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1.
Chaos ; 28(4): 043103, 2018 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-31906649

RESUMEN

Two diffusion processes with multiplicative noise, able to model the changes in the neuronal membrane depolarization between two consecutive spikes of a single neuron, are considered and compared. The processes have the same deterministic part but different stochastic components. The differences in the state-dependent variabilities, their asymptotic distributions, and the properties of the first-passage time across a constant threshold are investigated. Closed form expressions for the mean of the first-passage time of both processes are derived and applied to determine the role played by the parameters involved in the model. It is shown that for some values of the input parameters, the higher variability, given by the second moment, does not imply shorter mean first-passage time. The reason for that can be found in the complete shape of the stationary distribution of the two processes. Applications outside neuroscience are also mentioned.

3.
J Appl Clin Med Phys ; 12(4): 3538, 2011 Nov 15.
Artículo en Inglés | MEDLINE | ID: mdl-22089008

RESUMEN

A practical and accurate generalized procedure to reconstruct the isocenter dose D(iso) for 3D conformal radiotherapy (3DCRT) has been developed for X-ray open beams supplied by linacs of different manufacturers and equipped with aSi electronic portal imaging devices (aSi EPIDs). This paper reports an extension of the method, to be applied at the wedged X-ray beams characterized by the wedge attenuation factor W(AF). Using water-equivalent solid phantoms (SPs) of different thicknesses, w, and photon square fields of sizes, L, the generalized midplane doses D(0)(W(AF), w/2,L) and generalized transit signals s(t)(0)(W(AF),w,L) by 38 beams of six different linacs were determined. The generalized data were fitted by surface equations and used together with the information of the 'record & verify' network of the centers. In this manner, for every beam, the D(iso) reconstruction was obtained in about 25 seconds after the treatment. To test the in vivo dosimetric procedure, six pelvic treatments that used conformed wedged beams were carried out with three linacs of different manufacturers. For every beam, the comparison between the reconstructed D(iso) and the D(iso,TPS) computed by the TPS, resulted in an acceptable tolerance level of ±5%, estimated for this kind of treatment. Generally the in vivo dosimetry methods that use EPIDs require: (i) a special effort for the dosimetric commissioning with SPs of different thicknesses, and (ii) extra time for the analysis of the EPID signals. The proposed procedure simplifies the commissioning step and supplies for Varian, Elekta, and Siemens linacs equipped with the aSi EPIDs a quasi-real time in vivo dosimetry for open and wedged 3DCRT fields.


Asunto(s)
Radioterapia Conformacional/instrumentación , Procesamiento de Imagen Asistido por Computador , Fantasmas de Imagen , Fotones , Dosificación Radioterapéutica , Radioterapia Conformacional/métodos
4.
Gerontechnology ; 19(Suppl 1)2020 Oct 03.
Artículo en Inglés | MEDLINE | ID: mdl-33574738

