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Proteomics for discovery of candidate colorectal cancer biomarkers

World Journal of Gastroenterology 2014年第14期20卷 3804-3824页

作者： Paula lvarez-Chaver Olalla Otero-Estévez María Páez de la Cadena Francisco J Rodríguez-Berrocal Vicenta S Martínez-Zorzano unidad de Proteómica Servicio de Determinación EstructuralProteómica y GenómicaCentro de Apoyo Científico y Tecnológico a la InvestigaciónUniversidad de VigoCampus As Lagoas-Marcosende área de bioquímica y biología molecular Departamento de BioquímicaGenética e InmunologíaFacultad de BiologíaUniversidad de VigoCampus As Lagoas-Marcosende

Colorectal cancer(CRC)is the second most common cause of cancer-related deaths in Europe and other Western countries,mainly due to the lack of wellvalidated clinically useful biomarkers with enough sensitivity and specificity to detect this disease at early *** it is well known that the pathogenesis of CRC is a progressive accumulation of mutations in multiple genes,much less is known at the proteome ***,in the last years many proteomic studies have been conducted to find new candidate protein biomarkers for diagnosis,prognosis and as therapeutic targets for this malignancy,as well as to elucidate the molecular mechanisms of colorectal *** important advantage of the proteomic approaches is the capacity to look for multiple differentially expressed proteins in a single *** review provides an overview of the recent reports describing the different proteomic tools used for the discovery of new protein markers for CRC such as two-dimensional electrophoresis methods,quantitative mass spectrometry-based techniques or protein ***,we will also focus on the diverse biological samples used for CRC biomarker discovery such as tissue,serum and faeces,besides cell lines and murine models,discussing their advantages and disadvantages,and summarize the most frequently identified candidate CRC markers.

关键词： Colorectal cancer Serum Tissue Proteins Biomarkers Proteomics Protein identification Mass spectrometry

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Hepatogenic differentiation of human mesenchymal stem cells from adipose tissue in comparison with bone marrow mesenchymal stem cells

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World Journal of Gastroenterology 2006年第36期12卷 5834-5845页

作者： Raquel Taléns-Visconti Ana Bonora Ramiro Jover Vicente Mirabet Francisco Carbonell José Vicente Castell María José Gómez-Lechón unidad de Hepatología Experimental Centro de Investigación Hospital La Fe Valencia Spain departamento de bioquímica y biología molecular Universidad de Valencia Valencia Spain. Unidad de Hepatología Experimental Centro de Investigación Hospital La Fe Valencia Spain Centro de Transfusión de la Comunidad Valenciana Generalidad ValencianaValencia Spain unidad de Hepatología Experimental Centro de Investigación Hospital La Fe Valencia.Spain. Departamento de Bioquímica y Biología Molecular Universidad de Valencia Valencia Spain unidad de Hepatología Experi-mental Centro de Investigación Hospital La Fe Valencia Spain

AIM： To investigate and compare the hepatogenic transdifferentiation of adipose tissue-derived stem cells （ADSC） and bone marrow-derived mesenchymal stem cells （BMSC） in vitro. Transdifferentiation of BMSC into hepatic cells in vivo has been described. Adipose tissue represents an accessible source of ADSC, with similar characteristics to BMSC. METHODS： BMSCs were obtained from patients undergoing total hip arthroplasty and ADSC from human adipose tissue obtained from lipectomy. Cells were grown in medium containing 15% human serum. Cultures were serum deprived for 2 d before cultivating under similar pro-hepatogenic conditions to those of liver development using a 2-step protocol with sequential addition of growth factors, cytokines and hormones. Hepatic differentiation was RT-PCR-assessed and liver-marker genes were immunohistochemically ***： BMSC and ADSC exhibited a fibroblastic morphology that changed to a polygonal shape when cells differentiated. Expression of stem cell marker Thyl decreased in differentiated ADSC and BMSC. However, the expression of the hepatic markers, albumin and CyPs increased to a similar extent in differentiated BMSC and ADSC. Hepatic gene activation could be attributed to increased liver-enriched transcription factors （C/EBPβ and HNF4α）, as demonstrated by adenoviral expression ***： Mesenchymal stem cells can be induced to hepatogenic transdifferentiation in vitro. ADSCs have a similar hepatogenic differentiation potential to BMSC, but a longer culture period and higher proliferation capacity. Therefore, adipose tissue may be an ideal source of large amounts of autologous stem cells, and may become an alternative for hepatocyte regeneration, liver cell transplantation or preclinical drug testing.

