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Book: ROS signaling in plants

Corpas, Francisco J. / Palma, José M.

methods and protocols

(Methods in molecular biology ; 2798 ; Springer protocols)

2024

Author's details	edited by Francisco J. Corpas, José M. Palma
Series title	Methods in molecular biology ; 2798 Springer protocols
Collection
Language	English
Size	xi, 266 Seiten, Illustrationen
Publisher	Humana Press
Publishing place	New York, NY
Publishing country	United States
Document type	Book
HBZ-ID	HT030726994
ISBN	9781071638255 ; 1071638254
Database	Catalogue ZB MED Medicine, Health

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Article ; Online: Milestones in Software Engineering and Knowledge Engineering History

Isabel M. del Águila / José Palma / Samuel Túnez

The Scientific World Journal, Vol

A Comparative Review

2014 Volume 2014

Keywords	Science ; Q ; Science (General) ; Q1-390
Publishing date	2014-01-01T00:00:00Z
Publisher	Hindawi Publishing Corporation
Document type	Article ; Online
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Article: Changes in Diversity and Community Composition of Root Endophytic Fungi Associated with

Guevara-Araya, María José / Escobedo, Víctor M / Palma-Onetto, Valeria / González-Teuber, Marcia

Plants (Basel, Switzerland)

2022 Volume 11, Issue 11

Abstract: Despite the widespread occurrence of fungal endophytes (FE) in plants inhabiting arid ecosystems, the environmental and soil factors that modulate changes in FE diversity and community composition along an aridity gradient have been little explored. We ... ...

Abstract	Despite the widespread occurrence of fungal endophytes (FE) in plants inhabiting arid ecosystems, the environmental and soil factors that modulate changes in FE diversity and community composition along an aridity gradient have been little explored. We studied three locations along the coast of the Atacama Desert in Chile, in which the plant
Language	English
Publishing date	2022-06-05
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2704341-1
ISSN	2223-7747
ISSN	2223-7747
DOI	10.3390/plants11111511
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Article ; Online: A Comprehensive Report of Intrinsically Disordered Regions in Inherited Retinal Diseases.

Lee, Karen E / Pulido, Jose S / da Palma, Mariana M / Procopio, Rebecca / Hufnagel, Robert B / Reynolds, Margaret

Genes

2023 Volume 14, Issue 8

Abstract: Background/purpose: A comprehensive review of the degree of disorder in all genes in the Retinal Information Network (RetNet) Database is implicated in inherited retinal diseases (IRDs). Their association with a missense variation was evaluated.: ... ...

Abstract	Background/purpose: A comprehensive review of the degree of disorder in all genes in the Retinal Information Network (RetNet) Database is implicated in inherited retinal diseases (IRDs). Their association with a missense variation was evaluated. Methods: IRD genes from RetNet were included in this study. Publicly available data on the genome aggregation database (gnomAD) were used to analyze the number of total and pathogenic missense variants. Metapredict, an accurate and high-performance predictor that reproduces consensus disorder scores, was used to calculate disorder. Main outcome measures: The main outcome measures were percent disorder, percent pathogenicity, number of total missense variants, and percent total missense variation. Results: We included 287 RetNet genes with relevant data available from gnomAD. Mean percent disorder was 26.3% ± 26.0%, mean percent pathogenicity was 5.2% ± 11.0%, mean number of total missense variants was 424.4 ± 450.0, and mean percent total missense was 50.0% ± 13.4%. The percent disorder followed a bimodal distribution with the highest number of occurrences in the 0 to 10th disorder decile. The five outlier proteins in the first disorder decile with a higher-than-expected number of total missense variation were identified (HMCN1, ADGRV, USH2A, DYNC2H1, LAMA1, and SLC38A8). When excluded, % total missense was significantly associated with percent disorder (R = 0.238 and Conclusions: This novel study examining all genes implicated in IRDs found that the majority genes had a disorder in the 0 to 10th decile and were relatively intolerant to missense variation. This may have future utility when interpreting variants of undetermined significance and missense variants.
MeSH term(s)	Humans ; Retina ; Retinal Diseases/genetics ; Usher Syndromes ; Databases, Factual ; Mutation, Missense
Language	English
Publishing date	2023-08-08
Publishing country	Switzerland
Document type	Review ; Journal Article
ZDB-ID	2527218-4
ISSN	2073-4425 ; 2073-4425
ISSN (online)	2073-4425
ISSN	2073-4425
DOI	10.3390/genes14081601
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Article ; Online: El uso diario de la profilaxis preexposición para el VIH en hombres gais, bisexuales y otros hombres que tienen sexo con hombres en España: prevalencia y factores asociados.

