martes, 28 de junio de 2016

DEFENSA DE PAPER

Estimados estudiantes quiero comunicarles que solo esta disponible el dia miercoles como ven en la siguiente distribucion:;

LUNES
MARTES
MIERCOLES
JUEVES
VIERNES
Lesly (3)
Sara (7)

Julia (5)
Sindel (2)

domingo, 26 de junio de 2016

GRUPO 5 DE PAPER

Estimados estudiantes, el 5to grupo de paper aceptará a grupos de maximo 7 estudiantes con las siguientes condiciones:

a.  los grupos defenderan sus papers en un  dia en que ninguno de sus participantes tenga laboratorio de la materia
b.  las defensas se llevaran a cabo a las 17.30 (salvo en casos en que haya Consejo de Carrera)
c.  cualquier suspensión implica salida del grupo.

Se les pide enviar solicitud a la direccion biorolo@yahoo.es, mejor con una alternativa.



Paper
1.                The emerging role of native mass spectrometry in characterizing the structure and dynamics of macromolecular complexes (paper 3-5)
Abstract: Mass spectrometry (MS) is a powerful tool for determining the mass of biomolecules with
high accuracy and sensitivity. MS performed under so-called “native conditions” (native MS) can
be used to determine the mass of biomolecules that associate noncovalently. Here we review the
application of native MS to the study of protein2ligand interactions and its emerging role in elucidating
the structure of macromolecular assemblies, including soluble and membrane protein complexes.
Moreover, we discuss strategies aimed at determining the stoichiometry and topology of
subunits by inducing partial dissociation of the holo-complex. We also survey recent developments
in "native top-down MS", an approach based on Fourier Transform MS, whereby covalent bonds
are broken without disrupting non-covalent interactions. Given recent progress, native MS is anticipated
to play an increasingly important role for researchers interested in the structure of macromolecular
complexes.
2.                Combinatorial nanomedicines for colon cancer therapy (paper 3-6)
Colon cancer is one of the major causes of cancer deathsworldwide. Even after surgical resection and aggressive chemotherapy, 50% of colorectal carcinoma patients develop recurrent disease. Thus, the rationale of developing new therapeutic approaches to improve the current chemotherapeutic regimen would be highly recommended. There are reports on the effectiveness of combination chemotherapy in colon cancer and it has been practiced in clinics for long time. These approaches are associated with toxic side effects. Later, the drug delivery research had shown the potential of nanoencapsulation techniques and active targeting as an effective method to improve the effectiveness of chemotherapy with less toxicity. This current focus article provides a brief analysis of the ongoing research in the colon cancer area using the combinatorial nanomedicines and its outcome.
3.                DNA topoisomerase-directed anticancerous alkaloids: ADMET-based screening, molecular docking, and dynamics simulation
Topoisomerases (Topo I and II) have been looked as crucial targets against various types of cancers. In the present paper, 100 anticancerous alkaloids were subjected to in silico absorption, distribution, metabolism, excretion, and toxicity (ADMET) analyses to investigate their pharmacokinetic properties. Out of 100 alkaloids, only 18 were found to fulfill all the ADMET descriptors and obeyed the Lipinski’s rule of five. All the 18 alkaloids were found to dock successfully within the active site of both Topo I and II. A comparison of the inhibitory potential of 18 screened alkaloids with those of selected drugs revealed that four alkaloids (oliveroline, coptisine, aristolactam, and piperine) inhibited Topo I, whereas six alkaloids (oliveroline, aristolactam, anonaine, piperine, coptisine, and liriodenine) inhibited Topo II more strongly than those of their corresponding drugs, topotecan and etoposide, respectively, with oliveroline being the outstanding. The stability of the complexes of Topo I and II with the best docked alkaloid, oliveroline, was further analyzed using 10 nSec molecular dynamics simulation and compared with those of the respective drugs, namely, topotecan and etoposide, which revealed stabilization of these complexes within 5 nSec of simulation with better stability of Topo II complex than that of Topo I. C_ 2015 International Union of Biochemistry and Molecular biology

