Genetic and Genomic Resources of Grain Legume Improvement

Grain legumes, including common-bean, chickpea, pigeonpea, pea, cowpea, lentil and others, form important constituents of global diets, both vegetarian and non-vegetarian. Despite this significant role, global production has increased only marginally in the past 50 years. The slow production growth, along with a rising human population and improved buying capacity has substantially reduced the per capita availability of food legumes. Changes in environmental climate have also had significant impact on production, creating a need to identify stable donors among genetic resources for environmentally robust genes and designing crops resilient to climate change. Genetic and Genomic Resources of Grain Legume Improvement is the first book to bring together the latest resources in plant genetics and genomics to facilitate the identification of specific germplasm, trait mapping and allele mining to more effectively develop biotic and abiotic-stress-resistant grains. This book will be an invaluable resource for researchers, crop biologists and students working with crop development

Sorghum

A collection of diverse germplasm is the foundation for the genetic improvement of crop plants. Sorghum is a versatile crop and a staple food for the poorest parts of Africa. It is a crop endowed with one of the highest genetic diversity. Worldwide, there are close to a quarter million sorghum accessions collected and maintained by national and international genebanks. The two biggest sorghum germplasm holders are the US Department of Agriculture and the International Crops Research Institute for the Semi-Arid Tropics. Together they maintain about 1/3 of the world’s sorghum germplasm collection. Majority of accessions have been characterized, and accessions with specific attributes have been identified. Researchers can access these data and select accessions to meet their project needs. More importantly, core and minicore collections or genotype-based reference sets, representing diversity present in the entire germplasm, have been formed, and using these subsets new sources of variations have been identified for use in sorghum improvement programs. Genome-wide mapping experiments revealed marker–trait associations for agronomically useful traits

Modeling electrolytically top gated graphene

We investigate doping of a single-layer graphene in the presence of electrolytic top gating. The interfacial phenomena is modeled using a modified Poisson-Boltzmann equation for an aqueous solution of simple salt. We demonstrate both the sensitivity of graphene's doping levels to the salt concentration and the importance of quantum capacitance that arises due to the smallness of the Debye screening length in the electrolyte.Comment: 7 pages, including 4 figures, submitted to Nanoscale Research Letters for a special issue related to the NGC 2009 conference (http://asdn.net/ngc2009/index.shtml

Trans-cinnamaldehyde nanoemulsion wash inactivates Salmonella Enteritidis on shelled eggs without affecting egg color

Salmonella Enteritidis is a major foodborne pathogen that causes enteric illnesses in humans, primarily through the consumption of contaminated poultry meat and eggs. Despite implementation of traditional disinfection approaches to reduce S. Enteritidis contamination, egg-borne outbreaks continue to occur, raising public health concerns and adversely affecting the popularity and profitability for the poultry industry. Generally Recognized as Safe (GRAS) status phytochemicals such as Trans-cinnamaldehyde (TC) have previously shown to exhibit anti-Salmonella efficacy, however, the low solubility of TC is a major hurdle in its adoption as an egg wash treatment. Therefore, the present study investigated the efficacy of Trans-cinnamaldehyde nanoemulsions (TCNE) prepared with emulsifiers Tween 80 (Tw.80) or Gum Arabic and lecithin (GAL) as dip treatments, at 34°C, for reducing S. Enteritidis on shelled eggs in presence or absence of 5% chicken litter. In addition, the efficacy of TCNE dip treatments in reducing trans-shell migration of S. Enteritidis across shell barrier was investigated. The effect of wash treatments on shell color were evaluated on d 0, 1, 7, and 14 of refrigerated storage. TCNE-Tw.80 or GAL treatments (0.06, 0.12, 0.24, 0.48%) were effective in inactivating S. Enteritidis by at least 2 to 2.5 log cfu/egg as early as 1 min of washing time (P \u3c 0.05). In presence of organic matter, nanoemulsions (0.48%) reduced S. Enteritidis counts by ∼ 2 to 2.5 log cfu/egg as early as 1 min, (P \u3c 0.05). Nanoemulsion wash also inhibited trans-shell migration of S. Enteritidis, as compared to control (P \u3c 0.05). The nanoemulsion wash treatments did not affect shell color (P \u3e 0.05). Results suggest that TCNE could potentially be used as an antimicrobial wash to reduce S. Enteritidis on shelled eggs, although further studies investigating the effect of TCNE wash treatments on organoleptic properties of eggs are necessary

Remotely acting SMCHD1 gene regulatory elements: in silico prediction and identification of potential regulatory variants in patients with FSHD