RESUMEN

PURPOSE: It is estimated that 15.7% of people aged 60 years and older were subjected to some form of Elder Mistreatment (EM) globally (Yon et al., 2017). In the USA, as many as 1 in 24 EM cases are left unidentified by professionals, with a 300% increased mortality risk for older adults who do not receive help (National Center on Elder Abuse, n.d.; Dong, 2009). Current methods of screening tend to miss less obvious signs of EM and may discourage older adults from disclosing EM, due to either a lack of understanding of what constitutes mistreatment or fear of retaliation from the perpetrator. METHOD: Our approach shifts the focus of EM identification to the older adults themselves through an automated tablet-based tool. The Virtual cOaching in making Informed Choices on Elder Mistreatment Self-Disclosure (VOICES) tool includes various multimedia components such as videos, audio, and animations designed to educate and enhance screening. Patients screened as positive are guided through a Brief Negotiated Interview (BNI) utilizing motivational interviewing to assist in self-identification (recognize that they are experiencing elder mistreatment) or self-disclosure (inform others about their elder mistreatment experiences). During tool development, we conducted a qualitative study to evaluate the perceived value and likelihood of adopting a tablet-based approach to facilitate screening and self-disclosure of EM in the ED. We held 3 focus groups with stakeholders, including 24 adults 60 years or over, 2 social workers, 2 caregivers, and 2 ED clinicians. We used the findings from the focus groups and User-Centered Design approach (UCD) to develop the tablet-based screening tool. Once the tool was ready, we tested its usability and acceptability with 14 older adults. RESULTS AND DISCUSSION: Focus group participants supported use of a tablet-based tool to screen for EM, indicating that digital screening benefits from feelings of privacy and anonymity. On a 7-point Likert scale ranging from "1=Very Comfortable" to "7=Very Uncomfortable", older adults scored 2.8 on average for whether they would feel comfortable using a tablet device to screen for EM. Prominent suggestions made by older adults included using a female voice for the tool narrator, larger font size, more multimedia, headphones for privacy; and having someone available during screening for assistance if needed. Participants indicated that it is difficult for older adults experiencing EM to ask for help and that any type of mistreatment screening would be helpful. They also highlighted the need to explain community resources available to older adults once EM is disclosed, especially resources offering help to the caregiver. Participants of the usability evaluation rated the tool a mean score of 86.6 (median= 88.8, iQR =18.1) on the System Usability Scale (SUS), far above the benchmark SUS score of 68, which indicates that the system is "good" or "acceptable" (Bangor et al., 2008). Shifting the focus from the provider to the older adult may encourage self-disclosure of EM by addressing major barriers to traditional screening processes. In summary, this study supported the use of self-administered automated tablet-based screening for EM. Participants generally believed that the use of digital health tools to facilitate the screening process would be beneficial in the ED setting.

5.
Bone Marrow Transplant ; 40(6): 579-83, 2007 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-17637690

RESUMEN

Peg-filgrastim is a form of G-CSF with a sustained duration of action due to self-limited clearance. We administered 6 mg peg-filgrastim to 18 autograft recipients on day +1 after transplantation for hematologic malignancies. Plasma samples were collected at baseline and during transplantation. Hematopoietic recovery and clinical outcomes were compared to the historical data of 54 patients not receiving G-CSF. Patients receiving peg-filgrastim achieved a serum level of 115 000 pg/ml on day +2, 24 h after drug administration. Drug level maintained a plateau until day +8 and, after day +10, declined concomitantly with myeloid recovery. Patients experienced prompt neutrophil recovery: days +9 and +10 to 500 and 1000 neutrophils per microliter, and 4 days with an absolute neutrophil count <100 cells per microliter. Duration of antibiotic therapy was significantly shortened, but we did not observe significant differences in other end points. In conclusion, peg-filgrastim was well tolerated and efficacious, and hastened myeloid recovery.


Asunto(s)
Factor Estimulante de Colonias de Granulocitos/farmacocinética , Enfermedad de Hodgkin/tratamiento farmacológico , Linfoma no Hodgkin/tratamiento farmacológico , Trasplante de Células Madre de Sangre Periférica , Polietilenglicoles/farmacocinética , Adolescente , Adulto , Terapia Combinada , Femenino , Filgrastim , Factor Estimulante de Colonias de Granulocitos/administración & dosificación , Factor Estimulante de Colonias de Granulocitos/efectos adversos , Enfermedad de Hodgkin/terapia , Humanos , Recuento de Linfocitos , Linfoma no Hodgkin/terapia , Masculino , Persona de Mediana Edad , Neutrófilos/citología , Recuento de Plaquetas , Polietilenglicoles/administración & dosificación , Polietilenglicoles/efectos adversos , Proteínas Recombinantes , Recuperación de la Función/inmunología , Trasplante Autólogo , Resultado del Tratamiento
6.
Phys Med ; 23(1): 25-32, 2007 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-17568540

