210 research outputs found
Dune and Vegetation Stability at South Padre Island, Texas, United States of America
Padre Island is the longest of five barrier islands occurring along the Texas Gulf Coast. South Padre Island is separated from the northern two-thirds of the island by the Mansfield Channel. The composition and pattern of vegetation on South Padre Island are relatively well known, but data on the interrelationship of dune and vegetation stability are lacking. We hypothesized that (1) there should be an inverse relationship between elevation change and percent cover on transects across the nearshore dunes of South Padre Island; and (2) percent cover, species composition, and species importance should be most stable where elevation change was least. We tested these hypotheses using three study sites differing in vegetation abundance. Elevation measurements were taken at 1.0-m intervals along three transects at each site using survey-grade Global Positioning System equipment. Vegetation abundance was determined in 10-m intervals along each transect. No sites or topographic zones were devoid of elevation change. Even a site that had a mean percent cover of 65.1% had a mean elevation change of 15.6 cm. However, cover does not have to be great to provide considerable stability. There was no significant difference in elevation change at Site 1, where cover was 57%, and Site 2, where cover was only 12.5%. As hypothesized, there was a significant inverse correlation between elevation change and percent cover when analyzed over all transects and sites, but the relationship did not hold for all sites or topographic zones when these were examined separately. Lack of correlation may be due to differences among sites and zones in the number of different perturbations and their intensities and frequencies. Only Site 2 showed a significant difference in percent cover between the initial and final samples. Species composition and importance were more stable where elevation changes were low
Survivorship and Growth Among Three Developmental Stages of Black Mangrove (Avicennia germinans) Seedlings in Southernmost Texas
Black mangrove is useful for shoreline stabilization in Texas and Mexico but there is insufficient information regarding propagule survivorship and seedling growth. We compared survivorship and growth of three develop-mental groups of black mangrove seedlings planted on three dredge spoil islands in the Lower Laguna Madre of Texas, to better understand optimum planting strategy. Each spoil island had 100 seedlings without emergent radicles, 100 seedlings with emergent radicles, and 75 head-started seedlings. Survivorship of seedlings with and with-out emergent radicles was low, (0-16%). Survivorship of head-started seedlings was higher, (60 – 62.7%). Varia-tion in survivorship among developmental categories was significant but variation among islands was not. The 16 surviving seedlings with emergent radicles censused 346 days after planting were similar in mean height (32.9 cm) and mean number of pairs of leaves (13.2) to head-started seedlings grown for 376 days (105 days in nursery, 271 days on Island 1). Growth rates for height ranged from 0.041 cm/day to 0.058 cm/day. Growth in mean pairs of leaves ranged from 0.042 pairs/day to 0.051 pairs/day. Comparison of the person-days required to have 300 seed-lings alive one year after field planting shows that head-starting is clearly the preferable planting strategy
Detection of Temporal Changes in Vegetative Cover on South Padre Island, Texas Using Image Classifications Derived from Aerial Color-Infrared Photographs
Supervised image classifications developed from 23 x 23 cm aerial color-infrared aerial photographs (1:5,000 scale) were used to evaluate temporal changes in vegetative cover occurring within three 150 x 300-m research sites on South Padre Island, Texas. Use of high-resolution digitized imagery (ground pixel resolution of ca. 0.1 m) and survey-grade GPS for positional measurements of ground control points (20-25 1.0m2 targets within each research site) resulted in consistently high levels of geometric accuracy, with root mean square errors (RMSEs) ranging between 0.397 – 2.867. Similarly, use of relatively simple information categories (dry and wet sand, live and dead vegetative cover, and water) resulted in supervised image classifications with consistently high levels of overall thematic accuracy (90.0 – 98.0%). Temporal comparisons of image classifications using a cross-tabulation procedure indicated that changes in total vegetative cover had been minimal at most locations during the course the two-year study (2003-2005). However, a localized but significant disruption of native vegetation caused by the dumping of sand by highway maintenance crews was detected in one of the study sites (2004), and ground inspection revealed numerous other sand-dumping sites at various locations on the barrier island. In the first situation, comparison of CIR aerial photographs acquired before and after the sand-dumping incident provided a reliable means by which to evaluate the extent of damage caused by the dumped sand, and to monitor its eventual recovery as a result of recolonization by native plant species
Vegetative Change on South Padre Island, Texas, over Twenty Years and Evaluation of Multispectral Videography in Determining Vegetative Cover and Species Identity
A comparative vegetation analysis of an island-wide transect of South Padre Island, Texas, was conducted in 1997 using aerial multispectral digital videography and line intercept ground truth techniques to assess the usefulness of videography in estimating vegetative cover and species identifications. Ground truth data were used to assess vegetative change occurring in the 20 years since the report of Judd et al. (1977) on the vegetation of South Padre Island. Estimates of total cover by ground truth and remote sensing techniques were similar (2.45% difference) on South Padre Island. Thus, airborne multispectral digital videography is an effective technique for assessing changes in total vegetative cover of Texas barrier islands. This technique will be an effective tool for documenting changes in total cover on barrier islands due to natural perturbations such as hurricanes and human disturbances including vehicular traffic. Imagery obtained at altitudes of 200 m or greater did not permit discrimination of dominant species in each of an island\u27s topographic zones. However, acquisition of imagery at a time of the year when dominant species are in specific phenological stages, such as flowering, and at a lower altitude may facilitate their recognition. Comparison of data from a single trans-island transect in 1997 with data from three trans-island transects and 18 transects across the foreshore, backshore, and primary dunes in 1977 suggests that there has been a marked decrease in species richness of the backshore and primary dune zones of South Padre Island. There also was a change in dominant species in the backshore zone. These changes in species richness and dominance may be largely attributable to vehicular traffic in these zones.