Background: Facioscapulohumeral dystrophy (FSHD) is commonly associated with contraction of the D4Z4 macro-satellite repeat on chromosome 4q35 (FSHD1) or mutations in the SMCHD1 gene (FSHD2). Recent studies have shown that the clinical manifestation of FSHD1 can be modified by mutations in the SMCHD1 gene within a given family. The absence of either D4Z4 contraction or SMCHD1 mutations in a small cohort of patients suggests that the disease could also be due to disruption of gene regulation. In this study, we postulated that mutations responsible for exerting a modifier effect on FSHD might reside within remotely acting regulatory elements that have the potential to interact at a distance with their cognate gene promoter via chromatin looping. To explore this postulate, genome-wide Hi-C data were used to identify genomic fragments displaying the strongest interaction with the SMCHD1 gene. These fragments were then narrowed down to shorter regions using ENCODE and FANTOM data on transcription factor binding sites and epigenetic marks characteristic of promoters, enhancers and silencers

Nonequilibrium Probabilistic Dynamics of the Logistic Map at the Edge of Chaos

We consider nonequilibrium probabilistic dynamics in logistic-like maps $x_{t+1}=1-a|x_t|^z$, $(z>1)$ at their chaos threshold: We first introduce many initial conditions within one among $W>>1$ intervals partitioning the phase space and focus on the unique value $q_{sen}<1$ for which the entropic form $S_q \equiv \frac{1-\sum_{i=1}^{W} p_i^q}{q-1}$ {\it linearly} increases with time. We then verify that $S_{q_{sen}}(t) - S_{q_{sen}}(\infty)$ vanishes like $t^{-1/[q_{rel}(W)-1]}$ [$q_{rel}(W)>1$]. We finally exhibit a new finite-size scaling, $q_{rel}(\infty) - q_{rel}(W) \propto W^{-|q_{sen}|}$. This establishes quantitatively, for the first time, a long pursued relation between sensitivity to the initial conditions and relaxation, concepts which play central roles in nonextensive statistical mechanics.Comment: Final version with new Title and small modifications. REVTeX, 8 pages and 4 eps figure

N-WASP Is Essential for the Negative Regulation of B Cell Receptor Signaling

Negative regulation of receptor signaling is essential for controlling cell activation and differentiation. In B-lymphocytes, the down-regulation of B-cell antigen receptor (BCR) signaling is critical for suppressing the activation of self-reactive B cells; however, the mechanism underlying the negative regulation of signaling remains elusive. Using genetically manipulated mouse models and total internal reflection fluorescence microscopy, we demonstrate that neuronal Wiskott–Aldrich syndrome protein (N-WASP), which is coexpressed with WASP in all immune cells, is a critical negative regulator of B-cell signaling. B-cell–specific N-WASP gene deletion causes enhanced and prolonged BCR signaling and elevated levels of autoantibodies in the mouse serum. The increased signaling in N-WASP knockout B cells is concurrent with increased accumulation of F-actin at the B-cell surface, enhanced B-cell spreading on the antigen-presenting membrane, delayed B-cell contraction, inhibition in the merger of signaling active BCR microclusters into signaling inactive central clusters, and a blockage of BCR internalization. Upon BCR activation, WASP is activated first, followed by N-WASP in mouse and human primary B cells. The activation of N-WASP is suppressed by Bruton's tyrosine kinase-induced WASP activation, and is restored by the activation of SH2 domain-containing inositol 5-phosphatase that inhibits WASP activation. Our results reveal a new mechanism for the negative regulation of BCR signaling and broadly suggest an actin-mediated mechanism for signaling down-regulation

Identification of Pns6, a putative movement protein of RRSV, as a silencing suppressor

RNA silencing is a potent antiviral response in plants. As a counterdefense, most plant and some animal viruses encode RNA silencing suppressors. In this study, we showed that Pns6, a putative movement protein of Rice ragged stunt virus (RRSV), exhibited silencing suppressor activity in coinfiltration assays with the reporter green fluorescent protein (GFP) in transgenic Nicotiana benthamiana line 16c. Pns6 of RRSV suppressed local silencing induced by sense RNA but had no effect on that induced by dsRNA. Deletion of a region involved in RNA binding abolished the silencing suppressor activity of Pns6. Further, expression of Pns6 enhanced Potato virus × pathogenicity in N. benthamiana. Collectively, these results suggested that RRSV Pns6 functions as a virus suppressor of RNA silencing that targets an upstream step of the dsRNA formation in the RNA silencing pathway. This is the first silencing suppressor to be identified from the genus Oryzavirus

Adaptation Pattern and Genetic Potential of Indian Pearl Millet Named Landraces Conserved at the ICRISAT Genebank

A total of 692 accessions belonging to 32 named landraces, adapted to a latitude range of 8.8oN to 30.90oN and originating in nine provinces of India were used to study their adaptation pattern and genetic potential. A clear pattern regarding association of latitude, climate at collection sites, adaptation of landraces and the agronomic performance was observed. Hierarchical cluster analysis using eight agronomic traits resulted in four clusters of accessions. Cluster 1 accessions flowered early and cluster 3 flowered late. Cluster 1 and cluster 4 accessions produced more tillers. Important sources identified were IP 13465 for early flowering and short height; IP 15273 for high tillering, high seed iron and zinc content and downy mildew resistance; IP 3531 for high seed protein content, downy mildew and rust resistance; IP 15285, IP 15288, IP 15290, IP 15301, and IP 15351 for high tillering