Dye-coupling in Tobacco Mesophyll Cells Surrounding Growing Tobacco Mosaic Tobamovirus-induced Local Lesions

Some factors related to cessation of the movement of tobacco mosaic tobamovirus (TMV) in the late phase of a defence response were examined. Mesophyll cells surrounding the local lesions induced by TMV in N. tabacum cv. Xanthi‐nc were micro‐injected with fluorescent dye 2, 3 and 7 days post‐inoculation. At 7 days post‐inoculation, twelve out of 20 injections into cells adjacent to the lesion, showed the expected dye‐coupling (outflow of fluorescent dye from injected cell to adjacent ones via plasmodesmata) whereas 17–20 out of 20 injections were successful in other cases. Callose inhibitor (tunicamycin), dark treatment and incubation of plants with ascorbic acid, which play a role in blocking plasmodesmata or induction of defence responses, did not seem to have an effect on lesion growth. These data imply that defects in the plasmodesmal function, although not total, may account for the formation of late local defence reaction together with other factors that restrict viral spread in the continuous cell‐to‐cell mode in mesophyll tissue.     

Understanding Vulvovaginal Candidiasis Through a Community Genomics Approach

Vulvovaginal candidiasis (VVC), predominantly caused by Candida albicans, is one of the most common types of infectious vaginitis. Extensive study has been directed toward understanding host defenses against this infection, and results remain inconclusive. While many have examined the role of innate and cell-mediated immunity, as well as Candida-specific antibodies and the anti-Candida activity of vaginal epithelial cells, little attention has been given to one of the most important players: the vaginal microbiota. Exploring changes in species composition and gene expression within the vaginal community using high-throughput genomic technologies is invaluable to fully understanding Candida pathogenesis and host response to infection. This integrative perspective of pathogenesis, host response and microbial influence are critical to our ability to improve routine gynecologic care and treatment of vaginal infections.     

Microbial Community Structure and Dynamics of Dark Fire-Cured Tobacco Fermentation

The Italian Toscano cigar production includes a fermentation step that starts when dark fire-cured tobacco leaves are moistened and mixed with ca. 20% prefermented tobacco to form a 500-kg bulk. The dynamics of the process, lasting ca. 18 days, has never been investigated in detail, and limited information is available on microbiota involved. Here we show that Toscano fermentation is invariably associated with the following: (i) an increase in temperature, pH, and total microbial population; (ii) a decrease in reducing sugars, citric and malic acids, and nitrate content; and (iii) an increase in oxalic acid, nitrite, and tobacco-specific nitrosamine content. The microbial community structure and dynamics were investigated by culture-based and culture-independent approaches, including denaturing gradient gel electrophoresis and single-strand conformational polymorphism. Results demonstrate that fermentation is assisted by a complex microbial community, changing in structure and composition during the process. During the early phase, the moderately acidic and mesophilic environment supports the rapid growth of a yeast population predominated by Debaryomyces hansenii. At this stage, Staphylococcaceae (Jeotgalicoccus and Staphylococcus) and Lactobacillales (Aerococcus, Lactobacillus, and Weissella) are the most commonly detected bacteria. When temperature and pH increase, endospore-forming low-G+C content gram-positive bacilli (Bacillus spp.) become evident. This leads to a further pH increase and promotes growth of moderately halotolerant and alkaliphilic Actinomycetales (Corynebacterium and Yania) during the late phase. To postulate a functional role for individual microbial species assisting the fermentation process, a preliminary physiological and biochemical characterization of representative isolates was performed.     

吐鲁番沙漠植物园及其周围地区鼠类群落结构调查

2005年4月15日~2005年6月3日对中国科学院吐鲁番沙漠植物园及其周围地区的鼠类群落进行了调查,采用样线铗捕法,共捕获鼠类373只,隶属于3科3属4种。用种类(S)、多样性指数(H′)、均匀性指数(E)、优势度(D)等4个指标对灌木林、园林、沙地、废弃耕地、农田等5种不同生境类型的鼠类群落进行统计分析和对比。结果发现,不同生境类型的鼠类群落在群落组成、多样性、均匀性和优势度等方面存在着明显的差异;废弃耕地多样性和均匀性最高而优势度最低;园林多样性最低,农田均匀性最低,灌木林优势度最高。红尾沙鼠(Meriones libycus)和子午沙鼠(M.meridianus)分别占以上5种类型鼠类群落总生物量的59.5%和37.5%,可以确定为吐鲁番沙漠植物园及其周围地区鼠类群落的优势种。     

Survey of (Meta)genomic Approaches for Understanding Microbial Community Dynamics

