Impacts of the emerald ash borer (EAB) eradication and tree mortality: potential for a secondary spread of invasive plant species

Since the discovery of the emerald ash borer in 2002, eradication efforts have been implemented in an attempt to eliminate or contain the spread of this invasive beetle. The eradication protocol called for the removal of every ash tree within a 0.8 km radius around an infested tree. In 2005 this study was established to identify environmental changes attributed to the eradication program and measure subsequent shifts in forest community composition and structure. We conducted this study in Ohio and compared areas that received the eradication treatment (ash trees cut down), to areas that were left uncut, (ash still standing). The goal of this project was to identify how the plant community is responding in these two areas. The eradication protocol accelerated the formation and size of gaps within the forest and thus increased the duration and intensity of light penetrating through to the forest floor. In addition, the use of track vehicles for removal of cut trees resulted in significant soil compaction. The resultant plant community had greater species diversity (H′). When specific species composition differences were compared, an increase in the establishment of invasive plant species was detected in areas that received eradication efforts compared to those that did not. Invasive species accounted for 18.7% of the total herbaceous cover in this highly disturbed environment which included Cirsium arvense, Rhamnus cathartica and 2 species of Lonicera. In contrast, invasive species accounted for <1% of the total herbaceous cover in the undisturbed uncut areas.     

Integrating gene expression and GO classification for PCA by preclustering

Background  

Gene expression data can be analyzed by summarizing groups of individual gene expression profiles based on GO annotation information. The mean expression profile per group can then be used to identify interesting GO categories in relation to the experimental settings. However, the expression profiles present in GO classes are often heterogeneous, i.e., there are several different expression profiles within one class. As a result, important experimental findings can be obscured because the summarizing profile does not seem to be of interest. We propose to tackle this problem by finding homogeneous subclasses within GO categories: preclustering.     

‘Poisonous,Filthy, Loathsome,Damnable Stuff’: The Rhetorical Ecology of Vaccination Concern

In this article, we analyze newspaper articles and advertisements mentioning vaccination from 1915 to 1922 and refer to historical studies of vaccination practices and attitudes in the early 20th century in order to assess historical continuities and discontinuities in vaccination concern. In the Progressive Era period, there were a number of themes or features that resonated with contemporary issues and circumstances: 1) fears of vaccine contamination; 2) distrust of medical professionals; 3) resistance to compulsory vaccination; and 4) the local nature of vaccination concern. Such observations help scholars and practitioners understand vaccine skepticism as longstanding, locally situated, and linked to the sociocultural contexts in which vaccination occurs and is mandated for particular segments of the population. A rhetorical approach offers a way to understand how discourses are engaged and mobilized for particular purposes in historical contexts. Historically situating vaccine hesitancy and addressing its articulation with a particular rhetorical ecology offers scholars and practitioners a robust understanding of vaccination concerns that can, and should, influence current approaches to vaccination skepticism.     

Genetic dissection of Al tolerance QTLs in the maize genome by high density SNP scan

Background

Aluminum (Al) toxicity is an important limitation to food security in tropical and subtropical regions. High Al saturation on acid soils limits root development, reducing water and nutrient uptake. In addition to naturally occurring acid soils, agricultural practices may decrease soil pH, leading to yield losses due to Al toxicity. Elucidating the genetic and molecular mechanisms underlying maize Al tolerance is expected to accelerate the development of Al-tolerant cultivars.

Results

Five genomic regions were significantly associated with Al tolerance, using 54,455 SNP markers in a recombinant inbred line population derived from Cateto Al237. Candidate genes co-localized with Al tolerance QTLs were further investigated. Near-isogenic lines (NILs) developed for ZmMATE2 were as Al-sensitive as the recurrent line, indicating that this candidate gene was not responsible for the Al tolerance QTL on chromosome 5, qALT5. However, ZmNrat1, a maize homolog to OsNrat1, which encodes an Al³⁺ specific transporter previously implicated in rice Al tolerance, was mapped at ~40 Mbp from qALT5. We demonstrate for the first time that ZmNrat1 is preferentially expressed in maize root tips and is up-regulated by Al, similarly to OsNrat1 in rice, suggesting a role of this gene in maize Al tolerance. The strongest-effect QTL was mapped on chromosome 6 (qALT6), within a 0.5 Mbp region where three copies of the Al tolerance gene, ZmMATE1, were found in tandem configuration. qALT6 was shown to increase Al tolerance in maize; the qALT6-NILs carrying three copies of ZmMATE1 exhibited a two-fold increase in Al tolerance, and higher expression of ZmMATE1 compared to the Al sensitive recurrent parent. Interestingly, a new source of Al tolerance via ZmMATE1 was identified in a Brazilian elite line that showed high expression of ZmMATE1 but carries a single copy of ZmMATE1.

Conclusions

High ZmMATE1 expression, controlled either by three copies of the target gene or by an unknown molecular mechanism, is responsible for Al tolerance mediated by qALT6. As Al tolerant alleles at qALT6 are rare in maize, marker-assisted introgression of this QTL is an important strategy to improve maize adaptation to acid soils worldwide.

Electronic supplementary material

The online version of this article (doi:10.1186/1471-2164-15-153) contains supplementary material, which is available to authorized users.     