关键词： Mesenchymal stem cells Bone marrow Adipose tissue Transdifferentiation Hepatic lineage Liver cell transplantation.

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The combination of a microbial and a non-microbial biostimulant increases yield in lettuce(Lactuca sativa) under salt stress conditions by up-regulating cytokinin biosynthesis

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Journal of Integrative Plant biology 2024年第10期66卷 2140-2157页

作者： Patricia Benito Marina Celdrán Javier Bellón Vicente Arbona Miguel González-Guzmán Rosa Porcel Lynne yenush José M.Mulet Instituto de biología molecular y Celular de plantas(IBMCP) Universitat Politècnica de València-Consejo Superior de Investigaciones CientíficasValencia 46022Spain Caldic Ibérica S.L.Barcelona 08210Spain department of biología Bioquímica y Ciencias NaturalesUniversitat Jaume ICampus Riu SecE-Castellón 12071Spain

Salinization poses a significant challenge in agriculture, exacerbated by anthropogenic global warming. Biostimulants, derived from living microorganisms or natural extracts, have emerged as valuable tools for conventional and organic ***, our understanding of the molecular mechanisms underlying the effects of biostimulants is very limited, especially in crops under real cultivation conditions. In this study, we adopted an integrative approach to investigate the effectiveness of the combined application of plant growth-promoting bacterium(Bacillus megaterium strain BM08) and a non-microbial biostimulant under control conditions(normal watering) and salt stress. After confirming the yield increase under both conditions, we investigated the molecular mechanisms underlying the observed effect by measuring a number of physiological parameters(i.e., lipid peroxidation, antioxidants,chlorophylls, total phenolics and phytohormone content), as well as RNA sequencing and primary metabolite analyses. Our findings reveal that the combined effect of the microbial and non-microbial biostimulants led to a decrease in the antioxidant response and an up-regulation of genes involved in cytokinin biosynthesis under salt stress ***, in turn, resulted in a higher concentration of the bioactive cytokinin, isopentenyladenosine, in roots and leaves and an increase in γ-aminobutyric acid, a non-proteic amino acid related to abiotic stress responses. In addition, we observed a decrease in malic acid, along with an abscisic acid(ABA)-independent up-regulation of SR-kinases, a family of protein kinases associated with abiotic stress responses. Furthermore, we observed that the single application of the non-microbial biostimulant triggers an ABA-dependent response under salt stress;however, when combined with the microbial biostimulant, it potentiated the mechanisms triggered by the BM08 bacterial strain. This comprehensive investigation shows that the combination o

关键词： abscisic acid biostimulants cytokinins isopentenyl adenosine lettuce salt stress

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Differential Expression of Genes Related to Fruit development and Capsaicinoids Synthesis in Habanero Pepper Plants Grown in Contrasting Soil Types

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Phyton-International Journal of Experimental Botany 2024年第2期93卷 151-183页

作者： Eduardo Burgos-Valencia Federico García-Laynes Ileana Echevarría-Machado Fatima Medina-Lara Miriam Monforte-González JoséNarváez-Zapata Manuel Martínez-Estévez unidad de bioquímica y biología molecular de plantas Centro de Investigación Científica de YucatánCalle 43#130Chuburnáde HidalgoMéridaYucatán97205México Instituto Politécnico Nacional-Centro de Biotecnología Genómica Blvd Del Maestro esq.Elias PiñaReynosaTamaulipas88710México

Habanero pepper(Capsicum chinense Jacq.)is a crop of economic relevance in the Peninsula of *** fruits have a high level of capsaicinoids compared to peppers grown in other regions of the world,which gives them industrial *** is an important factor that affects pepper development,nutritional quality,and capsaicinoid ***,the effect of soil type on fruit development and capsaicinoid metabolism has been little *** work aimed to compare the effect of soils with contrasting characteristics,black soil(BS)and red soil(RS),on the expression of genes related to the development of fruits,and capsaicinoid synthesis using a transcriptomic analysis of the habanero pepper *** growing in RS had bigger fruits and higher expression of genes related to floral development,fruit abscission,and softening which suggests that RS stimulates fruit development from early stages until maturation *** from plants growing in BS had enrichment in metabolic pathways related to growth,sugars,and ***,these fruits had higher capsaicinoid accumulation at 25 days post-anthesis,and higher expression of genes related to the branched-chain amino acids metabolism(ketol-acid reductisomerase KARI),pentose phosphate pathway and production of NADPH(glucose-6-phosphate-1-dehydrogenase G6PDH),and proteasome and vesicular traffic in cells(26S proteasome regulatory subunit T4 RPT4),which suggest that BS is better in the early stimulation of pathways related to the nutritional quality and capsaicinoid metabolism in the fruits.