Moreno-García, Sara / Belza, M José / Iniesta, Carlos / González-Recio, Paule / Palma, David / Sordo, Luis / Pulido, Jose / Guerras, Juan Miguel

Medicina clinica

2023 Volume 162, Issue 3, Page(s) 95–102

Abstract: Objective: We aim to estimate the prevalence of daily HIV pre-exposure prophylaxis (PrEP) use 6 months after public funding approval in Spain and identify associated factors in a national sample of gay, bisexual and other men who have sex with men ( ... ...

Title translation	Daily use of HIV pre-exposure prophylaxis among gay, bisexual and other men who have sex with men in Spain: Prevalence and associated factors.
Abstract	Objective: We aim to estimate the prevalence of daily HIV pre-exposure prophylaxis (PrEP) use 6 months after public funding approval in Spain and identify associated factors in a national sample of gay, bisexual and other men who have sex with men (GBMSM). Material and methods: We analysed 4692 HIV-undiagnosed GBMSM men recruited via an online questionnaire distributed nationally via gay contact apps and websites between May and July 2020. We estimated the proportion of participants using daily PrEP and identified associated factors using Poisson regression with robust variance. Results: Daily PrEP use was reported by 2.8% (95% CI 2.3-3.3) of all participants. Daily PrEP use was independently associated with being recruited into community programmes, being older than 30 years, living in a large city, living with men, having condomless anal intercourse with more than 10 sexual partners, using drugs for sex, especially chemsex drugs, and being diagnosed with a sexually transmitted infection. Conclusion: Six months after PrEP was approved in Spain, the prevalence of daily use is low in a national sample of GBMSM men. There is a need to promote access, demand and interest in PrEP, especially among young GBMSM men, those living in small and medium-sized cities, and those who hide their relationships with other men.
MeSH term(s)	Male ; Humans ; Sexual and Gender Minorities ; Homosexuality, Male ; Pre-Exposure Prophylaxis ; Prevalence ; Spain/epidemiology ; HIV Infections/epidemiology ; HIV Infections/prevention & control ; Sexual Behavior
Language	Spanish
Publishing date	2023-10-08
Publishing country	Spain
Document type	Journal Article
ZDB-ID	411607-0
ISSN	1578-8989 ; 0025-7753
ISSN (online)	1578-8989
ISSN	0025-7753
DOI	10.1016/j.medcli.2023.08.002
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Article: Growth performance of the early life stages of broadânosed pipefish, Syngnathus typhle (L.) fed different live or frozen diets

Correia, Miguel / Jorge Palma / JosÃ© Pedro Andrade

Aquaculture research. 2016 May, v. 47, no. 5

2016

Abstract: ... Ratio (FCR) was 30Â Â±Â 1.5% and 28.2Â Â±Â 1.2% for animals fed P. varians and M. slabberi respectively ...

Abstract	This work tested the effect of using different live and frozen feed on the growth performance of Syngnathus typhle. It was divided into two experiments. In Experiment I Artemia and Atlantic ditch shrimp (Palaemonetes varians) larvae were used as live diets, whilst in Experiment II frozen mysids Mesopodopsis slabberi and frozen P. varians were used. At the end of the first experiment juvenile pipefish grew significantly more when fed P. varians (PÂ <Â 0.05) with an overall Weight Gain (WG) of 914.8Â Â±Â 79.3% bwÂ dayâ»Â¹, compared to Artemia fed fish (WGÂ =Â 683.2Â Â±Â 14.7%). Both mean Specific Growth Rate (SGR) and survival were similar between dietary treatments and did not vary significantly (PÂ >Â 0.05). In Experiment II juveniles were weaned with frozen diets but no significant differences were found between the two tested diets in all parameters tested. Final WG was 516.5Â Â± 63.3% and 566Â Â±Â 17.6%, and Feed Conversion Ratio (FCR) was 30Â Â±Â 1.5% and 28.2Â Â±Â 1.2% for animals fed P. varians and M. slabberi respectively. Results indicate that P. varians is an adequate diet to use during initial stages of the S. typhle life cycle and should be considered as a frozen diet for subsequent life stages of this species as an alternative to currently known natural diets.
Keywords	Artemia ; diet ; feed conversion ; fish ; growth performance ; juveniles ; larvae ; Palaemonetes ; shrimp ; specific growth rate ; Syngnathus typhle ; weight gain
Language	English
Dates of publication	2016-05
Size	p. 1652-1660.
Publishing place	Blackwell Science
Document type	Article
ZDB-ID	1227359-4
ISSN	1355-557X
ISSN	1355-557X
DOI	10.1111/are.12635
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Evolución clínica de los pacientes con infección asociada a dispositivos ortopédicos en tratamiento con presión negativa continua.

