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1.
Genomics Inform ; 12(3): 80-6, 2014 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-25317106

RESUMEN

Foldback intercoil (FBI) DNA is formed by the folding back at one point of a non-helical parallel track of double-stranded DNA at as sharp as 180° and the intertwining of two double helixes within each other's major groove to form an intercoil with a diameter of 2.2 nm. FBI DNA has been suggested to mediate intra-molecular homologous recombination of a deletion and inversion. Inter-molecular homologous recombination, known as site-specific insertion, on the other hand, is mediated by the direct perpendicular approach of the FBI DNA tip, as the attP site, onto the target DNA, as the attB site. Transposition of DNA transposons involves the pairing of terminal inverted repeats and 5-7-bp tandem target duplication. FBI DNA configuration effectively explains simple as well as replicative transposition, along with the involvement of an enhancer element. The majority of diverse retrotransposable elements that employ a target site duplication mechanism is also suggested to follow the FBI DNA-mediated perpendicular insertion of the paired intercoil ends by non-homologous end-joining, together with gap filling. A genome-wide perspective of transposable elements in light of FBI DNA is discussed.

2.
BMC Genomics ; 15: 561, 2014 Jul 04.
Artículo en Inglés | MEDLINE | ID: mdl-24996600

RESUMEN

BACKGROUND: Cytoplasmic male sterility (CMS) is an inability to produce functional pollen that is caused by mutation of the mitochondrial genome. Comparative analyses of mitochondrial genomes of lines with and without CMS in several species have revealed structural differences between genomes, including extensive rearrangements caused by recombination. However, the mitochondrial genome structure and the DNA rearrangements that may be related to CMS have not been characterized in Capsicum spp. RESULTS: We obtained the complete mitochondrial genome sequences of the pepper CMS line FS4401 (507,452 bp) and the fertile line Jeju (511,530 bp). Comparative analysis between mitochondrial genomes of peppers and tobacco that are included in Solanaceae revealed extensive DNA rearrangements and poor conservation in non-coding DNA. In comparison between pepper lines, FS4401 and Jeju mitochondrial DNAs contained the same complement of protein coding genes except for one additional copy of an atp6 gene (ψatp6-2) in FS4401. In terms of genome structure, we found eighteen syntenic blocks in the two mitochondrial genomes, which have been rearranged in each genome. By contrast, sequences between syntenic blocks, which were specific to each line, accounted for 30,380 and 17,847 bp in FS4401 and Jeju, respectively. The previously-reported CMS candidate genes, orf507 and ψatp6-2, were located on the edges of the largest sequence segments that were specific to FS4401. In this region, large number of small sequence segments which were absent or found on different locations in Jeju mitochondrial genome were combined together. The incorporation of repeats and overlapping of connected sequence segments by a few nucleotides implied that extensive rearrangements by homologous recombination might be involved in evolution of this region. Further analysis using mtDNA pairs from other plant species revealed common features of DNA regions around CMS-associated genes. CONCLUSIONS: Although large portion of sequence context was shared by mitochondrial genomes of CMS and male-fertile pepper lines, extensive genome rearrangements were detected. CMS candidate genes located on the edges of highly-rearranged CMS-specific DNA regions and near to repeat sequences. These characteristics were detected among CMS-associated genes in other species, implying a common mechanism might be involved in the evolution of CMS-associated genes.


Asunto(s)
Capsicum/genética , Genoma Mitocondrial , Infertilidad Vegetal/genética , Mapeo Contig , Repeticiones de Microsatélite/genética , ATPasas de Translocación de Protón Mitocondriales/genética , Sistemas de Lectura Abierta/genética , Proteínas de Plantas/genética , Análisis de Secuencia de ADN , Sintenía/genética , Nicotiana/genética
3.
Biochem Biophys Res Commun ; 446(4): 882-8, 2014 Apr 18.
Artículo en Inglés | MEDLINE | ID: mdl-24631906

RESUMEN

Plant cells secrete diverse sets of constitutively- and conditionally-expressed proteins under various environmental and developmental states. Secreted protein populations, or secretomes have multiple functions, including defense responses, signaling, metabolic processes, and developmental regulation. To identify genes encoding secreted proteins that function in fruit development and ripening, a yeast secretion trap (YST) screen was employed using pepper (Capsicum annuum) fruit cDNAs. The YST screen revealed 80 pepper fruit-related genes (CaPFRs) encoding secreted proteins including cell wall proteins, several of which have not been previously described. Transient GFP-fusion assay and an in planta secretion trap were used to validate the secretion of proteins encoded by selected YST clones. In addition, RNA gel blot analyses provided further insights into their expression and regulation during fruit development and ripening. Integrating our data, we conclude that the YST provides a valuable functional genomics tool for the identification of substantial numbers of novel secreted plant proteins that are associated with biological processes, including fruit development and ripening.