Advancement in the next generation sequencing technologies has led to evolution of the field of genomics and metagenomics in a slim duration with nominal cost at precipitous higher rate. While metagenomics and genomics can be separately used to reveal the culture-independent and culture-based microbial evolution, respectively, (meta)genomics together can be used to demonstrate results at population level revealing in-depth complex community interactions for specific ecotypes. The field of metagenomics which started with answering “who is out there?” based on 16S rRNA gene has evolved immensely with the precise organismal reconstruction at species/strain level from the deeply covered metagenome data outweighing the need to isolate bacteria of which 99% are de facto non-cultivable. In this review we have underlined the appeal of metagenomic-derived genomes in providing insights into the evolutionary patterns, growth dynamics, genome/gene-specific sweeps, and durability of environmental pressures. We have demonstrated the use of culture-based genomics and environmental shotgun metagenome data together to elucidate environment specific genome modulations via metagenomic recruitments in terms of gene loss/gain, accessory and core-genome extent. We further illustrated the benefit of (meta)genomics in the understanding of infectious diseases by deducing the relationship between human microbiota and clinical microbiology. This review summarizes the technological advances in the (meta)genomic strategies using the genome and metagenome datasets together to increase the resolution of microbial population studies.     

Understanding the Potential Impact of a Combination HIV Prevention Intervention in a Hyper-Endemic Community

Objectives

Despite demonstrating only partial efficacy in preventing new infections, available HIV prevention interventions could offer a powerful strategy when combined. In anticipation of combination HIV prevention programs and research studies we estimated the population-level impact of combining effective scalable interventions at high population coverage, determined the factors that influence this impact, and estimated the synergy between the components.

Methods

We used a mathematical model to investigate the effect on HIV incidence of a combination HIV prevention intervention comprised of high coverage of HIV testing and counselling, risk reduction following HIV diagnosis, male circumcision for HIV-uninfected men, and antiretroviral therapy (ART) for HIV-infected persons. The model was calibrated to data for KwaZulu-Natal, South Africa, where adult HIV prevalence is approximately 23%.

Results

Compared to current levels of HIV testing, circumcision, and ART, the combined intervention with ART initiation according to current guidelines could reduce HIV incidence by 47%, from 2.3 new infections per 100 person-years (pyar) to 1.2 per 100 pyar within 4 years and by almost 60%, to 1 per 100 pyar, after 25 years. Short-term impact is driven primarily by uptake of testing and reductions in risk behaviour following testing while long-term effects are driven by periodic HIV testing and retention in ART programs. If the combination prevention program incorporated HIV treatment upon diagnosis, incidence could be reduced by 63% after 4 years and by 76% (to about 0.5 per 100 pyar) after 15 years. The full impact of the combination interventions accrues over 10–15 years. Synergy is demonstrated between the intervention components.

Conclusion

High coverage combination of evidence-based strategies could generate substantial reductions in population HIV incidence in an African generalized HIV epidemic setting. The full impact could be underestimated by the short assessment duration of typical evaluations.     

Community Dialogue to Shift Social Norms and Enable Family Planning: An Evaluation of the Family Planning Results Initiative in Kenya

IntroductionUse of family planning (FP) is powerfully shaped by social and gender norms, including the perceived acceptability of FP and gender roles that limit women’s autonomy and restrict communication and decision-making between men and women. This study evaluated an intervention that catalyzed ongoing community dialogues about gender and FP in Siaya county, Nyanza Province, Kenya. Specifically, we explored the changes in perceived acceptability of FP, gender norms and use of FP.MethodsWe used a mixed-method approach. Information on married men and women’s socio-demographic characteristics, pregnancy intentions, gender-related beliefs, FP knowledge, attitudes, and use were collected during county-representative, cross-sectional household surveys at baseline (2009; n₁₁ = 650 women; n₁₂ = 305 men) and endline (2012; n₂₁ = 617 women; n₂₂ = 317 men); exposure to the intervention was measured at endline. We assessed changes in FP use at endline vs. baseline, and fitted multivariate logistic regression models for FP use to examine its association with intervention exposure and explore other predictors of use at endline. In-depth, qualitative interviews with 10 couples at endline further explored enablers and barriers to FP use.ResultsAt baseline, 34.0% of women and 27.9% of men used a modern FP method compared to 51.2% and 52.2%, respectively, at endline (p<0.05). Exposure to FP dialogues was associated with 1.78 (95% CI: 1.20–2.63) times higher odds of using a modern FP method at endline for women, but this association was not significant for men. Women’s use of modern FP was significantly associated with higher spousal communication, control over own cash earnings, and FP self-efficacy. Men who reported high approval of FP were significantly more likely to use modern FP if reporting high approval of FP and more equitable gender beliefs. FP dialogues addressed persistent myths and misconceptions, normalized FP discussions, and increased its acceptability. Public examples of couples making joint FP decisions legitimized communication and decision-making with spouses about FP especially for men; women described partner support as key enabler of FP use.ConclusionsOur evaluation demonstrates that an intervention that catalyzes open dialogue about gender and FP can shift social norms, enable more equitable couple communication and decision-making and, ultimately, increase use of FP.     