Quiroz-Williams, Jorge / Viveros-Encarnación, José R / Gaytán-Fernández, Suemmy / Barragán-Hervella, Rodolfo G / Rueda-Alvarado, Carlos R / Ramírez-Polanco, América / Martínez-Senda, M Paloma / Palma-Jaimes, Andrea M

Cirugia y cirujanos

2024

Abstract: Objective: To describe the use of negative pressure therapy with (TPNi) and without instillation (TPNs) as adjuvant treatment in the management of orthopedic device-associated infections (IADO).: Method: Analytic observational study of records of ... ...

Title translation	Clinical evolution of patients with infection associated with orthopedic devices in treatment with continuous negative pressure.
Abstract	Objective: To describe the use of negative pressure therapy with (TPNi) and without instillation (TPNs) as adjuvant treatment in the management of orthopedic device-associated infections (IADO). Method: Analytic observational study of records of patients with IADO managed with TPNi and TPNs with 0.9% saline solution, in patients > 18 years, operated on in 2018-2021. Clinical characteristics of infection, infectious agent as well as sociodemographic variables were evaluated. TPN was performed with the V.A.C. VERAFLO™ system. Analysis with χ2, Fisher and t-Student. Statistically accepted value p < 0.05. Results: Sample 40 patients. 75% male. Fractures 42.5% exposed and 57.5% closed. 92.5% applied prophylactic antibiotic (30-120 min). 35% plate implants, 12.5% centromedullary nail, 10% knee prosthesis and 12.5% hip. 47.5% bleeding < 500 ml. 72.5% surgical time of 2-4 hours. Previous hospitalization time, TPNs 3 weeks 55.9% and 4 weeks 26.5%; TPNi, 3 weeks 50% and 4 weeks 33.3%. Conservation of the implant 73.5% TPNs and 50% TPNi (p = 0.341). Wound closure 91.2% with TPNs and 100% with TPNi (p = 1.000). Conclusions: The use of TPNs and TPNi were useful as adjuvant treatments in the management of IADO, in addition they allowed to preserve the implant and wound closure in a large part of the patients.
Language	Spanish
Publishing date	2024-02-12
Publishing country	Mexico
Document type	English Abstract ; Journal Article
ZDB-ID	730699-4
ISSN	2444-054X ; 0009-7411
ISSN (online)	2444-054X
ISSN	0009-7411
DOI	10.24875/CIRU.23000248
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Article ; Online: Extensive gene loss parallels kidney aglomerulism in Syngnathidae.

Pinto, Bernardo / Machado, André M / Cordeiro, J Miguel / Kolbadinezhad, Salman Malakpour / Fonseca, Elza / Andrade, José Pedro / Palma, Jorge / Ruivo, Raquel / Monteiro, Nuno / Wilson, Jonathan M / Castro, L Filipe C

Current biology : CB

2023 Volume 33, Issue 20, Page(s) R1044–R1046

Abstract: The eccentric seahorses, seadragons, pipehorses and pipefishes (Syngnathidae) have an aglomerular ... ...

Abstract	The eccentric seahorses, seadragons, pipehorses and pipefishes (Syngnathidae) have an aglomerular kidney
MeSH term(s)	Animals ; Smegmamorpha/genetics ; Kidney
Language	English
Publishing date	2023-10-24
Publishing country	England
Document type	Journal Article
ZDB-ID	1071731-6
ISSN	1879-0445 ; 0960-9822
ISSN (online)	1879-0445
ISSN	0960-9822
DOI	10.1016/j.cub.2023.08.045
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Article ; Online: Utilización de Ricinus communis L. (higuerilla) en el desarrollo de sistemas silvopastoriles

José Manuel Palma-García

Avances en Investigación Agropecuaria, Vol 22, Iss 1, Pp 43-

2018 Volume 44

Abstract: ... que tiene una alta adaptación pues se encuentra desde nivel del mar hasta 2,600 m, con tolerancia a la sequía y alta ...