Asunto(s)
Capsicum/crecimiento & desarrollo , Frutas/crecimiento & desarrollo , Regulación de la Expresión Génica de las Plantas , Proteínas de Plantas/genética , Capsicum/genética , ADN Complementario/genética , Frutas/genética , Regulación del Desarrollo de la Expresión Génica , Biblioteca de Genes , Genes de Plantas , Proteínas de Plantas/metabolismo , Saccharomyces cerevisiae/genética
4.
Nanotechnology ; 25(10): 105601, 2014 Mar 14.
Artículo en Inglés | MEDLINE | ID: mdl-24532021

RESUMEN

The information capacity of DNA double-crossover (DX) tiles was successfully increased beyond a binary representation to higher base representations. By controlling the length and the position of DNA hairpins on the DX tile, ternary and senary (base-3 and base-6) digit representations were realized and verified by atomic force microscopy. Also, normal mode analysis was carried out to study the mechanical characteristics of each structure.


Asunto(s)
ADN/química , Nanoestructuras/química , Conformación de Ácido Nucleico , Secuencias Invertidas Repetidas , Microscopía de Fuerza Atómica/métodos
5.
Nat Genet ; 46(3): 270-8, 2014 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-24441736

RESUMEN

Hot pepper (Capsicum annuum), one of the oldest domesticated crops in the Americas, is the most widely grown spice crop in the world. We report whole-genome sequencing and assembly of the hot pepper (Mexican landrace of Capsicum annuum cv. CM334) at 186.6× coverage. We also report resequencing of two cultivated peppers and de novo sequencing of the wild species Capsicum chinense. The genome size of the hot pepper was approximately fourfold larger than that of its close relative tomato, and the genome showed an accumulation of Gypsy and Caulimoviridae family elements. Integrative genomic and transcriptomic analyses suggested that change in gene expression and neofunctionalization of capsaicin synthase have shaped capsaicinoid biosynthesis. We found differential molecular patterns of ripening regulators and ethylene synthesis in hot pepper and tomato. The reference genome will serve as a platform for improving the nutritional and medicinal values of Capsicum species.


Asunto(s)
Capsicum/genética , Genoma de Planta , Capsaicina/metabolismo , Capsicum/crecimiento & desarrollo , Capsicum/metabolismo , Evolución Molecular , Regulación del Desarrollo de la Expresión Génica , Regulación de la Expresión Génica de las Plantas , Variación Genética , Tamaño del Genoma , Solanum lycopersicum/genética , Redes y Vías Metabólicas/genética , Datos de Secuencia Molecular , Familia de Multigenes , ARN de Planta/genética , Especificidad de la Especie
6.
Mol Plant Microbe Interact ; 24(6): 671-84, 2011 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-21542767

RESUMEN

In plants, the primary defense against pathogens is mostly inducible and associated with cell wall modification and defense-related gene expression, including many secreted proteins. To study the role of secreted proteins, a yeast-based signal-sequence trap screening was conducted with the RNA from Phytophthora capsici-inoculated root of Capsicum annuum 'Criollo de Morelos 334' (CM334). In total, 101 Capsicum annuum secretome (CaS) clones were isolated and identified, of which 92 were predicted to have a secretory signal sequence at their N-terminus. To identify differences in expressed CaS genes between resistant and susceptible cultivars of pepper, reverse Northern blots and real-time reverse-transcription polymerase chain reaction were performed with RNA samples isolated at different time points following P. capsici inoculation. In an attempt to assign biological functions to CaS genes, we performed in planta knock-down assays using the Tobacco rattle virus-based gene-silencing method. Silencing of eight CaS genes in pepper resulted in suppression of the cell death induced by the non-host bacterial pathogen (Pseudomonas syringae pv. tomato T1). Three CaS genes induced phenotypic abnormalities in silenced plants and one, CaS259 (PR4-l), caused both cell death suppression and perturbed phenotypes. These results provide evidence that the CaS genes may play important roles in pathogen defense as well as developmental processes.