关键词： Capsicum chinense jacq soil types plant growth environmental conditions fruit quality capsaicinoid metabolism transcriptome

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Natural variation in maize ZmLecRK1 fine-tunes co-receptor interactions to boost immunity

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molecular Plant 2024年第12期17卷 1797-1799页

作者： Miguel-Ángel Torres Lucía Jordá Centro de Biotecnología y Genómica de plantas Universidad Politécnica de Madrid(UPM)-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria(INIA/CSIC)Campus de Montegancedo UPM28223 Pozuelo de Alarcón(Madrid)Spain departamento de Biotecnología-biología Vegetal Escuela Técnica Superior de Ingeniería AgronómicaAlimentaría y de BiosistemasUPM28040 MadridSpain

Pattern recognition receptors(PRRs)are integral to plant immunity,functioning as the first line of defense against *** these,receptor kinases(RKs)play a critical role in recognizing external signals and initiating immune *** studies by Li et al.(2024)have identified the G-type lectin RK ZmLecRK1 in maize as essential for resistance to Pythium aphanidermatum and other fungal pathogens.A key finding is that a resistant variant of ZmLecRK1,which carries an alanine at position 404,has emerged in maize,while the ancestral form,with a serine at this position,is conserved across most *** amino acid substitution significantly influences the interaction with the co-receptor BRASSINOSTEROID INSENSITIVE 1-ASSOCIATED RECEPTOR KINASE 1(BAK1),enhancing immune complex formation and subsequent defense *** work underscores the importance of genetic variation in enhancing disease resistance,offering potential strategies for crop improvement through targeted genetic modification.

关键词： immunity offering maize

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Effect of Water Stress Induced by Polyethylene Glycol on Growth, Proline Accumulation in Agave americana L.

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Phyton-International Journal of Experimental Botany 2023年第2期92卷 629-643页

作者： Alfaro-Corres Arnoldo Enrique Lecona-Guzman Carlos Alberto Gutiérrez-Miceli Federico Antonio Martínez-Esteves Manuel Silverio-Gómez María del Carmen Medina-Lara María de Fátima Ruiz-Lau Nancy Laboratorio de Biotecnología vegetal Instituto Tecnológico de Tuxtla GutiérrezTuxtla Gutiérrez29050México Centro de Investigación Científica de yucatán Unidad de Bioquímica y Biología Molecular de PlantasMérida97205México Insituto Nacional de Investigaciones Forestales Agrícolas y PecuariasHuimanguilloTabasco86400México CONACyT-Tecnológico Nacional de México/Instituto Tecnológico de Tuxtla Gutiérrez Tuxtla Gutiérrez29050México

The effect of water deficit was determined on both in vitro and soil seedling as well as in cells in suspension of Agave americana *** order to do the establishment of cells,the formation of callus was induced;for it two auxins were evaluated:2,4-dichlorophenoxyacetic acid(2,4-D)and 4-mino-3,5,6-trichloropicolinic acid(picloram)at three concentrations(0.25,0.5 and 0.75 mg L−1)in three explants(leaf,root and meristems)cultured in MS semisolid *** callogenesis response was related to the type and section of the explant,as well as the regulator used,and a cell suspension was established using 0.5 mg L−1 naphthaleneacetic acid(NAA)+0.5 mg L−1 Benzylaminopurine(BAP).Seedlings were exposed to polyethyleneglycol(15%and 30%w/v)with a water potential of−0.87 and−2.67 MPa,respectively,under soil *** stress was applied through restricted *** weight,root system growth,and chlorophyll concentration were some of the parameters that were affected by the effect of water deficit on *** *** concentration values were significantly decreased by 15 at 30%PEG(19.6 SPAD units)compared to the control *** in vitro plants,the highest concentration of proline was found in the roots,being the treatment with 30%polyethylene glycol where the highest concentration of this osmoregulator was obtained(62.5 mg g−1 DW).Under restricted irrigation conditions,an increase in proline concentration was observed both in the aerial part(2.2μg 100 g−1 DW)and in the root system(1.8μg 100 g−1 DW).However,the concentrations found were approximately ten times greater,less than those found under in vitro ***,the accumulation of proline can be considered an indicator of stress in Agave Americana *** in vitro.

