Drainage basin morphometric analysis and its relationship with altitude of Uttarkashi District

The area of investigation lies between Maneri and Gangnani along the Bhagirathi river in the lesser and central Himalayan block of Garhwal Himalayas. The rocks of Garhwal group are represented by quartzites, sericite quartzite’s and talc chlorite schist intruded by metabasics, whereas the Central crystallines are constituted by gneisses, schists, migmatites and amphibolites. For the purpose of drainage basin morphometric analysis 100 third order drainage basins were marked. Drainage basin morphometric parameters of 100 basins were calculated. On the basis of lithology and tectonic setup,the area was divided into three morphogenetic units viz Central crystallines, Thrust zone and Garhwal group. The basins which were situated below 2500 mts are categorized under low altitudes and above 2500 as basins of higher altitudes.The relationship between deainage basinmorphometric parameters and altitude suggest that basins situated at higher altitude have higher value of stream frequency, number of first and second order streams,fine texture and low drainage density

Plant diversity assessment of selected forest sites of Gaya district of Bihar, India

Regular inventorization and monitoring of biodiversity is paramount for its conservation and sustainable utilization.  Gaya district of the Bihar is endowed with rich biodiversity. For proper understanding of plant diversity, quantitative status of the vegetation is essentially required. The aim of the study was to assess different forest sites of the Gaya district of Bihar in India for their plant diversity. Study was carried out in these randomly selected eleven forest sites (Site I to Site XI). A total of 174 species belonging to 150 genera and58 families(48 Dicotyledons, 7 monocotyledons and 3 pteridophytes) were reported from all eleven study sites.  Five largest families in the area were  Poaceae (22 spp.), Fabaceae (14 spp.), Asteraceae (11 spp.), Rubiaceae (9 spp.) and Acanthaceae (7 spp). Different diversity attributes such as Important Value Index (IVI ), Species richness, Shannon Wiener index, Concentration  of dominance and Evenness for tree, shrub and herb layers  were estimated. For different sites highest IVI values for tree, shrubby and herbaceous layers were reported.Shannon wiener Index values for tree, shrubby and herbaceous layer of Nagobar site were estimated3.376, 1.986 and 2.350 respectively. Tree diversity was highest at Nagobar site whereas shrub and herb diversity was also reasonably better than most of the sites. Hence, it was revealed from the study that Nagobar site was most diverse site in the Gaya district. Study will be immense use for officials of forest department, researcher, students etc. for carrying out conservation and management work. Similar kind of study should be carried out in different forest sites of the country to get capture the status of the plant diversity for conservation and sustainable utilization.

TEMPORAL MONITORING OF GLACIER CHANGE IN DHAULIGANGA BASIN, KUMAUN HIMALAYA USING GEO-SPATIAL TECHNIQUES

Present study is based on the change in surface area of the glaciers in downstream area of Dhauliganga basin, Pithoragarh district, Uttarakhand. For this study, Survey of India toposheets (surveyed in 1963) have been used for preparation of initial boundary of glaciers. Total 11 glaciers have been selected for the study in downstream valley. RGI (Randolph Glacier Inventory) data version 60. (15_RGI 60.SouthAsiaEast) from GLIMS, released July 28 2017, used for measuring temporal change in surface area. Landsat 8 OLI/TIRS image of 06 November 2016 has used to measure present area of glaciers. ASTER GDEM was used for automatic extraction of basin boundary by hydro-processing methods. Glacier boundaries were manually digitised from the Landsat image for better accuracy. The total glacier area was 69.35 km2 (1963), 48.10 km2 (2001) and 34.35 (2016) as determined from SOI toposheet, GLIMS and the Landsat image of 2016 respectively. Total vacated area by the retreat and melting of glaciers from 1963 to 2016 is 35 km2, which accounts to a total loss of 50 % from the total glaciated area. Google Earth imagery was also considered for marking the actual position of glacier outlines. Ice walls in topographic maps are also considered as the part of glacier but in present satellite image they are free from ice