Asunto(s)
Capsicum/metabolismo , Capsicum/microbiología , Muerte Celular/fisiología , Phytophthora/fisiología , Enfermedades de las Plantas/microbiología , Proteínas de Plantas/metabolismo , Regulación de la Expresión Génica de las Plantas/fisiología , Silenciador del Gen , Interacciones Huésped-Patógeno , Proteínas de Plantas/genética
7.
BMC Genomics ; 12: 85, 2011 Jan 29.
Artículo en Inglés | MEDLINE | ID: mdl-21276256

RESUMEN

BACKGROUND: Among the Solanaceae plants, the pepper genome is three times larger than that of tomato. Although the gene repertoire and gene order of both species are well conserved, the cause of the genome-size difference is not known. To determine the causes for the expansion of pepper euchromatic regions, we compared the pepper genome to that of tomato. RESULTS: For sequence-level analysis, we generated 35.6 Mb of pepper genomic sequences from euchromatin enriched 1,245 pepper BAC clones. The comparative analysis of orthologous gene-rich regions between both species revealed insertion of transposons exclusively in the pepper sequences, maintaining the gene order and content. The most common type of the transposon found was the LTR retrotransposon. Phylogenetic comparison of the LTR retrotransposons revealed that two groups of Ty3/Gypsy-like elements (Tat and Athila) were overly accumulated in the pepper genome. The FISH analysis of the pepper Tat elements showed a random distribution in heterochromatic and euchromatic regions, whereas the tomato Tat elements showed heterochromatin-preferential accumulation. CONCLUSIONS: Compared to tomato pepper euchromatin doubled its size by differential accumulation of a specific group of Ty3/Gypsy-like elements. Our results could provide an insight on the mechanism of genome evolution in the Solanaceae family.


Asunto(s)
Eucromatina/genética , Genoma de Planta/genética , Piper/genética , Solanum lycopersicum/genética , Heterocromatina/genética , Hibridación Fluorescente in Situ , Solanum lycopersicum/clasificación , Filogenia , Piper/clasificación , Retroelementos/genética , Secuencias Repetidas Terminales/genética
8.
Theor Appl Genet ; 122(6): 1051-8, 2011 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-21184049

RESUMEN

A relationship between pepper trichome and pepper mottle virus (PepMoV) resistance was examined. In an intraspecific F(2) mapping population from the cross between Capsicum annuum CM334 (trichome-bearing and PepMoV resistant) and Chilsungcho (glabrous and PepMoV susceptible), major QTLs for both traits were identified by composite interval mapping in linkage group (LG) 24 corresponding a telomere region on pepper chromosome 10. Ptel1 of putative trichome enhancing locus was a common major QTL for trichome density on the main stem and calyx. Ptel1 apart from HpmsE031 at a 1.03 cM interval was specifically associated to the trichome density on the main stem, whereas Ptel2 near m104 marker on LG2 was specific for the calyx trichome. Epistatic analysis indicated that Ptel1 engaged in controlling the trichome density by mutual interactions with the organ-specific QTLs. For PepMoV resistance, two QTLs (Pep1 and Pep2) were identified on the LG 24. Pep1 was located with Ptel1 in the R-gene cluster (RGC) for potyvirus resistance including Pvr4 with broad spectrum resistance to potyviruses. Pep1 flanking TG420 marker seemed to be the major factors determining correlation with PepMoV resistance. These results indicate that the level of trichome density on pepper main stem can be used as a morphological marker for Pvr4 in pepper breeding.


Asunto(s)
Capsicum/anatomía & histología , Capsicum/genética , Inmunidad Innata/genética , Enfermedades de las Plantas/virología , Tallos de la Planta/anatomía & histología , Potyvirus/patogenicidad , Capsicum/inmunología , Capsicum/virología , Mapeo Cromosómico , Cromosomas de las Plantas , Epistasis Genética , Fenotipo , Enfermedades de las Plantas/genética , Sitios de Carácter Cuantitativo
9.
Mol Cells ; 30(6): 569-74, 2010 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-21120629