RESUMEN

A 2D array (PTW, type 10024), equipped with 729 vented plane parallel ion-chambers, has been calibrated as a detector for the in vivo comparison between measured and predicted portal doses for head-neck tumors. The comparison of absolute portal doses measured to ones predicted by a commercial treatment planning system within the field of view of the CT scanner, can help the delivered dose verification during different treatment fractions, in particular when the patient's present weight loss. This paper reports the preliminary results of the comparison of the portal doses measured by a PTW 2D array during several radiotherapy fractions and the predicted portal doses for seven patients undergoing head-neck tumor radiotherapy. The gamma index analysis supplied an agreement of more than 95% of the dose-point P(gamma)>95% within acceptance criteria, in terms of dose difference, DeltaD(max), and distance-agreement, Deltad(max), equal to 5% and 4mm, respectively. After the third week, one patient showed a decrease of P(gamma) values due to the markedly reduced patient's thickness. Even if the spatial resolution of the 2D array was 1cm, there were two advantages in the use of this 2D array as a portal dose device for IMRT quality control. The first one was the use of a stable and efficient absolute dosimeter for in vivo verification, although its construction and behavior for other gantry angles need to be tested, and the second one was the time efficiency in verifying the correct dose delivery in several fractions of the therapy. This study presents acceptance criteria for the comparison of TPS-predicted portal dose images with in vivo 2D ion-chamber measurements for IMRT. In particular, portal dose measurements offer clues for additional studies as to which indicators can signal the need for replanning during treatment.


Asunto(s)
Neoplasias de Cabeza y Cuello/radioterapia , Radiometría/instrumentación , Planificación de la Radioterapia Asistida por Computador/instrumentación , Radioterapia Conformacional/instrumentación , Transductores , Diseño de Equipo , Análisis de Falla de Equipo , Humanos , Dosificación Radioterapéutica , Planificación de la Radioterapia Asistida por Computador/métodos , Radioterapia Conformacional/métodos , Reproducibilidad de los Resultados , Sensibilidad y Especificidad
7.
Transl Med UniSa ; 16: 24-29, 2017 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-28775966

RESUMEN

Although there is evidence of a growing awareness of the problem, no official policy statements or regulatory guidelines on polypharmacy have been released up to date by Italian Health Authorities. Medication review, application of appropriateness criteria and computerized prescription support systems are all possible approaches in order to improve the quality of prescribing in older persons. More focused training courses on multimorbidity and polytherapy management are encouraged. Furthermore a multidisciplinary approach integrating different health care professionals (physicians, pharmacists, and nurses) may positively impact on reducing the sense of fear related to discontinue or substitute drugs prescribed by others; the fragmentation of therapy among different specialists; reducing costs; and improving adverse drug reaction detection and reporting. Aiming at achieving the individualized pharmacotherapy, a multidisciplinary approach starting with identification of patients and risk for drug-related problems, followed by medication review overtime and use of inappropriateness criteria, supported by computerized systems has been proposed.

8.
Clin Biochem ; 39(9): 888-92, 2006 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-16806146

RESUMEN

BACKGROUND: Vitamin D receptor (VDR) mediates the effects of vitamin D. Our paper evaluates the FokI and BsmI VDR genotypes in 246 Caucasian (Italian from Lazio Region) T1DM patients compared with 246 Caucasian healthy controls, sharing age and gender and regional provenience with the patients. In addition, T1DM patients without complications were compared with those carrying three complications. METHODS: Genotyping has been obtained by RFLP-PCR technique. RESULTS: A slight significant association of T1DM with FokI homozygous "f" genotype was observed. No association was observed with the presence of multiple complications by a multivariate analysis. CONCLUSION: T1DM patients showed slightly increased prevalence of "ff" VDR genotype.


Asunto(s)
Desoxirribonucleasas de Localización Especificada Tipo II/genética , Complicaciones de la Diabetes/genética , Diabetes Mellitus Tipo 1/genética , Polimorfismo Genético , Adulto , Factores de Edad , Estudios de Casos y Controles , Nefropatías Diabéticas/genética , Neuropatías Diabéticas/genética , Retinopatía Diabética/genética , Femenino , Genotipo , Humanos , Masculino , Persona de Mediana Edad , Análisis Multivariante , Análisis de Regresión
9.
Int J Lab Hematol ; 38(6): 685-693, 2016 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-27572141

RESUMEN

INTRODUCTION: The athlete biological passport (ABP) was implemented based on conservative requirements on sample storage and transport to ensure blood integrity. Blood remains stable over periods longer than the currently employed time limits. We investigated whether time and temperature requirements for sample storage can be used in a flexible model rather than based on fixed limits. METHODS: A literature review was performed analyzing the stability blood variables. A Blood Stability Score (BSS) was derived to integrate the direct dependence of the degradation rate on temperature. A validation study was then carried out in real testing conditions with antidoping blood samples. Upon sample reception, a full blood count was obtained, and then again after refrigeration for an extended period. RESULTS: A BSS formula integrating storage temperature (T) and collection to analysis time (CAT) was developed: BSS = CAT + 3 × T. In real testing conditions, negligible differences were observed for some variable as BSS values approached a score of 95, while no difference was observed in HGB and RET%. CONCLUSION: This study confirms that samples can be transported for longer periods and that the adaptive time and temperature approach as formalized in a rule that the BSS should not exceed 85 guarantees the stability of RBC variables used in the ABP.