关键词： Agave americana water deficit proline

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The dorsal root ganglion as a target for neurorestoration in neuropathic pain

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Neural Regeneration Research 2024年第2期19卷 296-301页

作者： Guillermo Estivill-Torrús Ana Belen Martínez-Padilla Lourdes Sánchez-Salido Anne Baron-Van Evercooren Beatriz García-Díaz Instituto de Investigación Biomédica de Málaga y Plataforma en Nanomedicina(IBIMA Plataforma BIONAND) MálagaSpain unidad Clínica de Neurociencias Hospital Regional Universitario de MálagaMálagaSpain departamento de biología molecular y bioquímica Universidad de MálagaSpain Sorbonne Université Institut du Cerveau-Paris Brain Institute-ICMINSERMCNRSAP-HPHôpital Pitié-SalpêtrièreParisFrance

Neuropathic pain is a severe and chronic condition widely found in the general *** reason for this is the extensive variety of damage or diseases that can spark this unpleasant constant feeling in *** the processing of pain,the dorsal root ganglia constitute an important region where dorsal root ganglion neurons play a crucial role in the transmission and propagation of sensory electrical ***,the dorsal root ganglia have recently exhibited a regenerative capacity that should not be neglected in the understanding of the development and resolution of neuropathic pain and in the elucidation of innovative ***,we will review the complex interplay between cells(satellite glial cells and inflammatory cells)and factors(cytokines,neurotrophic factors and genetic factors)that takes place within the dorsal root ganglia and accounts for the generation of the aberrant excitation of primary sensory neurons occurring in neuropathic *** importantly,we will summarize an updated view of the current pharmacologic and nonpharmacologic therapies targeting the dorsal root ganglia for the treatment of neuropathic pain.

关键词： cytokines dorsal root ganglia genetic factors neuropathic pain neurotrophic factors pharmacologic and nonpharmacologic therapies satellite glial cells sensory neurons

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Helicobacter pylori vacA s1a and s1b alleles from clinical isolates from different regions of Chile show a distinct geographic distribution

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World Journal of Gastroenterology 2005年第40期11卷 6366-6372页

作者： MI Díaz A Valdivia P Martínez JL Palacios P Harris J Novales E Garrido D Valderrama C Shilling A Kirberg E Hebel J Fierro R Bravo F Siegel G Leon G Klapp A Venegas departamento de Genética molecular y Microbiología. Pontificia Universidad Católica de Chile. Santiago departamento de Pediatría Centro de Diagnóstico Terapéutico Los Angeles unidad de Gastroenterología Anatomía Patológica Centro de Endoscopía Quirúrgica Hospital Base de Linares Hospital Regional de Valdivia Instituto de bioquímica Hospital Regional de Punta Arenas

AIM： To establish the most common vacA alleles in Helicobacter pylori （ H pylon） strains isolated from Chilean patients and its relationship with gastritis and gastroduodenal ulcers, METHODS： Two hundred and forty five Hpyloriclinical isolates were obtained from 79 biopsies from Chilean infected patients suffedng from gastrointestinal diseases. An average of 2-3 strains per patient was isolated and the vac4 genotype was analyzed by PCR and 3% agarose electrophoresis. Some genotypes were checked by DNA sequencing. RESULTS： The most prevalent vacA genotype in Chilean patients was slb ml （76%）, followed by sla ml （21%）. In oontrast, the s2 m2 genotype was scarcely represented （3%）. The slb ml genotype was found most frequently linked to gastropathies （P〈0.05） rather than ulcers. Ulcers were found more commonly in male and older patients. Curiously, patents IMng in dties located North and far South of Santiago, thecapital and largest Chilean city, carried almost exclusively strains with the slb ml genotype. In contrast, patients from Santiago and cities located South of Santiago carded strains with either one or both sla ml and slb ml genotypes. Regarding the s2 m2 genotype, comparison with GenBank sequences revealed that Chilean s2 sequence was identical to those of Australian, American, and Colombian strains but quite different from those of Alaska and India. CONCLUSION： Differences in geographic distribution of the s and m vacA alleles in Chile and a relationship of slb ml genotype with gastritis were found. Sequence data in part support a hispanic origin for the vacA genotype. Asymmetric distribution of genotypes slb ml and s2 m2 recedes H Pyloristrain distribution in Spain and Portugal.

