A re-evaluation of M. prototuberculosis

It has been suggested that a group of smooth tubercle bacilli, isolated from patients with tuberculosis and associated with Djibouti, East Africa, along with the seven species and subspecies that are traditional members of the Mycobacterium tuberculosis complex, should be considered a single species. This suggestion is based on the sequence similarity of the16S rRNA and segments of six housekeeping genes. The very concept of bacterial species is now subject to debate, and I follow the lead of Maynard Smith, who, in a review of the bacterial species concept, suggested that using genetic distance to define bacterial species was “arbitrary and of little merit”. If defining a species by sequence diversity alone is controversial, then it is important to carefully examine the recent claim that strains of M. tuberculosis are descendants and members of a much more ancient and large bacterial species called Mycobacterium prototuberculosis. Furthermore, given the importance of M. tuberculosis as a human pathogen and the implications for research, it is important to verify the claim that our remote hominid ancestors may have suffered from tuberculosis and that the tubercle bacilli originated in Africa

A hybrid technique for face detection in color images

In this paper, a hybrid technique for face detection in color images is presented. The proposed technique combines three analysis models, namely skin detection, automatic eye localization, and appearance-based face/nonface classification. Using a robust histogram-based skin detection model, skin-like pixels are first identified in the RGB color space. Based on this, face bounding-boxes are extracted from the image. On detecting a face bounding-box, approximate positions of the candidate mouth feature points are identified using the redness property of image pixels. A region-based eye localization step, based on the detected mouth feature points, is then applied to face bounding-boxes to locate possible eye feature points in the image. Based on the distance between the detected eye feature points, face/non-face classification is performed over a normalized search area using the Bayesian discriminating feature (BDF) analysis method. Some subjective evaluation results are presented on images taken using digital cameras and a Webcam, representing both indoor and outdoor scenes

Cosmid Cloning of Five \u3cem\u3eZymomonas trp\u3c/em\u3e Genes by Complementation of \u3cem\u3eEscherichia coli\u3c/em\u3e and \u3cem\u3ePseudomonas putida trp\u3c/em\u3e Mutants

A library of Zymomonas mobilis genomic DNA was constructed in the broad-host-range cosmid pLAFR1. The library was mobilized into a variety of Escherichia coli and Pseudomonas putida trp mutants by using the helper plasmid pRK2013. Five Z. mobilis trp genes were identified by the ability to complement the trp mutants. The trpF, trpB, and trpA genes were on one cosmid, while the trpD and trpC genes were on two separate cosmids. The organization of the Z. mobilis trp genes seems to be similar to the organization found in Rhizobium spp., Acinetobacter calcoaceticus, and Pseudomonas acidovorans. The trpF, trpB, and trpA genes appeared to be linked, but they were not closely associated with trpD or trpC genes

Rectangular Photonic Crystal Nanobeam Cavities in Bulk Diamond

We demonstrate the fabrication of photonic crystal nanobeam cavities with rectangular cross section into bulk diamond. In simulation, these cavities have an unloaded quality factor (Q) of over 1 million. Measured cavity resonances show fundamental modes with spectrometer-limited quality factors larger than 14,000 within 1nm of the NV center's zero phonon line at 637nm. We find high cavity yield across the full diamond chip with deterministic resonance trends across the fabricated parameter sweeps

hagis, an R Package Resource for Pathotype Analysis of Phytophthora sojae Populations Causing Stem and Root Rot of Soybean

Phytophthora sojae is a significant pathogen of soybean worldwide. Pathotype surveys for Phytophthora sojae are conducted to monitor resistance gene efficacy and determine if new resistance genes are needed. Valuable measurements for pathotype analysis include the distribution of susceptible reactions, pathotype complexity, pathotype frequency, and diversity indices for pathotype distributions. Previously the Habgood-Gilmour Spreadsheet (HaGiS), written in Microsoft Excel, was used for data analysis. However, the growing popularity of the R programming language in plant pathology and desire for reproducible research made HaGiS a prime candidate for conversion into an R package. Here we report on the development and use of an R package, hagis, that can be used to produce all outputs from the HaGiS Excel sheet for P. sojae or other gene-for-gene pathosystem studies

Nodule Initiation Elicited by Noninfective Mutants of \u3cem\u3eRhizobium phaseoli\u3c/em\u3e

Rhizobium phaseoli CE106, CE110, and CE115, originally derived by transposon mutagenesis (Noel et al., J. Bacteriol. 158:149-155, 1984), induced the formation of uninfected root nodule-like swellings on bean (Phaseolus vulgaris). Bacteria densely colonized the root surface, and root hair curling and initiation of root cortical-cell divisions occurred normally in mutant-inoculated seedlings, although no infection threads formed. The nodules were ineffective, lacked leghemoglobin, and were anatomically distinct from normal nodules. Ultrastructural specialization for ureide synthesis, characteristic of legumes that form determinate nodules, was absent. Colony morphology of the mutant strains on agar plates was less mucoid than that of the wild type, and under some cultural conditions, the mutants did not react with Cellufluor, a fluorescent stain for β-linked polysaccharide. These observations suggest that the genetic lesions in these mutants may be related to extracellular polysaccharide synthesis

An interactive and multi-level framework for summarising user generated videos

We present an interactive and multi-level abstraction framework for user-generated video (UGV) summarisation, allowing a user the flexibility to select a summarisation criterion out of a number of methods provided by the system. First, a given raw video is segmented into shots, and each shot is further decomposed into sub-shots in line with the change in dominant camera motion. Secondly, principal component analysis (PCA) is applied to the colour representation of the collection of sub-shots, and a content map is created using the first few components. Each sub-shot is represented with a ``footprint'' on the content map, which reveals its content significance (coverage) and the most dynamic segment. The final stage of abstraction is devised in a user-assisted manner whereby a user is able to specify a desired summary length, with options to interactively perform abstraction at different granularity of visual comprehension. The results obtained show the potential benefit in significantly alleviating the burden of laborious user intervention associated with conventional video editing/browsing