Abstract	Ricinus communis L. es una especie que es utilizada de forma mayoritaria con fines industriales, en particular en la obtención de biodiésel. Sin embargo, el objetivo del presente trabajo es proponer su utilización como forraje alternativo con potencial para el desarrollo de sistemas silvopastoriles. Es una especie que se puede utilizar tanto para pastoreo como en corte y acarreo, los rumiantes muestran una alta selectividad por la lámina de la hoja, evitan el consumo del pecíolo, tallos y frutos, dicha especie demuestra alta flexibilidad de su tallo en plantas jóvenes. La lámina de hojas de Ricinus communis, por su calidad nutrimental se puede considerar como un forraje proteico-energético dado que tiene un tenor de proteína cruda de 23 hasta 32 %; energía metabolizable de 2.7 a 2.9 Mcal/kg MS, con una alta degradabilidad in situ de la materia seca de 93 a 95 %, sin efectos detrimentales en bovinos, ovinos y caprinos, sin presencia de abortos, mortinatos o partos prematuros y con un límite de inclusión en las raciones de hasta 30 %, cuando se incrementa a 45 % se limita el consumo, se afecta el comportamiento productivo y genera diarreas mecánicas, sin intoxicaciones fatales, además es una especie cosmopolita que tiene una alta adaptación pues se encuentra desde nivel del mar hasta 2,600 m, con tolerancia a la sequía y alta plasticidad. Por lo antes descrito, se considera que esta especie es promisoria para el desarrollo de sistemas silvopastoriles.
Keywords	forraje ; proteína ; agroforestería ; energía ; rumiantes ; Agriculture (General) ; S1-972 ; Animal culture ; SF1-1100
Language	Spanish
Publishing date	2018-01-01T00:00:00Z
Publisher	Universidad de Colima
Document type	Article ; Online
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Article ; Online: Characterizing subgenome recombination and chromosomal imbalances in banana varietal lineages.

Higgins, Janet / Osorio-Guarín, Jaime Andrés / Olave-Achury, Carolina / Toloza-Moreno, Deisy Lisseth / Enriquez, Ayda / Di Palma, Federica / Yockteng, Roxana / De Vega, Jose J

Annals of botany

2023 Volume 133, Issue 2, Page(s) 349–364

Abstract: ... Musa acuminata, M. balbisiana and M. schizocarpa have provided the named A, B and S subgenomes that predominantly ...

Abstract	Background: Bananas and plantains (Musa spp.) are among the most important crops worldwide. The cultivated varieties are vegetatively propagated, so their genetic diversity is essentially fixed over time. Musa acuminata, M. balbisiana and M. schizocarpa have provided the named A, B and S subgenomes that predominantly constitute these varieties. Here we aimed to characterize intergenetic recombination and chromosomal imbalances between these A/B/S subgenomes, which often result in copy-number variants (CNVs) leading to changes in gene dosage and phenotype, in a diverse panel of bananas and plantains. This will allow us to characterize varietal lineages better and identify sources of genetic variation. Methods: We delimited population structure and clonal lineages in a diverse panel of 188 banana and plantain accessions from the most common cultivars using admixture, principal component and phylogenetic analyses. We used new scalable alignment-based methods, Relative Averaged Alignment (RAA) and Relative Coverage, to infer subgenome composition (AA, AAB, etc.) and interspecific recombination. Results: In our panel, we identified ten varietal lineages composed of somatic clones, plus three groups of tetraploid accessions. We identified chromosomal exchanges resulting in gains/losses in chromosomal segments (CNVs), particularly in AAB and ABB varieties. Conclusions: We demonstrated alignment-based RAA and Relative Coverage can identify subgenome composition and introgressions with similar results to more complex approaches based on single nucleotide polymorphism (SNP) databases. These ab initio species-agnostic methods can be used without sequencing a panel of wild ancestors to find private SNPs, or in recently diverged pools where private SNPs are uncommon. The extensive A/B/S exchanges and the variation in the length of some introgressions between lineages further support multiple foundational events of hybridization and residual backcrossing. Imbalances between A/B/S may have resulted in CNVs and gene dosage variation. Since most edible banana genomes are fixed on time, these CNVs are stable genetic variations probably associated with phenotypic variation for future genetic studies.
MeSH term(s)	Phylogeny ; Musa/genetics ; Genome, Plant/genetics ; Diploidy ; Recombination, Genetic/genetics
Language	English
Publishing date	2023-12-14
Publishing country	England
Document type	Journal Article
ZDB-ID	1461328-1
ISSN	1095-8290 ; 0305-7364
ISSN (online)	1095-8290
ISSN	0305-7364
DOI	10.1093/aob/mcad192
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