Asunto(s)
Recolección de Muestras de Sangre/métodos , Control de Calidad , Manejo de Especímenes/métodos , Doping en los Deportes/prevención & control , Humanos , Refrigeración , Temperatura , Factores de Tiempo
10.
Biochim Biophys Acta ; 1037(2): 200-8, 1990 Feb 09.
Artículo en Inglés | MEDLINE | ID: mdl-2306473

RESUMEN

A new method has been devised for the complete hydrolysis of proteins with an extremely low level of racemization of amino acids. Proteins are incubated in 10 M HCl at a low temperature to obtain partial hydrolysis. They are then incubated with pronase and finally with leucine aminopeptidase and peptidyl-D-amino-acid hydrolase from Loligo vulgaris. The proposed method ensures the total hydrolysis of either purified proteins or proteins contained in a crude homogenate of animal or vegetable tissue. In both cases, the racemization of amino acids (expressed as rate of D form/D + L form X 100) was lower than 0.015% for aspartic acid and lower than 0.01% for other amino acids. D-Amino acids released from peptides or proteins were estimated with enzymatic methods based on the use of octopus D-aspartate oxidase or hog kidney D-amino acid oxidase; with these enzymes, 0.05 nmol of a D-amino acid was determined in the presence of up to 20 mumols of a mixture of L-amino acids (ratio %D/D + L = 0.00025). The method allows the determination of D-amino acids either in tissues in which they are present in high concentrations (as human cataract lenses, tooth enamel, etc.) or in those with low enantiomer content (as brain, erythrocytes, etc.). Using the method described, we hydrolyzed several synthetic peptides consisting of D- and L-amino acids and determined the amount of D-amino acids. In addition, we totally hydrolyzed all the nuclear proteins of human cataractous lenses. The amount of D-aspartic acid was 0.026 mumols/mg in lenses of women aged between 71 and 76 years and 0.0256 mumols/mg in lenses of men aged between 55 and 72 years. The D-aspartic acid measured corresponds to about 12% with respect to total aspartic acid.


Asunto(s)
Aminoácidos/metabolismo , Péptidos/metabolismo , Proteínas/metabolismo , Anciano , Alanina/análisis , Aminoácidos/aislamiento & purificación , Ácido Aspártico/análisis , Carboxipeptidasas , Catarata/metabolismo , Femenino , Humanos , Hidrólisis , Cristalino/análisis , Leucil Aminopeptidasa , Masculino , Persona de Mediana Edad , Pronasa , Espectrofotometría Ultravioleta , Temperatura
11.
J Am Coll Cardiol ; 27(3): 611-6, 1996 Mar 01.
Artículo en Inglés | MEDLINE | ID: mdl-8606272

RESUMEN

OBJECTIVES: This study sought to assess neutrophil activation in acute coronary syndromes and its relation to ischemic episodes. BACKGROUND: Neutrophil activation has been reported in unstable angina and acute myocardial infarction; however, it is not clear whether it is related exclusively to ischemia-reperfusion injury. METHODS: We measured the index of intracellular myeloperoxidase in 1) patients with unstable angina, myocardial infarction, variant angina and chronic stable angina and in normal subjects (protocol A); and 2) in patients with unstable angina and acute myocardial infarction during the first 4 days of the hospital period (protocol B). To assess whether neutrophil activation was triggered by ischemia, the myeloperoxidase intracellular index was analyzed before and after spontaneous ischemic episodes and before and after ischemia induced by an exercise stress test in 10 patients with chronic stable angina. In 11 patients with unstable angina, we also compared values of the myeloperoxidase intracellular index at entry with those after waning of symptoms. RESULTS: In protocol A, the myeloperoxidase intracellular index was significantly reduced in patients with unstable angina and acute myocardial infarction compared with patients with stable and variant angina and normal subjects (p < 0.01). In protocol B, the myeloperoxidase intracellular index did not change over time in patients with unstable angina and myocardial infarction. However, in 11 patients with waning symptoms, the myeloperoxidase intracellular index was significantly higher afer symptoms had waned (p < 0.05). In patients with unstable angina, 23 ischemic episodes were studied; no changes in the myeloperoxidase intracellular index were observed. In 10 patients with chronic stable angina and positive exercise stress test results, no significant differences in the myeloperoxidase intracellular index were observed after stress-induced ischemia. CONCLUSIONS: Our study confirms that neutrophils are activated in acute coronary syndromes but suggests that their activation may not be only secondary to ischemia-reperfusion injury.


