An isotope dilution model for partitioning of phenylalanine and tyrosine uptake by the liver of lactating dairy cows

An isotope dilution model to describe the partitioning of phenylalanine (PHE) and tyrosine (TYR) in the bovine liver was developed. The model comprises four intracellular and six extracellular pools and various flows connecting these pools and external blood. Conservation of mass principles were applied to generate the fundamental equations describing the behaviour of the system in the steady state. The model was applied to datasets from multi-catheterised dairy cattle during a constant infusion of [1-13C] phenylalanine and [2,3,5,6-2H] tyrosine tracers. Model solutions described the extraction of PHE and TYR from the liver via the portal vein and hepatic artery. In addition, the exchange of free PHE and TYR between extracellular and intracellular pools was explained and the hydroxylation of PHE to TYR was estimated. The model was effective in providing information about the fates of PHE and TYR in the liver and could be used as part of a more complex system describing amino acid metabolism in the whole animal

KARAKTERISTIK PERKEMBANGAN PERI-URBAN DI KOTA KECIL

Previous research often perceived peri-urbanization as a spatial phenomenon that occurs in big cities, which creates problems for suburban areas. This article present empirical evidence of peri-urbanization in small city using the case of Tallunglipu District as a peri-urban area of Rantepao, North Toraja. Comparing the physical, social, and economic data ini 2010 and 2020 using a descriptive statistical analysis, this article found that the higher the physical, social, and economic change, the higher tendency of having a strong urban character, which indicates urbanization, and vice versa. The peri-urban development in Tallunglipu Distric can categorized into five typologies: (1) areas that have high changes in physical, social, and aspects, (2) area with high changes in physical and social aspects but low in economic aspects, (3) area with high changes in social aspect but low  on physical  and economic aspects, (4) area with high changes on physical aspect but low on social and economic aspects, (5) areas with low changes on physical, social, and economic aspects. Peri-urban typology based on the characteristics of level of changes can provide information for the government in formulating patterns of urban land use in peri-urban areas

Hubungan Kontrol Diri dengan Konformitas Siswa Selama Pembelajaran Daring di SMK Kristen Tagari Rantepao

Tujuan dari penelitian ini untuk mengetahui ada tidaknya hubungan antara kontrol diri dengan konformitas siswa kelas X gambar di SMK Kristen Tagari Rantepao. Teknik analisis data korelasi menggunakan Kendall’s Tau. Pengambilan sampel menggunakan teknik total sampling, yaitu seluruh siswa kelas X gambar yang berjumlah 64 siswa. Pengumpulan data menggunakan jenis skala skala kontrol diri dan konformitas. Hasil korelasi antara variabel kontrol diri dengan konformitas menunjukan r = 0,177 dengan nilai p = 0,046 sehingga dapat disimpulkan bahwa terdapat hubungan yang signifikan antara kontrol diri dengan konformitaf siswa kelas X gambar di SMK Kristen Tagari Rantepao

Phospho.ELM:a database of experimentally verified phosphorylation sites in eukaryotic proteins

BACKGROUND: Post-translational phosphorylation is one of the most common protein modifications. Phosphoserine, threonine and tyrosine residues play critical roles in the regulation of many cellular processes. The fast growing number of research reports on protein phosphorylation points to a general need for an accurate database dedicated to phosphorylation to provide easily retrievable information on phosphoproteins.DESCRIPTION: Phospho.ELM http://phospho.elm.eu.org is a new resource containing experimentally verified phosphorylation sites manually curated from the literature and is developed as part of the ELM (Eukaryotic Linear Motif) resource. Phospho.ELM constitutes the largest searchable collection of phosphorylation sites available to the research community. The Phospho.ELM entries store information about substrate proteins with the exact positions of residues known to be phosphorylated by cellular kinases. Additional annotation includes literature references, subcellular compartment, tissue distribution, and information about the signaling pathways involved as well as links to the molecular interaction database MINT. Phospho.ELM version 2.0 contains 1703 phosphorylation site instances for 556 phosphorylated proteins.CONCLUSION: Phospho.ELM will be a valuable tool both for molecular biologists working on protein phosphorylation sites and for bioinformaticians developing computational predictions on the specificity of phosphorylation reactions.</p

E-MSD: improving data deposition and structure quality

The Macromolecular Structure Database (MSD) () [H. Boutselakis, D. Dimitropoulos, J. Fillon, A. Golovin, K. Henrick, A. Hussain, J. Ionides, M. John, P. A. Keller, E. Krissinel et al. (2003) E-MSD: the European Bioinformatics Institute Macromolecular Structure Database. Nucleic Acids Res., 31, 458–462.] group is one of the three partners in the worldwide Protein DataBank (wwPDB), the consortium entrusted with the collation, maintenance and distribution of the global repository of macromolecular structure data [H. Berman, K. Henrick and H. Nakamura (2003) Announcing the worldwide Protein Data Bank. Nature Struct. Biol., 10, 980.]. Since its inception, the MSD group has worked with partners around the world to improve the quality of PDB data, through a clean up programme that addresses inconsistencies and inaccuracies in the legacy archive. The improvements in data quality in the legacy archive have been achieved largely through the creation of a unified data archive, in the form of a relational database that stores all of the data in the wwPDB. The three partners are working towards improving the tools and methods for the deposition of new data by the community at large. The implementation of the MSD database, together with the parallel development of improved tools and methodologies for data harvesting, validation and archival, has lead to significant improvements in the quality of data that enters the archive. Through this and related projects in the NMR and EM realms the MSD continues to improve the quality of publicly available structural data

