Insights from the molecular docking analysis of colistin with the PmrA protein model from Acinetobacter baumannii

Acinetobacter baumannii (AB) is one of the most common causes of nosocomial infections. Therefore, it is of interest to design and develop drugs against Acinetobacter baumannii. A strain of AB showing MIC 32 µg/ml against colistin was isolated from a hospital environment in Iran. Hence, we document data to glean insights from the molecular docking analysis of colistin with the PmrA protein from this bacterium.     

High resolution satellite imagery for tropical biodiversity studies: the devil is in the detail

While high resolution satellite remote sensing has been hailed as a very useful source of data for biodiversity assessment and monitoring, applications have been more developed in temperate areas. The biodiverse tropics offer a challenge of an altogether different magnitude for hyperspatial and hyperspectral remote sensing. This paper examines issues related to hyperspatial and hyperspectral remotely sensed imagery, which constitutes one of the most potentially powerful yet underutilized sources of for tropical research on biodiversity. Hyperspatial data with their increased pixel resolution are possibly best suited at facilitating the accurate location of features such as tree canopies, but less suited to the identification of aspects such as species identity, particularly when spatial resolution becomes too fine and pixels are smaller than the size of the object (e.g., tree canopy) being identified. Hyperspectral data on the other hand, with their high spectral resolution, can be used to record information pertaining to a range of critical plant properties related to species identity, and can be very effective used for discriminating tree species in tropical forests, despite the greater complexity of such environments. There remains a glaring gap in the easy availability of hyperspectral and hyperspatial satellite data in the tropics due to reasons of cost, data coverage, and security restrictions. Stimulating discussion on the applications of this powerful, but underutilized tool by ecologists, is the first step in promoting a more extensive use of such data for ecological studies in tropical biodiversity rich areas.     

Molecular insights on intracellular Wnt/β-catenin signaling in alcoholic liver disease

Alcoholic liver disease (ALD) is one of the most common health problems worldwide, especially in developing countries caused by chronic consumption of alcohol on a daily basis. The ALD spectrum is initiated with the early stages of alcoholic fatty liver (steatosis), progressing to alcoholic steatohepatitis, followed by the later stages of fibrosis and in some cases, cirrhosis and hepatocellular carcinoma (HCC). The Wnt/β-catenin signaling required for healthy liver development, function, and regeneration is found to be aberrated in ALD, attributed to its progression. This review is to elucidate the association of Wnt/β-catenin signaling with various stages of ALD progression. Alcohol causes downregulation of Wnt/β-catenin signaling components and thereby suppressing the pathway. Reports have been published that aberrated Wnt/β-catenin signaling, especially the absence of β-catenin, results in decreased alcohol metabolism, causing steatosis followed by steatohepatitis via lipid accumulation, lipid peroxidation, liver injury, increased oxidative stress and apoptosis of hepatocytes, contributing to the advancement of ALD. Contrastingly, the progression of later stages of ALD like fibrosis and HCC depends on the increased activation of Wnt/β-catenin signaling and its components. Existing studies reveal the varied expression of Wnt/β-catenin signaling in ALD. However, the dual role of the Wnt/β-catenin pathway in earlier and later stages of ALD is not clear. Therefore, studies on the Wnt/β-catenin pathway and its components in various manifestations of ALD might provide insight in targeting the Wnt/β-catenin pathway in ALD treatment.     

Exome Analysis Identified a Novel Mutation in the RBP4 Gene in a Consanguineous Pedigree with Retinal Dystrophy and Developmental Abnormalities

Retinitis Pigmentosa (RP) is a common form of retinal degeneration characterized by photoreceptor degeneration and retinal pigment epithelium (RPE) atrophy causing loss of visual field and acuities. Exome sequencing identified a novel homozygous splice site variant (c.111+1G>A) in the gene encoding retinol binding protein 4 (RBP4). This change segregated with early onset, progressive, and severe autosomal recessive retinitis pigmentosa (arRP) in an eight member consanguineous pedigree of European ancestry. Additionally, one patient exhibited developmental abnormalities including patent ductus arteriosus and chorioretinal and iris colobomas. The second patient developed acne from young age and extending into the 5^th decade. Both patients had undetectable levels of RBP4 in the serum suggesting that this mutation led to either mRNA or protein instability resulting in a null phenotype. In addition, the patients exhibited severe vitamin A deficiency, and diminished serum retinol levels. Circulating transthyretin levels were normal. This study identifies the RBP4 splice site change as the cause of RP in this pedigree. The presence of developmental abnormalities and severe acne in patients with retinal degeneration may indicate the involvement of genes that regulate vitamin A absorption, transport and metabolism.     

