Journal Articles, Hindawi Press

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https://hdl.handle.net/10919/78797

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Browsing Journal Articles, Hindawi Press by Department "Biological Sciences"

Now showing 1 - 5 of 5
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    Assessment of Nutrient Limitation in Floodplain Forests with Two Different Techniques
    Neatrour, Matthew A.; Jones, Robert H.; Golladay, Stephen W. (Hindawi, 2008-05-15)
    We assessed nitrogen and phosphorus limitation in a floodplain forest in southern Georgia in USA using two commonly used methods: nitrogen to phosphorus (N:P) ratios in litterfall and fertilized ingrowth cores. We measured nitrogen (N) and phosphorus (P) concentrations in litterfall to determine N:P mass ratios. We also installed ingrowth cores within each site containing native soil amended with nitrogen (N), phosphorus (P), or nitrogen and phosphorus (N + P) fertilizers or without added fertilizer (C). Litter N:P ratios ranged from 16 to 22, suggesting P limitation. However, fertilized ingrowth cores indicated N limitation because fine-root length density was greater in cores fertilized with N or N + P than in those fertilized with P or without added fertilizer. We feel that these two methods of assessing nutrient limitation should be corroborated with fertilization trials prior to use on a wider basis.
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    The Changing Pattern of Nontuberculous Mycobacterial Disease
    Falkinham, Joseph O. III (Hindawi, 2003-01-01)
    Nontuberculous mycobacteria are human opportunistic pathogens whose source of infection is the environment. These include both slow-growing (eg, Mycobacterium kansasii and Mycobacterium avium) and rapid-growing (eg, Mycobacterium abscessus and Mycobacterium fortuitum) species. Transmission is through ingestion or inhalation of water, particulate matter or aerosols, or through trauma. The historic presentation of pulmonary disease in older individuals with predisposing lung conditions and in children has been changing. Pulmonary disease in elderly individuals who lack the classic predisposing lung conditions is increasing. Pulmonary disease and hypersensitivity pneumonitis have been linked with occupational or home exposures to nontuberculous mycobacteria. There has been a shift from Mycobacterium scrofulaceum to M avium in children with cervical lymphadenitis. Further, individuals who are immunosuppressed due to therapy or HIV-infection are at a greatly increased risk for nontuberculous mycobacterial infection. The changing pattern of nontuberculous mycobacterial disease is due in part to the ability of these pathogens to survive and proliferate in habitats that they share with humans, such as drinking water. The advent of an aging population and an increase in the proportion of immunosuppressed individuals suggest that the prevalence of nontuberculous mycobacterial disease will increase.
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    Dynamic Alu Methylation during Normal Development, Aging, and Tumorigenesis
    Luo, Yanting; Lu, Xuemei; Xie, Hehuang David (Hindawi, 2014-08-27)
    DNA methylation primarily occurs on CpG dinucleotides and plays an important role in transcriptional regulations during tissue development and cell differentiation. Over 25% of CpG dinucleotides in the human genome reside within Alu elements, the most abundant human repeats. The methylation of Alu elements is an important mechanism to suppress Alu transcription and subsequent retrotransposition. Decades of studies revealed that Alu methylation is highly dynamic during early development and aging. Recently, many environmental factors were shown to have a great impact on Alu methylation. In addition, aberrant Alu methylation has been documented to be an early event in many tumors and Alu methylation levels have been associated with tumor aggressiveness. The assessment of the Alu methylation has become an important approach for early diagnosis and/or prognosis of cancer. This review focuses on the dynamic Alu methylation during development, aging, and tumor genesis. The cause and consequence of Alu methylation changes will be discussed.
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    HBS-Tools for Hairpin Bisulfite Sequencing Data Processing and Analysis
    Sun, Ming-an; Velmurugan, Karthik Raja; Keimig, David; Xie, Hehuang David (Hindawi, 2015-12-20)
    The emerging genome-wide hairpin bisulfite sequencing (hairpin-BS-Seq) technique enables the determination of the methylation pattern for DNA double strands simultaneously. Compared with traditional bisulfite sequencing (BS-Seq) techniques, hairpin-BS-Seq can determine methylation fidelity and increase mapping efficiency. However, no computational tool has been designed for the analysis of hairpin-BS-Seq data yet. Here we present HBS-tools, a set of command line based tools for the preprocessing, mapping, methylation calling, and summarizing of genome-wide hairpin-BS-Seq data. It accepts paired-end hairpin-BS-Seq reads to recover the original (pre-bisulfite-converted) sequences using global alignment and then calls the methylation statuses for cytosines on both DNA strands after mapping the original sequences to the reference genome. After applying to hairpin-BS-Seq datasets, we found that HBS-tools have a reduced mapping time and improved mapping efficiency compared with state-of-the-art mapping tools. The HBS-tools source scripts, along with user guide and testing data, are freely available for download.
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    Winter Latitudinal Population Age-Structure of a Migratory Seagull (Larus fuscus) Differs between Its Two Major Migratory Flyways
    Marques, Paulo A. M.; Jorge, Paulo E. (Hindawi, 2013-12-08)
    The migration is energy-demanding and is expected to greatly affect the distribution of individuals over the species range and condition the choice of migratory routes. We investigated the wintering distributions and migratory flyways use of geographically contiguous populations of Lesser Black-backed Gulls (Larus fuscus) and difference in population winter age structure between migratory flyways. Recoveries of metal ringed pulli from Denmark, Sweden, and Finland were used. The results showed that contiguous populations can have distinct wintering distribution patterns and migratory flyways. More importantly, we found that depending on the place of origin, the population winter distribution may or may not show a latitudinal cline in the age structure. The population migrating via the eastern Atlantic flyway (western flyway) showed a winter age-related latitudinal cline, with adults staying at more northern latitudes than immatures. In contrast, no such pattern was found in the population migrating along the Mediterranean/Black sea flyway (eastern flyway). Interestingly, immatures within the eastern population showed a more dispersed pattern of migratory bearings. Overall, our results enhance the importance of the migration flyway in shaping the age structure of populations in the winter quarters and how it may influence the effect of other factors like sexual maturation.