Bacterial Community Structure and Function Shift in Rhizosphere Soil of Tobacco Plants Infected by Meloidogyne incognita

Root-knot nematode disease is a widespread and catastrophic disease of tobacco. However, little is known about the relationship between rhizosphere bacterial community and root-knot nematode disease. This study used 16S rRNA gene sequencing and PICRUSt to assess bacterial community structure and function changes in rhizosphere soil from Meloidogyne incognita-infected tobacco plants. We studied the rhizosphere bacterial community structure of M. incognita-infected and uninfected tobacco plants through a paired comparison design in two regions of tobacco planting area, Yuxi and Jiuxiang of Yunnan Province, southwest China. According to the findings, M. incognita infection can alter the bacterial population in the soil. Uninfested soil has more operational taxonomic unit numbers and richness than infested soil. Principal Coordinate Analysis revealed clear separations between bacterial communities from infested and uninfested soil, indicating that different infection conditions resulted in significantly different bacterial community structures in soils. Firmicutes was prevalent in infested soil, but Chloroflexi and Acidobacteria were prevalent in uninfested soil. Sphingomonas, Streptomyces, and Bradyrhizobium were the dominant bacteria genera, and their abundance were higher in infested soil. By PICRUSt analysis, some metabolism-related functions and signal transduction functions of the rhizosphere bacterial community in the M. incognita infection-tobacco plants had a higher relative abundance than those uninfected. As a result, rhizosphere soils from tobacco plants infected with M. incognita showed considerable bacterial community structure and function alterations.     

Norms of reaction and diversifying selection

The numbers of progeny produced by comparable numbers of female Drosophila melanogaster of 26 geographic strains on nine different culture media are examined in the context of norms of reaction. Having emphasized that diversifying selection is seldom discussed simultaneously with its seemingly related topic, norms of reaction, I present the following argument: diversifying selection has generally been viewed as involving sub-populations inhabiting separate localities and subject to different patterns of selection, norms of reaction as variation whose weighted average determines the relative fitnesses of different genotypes within individual sub-populations. Should environmental challenges frequently involve life or death (including sterility) outcomes, norms of reaction involving components of fitness engender diversifying selection within local populations (demes).     

Social Norms of Cooperation in Small-Scale Societies

Indirect reciprocity, besides providing a convenient framework to address the evolution of moral systems, offers a simple and plausible explanation for the prevalence of cooperation among unrelated individuals. By helping someone, an individual may increase her/his reputation, which may change the pre-disposition of others to help her/him in the future. This, however, depends on what is reckoned as a good or a bad action, i.e., on the adopted social norm responsible for raising or damaging a reputation. In particular, it remains an open question which social norms are able to foster cooperation in small-scale societies, while enduring the wide plethora of stochastic affects inherent to finite populations. Here we address this problem by studying the stochastic dynamics of cooperation under distinct social norms, showing that the leading norms capable of promoting cooperation depend on the community size. However, only a single norm systematically leads to the highest cooperative standards in small communities. That simple norm dictates that only whoever cooperates with good individuals, and defects against bad ones, deserves a good reputation, a pattern that proves robust to errors, mutations and variations in the intensity of selection.     

Stakeholder Norms Toward Beaver Management in Massachusetts

ABSTRACT In Massachusetts, USA, both human and beaver (Castor Canadensis) population levels are increasing, beaver damage complaints are escalating, and beaver management options are restricted by the 1996 Wildlife Protection Act. We looked at the public's norms toward beavers in Massachusetts. In 2002 we sent a mail-back questionnaire to a random sample of 5,563 residents in 3 geographic regions in Massachusetts and to residents who submitted a beaver complaint to Massachusetts Division of Fisheries and Wildlife (MassWildlife) in 1999–2000 (47.3% overall response rate). Respondents supported some form of beaver management. As severity of beaver damage was perceived to increase, respondents were more willing to accept lethal management and control of beavers. These results emphasize the importance of how tolerance and acceptability of wildlife are influenced by the type of activity the animal is engaged in, the type of management action that is proposed, the positive or negative perception of a species in the eye of the public, and the public's preference for future population levels. A full understanding of these 4 points will help tailor management accordingly, because this knowledge can define a threshold of acceptance by the public for anticipated management actions. Restoration of full beaver management authority to the cognizant wildlife management agency would facilitate application of normative information to determine appropriate management response for minimizing conflicts between humans and beavers.