RESUMEN

Peppers (Capsicum spp.) display a variety of fruit colors that are reflected by the composition and amount of diverse carotenoid pigments accumulated in the pericarp. Three independent loci, c1, c2, and y, are known to determine the mature color of pepper fruits by their allelic combinations. We examined the inheritance of fruit color in recombinant inbred lines (RILs) derived from an interspecific cross between C. annuum cv. TF68 (red) and C. chinense cv. Habanero (orange). The c2 gene encodes phytoene synthase (PSY), a rate-limiting enzyme in the carotenoid biosynthesis pathway. TF68 has a dominant c2+ allele whereas Habanero is homozygous for the recessive c2 allele, which determined RIL fruit color. Here we report that the recessive c2 allele has a point mutation in the PSY gene that occurs at a splice acceptor site of the fifth intron leading to both a frame shift and premature translational termination, suggesting that impaired activity of PSY is responsible for orange fruit color. During ripening, PSY is expressed at a significantly high level in orange colored fruits compared to red ones. Interestingly, the PSY gene of red Habanero has a conserved splice acceptor dinucleotide AG. Further analysis suggests that red Habanero is a wild type revertant of the PSY mutant orange Habanero.


Asunto(s)
Transferasas Alquil y Aril/genética , Transferasas Alquil y Aril/metabolismo , Capsicum/genética , Carotenoides/biosíntesis , Frutas/genética , Mutación/genética , Empalme del ARN/fisiología , Transferasas Alquil y Aril/análisis , Secuencia de Aminoácidos , Secuencia de Bases , Capsicum/metabolismo , Clonación Molecular/métodos , Frutas/química , Frutas/metabolismo , Geranilgeranil-Difosfato Geranilgeraniltransferasa , Datos de Secuencia Molecular , Pigmentación/genética , Sitios de Empalme de ARN/genética , ARN Mensajero/genética , ARN Mensajero/metabolismo , Alineación de Secuencia/métodos
10.
Plant J ; 62(3): 357-66, 2010 May.
Artículo en Inglés | MEDLINE | ID: mdl-20128886

RESUMEN

Evasion or active suppression of host defenses are critical strategies employed by biotrophic phytopathogens and hemibiotrophs whose infection mechanism includes sequential biotrophic and necrotrophic stages. Although defense suppression by secreted effector proteins has been well studied in bacteria, equivalent systems in fungi and oomycetes are poorly understood. We report the characterization of SNE1 (suppressor of necrosis 1), a gene encoding a secreted protein from the hemibiotrophic oomycete Phytophthora infestans that is specifically expressed at the transcriptional level during biotrophic growth within the host plant tomato (Solanum lycopersicum). Using transient expression assays, we show that SNE1 suppresses the action of secreted cell death-inducing effectors from Phytophthora that are expressed during the necrotrophic growth phase, as well as programmed cell death mediated by a range of Avr-R protein interactions. We also report that SNE1 contains predicted NLS motifs and translocates to the plant nucleus in transient expression studies. A conceptual model is presented in which the sequential coordinated secretion of antagonistic effectors by P. infestans first suppresses, but then induces, host cell death, thereby providing a highly regulated means to control the transition from biotrophy to necrotrophy.


Asunto(s)
Proteínas Algáceas/metabolismo , Apoptosis , Phytophthora infestans/crecimiento & desarrollo , Solanum lycopersicum/parasitología , Proteínas Algáceas/genética , Secuencia de Aminoácidos , Clonación Molecular , ADN de Algas/genética , ADN de Plantas/genética , Regulación de la Expresión Génica de las Plantas , Solanum lycopersicum/genética , Datos de Secuencia Molecular , Phytophthora infestans/genética , Phytophthora infestans/patogenicidad , Análisis de Secuencia de ADN
11.
Free Radic Biol Med ; 48(9): 1133-43, 2010 May 01.
Artículo en Inglés | MEDLINE | ID: mdl-20123015