Asunto(s)
Angina Inestable/enzimología , Infarto del Miocardio/enzimología , Activación Neutrófila , Neutrófilos/enzimología , Peroxidasa/metabolismo , Adulto , Anciano , Angina Pectoris Variable/enzimología , Angina Inestable/sangre , Prueba de Esfuerzo , Femenino , Humanos , Masculino , Persona de Mediana Edad , Infarto del Miocardio/sangre , Isquemia Miocárdica/enzimología , Daño por Reperfusión Miocárdica/enzimología , Factores de Tiempo
12.
Minerva Ginecol ; 57(2): 111-29, 2005 Apr.
Artículo en Italiano | MEDLINE | ID: mdl-15940072

RESUMEN

Postpartum hemorrhage, frequently due to uterine atony, is an important cause of maternal death and morbidity. The knowledge of causes, of antenatal and intrapartum risk factors and of physiopathological changes in hemodynamics and coagulation during pregnancy are essential for the management of the condition. At the present time, many efforts are made to organize a multidisciplinary approach to this complication of delivery involving clinical and laboratory staffs, since the rapid correction of hypovolemia, the diagnosis and treatment of defective coagulation, the surgical and pharmacological control of bleeding are mandatory. Several medical options have been developed and the surgical management includes traditional and newer conservative procedures with variable success rates. The developments in the treatment of postpartum hemorrhage may reduce hysterectomy that is to be considered the last resort to resolve the hemorrhage in some cases. In the modern management of postpartum hemorrhage protocols and guidelines should be available in every delivery room.


Asunto(s)
Hemorragia Posparto/fisiopatología , Hemorragia Posparto/terapia , Embolización Terapéutica/métodos , Femenino , Hemodinámica/fisiología , Humanos , Histerectomía , Hemorragia Posparto/cirugía , Embarazo
13.
Transplant Proc ; 47(7): 2245-7, 2015 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-26361690

RESUMEN

Cat-scratch disease (CSD) is caused by Bartonella henselae and characterized by self-limited fever and granulomatous lymphadenopathy. In some cases signs of a visceral, neurologic, and ocular involvement can also be encountered. In this report we describe the development of CSD in a kidney transplant patient. Immunocompromised hosts are more susceptible to infection from Bartonella compared with the standard population. Infection of Bartonella should be considered as a differential diagnosis in kidney transplant patients with lymphadenopathy of unknown origin.


Asunto(s)
Enfermedad por Rasguño de Gato/diagnóstico , Trasplante de Riñón/efectos adversos , Enfermedades Linfáticas/diagnóstico , Insuficiencia Renal/complicaciones , Animales , Bartonella henselae , Enfermedad por Rasguño de Gato/microbiología , Enfermedad por Rasguño de Gato/terapia , Gatos , Diagnóstico Diferencial , Fiebre/diagnóstico , Humanos , Huésped Inmunocomprometido , Inmunosupresores/uso terapéutico , Enfermedades Linfáticas/complicaciones , Enfermedades Linfáticas/etiología , Masculino , Persona de Mediana Edad , Insuficiencia Renal/cirugía
14.
Gene ; 110(1): 81-8, 1992 Jan 02.
Artículo en Inglés | MEDLINE | ID: mdl-1544580

