments, provided that degradation genes are available. Previously exposed soil might be used to enhance the degradation of simazine in recently contaminated terrestrial soils, supposing that the central requirements for microbial growth are adequate.     

Mapping of urban roadside trees – A case study in the tree register update process in Helsinki City

This case study describes a method for utilizing leaf-off airborne laser scanning (ALS) data for mapping characteristics of urban trees. ALS data were utilized to detect and update all street trees in the tree inventory of the City of Helsinki, Finland. The inventory consists of roughly 20,000 street trees with mean diameter at breast height (DBH) of 24 cm and mean height of 10.6 m. The large number of trees makes the manual updating process very laborious. The automatic mapping procedure presented in this paper detected 88.8% of all trees in the inventory. Tree height was predicted with root mean square error (RMSE) of 1.27 meters and tree DBH with RMSE of 6.9 cm. The presented method provides a practical and cost–effective tool for the mapping of urban tree characteristics. The cost–efficiency was further enhanced because the used ALS data were originally collected for other urban planning purposes.     

Airborne small-footprint discrete-return LiDAR data in the assessment of boreal mire surface patterns, vegetation, and habitats

Boreal mires encompass high diversity in species and habitats, many of which are endangered. In Finland, extensive use of peatlands has resulted in habitat fragmentation. A need for accurate and cost-efficient vegetation mapping and monitoring of habitat changes exists in mire conservation, restoration and peatland forestry. LiDAR is an emerging and excellent tool for probing the geometry of vegetation and terrain. Modern systems measure the backscattered signal accurately and also provide radiometric information. Experiments were carried out in a complex minerotrophic–ombrotrophic eccentric raised bog in southern Finland (61°47′N, 24.18′E). First, we tested discrete-return LiDAR for the modeling of mire surface patterns and the detection of hummocks and hollows, as well as the effect of mire plants on the Z accuracy of the surface echoes. Secondly, the response of different mire vegetation samples in LiDAR intensity was examined. Thirdly, we tested area-based geometric and radiometric features in supervised classification of mire habitats to discover the meaningful variables. The vertical accuracy of LiDAR in mire surface modeling was high: 0.05–0.10 m. A binary hummock-hollow model that was estimated from a LiDAR-based elevation model matched flawlessly in aerial images and had moderate explanatory power in habitat classification trials. The intensity of LiDAR in open-mire vegetation was mainly influenced by the surface moisture, and separation of vegetation classes spanning from ombrotrophic to mesotrophic vegetation proved to be difficult. Area-based features that characterize the height distribution of LiDAR points in the canopy were the strongest explanatory variables in the classification of 21 diverse mire site types. Actual qualifying differences in the ground flora were unattainable in the LiDAR data, which resulted in inferior accuracy in the characterization of ecohydrological conditions and nutrient level of open mires and sparsely forested wet sites. Mire habitat classification accuracy with LiDAR surpassed earlier results with optical data. The results suggested that LiDAR constitutes an efficient aid for monitoring applications. We propose the co-use of images and LiDAR for enhanced mapping of open mires and tree species. In situ calibration and validation procedures are required until invariant geometric and radiometric features are discovered.     

Eco-geographic distribution of <Emphasis Type="Italic">Cicer isauricum</Emphasis> P.H. Davis and threats to the species

Wild Cicer species are considered as useful genetic resources for resistance to biotic and abiotic stresses due to limited resistance in cultivated chickpeas. As a wild perennial species in the genus Cicer L., Cicer isauricum P.H. Davis is an endemic species to Turkey and endangered status according to the International Union for Conservation of Nature criteria. Here we report on its eco-geographic distribution and environmental stresses that affect the species, and advocate for its in situ and ex situ conservation. A new population of the species was discovered in Geyikbay?r?, Güllük Mountains in Antalya, Turkey. Cicer isauricum not only suffers from significant biotic stresses such as ascochyta blight [Ascochyta rabiei (Pass.) Labr.], pod borer (Helicoverpa armigera Hübner) and broomrape (Orobanche sp.), but is also subjected to drought and heat stress in its habitat. Infection with ascochyta blight in natural habitats was diagnosed by molecular techniques, and pod borer and broomrape were observed only phenotypically. PCR amplification of the internal transcribed spacer region of genomic DNA from cultured fungal isolates, yielded sequences with 100% nucleotide identity with the corresponding sequence in GeneBank for Didymella rabiei Kovachevski (anamorph: A. rabiei). The pathogen may have co-evolved with C. isauricum in the newly discovered site. Because C. isauricum is exposed to drought and accompanying heat stress in its natural habitat, it appears able to tolerate heat stress up to 45 °C during podding stage and terminal drought in late summer from its woody, deep rooting. C. isauricum bears multiple flowers per axil, a potentially useful trait in cultivated chickpea. In conclusion, C. isauricum is a potential genetic source for resistance to biotic and abiotic stresses, in need of greater protection due to its endangered status.     

Recognizing the Interest of Forest Owners to Combine Nature-Oriented and Economic Uses of Forests

Protecting biodiversity within separate set-aside conservation areas has not been effective enough to halt its loss. Thus, new approaches to conserve biodiversity alongside production are needed. The non-market values of a forest may play an essential role when the forest owner decides the use of their land. However, so far the service offerings other than related to timber production, have been scant. The mismatch between decision support services offered and the service interests of forest owners may result in the objectives of forest owners remaining unfulfilled. The aims of this study were to explore the links between family forest owners’ forest management preferences and their objectives for the forest and secondly their preferences for decision support services. Data were collected in a postal survey in the Northern Karelia region, Finland in spring 2014. Data consist of 298 survey answers that were analysed using multi-variate analyses. Two typologies were combined: clustering of forest ownership objectives and the preferred forest management style. We found that the forest owner’s objectives were demonstrated by their preferred way of managing the forest. Opinions about different decision aid services varied between cluster groups. The groups emphasizing nature values considered biodiversity related information about their forest more necessary than other groups. They were also less satisfied with the usability of the forest management plan. Forest advisory services should better acknowledge the prevalence of multiple objectives also among forest owners who are interested in timber selling. Developing services for forest owners with diverse socio-economic backgrounds, information needs and objectives is important.