Integrating SOMs and a Bayesian classifier for segmenting diseased plants in uncontrolled environments.

This work presents a methodology that integrates a nonsupervised learning approach (self-organizing map (SOM)) and a supervised one (a Bayesian classifier) for segmenting diseased plants that grow in uncontrolled environments such as greenhouses, wherein the lack of control of illumination and presence of background bring about serious drawbacks. During the training phase two SOMs are used: one that creates color groups of images, which are classified into two groups using K-means and labeled as vegetation and nonvegetation by using rules, and a second SOM that corrects classification errors made by the first SOM. Two color histograms are generated from the two color classes and used to estimate the conditional probabilities of the Bayesian classifier. During the testing phase an input image is segmented by the Bayesian classifier and then it is converted into a binary image, wherein contours are extracted and analyzed to recover diseased areas that were incorrectly classified as nonvegetation. The experimental results using the proposed methodology showed better performance than two of the most used color index methods.

Isolation of the opdE gene that encodes for a new hydrolase of Enterobacter sp. capable of degrading organophosphorus pesticides.

Microbial enzymes that can hydrolyze organophosphorus compounds have been isolated, identified and characterized from different microbial species in order to use them in biodegradation of organophosphorus compounds. We isolated a bacterial strain Cons002 from an agricultural soil bacterial consortium, which can hydrolyze methyl-parathion (MP) and other organophosphate pesticides. HPLC analysis showed that strain Cons002 is capable of degrading pesticides MP, parathion and phorate. Pulsed-field gel electrophoresis and 16S rRNA amplification were performed for strain characterization and identification, respectively, showing that the strain Cons002 is related to the genus Enterobacter sp. which has a single chromosome of 4.6 Mb and has no plasmids. Genomic library was constructed from DNA of Enterobacter sp. Cons002. A gene called opdE (Organophosphate Degradation from Enterobacter) consists of 753 bp and encodes a protein of 25 kDa, which was isolated using activity methods. This gene opdE had no similarity to any genes reported to degrade organophosphates. When kanamycin-resistance cassette was placed in the gene opdE, hydrolase activity was suppressed and Enterobacter sp. Cons002 had no growth with MP as a nutrients source.

Heavy metal bioaccumulation and morphological changes in Vachellia campechiana (Fabaceae) reveal its potential for phytoextraction of Cr, Cu, and Pb in mine tailings.

Vachellia campechiana (Mill Seigler & Ebinger) is widely distributed in Mexico and is a dominant species of tailings in Huautla, in the state of Morelos, Mexico. Mining activities carried out in this region generated about 780 thousand tons of bioavailable heavy metal waste (HMs) that were deposited in the environment without any treatment. This study evaluates the bioaccumulation capacity and morphological changes of V. campechiana growing during 1 year in control or tailing substrates (treatments) under greenhouse conditions. The concentration of six HMs was also measured in roots, leaves, and seeds by atomic absorption spectrophotometry. Five metals showed a similar bioaccumulation pattern in the roots and leaves of V. campechiana grown in both substrates: Pb > Fe > Cr > Cu > Zn. The concentrations of Cr, Cu, and Pb were significantly higher in the roots and leaves of individuals growing on the exposed substrate. The presence of essential metals (Cu, Fe, Zn) was only recorded in the seeds, with similar concentrations in both treatments. Seventeen of 18 morphological characters evaluated in V. campechiana decreased in plants exposed to metals. Pb, Cu, and Fe showed a bioconcentration factor greater than one in roots and leaves. The translocation factor showed the following pattern: Cr > Cu = Pb. In conclusion, V. campechiana is a candidate species to phytoremediate environments contaminated with Pb, Cr, and Cu due to its ability to establish itself and turn into the dominant plant species in polluted sites, its ability to bioaccumulate non-essential metals in roots and leaves, and its high rate of HMs translocation.

Draft Genome Sequence of Burkholderia cenocepacia Strain CEIB S5-2, a Methyl Parathion- and p-Nitrophenol-Degrading Bacterium, Isolated from Agricultural Soils in Morelos, Mexico.

Burkholderia cenocepacia is an opportunistic pathogen that belongs to Burkholderia cepacia complex (BCC). Burkholderia cenocepacia strain CEIB S5-2 was isolated from agricultural soils in Morelos, Mexico, and previously has shown its abilities for bioremediation. In this study, we report the draft genome sequence of Burkholderia cenocepacia strain CEIB S5-2.

Burkholderia cenocepacia Strain CEIB S5-1, a Rhizosphere-Inhabiting Bacterium with Potential in Bioremediation.

Burkholderia cenocepacia is considered an opportunistic pathogen from humans and may cause disease in plants. A bioprospection from a plaguicide-contaminated agricultural field in Mexico identified several methyl parathion-degrading bacteria. Here, we report the draft genome sequence of B. cenocepacia strain CEIB S5-1, which gave us clues into ecological biodiversity.