RESUMEN

We have investigated the compositional distributions of third codon positions of genes from the 16 prokaryotes and seven eukaryotes for which the largest numbers of coding sequences are available in data banks. In prokaryotes, both narrow and broad distributions were found. In eukaryotes, distributions were very broad (except for Saccharomyces cerevisiae) and remarkably different for different genomes. In low-GC genomes, third codon positions were lower in GC than first + second codon positions and trailed towards high GC; the opposite situation was found for high-GC genomes. In all genomes, first codon positions were higher in GC than second codon positions. We then investigated the compositional correlations between third and first + second codon positions in prokaryotic genomes (the 16 mentioned above plus 87 additional ones) and in genome compartments of eukaryotes. A general, common relationship was found, which also holds within the same (heterogeneous) genomes. This universal correlation is due to the fact that the relative effects of compositional constraints on different codon positions are the same, on the average, whatever the genome under consideration.


Asunto(s)
Composición de Base , Codón , Células Eucariotas/química , Células Procariotas/química , Animales , Humanos , Homología de Secuencia de Ácido Nucleico
15.
Gene ; 261(1): 71-83, 2000 Dec 30.
Artículo en Inglés | MEDLINE | ID: mdl-11164039

RESUMEN

The genomes of the ancestors of mammals and birds underwent a compositional change in which the gene-richest regions increased their GC levels. Here we investigated this compositional transition by analyzing the levels of G and C in third codon positions, as well as the codon frequencies of orthologous genes from human, chicken and Xenopus. The results may be summed up as follows: (i) GC-poor genes, that did not undergo the compositional transition, showed only minor differences in orthologous sets from Xenopus, human and chicken; this is remarkable in view of the very many nucleotide substitutions that occurred over the long evolutionary times separating these species; (ii) GC-rich genes, that underwent the compositional transition, showed large differences between Xenopus and warm-blooded vertebrates, but not between chicken and human. In other words, the independent changes that occurred in avian and mammalian genes, on the average, were the same.


Asunto(s)
Composición de Base/genética , Genoma , Vertebrados/genética , Aminoácidos/genética , Animales , Pollos , Codón/genética , Bases de Datos Factuales , Frecuencia de los Genes , Genes/genética , Humanos , Filogenia , Xenopus
16.
Gene ; 238(1): 3-14, 1999 Sep 30.
Artículo en Inglés | MEDLINE | ID: mdl-10570978

RESUMEN

The "universal correlation" (D'Onofrio, G., Bernardi, G., 1992. A universal compositional correlation among codon positions. Gene 110, 81-88.) that holds between and or ( values are the average values of the coding sequences of each genome analyzed) at both the inter- and intra-genomic level, was re-analyzed on a vastly larger dataset. The results showed a slight, but significant, difference in the vs. correlations exhibited by prokaryotes and eukaryotes. This finding prompted an analysis of the correlation between and the amino acid frequencies in the encoded proteins, which has shown that positive correlations exist between values of coding sequences and the hydropathy of the corresponding proteins. These correlations are due to the fact that hydrophobic and amphypathic amino acids increase, whereas hydrophilic amino acids decrease with increasing values. Hydropathy values of prokaryotic proteins are systematically higher than those of eukaryotes, but the slopes of the regression lines are identical. The lower hydrophobicity of eukaryotic proteins is due to differences in the amino acid composition. In particular, the twofold higher cysteine (and disulfide bond) level of eukaryotic proteins compared to prokaryotic proteins most probably compensates for their lower hydrophobicity. This supports the viewpoint that hydrophobicity plays a structural and functional role as far as protein stability is concerned.


Asunto(s)
Composición de Base , Proteínas/química , Aminoácidos/química , Secuencia de Bases , Codón , Genoma , Proteínas/genética
17.
Gene ; 238(1): 15-21, 1999 Sep 30.
Artículo en Inglés | MEDLINE | ID: mdl-10570979

RESUMEN

A compositional transition was previously detected by comparing orthologous coding sequences from cold- and warm-blooded vertebrates (see Bernardi, G., Hughes, S., Mouchiroud, D., 1997. The major compositional transitions in the vertebrate genome. J. Mol. Evol. 44, S44-S51 for a review). The transition is characterized by higher GC levels (GC is the molar ratio of guanine+cytosine in DNA) and, especially, by higher GC3 levels (GC3 is the GC level of third codon positions) in coding sequences from warm-blooded vertebrates. This transition essentially affects GC-rich genes, although the nucleotide substitution rate is of the same order of magnitude in both GC-poor and GC-rich genes. In order to understand the evolutionary basis of the changes, we have compared the hydrophobicity of orthologous proteins from Xenopus and human. Although the differences are small in proteins encoded by coding sequences ranging from 0 to 65% in GC3, they are large in the proteins encoded by sequences characterized by GC3 values higher than 65%. The latter proteins are more hydrophobic in human than in Xenopus.