RESUMEN

Capsiate, one of the major capsaicinoids, is nonpungent and present in sweet pepper. We investigated the effects of capsiate on the ultraviolet B (UVB)-induced inflammatory response in skin and its molecular mechanisms. Capsiate-pretreated human keratinocytes inhibited intracellular reactive oxygen species (ROS), which activate the mitogen-activated protein kinase and nuclear factor-kappaB (NF-kappaB) pathways. Therefore, we determined the effects of capsiate on these pathways. Capsiate inhibited UVB-induced cyclooxygenase-2 (COX-2) expression, extracellular signal-related kinase 1/2 phosphorylation, nuclear translocation of NF-kappaB, and the expression of proinflammatory cytokines and potent angiogenic factors, including vascular endothelial cell growth factor and matrix metalloproteinase-2 (MMP-2) and MMP-9. In addition, capsiate inhibited UVB-induced epidermal growth factor receptor (EGFR) activation, which reduces the levels of proinflammatory cytokines and angiogenic factors. We also investigated the photoprotective effects of capsiate in vivo. Topical treatment with capsiate significantly decreased UVB-induced skin damage and inhibited the expression of COX-2, proinflammatory cytokines, and angiogenic factors, including platelet/endothelial cell adhesion molecule-1 and intercellular adhesion molecule-1. Inhibition of Src kinase activity and ROS may inhibit the EGFR activation. Therefore, capsiate may protect the skin from UVB-induced adverse effects and these results provide a molecular basis for understanding its effects on inflammation and angiogenesis.


Asunto(s)
Antiinflamatorios/farmacología , Capsaicina/análogos & derivados , Receptores ErbB/efectos de los fármacos , Queratinocitos/efectos de los fármacos , Transducción de Señal/efectos de los fármacos , Familia-src Quinasas/efectos de los fármacos , Animales , Western Blotting , Capsaicina/farmacología , Línea Celular , Supervivencia Celular/efectos de los fármacos , Supervivencia Celular/efectos de la radiación , Dermatitis/metabolismo , Ensayo de Inmunoadsorción Enzimática , Humanos , Inmunohistoquímica , Inflamación/prevención & control , Queratinocitos/metabolismo , Queratinocitos/efectos de la radiación , Ratones , Neovascularización Patológica/tratamiento farmacológico , Reacción en Cadena de la Polimerasa de Transcriptasa Inversa , Transducción de Señal/efectos de la radiación , Rayos Ultravioleta/efectos adversos
12.
Theor Appl Genet ; 120(6): 1099-106, 2010 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-20033390

RESUMEN

Trichomes are present on nearly all land plants and protect plants against insect herbivores, drought and UV radiation. The trichome-bearing phenotype is conferred by the dominant allele of the pepper trichome locus 1 (Ptl1) in Capsicum annuum, Mexican 'Criollo de Morelos-334' (CM334). A genetic analysis using simple sequence repeats from pepper cDNA identified the HpmsE031 marker as tightly linked to Ptl1 in 653 individuals of an F(2) population derived from a cross between CM334 and Chilsungcho varieties. A bacterial artificial chromosome (BAC) library from CM334 covering 12x of the genome was screened using the HpmsE031 SSR marker as a probe and three BAC clones were identified. The Ptl1 region was covered by one 80 kb BAC clone, TT1B7. Fluorescence in situ hybridization (FISH) confirmed that TT1B7 localized to pepper chromosome 10. One co-dominant marker, Tco, and one dominant marker, Tsca, were successfully developed from the TT1B7 BAC sequence. Tco mapped 0.33 cM up from Ptl1 and Tsca mapped 0.75 cM down from Ptl1. Analysis of the BAC sequence predicts the presence of 14 open reading frames including 60S ribosomal protein L21-like protein (Solanum demissum), protein kinase 2 (Nicotiana tabacum), hypothetical proteins, and unnamed protein products. These results will provide not only useful information for map-based cloning of Ptl1 in Capsicum but also the starting points for analysis of R-gene cluster inked with Ptl1.


Asunto(s)
Capsicum/crecimiento & desarrollo , Capsicum/genética , Sitios Genéticos/genética , Mapeo Físico de Cromosoma/métodos , Epidermis de la Planta/anatomía & histología , Epidermis de la Planta/genética , Hojas de la Planta/genética , Secuencia de Bases , Capsicum/anatomía & histología , Segregación Cromosómica/genética , Cromosomas Artificiales Bacterianos/genética , Cromosomas de las Plantas/genética , Biblioteca de Genes , Marcadores Genéticos , Hibridación Fluorescente in Situ , Repeticiones de Minisatélite/genética , Datos de Secuencia Molecular , Fenotipo , Epidermis de la Planta/crecimiento & desarrollo , Hojas de la Planta/ultraestructura , Reproducibilidad de los Resultados
13.
Mol Cells ; 28(4): 331-9, 2009 Oct 31.
Artículo en Inglés | MEDLINE | ID: mdl-19809800