4.                Nuclear Selenoproteins and Genome Maintenance (paper 3-8)
Selenium is an essential metalloid required for the expression of selenoproteins. While cells are constantly challenged by clastogens of endogenous and exogenous origins, genome integrity is maintained by direct repair of DNA damage, redox balance, and epigenetic regulation. To date, only five selenoproteins are experimentally demonstrated to reside in nucleus, exclusively or partially, including selenoprotein H, methionine-R-sulfoxide reductase 1, glutathione peroxidase-4, thioredoxin reductase-1, and thioredoxin glutathione reductase. All these five selenoproteins have demonstrated or potential roles in redox regulation and genome maintenance. Selenoprotein H is known to transactivate the expression of a couple of genes against oxidative stress. The thioredoxin reductase-1b isoform delivers estrogen receptor-a and -b to the nucleus. Nuclear glutathione peroxidase-4 epigenetically and globally inhibits gene expression through the maintenance of chromatin compactness in testes. Continued studies on how these and additional nuclear selenoproteins regulate genome stability will have profound impact on advancing our understanding in selenium regulation of optimal health.
5.                Coprisin Exerts Antibacterial Effects by
Inducing Apoptosis-like Death in Escherichia coli (paper 3-9)
Apoptosis commonly occurs in eukaryotes to eliminate
unwanted cells. In this study, we demonstrated that coprisintreated
bacteria undergo cell death that is mechanistically and
morphologically similar to apoptosis in eukaryotes. Time-kill
kinetic assay against Escherichia coli indicated that coprisin
exerted bactericidal activity. The bactericidal mechanism was
studied by terminal deoxynucleotidyl transferase dUTP nick end
labeling analysis, followed by Western blotting. We confirmed
coprisin-induced DNA fragmentation and activation of the RecA
protein as a SOS response. Furthermore, FITC-VAD-FMK, FITCAnnexin
V, and bis-(1,3-dibutylbarbituric acid) trimethineoxonol
[DiBAC4(3)] staining showed that caspase-like protein(s), such
as RecA, were activated, and membrane alterations such as
phosphatidylserine externalization and cytoplasmic depolarization
were induced. Finally, 30-(p-hydroxyphenyl) fluorescein
assay indicated that depolarization of membrane potential leads
to hydroxyl radicals (•OH) formation. Based on these results,
we conclude that coprisin exerts bactericidal activity against E.
coli by causing severe DNA damage, which induces apoptosislike
death
6.                A Laboratory Exercise to Illustrate Protein–Membrane Interactions (paper 3-12)
The laboratory protocol presented here takes about 3 hours to perform and investigates protein and lipid interactions. Students first purify His6-tagged human apolipoprotein A-I (apoA-I) with Ni-NTA affinity resin in a simple batch protocol and prepare multilamellar vesicles (MLV) from predried phospholipid films. When apoA-I is added to the MLV, much smaller protein/lipid nanodisc complexes are formed in some instances. Nanodisc formation can be monitored by a decrease in light-scattering intensity at 340 nm using a simple spectrophotometer. Students will observe nanodisc formation with MLV formed from the anionic phospholipid dimyristoylphosphatidyl glycerol, which pack poorly into lipid bilayers, but not with MLV formed from the zwitterionic phospholipid dimyristoyl phosphatidylcholine, which form stable bilayers. This laboratory exercise is accompanied by questions and exercises that enable students a deeper of the dimensions of apoA-I and nanodiscs as well as the biological relevance of nanodisc formation in the process of reverse cholesterol transport.
7.                DNA barcoding: an efficient tool to overcome authentication challenges in the herbal market (paper 3-13)
The past couple of decades have witnessed global resurgence of herbal-based health care. As a result, the trade of raw drugs has surged globally. Accurate and fast scientific identification of the plant(s) is the key to success for the herbal drug industry. The conventional approach is to engage an expert taxonomist, who uses a mix of traditional and modern techniques for precise plant identification. However, for bulk identification at industrial scale, the process is protracted and time-consuming. DNA barcoding, on the other hand, offers an alternative and feasible taxonomic tool box for rapid and robust species identification. For the success of DNA barcode, the barcode loci must have sufficient information to differentiate unambiguously between closely related plant species and discover new cryptic species. For herbal plant identification, matK, rbcL, trnH-psbA, ITS, trnL-F, 5S-rRNA and 18S-rRNA have been used as successful DNA barcodes. Emerging advances in DNA barcoding coupled with next-generation sequencing and high-resolution melting curve analysis have paved the way for successful species-level resolution recovered from finished herbal products. Further, development of multilocus strategy and its application has provided new vistas to the DNA barcode-based plant identification for herbal drug industry. For successful and acceptable identification of herbal ingredients and a holistic quality control of the drug, DNA barcoding needs to work harmoniously with other components of the systems biology approach. We suggest that for effectively resolving authentication challenges associated with the herbal market, DNA barcoding must be used in conjunction with metabolomics along with need-based transcriptomics and proteomics.