Asunto(s)
Proteínas/química , Secuencia de Aminoácidos , Animales , Bovinos , Humanos , Datos de Secuencia Molecular , Agua/química , Xenopus
18.
Gene ; 100: 181-7, 1991 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-2055469

RESUMEN

Previous investigations on the human genome determined: (i) the base compositions (GC levels) and the relative amounts of its isochore families; (ii) the compositional correlations (i.e., the correlations between GC levels) between third codon positions of a set of genes and the DNA fractions in which the genes were localized; and (iii) the compositional correlations between (a) third and first + second codon positions, as well as that between (b) introns and exons from the set of 'localized genes' and from all the coding sequences and genes (genomic sequences of exons + introns) available in gene banks. Here, we have shown that the correlations (iii, a and b) for 'localized genes' and genes from the bank are in full agreement, indicating that the former set is representative of the latter. We have then used the data (i) and the correlation (ii) to estimate the distribution of genes in isochore families. We have found that 34% of the genes are located in the GC-poor isochores (which represent 62% of the genome), 38% in the GC-rich isochores (31% of the genome) and 28% in the GC-richest isochores (3% of the genome). There is, therefore, a compositional gradient of gene concentration in the human genome. The gene density in the GC-richest 3% of the genome is about eight times higher than in the GC-rich 31%, and about 16 times higher than in the GC-poorest 62%.


Asunto(s)
Genes , Genoma Humano , Composición de Base , Codón , Exones , Humanos , Intrones , Modelos Genéticos
19.
Gene ; 238(1): 23-31, 1999 Sep 30.
Artículo en Inglés | MEDLINE | ID: mdl-10570980

RESUMEN

We investigated the relationships between the nucleotide substitution rates and the predicted secondary structures in the three states representation (alpha-helix, beta-sheet, and coil). The analysis was carried out on 34 alignments, each of which comprised sequences belonging to at least four different mammalian orders. The rates of synonymous substitution were found to be significantly different in regions predicted to be alpha-helix, beta-sheet, or coil. Likewise, the nonsynonymous rates also differ, although expectedly at a lower extent, in the three types of secondary structure, suggesting that different selective constraints associated with the different structures are affecting in a similar way the synonymous and nonsynonymous rates. Moreover, the base composition of the third codon positions is different in coding sequence regions corresponding to different secondary structures of proteins.


Asunto(s)
Composición de Base , Codón , Mutación , Estructura Secundaria de Proteína , Animales , Mamíferos
20.
Gene ; 261(1): 63-9, 2000 Dec 30.
Artículo en Inglés | MEDLINE | ID: mdl-11164038

RESUMEN

The nucleotide frequencies in the second codon positions of genes are remarkably different for the coding regions that correspond to different secondary structures in the encoded proteins, namely, helix, beta-strand and aperiodic structures. Indeed, hydrophobic and hydrophilic amino acids are encoded by codons having U or A, respectively, in their second position. Moreover, the beta-strand structure is strongly hydrophobic, while aperiodic structures contain more hydrophilic amino acids. The relationship between nucleotide frequencies and protein secondary structures is associated not only with the physico-chemical properties of these structures but also with the organisation of the genetic code. In fact, this organisation seems to have evolved so as to preserve the secondary structures of proteins by preventing deleterious amino acid substitutions that could modify the physico-chemical properties required for an optimal structure.


Asunto(s)
Codón/genética , Genes/genética , Proteínas/genética , Fenómenos Químicos , Química Física , Evolución Molecular , Código Genético/genética , Humanos , Peso Molecular , Células Procariotas , Estructura Secundaria de Proteína , Proteínas/química , Relación Estructura-Actividad
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