RESUMEN

Capsaicin is a very important secondary metabolite that is unique to Capsicum. Capsaicin biosynthesis is regulated developmentally and environmentally in the placenta of hot pepper. To investigate regulation of capsaicin biosynthesis, the promoter (1,537 bp) of pepper capsaicin synthase (CS) was fused to GUS and introduced into Arabidopsis thaliana (Col-0) via Agrobacterium tumefaciens to produce CSPRO::GUS transgenic plants. The CS was specifically expressed in the placenta tissue of immature green fruit. However, the transgenic Arabidopsis showed ectopic GUS expressions in the leaves, flowers and roots, but not in the stems. The CSPRO activity was relatively high under light conditions and was induced by both heat shock and wounding, as CS transcripts were increased by wounding. Exogenous capsaicin caused strong suppression of the CSPRO activity in transgenic Arabidopsis, as demonstrated by suppression of CS expression in the placenta after capsaicin treatment. Furthermore, the differential expression levels of Kas, Pal and pAmt, which are associated with the capsaicinoid biosynthetic pathway, were also suppressed in the placenta by capsaicin treatment. These results support that capsaicin, a feedback inhibitor, plays a pivotal role in regulating gene expression which is involved in the biosynthesis of capsaicinoids.


Asunto(s)
Capsaicina/metabolismo , Capsicum/genética , Regulación de la Expresión Génica de las Plantas , Péptido Sintasas/genética , Arabidopsis/genética , Arabidopsis/metabolismo , Capsicum/enzimología , Genes de Plantas , Plantas Modificadas Genéticamente , Regiones Promotoras Genéticas , ARN Mensajero/análisis , Distribución Tisular
14.
Theor Appl Genet ; 119(7): 1289-99, 2009 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-19727656

RESUMEN

Cytoplasmic male sterility (CMS), one of the most important traits in crop breeding, is used for commercial F(1)-hybrid seed production in peppers (Capsicum annuum L.). A nuclear gene, Restorer-of-fertility (Rf), can induce normal pollen production in CMS plants resulting in fertility. Since the first report of fertility restoration in peppers, various inheritance modes have been suggested, including the presence of a third haplotype of the locus. The pepper Rf gene has not been cloned, and calculated genetic distances of linked markers have varied between research groups. A more precise allelic test and additional genetic mapping are needed to accurately select recombinants for use in marker-assisted backcrossing (MAB). Therefore, the reliability and application of these markers for allelic selection of the Rf gene was tested. Two different F(2) populations, Buja and Tamna, were used for the construction of a linkage map. From these linkage groups, anew closely linked flanking marker of the Rf gene were identified. Previous allelic testing revealed the existence of a third haplotype, Rfls(7701), which can function as dominant (Rf) or recessive (rf). In a previous report, Rfls(7701) was considered to be linked to unstable male sterility (MS). However, our results suggest that unstable MS was induced by a gene residing at another locus rather than by Rfls(7701) haplotype- linked allele.


Asunto(s)
Alelos , Capsicum/genética , Genes de Plantas , Infertilidad Vegetal/genética , Análisis del Polimorfismo de Longitud de Fragmentos Amplificados , Cruzamientos Genéticos , Marcadores Genéticos , Haplotipos , Polen/genética
15.
Mol Cells ; 27(2): 205-9, 2009 Feb 28.
Artículo en Inglés | MEDLINE | ID: mdl-19277503

RESUMEN

The loci of the 5S and 45S rRNA genes were localized on chromosomes in five species of Capsicum, namely, annuum, chacoense, frutescens, baccatum, and chinense by FISH. The 5S rDNA was localized to the distal region of one chromosome in all species observed. The number of 45S rDNA loci varied among species; one in annuum, two in chacoense, frutescens, and chinense, and four in baccatum, with the exceptions that 'CM334' of annuum had three loci and 'tabasco' of frutescens had one locus. 'CM334'-derived BAC clones, 384B09 and 365P05, were screened with 5S rDNA as a probe, and BACs 278M03 and 262A23 were screened with 25S rDNA as a probe. Both ends of these BAC clones were sequenced. FISH with these BAC probes on pachytenes from 'CM334' plant showed one 5S rDNA locus and three 45S rDNA loci, consistent with the patterns on the somatic chromosomes. The 5S rDNA probe was also applied on extended DNA fibers to reveal that its coverage measured as long as 0.439 Mb in the pepper genome. FISH techniques applied on somatic and meiotic chromosomes and fibers have been established for chili to provide valuable information about the copy number variation of 45S rDNA and the actual physical size of the 5S rDNA in chili.