Plant Reactome: a resource for plant pathways and comparative analysis

Plant Reactome (http://plantreactome.gramene.org/) is a free, open-source, curated plant pathway database portal, provided as part of the Gramene project. The database provides intuitive bioinformatics tools for the visualization, analysis and interpretation of pathway knowledge to support genome annotation, genome analysis, modeling, systems biology, basic research and education. Plant Reactome employs the structural framework of a plant cell to show metabolic, transport, genetic, developmental and signaling pathways. We manually curate molecular details of pathways in these domains for reference species Oryza sativa (rice) supported by published literature and annotation of well-characterized genes. Two hundred twenty-two rice pathways, 1025 reactions associated with 1173 proteins, 907 small molecules and 256 literature references have been curated to date. These reference annotations were used to project pathways for 62 model, crop and evolutionarily significant plant species based on gene homology. Database users can search and browse various components of the database, visualize curated baseline expression of pathway-associated genes provided by the Expression Atlas and upload and analyze their Omics datasets. The database also offers data access via Application Programming Interfaces (APIs) and in various standardized pathway formats, such as SBML and BioPAX

Gramene 2013: comparative plant genomics resources

Gramene (http://www.gramene.org) is a curated online resource for comparative functional genomics in crops and model plant species, currently hosting 27 fully and 10 partially sequenced reference genomes in its build number 38. Its strength derives from the application of a phylogenetic framework for genome comparison and the use of ontologies to integrate structural and functional annotation data. Whole-genome alignments complemented by phylogenetic gene family trees help infer syntenic and orthologous relationships. Genetic variation data, sequences and genome mappings available for 10 species, including Arabidopsis, rice and maize, help infer putative variant effects on genes and transcripts. The pathways section also hosts 10 species-specific metabolic pathways databases developed in-house or by our collaborators using Pathway Tools software, which facilitates searches for pathway, reaction and metabolite annotations, and allows analyses of user-defined expression datasets. Recently, we released a Plant Reactome portal featuring 133 curated rice pathways. This portal will be expanded for Arabidopsis, maize and other plant species. We continue to provide genetic and QTL maps and marker datasets developed by crop researchers. The project provides a unique community platform to support scientific research in plant genomics including studies in evolution, genetics, plant breeding, molecular biology, biochemistry and systems biology

Gramene 2016: comparative plant genomics and pathway resources

Gramene (http://www.gramene.org) is an online resource for comparative functional genomics in crops and model plant species. Its two main frameworks are genomes (collaboration with Ensembl Plants) and pathways (The Plant Reactome and archival BioCyc databases). Since our last NAR update, the database website adopted a new Drupal management platform. The genomes section features 39 fully assembled reference genomes that are integrated using ontology-based annotation and comparative analyses, and accessed through both visual and programmatic interfaces. Additional community data, such as genetic variation, expression and methylation, are also mapped for a subset of genomes. The Plant Reactome pathway portal (http://plantreactome.gramene.org) provides a reference resource for analyzing plant metabolic and regulatory pathways. In addition to approximately 200 curated rice reference pathways, the portal hosts gene homology-based pathway projections for 33 plant species. Both the genome and pathway browsers interface with the EMBL-EBI's Expression Atlas to enable the projection of baseline and differential expression data from curated expression studies in plants. Gramene's archive website (http://archive.gramene.org) continues to provide previously reported resources on comparative maps, markers and QTL. To further aid our users, we have also introduced a live monthly educational webinar series and a Gramene YouTube channel carrying video tutorials

The breadth of primary care: a systematic literature review of its core dimensions

Background: Even though there is general agreement that primary care is the linchpin of effective health care delivery, to date no efforts have been made to systematically review the scientific evidence supporting this supposition. The aim of this study was to examine the breadth of primary care by identifying its core dimensions and to assess the evidence for their interrelations and their relevance to outcomes at (primary) health system level. Methods: A systematic review of the primary care literature was carried out, restricted to English language journals reporting original research or systematic reviews. Studies published between 2003 and July 2008 were searched in MEDLINE, Embase, Cochrane Library, CINAHL, King's Fund Database, IDEAS Database, and EconLit. Results: Eighty-five studies were identified. This review was able to provide insight in the complexity of primary care as a multidimensional system, by identifying ten core dimensions that constitute a primary care system. The structure of a primary care system consists of three dimensions: 1. governance; 2. economic conditions; and 3. workforce development. The primary care process is determined by four dimensions: 4. access; 5. continuity of care; 6. coordination of care; and 7. comprehensiveness of care. The outcome of a primary care system includes three dimensions: 8. quality of care; 9. efficiency care; and 10. equity in health. There is a considerable evidence base showing that primary care contributes through its dimensions to overall health system performance and health. Conclusions: A primary care system can be defined and approached as a multidimensional system contributing to overall health system performance and health