The Caltech Tomography Database and Automatic Processing Pipeline

Here we describe the Caltech Tomography Database and automatic image processing pipeline, designed to process, store, display, and distribute electron tomographic data including tilt-series, sample information, data collection parameters, 3D reconstructions, correlated light microscope images, snapshots, segmentations, movies, and other associated files. Tilt-series are typically uploaded automatically during collection to a user’s “Inbox” and processed automatically, but can also be entered and processed in batches via scripts or file-by-file through an internet interface. As with the video website YouTube, each tilt-series is represented on the browsing page with a link to the full record, a thumbnail image and a video icon that delivers a movie of the tomogram in a pop-out window. Annotation tools allow users to add notes and snapshots. The database is fully searchable, and sets of tilt-series can be selected and re-processed, edited, or downloaded to a personal workstation. The results of further processing and snapshots of key results can be recorded in the database, automatically linked to the appropriate tilt-series. While the database is password-protected for local browsing and searching, datasets can be made public and individual files can be shared with collaborators over the Internet. Together these tools facilitate high-throughput tomography work by both individuals and groups

Archiving and disseminating integrative structure models.

Limitations in the applicability, accuracy, and precision of individual structure characterization methods can sometimes be overcome via an integrative modeling approach that relies on information from all available sources, including all available experimental data and prior models. The open-source Integrative Modeling Platform (IMP) is one piece of software that implements all computational aspects of integrative modeling. To maximize the impact of integrative structures, the coordinates should be made publicly available, as is already the case for structures based on X-ray crystallography, NMR spectroscopy, and electron microscopy. Moreover, the associated experimental data and modeling protocols should also be archived, such that the original results can easily be reproduced. Finally, it is essential that the integrative structures are validated as part of their publication and deposition. A number of research groups have already developed software to implement integrative modeling and have generated a number of structures, prompting the formation of an Integrative/Hybrid Methods Task Force. Following the recommendations of this task force, the existing PDBx/mmCIF data representation used for atomic PDB structures has been extended to address the requirements for archiving integrative structural models. This IHM-dictionary adds a flexible model representation, including coarse graining, models in multiple states and/or related by time or other order, and multiple input experimental information sources. A prototype archiving system called PDB-Dev ( https://pdb-dev.wwpdb.org ) has also been created to archive integrative structural models, together with a Python library to facilitate handling of integrative models in PDBx/mmCIF format

Comparison of Enriched Silvipasture and \u3cem\u3eCenchrus ciliaris\u3c/em\u3e Pasture with Natural Pasture in Ravenous Soils for Goat Production under Rainfed Conditions

Goat is a future animal and plays a crucial role in providing livelihood and supplementary income to resource poor farmers and landless labourers of rural India. Goat rearing also ensures self-employment and act as a cushion in present climate change phenomena like drought and famine. Goats are found more in ecologically fragile arid and semiarid areas. Hence, it is imperative to address goat production under present scenario of climate change and food scarcity. The diverse challenges and constraints as growing population, increasing food, feed and fodder needs, natural resources degradation, climate change demands a reorientation of our strategies for goat production and development of feed and fodder resources in the country by utilizing waste lands/ poor lands, because in our country goats are mainly depend on natural feed resources available on waste and degraded lands. The poor production potential of these lands and poor values of qualitative parameters of available vegetation on such lands hamper expression of production potential of Indian goats, side by side economic progress of goat keepers. Therefore, an attempt was made to develop feed resources under three models i.e., Silvipasture, sown pasture and natural vegetation stand (natural pasture) in Yamuna ravines of Mathura district of Uttar Pradesh

Analisis Keragaman Genetik Temulawak (Curcuma Xanthorrhiza Roxb.) Menggunakan Penanda Amplified Fragment Length Polymorphism (AFLP)

Curcuma xanthorrhiza Roxb, which is well-known as Java turmeric, has been extensively used in pharmaceutical industries in Indonesia. In spite of this commercial value, the identity of this species is commonly mistaken from other similar orange rhizomes Curcuma. Correct identity of these species is vital in pharmaceutical industries. The objective of the study was to determine genetic diversity of 32 accession Curcuma xanthorrhiza Roxb. Genomic DNA was extracted from leaf using Sodium Dodesyl Sulphate (SDS) modification. Amplified fragment length polymorphism (AFLP) was carried out according to the protocol ofAFLPTM plant mapping kit and the final polymerase chain reaction (PCR) products were separated using The Agilent 2100 Bioanalyzer. The number of fragment produced by 12 pairs primer combination of AFLP ranged from 42 to 60 with an average of 52. Data obtained was analyzed by the NTSys program. From the AFLP amplification on 32 DNA samples, it was proven that the accession of Curcuma xanthorrhiza Roxb. had a high degree of diversity. Based on analysis of AFLP and unweighted pair group with arithme average (UPGMA) it was shown that the accession of Curcuma xanthorrhiza Roxb. could be grouped into two cluster at relative ecludian distance of 0.10 (10%). Cluster I for accession from Palembang, Pacitan and Ciamis 2. Cluster II for accession from Makale, Pontianak, Kulonprogo, Mataram, Boyolali, Salatiga, Sumberejo, Bali, P. Seram, Sentolo, Purworejo, Samas Bantul, Ciamis1, Blora, Semarang, Poso, Kalsesl, Tagari, Merapi Farm, Salakaria, NTB, Menoreh, Karang Anyar, Mangunan, Medan, Toraja, dan Solok