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Un análisis comparativo de la vegetación de un transecto transinsular de la isla South Padre en el estado de Texas fue realizado en 1997 usando videografía aérea multiesprectral digital y técnicas de validación de intercepción linear terrestre para evaluar la utilidad de la videografía en la estimación de la cobertura vegetal e identificación de especies. Los datos de estudios de validación terrestre fueron utilizados para evaluar el cambio vegetativo que ocurrió durante 20 años después del informe de Judd et al (1977) sobre la vegetación de la isla South Padre. Las estimaciones de la cobertura total mediante técnicas de validación terrestres y de medición remota fueron similares (2.45% de diferencia) en la isla South Padre. Por lo tanto, la videografía multiesprectral digital aérea se considera una técnica eficaz para evaluar cambios en la cobertura vegetal de las islas barrera de Texas. Esta técnica será una herramienta efectiva para documentar los cambios de cobertura total en las islas barrera debido a las perturbaciones naturales tales como huracanes y disturbios humanos como tráfico vehicular. Las imágenes obtenidas en altitudes de 200 metros o mayores no permitieron la discriminación de las especies dominantes de las varias zonas topográficas de una isla. Sin embargo, la adquisición de imágenes de una época del año en que las especies dominantes están en etapas fenológicas específicas, tales como la floración, y desde una altitud menor, puede facilitar su reconocimiento. Al comparar datos de un transecto transinsular de 1977 con los de tres transectos transinsulares y de 18 transectos correspondientes a la parte frontal, trasera, y de las dunas primarias de la isla en 1977, se sugiere que ha habido una marcada disminución en la riqueza de especies en la parte trasera y en la zona de dunas primarias de la isla South Padre. También hubo un cambio de especies dominantes en la zona trasera. Estos cambios en la riqueza y dominancia de especies pueden ser atribuidos en gran parte al tráfico vehicular en estas zonas
Factors Affecting the Spatial Distribution of Black Mangrove on the Dredged-Material or “Spoil” Islands in the Lower Laguna Madre of Texas
Research was conducted to evaluate the spatial distribution of black mangrove (Avicennia germinans) on the dredged-material or “spoil” islands of the Lower Laguna Madre of Texas. Aerial color-infrared (CIR) photographs revealed the presence of black mangrove stands on many of the islands located south of the Arroyo Colorado (a distributary of the Rio Grande which empties into the Laguna Madre), but failed to detect significant mangrove stands on islands located north of the Arroyo. Analysis of CIR photographs and supervised image classifications for individual islands suggested a concentration of black mangrove along western shorelines and relatively low interior areas of islands, although relatively small and localized mangrove stands were clearly evident along eastern shorelines at several locations. These observations were consistent with ground surveys which indicated significantly higher mangrove densities along western vs eastern shorelines of selected islands (0.6 and 0.1 plants/m2, respectively; P \u3c 0.05), but no difference between ratios of small to large plants in stands located along western vs eastern shorelines (1.6 and 1.4, respectively; P\u3e0.05). The most plausible explanation for these trends is that wave action caused by prevailing southeasterly winds during most of the year may impede or prevent the establishment of black mangrove propagules (germinated „seeds‟) along eastern shorelines of islands which otherwise constitute suitable habitat for A. germinans. If this interpretation is correct, development of planting strategies designed to facilitate establishment of black mangrove stands along shorelines subject to turbulent wave action will be a requisite to the use of this important native plant species for erosion prevention and mitigation on spoil islands in the Lower Laguna Madre
Recovering Protein-Protein and Domain-Domain Interactions from Aggregation of IP-MS Proteomics of Coregulator Complexes
Coregulator proteins (CoRegs) are part of multi-protein complexes that transiently assemble with transcription factors and chromatin modifiers to regulate gene expression. In this study we analyzed data from 3,290 immuno-precipitations (IP) followed by mass spectrometry (MS) applied to human cell lines aimed at identifying CoRegs complexes. Using the semi-quantitative spectral counts, we scored binary protein-protein and domain-domain associations with several equations. Unlike previous applications, our methods scored prey-prey protein-protein interactions regardless of the baits used. We also predicted domain-domain interactions underlying predicted protein-protein interactions. The quality of predicted protein-protein and domain-domain interactions was evaluated using known binary interactions from the literature, whereas one protein-protein interaction, between STRN and CTTNBP2NL, was validated experimentally; and one domain-domain interaction, between the HEAT domain of PPP2R1A and the Pkinase domain of STK25, was validated using molecular docking simulations. The scoring schemes presented here recovered known, and predicted many new, complexes, protein-protein, and domain-domain interactions. The networks that resulted from the predictions are provided as a web-based interactive application at http://maayanlab.net/HT-IP-MS-2-PPI-DDI/
Estrogen receptor degradation: a CUE for endocrine resistance?