Gramene 2018: unifying comparative genomics and pathway resources for plant research

Gramene (http://www.gramene.org) is a knowledgebase for comparative functional analysis in major crops and model plant species. The current release, #54, includes over 1.7 million genes from 44 reference genomes, most of which were organized into 62,367 gene families through orthologous and paralogous gene classification, whole-genome alignments, and synteny. Additional gene annotations include ontology-based protein structure and function; genetic, epigenetic, and phenotypic diversity; and pathway associations. Gramene's Plant Reactome provides a knowledgebase of cellular-level plant pathway networks. Specifically, it uses curated rice reference pathways to derive pathway projections for an additional 66 species based on gene orthology, and facilitates display of gene expression, gene-gene interactions, and user-defined omics data in the context of these pathways. As a community portal, Gramene integrates best-of-class software and infrastructure components including the Ensembl genome browser, Reactome pathway browser, and Expression Atlas widgets, and undergoes periodic data and software upgrades. Via powerful, intuitive search interfaces, users can easily query across various portals and interactively analyze search results by clicking on diverse features such as genomic context, highly augmented gene trees, gene expression anatomograms, associated pathways, and external informatics resources. All data in Gramene are accessible through both visual and programmatic interfaces

Yeast Mitochondrial Biogenesis: A Role for the PUF RNA-Binding Protein Puf3p in mRNA Localization

The asymmetric localization of mRNA plays an important role in coordinating posttranscriptional events in eukaryotic cells. We investigated the peripheral mitochondrial localization of nuclear-encoded mRNAs (MLR) in various conditions in which the mRNA binding protein context and the translation efficiency were altered. We identified Puf3p, a Pumilio family RNA-binding protein, as the first trans-acting factor controlling the MLR phenomenon. This allowed the characterization of two classes of genes whose mRNAs are translated to the vicinity of mitochondria. Class I mRNAs (256 genes) have a Puf3p binding motif in their 3'UTR region and many of them have their MLR properties deeply affected by PUF3 deletion. Conversely, mutations in the Puf3p binding motif alter the mitochondrial localization of BCS1 mRNA. Class II mRNAs (224 genes) have no Puf3p binding site and their asymmetric localization is not affected by the absence of PUF3. In agreement with a co-translational import process, we observed that the presence of puromycin loosens the interactions between most of the MLR-mRNAs and mitochondria. Unexpectedly, cycloheximide, supposed to solidify translational complexes, turned out to destabilize a class of mRNA-mitochondria interactions. Classes I and II mRNAs, which are therefore transported to the mitochondria through different pathways, correlated with different functional modules. Indeed, Class I genes code principally for the assembly factors of respiratory chain complexes and the mitochondrial translation machinery (ribosomes and translation regulators). Class II genes encode proteins of the respiratory chain or proteins involved in metabolic pathways. Thus, MLR, which is intimately linked to translation control, and the activity of mRNA-binding proteins like Puf3p, may provide the conditions for a fine spatiotemporal control of mitochondrial protein import and mitochondrial protein complex assembly. This work therefore provides new openings for the global study of mitochondria biogenesis

Plant Reactome: a knowledgebase and resource for comparative pathway analysis

Plant Reactome (https://plantreactome.gramene.org) is an open-source, comparative plant pathway knowledgebase of the Gramene project. It uses Oryza sativa (rice) as a reference species for manual curation of pathways and extends pathway knowledge to another 82 plant species via gene-orthology projection using the Reactome data model and framework. It currently hosts 298 reference pathways, including metabolic and transport pathways, transcriptional networks, hormone signaling pathways, and plant developmental processes. In addition to browsing plant pathways, users can upload and analyze their omics data, such as the gene-expression data, and overlay curated or experimental gene-gene interaction data to extend pathway knowledge. The curation team actively engages researchers and students on gene and pathway curation by offering workshops and online tutorials. The Plant Reactome supports, implements and collaborates with the wider community to make data and tools related to genes, genomes, and pathways Findable, Accessible, Interoperable and Re-usable (FAIR)