关键词： Hpylori vacA alleles Chilean isolates s1 s2 m1 and m2 sequences

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The cold-induced factor CBF3 mediates root stem cell activity,regeneration,and developmental responses to cold

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Plant Communications 2023年第6期4卷 197-211页

作者： Pablo Perez-Garcia Ornella Pucciariello Alvaro Sanchez-Corrionero Javier Cabrera Cristina del Barrio Juan Carlos del Pozo Mariano Perales Krzysztof Wabnik Miguel A.Moreno-Risueno Centro de Biotecnologíay Genómica de plantas(Universidad Politécnica de Madrid(UPM)–Instituto Nacional de Investigacióny Tecnología Agraria y Alimentaria–CSIC(INIA-CSIC)) MadridSpain

Plant growth and development involve the specification and regeneration of stem cell niches(SCNs).Although plants are exposed to disparate environmental conditions,how environmental cues affect developmental programs and stem cells is not well *** stem cells are accommodated in meristems in SCNs around the quiescent center(QC),which maintains their *** a combination of genetics and confocal microscopy to trace morphological defects and correlate them with changes in gene expression and protein levels,we show that the cold-induced transcription factor(TF)C-REPEAT BINDING FACTOR 3(CBF3),which has previously been associated with cold acclimation,regulates root development,stem cell activity,and ***3 is integrated into the SHORT-ROOT(SHR)regulatory network,forming a feedback loop that maintains SHR ***3 is primarily expressed in the root endodermis,whereas the CBF3 protein is localized to other meristematic tissues,including root *** of cbf3-1 using a wild-type CBF3 gene and a CBF3 fusion with reduced mobility show that CBF3 movement capacity is required for SCN patterning and regulates root ***,cold induces CBF3,affecting QC ***,exposure to moderate cold around 10℃–12℃promotes root regeneration and QC respecification in a CBF3-dependent manner during the recuperation *** contrast,CBF3 does not appear to regulate stem cell survival,which has been associated with recuperation from more acute cold(-4℃).We propose a role for CBF3 in mediating the molecular interrelationships among the cold response,stem cell activity,and development.

关键词： stem cells regeneration organ patterning protein movement cell fate low temperature

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Updates on the hepatocyte growth factor/c-Met axis in hepatocellular carcinoma and its therapeutic implications

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World Journal of Gastroenterology 2018年第33期24卷 3695-3708页

作者： Javier A García-Vilas Miguelángel Medina department of Pediatrics University of AlbertaEdmonton T6G 2S2Canada departamento de biología molecular y bioquímica Facultad de CienciasAndalucía TechUniversidad de MálagaMálaga 29071Spain unidad 741 de CIBER“de Enfermedades Raras”(CIBERER) Málaga 29071Spain Institute of Biomedical Research in Málaga Málaga 29071Spain

Hepatocellular carcinoma(HCC) is the fifth most common cancer and is the second leading cause of cancer death. Since the diagnosis of HCC is difficult, in many cases patients with HCC are diagnosed advanced stage of development. Hepatocyte growth factor(HGF)/c-mesenchymal-epithelial transition receptor(c-Met) axis is a key signaling pathway in HCC, either via canonical or non-canonical pathways. Available treatments against HCC based upon HGF/c-Met inhibition can increase patient lifespan, but do not reach the expected therapeutic benefits. In HCC, c-Met monomers can bind other receptor monomers, activating several noncanonical signaling pathways, leading to increased cell proliferation, invasion, motility, and drug resistance. All of these processes are enhanced by the tumor microenvironment, with stromal cells contributing to boost tumor progression through oxidative stress, angiogenesis, lymphangiogenesis, inflammation, and fibrosis. Novel treatments against HCC are being explored to modulate other targets such as microR NAs, methyltransferases, and acetyltransferases, which are all involved in the regulation of gene expression in cancer. This review compiles basic knowledge regarding signaling pathways in HCC, and compounds already used or showing potential to be used in clinical trials.

关键词： Hepatocellular carcinoma Hepatocyte growth factor/c-MET Tumor microenvironment c-Met

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