Biochemical and physiological mechanisms related to cold acclimation and enhanced freezing tolerance in poplar plantlets

Temperature is one of the abiotic factors limiting growth and productivity of plants. In the present work, the effect of low non-freezing temperature, as inducer of 'cold acclimation', was studied in poplar. Actively growing plantlets of Populus tremula  ×  Populus tremuloides cv. Muhs 1 were used, and cold treatment consisted in whole plants exposure to 4°C in controlled conditions. Leaves of cold-treated poplars were shown to be acclimated, as an increase of their freezing tolerance was measured using electrolyte leakage. Chlorophyll fluorescence measurements revealed a decrease in photosystem II efficiency while the pigment contents of leaves did not vary. In contrast, after 1 week of cold exposure, an accumulation of pigments was noted in the stems near the apex of the stressed plants as confirmed by chromatographic analyses. Simultaneously, a rapid accumulation of osmoprotectants, i.e. carbohydrates (measured by spectrometry), and of stress indicators (e.g. putrescine) occurred; changes in protein patterns also arose. Indeed, Western blot studies revealed that the expression of three families of stress-related proteins, i.e. dehydrins, stress protein 1 and heat-shock protein 70, was activated or induced by low temperatures. This study complements a previous work on proteomic and individual carbohydrates and provides insight in the ability of poplar plantlets to cold acclimate and to cope with low temperatures by diverse mechanisms (growth cessation, carbohydrate, pigment, polyamine and protein accumulations) related to stress response or involved in acclimation process.     

Development of semitendinosus muscle in pig fetuses with spinal cord lesions

The effect of upper motor neuron regulation on the development of the semitendinosus muscle was studied in the fetus. A region of the fetal spinal cord at the level of the upper cervical vertebrae was destroyed by cauterization at 45 days of gestation. Fetuses with intact spinal cords served as controls. One cauterized fetus and one control fetus were obtained from each of six crossbred sows at 110 days of gestation. From each fetus one semitendinosus muscle was removed for histochemistry and the contralateral muscle was removed, weighed and utilized for biochemical analyses. Body weights and muscle weights were not significantly different (p greater than 0.05) between the two groups. Transverse sections (cryostat) of muscle were stained for lipid and the following enzymes: acid ATPase, NADH-TR, and esterase. Lipid and enzyme cytochemistry showed that sections from cauterized and control fetuses had identical fiber type patterns. Motor endplates, as studied with esterase reactions, were not affected by spinal cord cauterization. Mean values for percentage of muscle dry weight, DNA, RNA, protein, glycogen content and minimum fiber diameters were similar for cauterized and control fetuses (p greater than 0.05). These data illustrate that in the porcine fetus the central nervous system proximal to the alpha-motoneuron exerts little control over muscle cell development.     

Quantitative variations of indolyl compounds including IAA, IAA-aspartate and serotonin in walnut microcuttings during root induction

Shoots of the hybrid walnut Juglans nigra x Juglans regia contained serotonin in the micromole range and indole-3-acetic acid (IAA) in the nanomole range. The serotonin level fell by 40 % in 12 h in auxin (IBA) treated whole shoots and then reincreased to a maximum (50 %over the control) after 36 h. The same pattern was followed in the top portions of the shoot but in the shoot bases, serotonin always remained under the control level. The early decrease of serotonin was correlated with an increase in IAA-aspartate. The early decrease and peaking of the serotonin level preceded and corresponded to the increase and peaking of free IAA in the shoot bases. The initial serotonin pool in treated-to-root shoots might thus suffice for the biosynthesis of IAA and IAA-conjugated compounds. Because of its auxin-like properties, the early serotonin peak might be taken into consideration as an endogenous auxin signal for rooting in the present material. If this turns out to be so, the rooting signal for the shoot bases necessarily should come from the apices. This revised version was published online in July 2006 with corrections to the Cover Date.     

An in vitro system for the generation of suppressor cells and the requirement for B cells in their induction

An in vitro method for the generation of effector suppressor cells (Ts3) was developed. By utilizing this protocol, it was possible to investigate both the cellular and genetic requirements for suppressor cell induction. It was determined that populations containing Ts3 cells can be induced after a 4-day culture of spleen cells and antigen. These Ts3 cells are similar to Ts3 cells generated by in vivo immunization. Both populations are I-J+, bind NP hapten, bind NP hapten, bear receptors which share NPb idiotypic determinants with anti-NP antibodies, function during the effector phase of the immune response, and require activation with Ts2 cells. Generation of Ts3-containing populations required both nylon wool-nonadherent T cells and a nylon-adherent, B cell-enriched population from an Igh-identical donor. T cells cultured with antigen alone or with syngeneic macrophages and antigen did not develop suppressive activity. Lytic treatment of the nylon-adherent population with a B cell-specific monoclonal antibody (J11d) removed the ability to generate suppressor cells. These results imply that the induction of suppressor T cells requires B lymphocytes, and that this induction process is dependent on Igh-linked gene products.     

Molecular phylogenetics at the population/species interface in cave spiders of the southern Appalachians (Araneae:Nesticidae:Nesticus)

This paper focuses on the relationship between population genetic structure and speciation mechanisms in a monophyletic species group of Appalachian cave spiders (Nesticus). Using mtDNA sequence data gathered from 256 individuals, I analyzed patterns of genetic variation within and between populations for three pairs of closely related sister species. Each sister-pair comparison involves taxa with differing distributional and ecological attributes; if these ecological attributes are reflected in basic demographic differences, then speciation might proceed differently across these sister taxa comparisons. Both frequency-based and gene tree analyses reveal that the genetic structure of the Nesticus species studied is characterized by similar and essentially complete population subdivision, regardless of differences in general ecology. These findings contrast with results of prior genetic studies of cave-dwelling arthropods that have typically revealed variation in population structure corresponding to differences in general ecology. Species fragmentation through both extrinsic and intrinsic evolutionary forces has resulted in discrete, perhaps independent, populations within morphologically defined species. Large sequence divergence values observed between populations suggest that this independence may extend well into the past. These patterns of mtDNA genealogical structure and divergence imply that species as morphological lineages are currently more inclusive than basal evolutionary or phylogenetic units, a suggestion that has important implications for the study of speciation mechanisms.