Lipopolysaccharide neutralizing Peptide-porphyrin conjugates for effective photoinactivation and intracellular imaging of gram-negative bacteria strains

A simple and specific strategy based on the bioconjugation of a photosensitizer protophophyrin IX (PpIX) with a lipopolysaccharide (LPS) binding antimicrobial peptide YI13WF (YVLWKRKRKFCFI-Amide) has been developed for the effective fluorescent imaging and photodynamic inactivation of Gram-negative bacterial strains. The intracellular fluorescent imaging and photodynamic antimicrobial chemotherapy (PACT) studies supported our hypothesis that the PpIX-YI13WF conjugates could serve as efficient probes to image the bacterial strains and meanwhile indicated the potent activities against Gram-negative bacterial pathogens especially for those with antibiotics resistance when exposed to the white light irradiation. Compared to the monomeric PpIX-YI13WF conjugate, the dimeric conjugate indicated the stronger fluorescent imaging signals and higher photoinactivation toward the Gram-negative bacterial pathogens throughout the whole concentration range. In addition, the photodynamic bacterial inactivation also demonstrated more potent activity than the minimum inhibitory concentration (MIC) values of dimeric PpIX-YI13WF conjugate itself observed for E. coli DH5a (～4 times), S. enterica (～8 times), and other Gram-negative strains including antibiotic-resistant E. coli BL21 (～8 times) and K. pneumoniae (～16 times). Moreover, both fluorescent imaging and photoinactivation measurements also demonstrated that the dimeric PpIX-YI13WF conjugate could selectively recognize bacterial strains over mammalian cells and generate less photo damage to mammalian cells. We believed that the enhanced fluorescence and bacterial inactivation were probably attributed to the higher binding affinity between dimeric photosensitizer peptide conjugate and LPS components on the surface of bacterial strains, which were the results of efficient multivalent interactions.     

Benefits of hyperspectral remote sensing for tracking plant invasions

Aim We aim to report what hyperspectral remote sensing can offer for invasion ecologists and review recent progress made in plant invasion research using hyperspectral remote sensing. Location United States. Methods We review the utility of hyperspectral remote sensing for detecting, mapping and predicting the spatial spread of invasive species. We cover a range of topics including the trade‐off between spatial and spectral resolutions and classification accuracy, the benefits of using time series to incorporate phenology in mapping species distribution, the potential of biochemical and physiological properties in hyperspectral spectral reflectance for tracking ecosystem changes caused by invasions, and the capacity of hyperspectral data as a valuable input for quantitative models developed for assessing the future spread of invasive species. Results Hyperspectral remote sensing holds great promise for invasion research. Spectral information provided by hyperspectral sensors can detect invaders at the species level across a range of community and ecosystem types. Furthermore, hyperspectral data can be used to assess habitat suitability and model the future spread of invasive species, thus providing timely information for invasion risk analysis. Main conclusions Our review suggests that hyperspectral remote sensing can effectively provide a baseline of invasive species distributions for future monitoring and control efforts. Furthermore, information on the spatial distribution of invasive species can help land managers to make long‐term constructive conservation plans for protecting and maintaining natural ecosystems.     

Mitochondrial Sequence Variation in African-American Primary Open-Angle Glaucoma Patients

Primary open-angle glaucoma (POAG) is a major cause of blindness and results from irreversible retinal ganglion cell damage and optic nerve degeneration. In the United States, POAG is most prevalent in African-Americans. Mitochondrial genetics and dysfunction have been implicated in POAG, and potentially pathogenic sequence variations, in particular novel transversional base substitutions, are reportedly common in mitochondrial genomes (mtDNA) from POAG patient blood. The purpose of this study was to ascertain the spectrum of sequence variation in mtDNA from African-American POAG patients and determine whether novel nonsynonymous, transversional or other potentially pathogenic sequence variations are observed more commonly in POAG cases than controls. mtDNA from African-American POAG cases (n = 22) and age-matched controls (n = 22) was analyzed by deep sequencing of a single 16,487 base pair PCR amplicon by Ion Torrent, and candidate novel variants were validated by Sanger sequencing. Sequence variants were classified and interpreted using the MITOMAP compendium of polymorphisms. 99.8% of the observed variations had been previously reported. The ratio of novel variants to POAG cases was 7-fold lower than a prior estimate. Novel mtDNA variants were present in 3 of 22 cases, novel nonsynonymous changes in 1 of 22 cases and novel transversions in 0 of 22 cases; these proportions are significantly lower (p<.0005, p<.0004, p<.0001) than estimated previously for POAG, and did not differ significantly from controls. Although it is possible that mitochondrial genetics play a role in African-Americans’ high susceptibility to POAG, it is unlikely that any mitochondrial respiratory dysfunction is due to an abnormally high incidence of novel mutations that can be detected in mtDNA from peripheral blood.