Despite the undoubted success of adjuvant endocrine therapies that target the estrogen receptor pathway, not all women with estrogen receptor-positive breast cancer respond to these therapies, and many who initially respond will subsequently relapse. Deregulation of various aspects of estrogen receptor signaling has been highlighted as a mechanism of resistance and as a basis for alternative therapeutic approaches. However, a recent publication refocuses attention on the estrogen receptor itself by showing that the ubiquitin-binding CUE domain-containing protein 2 is a regulator of estrogen receptor protein degradation and a marker of endocrine resistance in breast cancer
Gene Profiling of Mta1 Identifies Novel Gene Targets and Functions
BACKGROUND: Metastasis-associated protein 1 (MTA1), a master dual co-regulatory protein is found to be an integral part of NuRD (Nucleosome Remodeling and Histone Deacetylation) complex, which has indispensable transcriptional regulatory functions via histone deacetylation and chromatin remodeling. Emerging literature establishes MTA1 to be a valid DNA-damage responsive protein with a significant role in maintaining the optimum DNA-repair activity in mammalian cells exposed to genotoxic stress. This DNA-damage responsive function of MTA1 was reported to be a P53-dependent and independent function. Here, we investigate the influence of P53 on gene regulation function of Mta1 to identify novel gene targets and functions of Mta1. METHODS: Gene expression analysis was performed on five different mouse embryonic fibroblasts (MEFs) samples (i) the Mta1 wild type, (ii) Mta1 knock out (iii) Mta1 knock out in which Mta1 was reintroduced (iv) P53 knock out (v) P53 knock out in which Mta1 was over expressed using Affymetrix Mouse Exon 1.0 ST arrays. Further Hierarchical Clustering, Gene Ontology analysis with GO terms satisfying corrected p-value<0.1, and the Ingenuity Pathway Analysis were performed. Finally, RT-qPCR was carried out on selective candidate genes. SIGNIFICANCE/CONCLUSION: This study represents a complete genome wide screen for possible target genes of a coregulator, Mta1. The comparative gene profiling of Mta1 wild type, Mta1 knockout and Mta1 re-expression in the Mta1 knockout conditions define "bona fide" Mta1 target genes. Further extensive analyses of the data highlights the influence of P53 on Mta1 gene regulation. In the presence of P53 majority of the genes regulated by Mta1 are related to inflammatory and anti-microbial responses whereas in the absence of P53 the predominant target genes are involved in cancer signaling. Thus, the presented data emphasizes the known functions of Mta1 and serves as a rich resource which could help us identify novel Mta1 functions
miRNA Regulatory Circuits in ES Cells Differentiation: A Chemical Kinetics Modeling Approach
MicroRNAs (miRNAs) play an important role in gene regulation for Embryonic Stem cells (ES cells), where they either down-regulate target mRNA genes by degradation or repress protein expression of these mRNA genes by inhibiting translation. Well known tables TargetScan and miRanda may predict quite long lists of potential miRNAs inhibitors for each mRNA gene, and one of our goals was to strongly narrow down the list of mRNA targets potentially repressed by a known large list of 400 miRNAs. Our paper focuses on algorithmic analysis of ES cells microarray data to reliably detect repressive interactions between miRNAs and mRNAs. We model, by chemical kinetics equations, the interaction architectures implementing the two basic silencing processes of miRNAs, namely “direct degradation” or “translation inhibition” of targeted mRNAs. For each pair (M,G) of potentially interacting miRMA gene M and mRNA gene G, we parameterize our associated kinetic equations by optimizing their fit with microarray data. When this fit is high enough, we validate the pair (M,G) as a highly probable repressive interaction. This approach leads to the computation of a highly selective and drastically reduced list of repressive pairs (M,G) involved in ES cells differentiation
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