Asunto(s)
Capsicum/genética , Cromosomas de las Plantas/genética , Meiosis/genética , ARN Ribosómico 5S/genética , ARN Ribosómico/genética , Capsicum/clasificación , Mapeo Cromosómico , Cromosomas Artificiales Bacterianos , ADN de Plantas/química , ADN de Plantas/genética , Hibridación Fluorescente in Situ , Cariotipificación , ARN Ribosómico/química , ARN Ribosómico 5S/química
16.
Mol Cells ; 27(1): 21-37, 2009 Jan 31.
Artículo en Inglés | MEDLINE | ID: mdl-19214431

RESUMEN

Map-based cloning to find genes of interest, markerassisted selection (MAS), and marker-assisted breeding (MAB) all require good genetic maps with high reproducible markers. For map construction as well as chromosome assignment, development of single copy PCR-based markers and map integration process are necessary. In this study, the 132 markers (57 STS from BAC-end sequences, 13 STS from RFLP, and 62 SSR) were newly developed as single copy type PCR-based markers. They were used together with 1830 markers previously developed in our lab to construct an integrated map with the Joinmap 3.0 program. This integrated map contained 169 SSR, 354 RFLP, 23 STS from BAC-end sequences, 6 STS from RFLP, 152 AFLP, 51 WRKY, and 99 rRAMP markers on 12 chromosomes. The integrated map contained four genetic maps of two interspecific (Capsicum annuum 'TF68' and C. chinense 'Habanero') and two intraspecific (C. annuum 'CM334' and C. annuum 'Chilsungcho') populations of peppers. This constructed integrated map consisted of 805 markers (map distance of 1858 cM) in interspecific populations and 745 markers (map distance of 1892 cM) in intraspecific populations. The used pepper STS were first developed from end sequences of BAC clones from Capsicum annuum 'CM334'. This integrated map will provide useful information for construction of future pepper genetic maps and for assignment of linkage groups to pepper chromosomes.


Asunto(s)
Análisis del Polimorfismo de Longitud de Fragmentos Amplificados , Capsicum/genética , Cromosomas Artificiales Bacterianos/genética , Repeticiones de Microsatélite/genética , Repeticiones de Minisatélite/genética , Mapeo Físico de Cromosoma , Polimorfismo de Longitud del Fragmento de Restricción , Marcadores Genéticos , Análisis de Secuencia de ADN , Especificidad de la Especie
17.
Mol Cells ; 26(6): 548-53, 2008 Dec 31.
Artículo en Inglés | MEDLINE | ID: mdl-18824887

RESUMEN

The erect habit of fruit setting is a unique characteristic of ornamental peppers and wild pepper species. The erect habit is known to be controlled by the up locus on pepper (Capsicum annuum L.) chromosome 12. The result of a genetic analysis using Saengryeog 211 (pendant), Saengryeog 213 (erect), and their F1 and BC1 progeny demonstrated that up is a recessive gene. To develop an up-linked marker, bulked segregant analysis (BSA) and amplified fragment length polymorphism (AFLP) were employed using 108 F2:3 individuals. The closest AFLP marker, A2C79, was located at a genetic distance of 1.7 cM from the up locus and was converted into a cleaved amplified polymorphic sequence (CAPS) marker. This marker was mapped at a genetic distance of 4.3 cM from the up locus. When the CAPS was applied to seven ornamental lines and 27 breeding lines with erect fruit, these genotypes of 28 lines were correctly predicted. Thus, the CAPS marker will be useful for marker-assisted selection (MAS) of pepper breeding lines with the up allele at the early seedling stage.


Asunto(s)
Capsicum/genética , Frutas/crecimiento & desarrollo , Genes de Plantas , Marcadores Genéticos , Análisis del Polimorfismo de Longitud de Fragmentos Amplificados , Mapeo Cromosómico , Frutas/genética
18.
Theor Appl Genet ; 118(1): 15-27, 2008 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-18795251

RESUMEN

Phytophthora capsici Leonian, an oomycete pathogen, is a serious problem in pepper worldwide. Its resistance in pepper is controlled by quantitative trait loci (QTL). To detect QTL associated with P. capsici resistance, a molecular linkage map was constructed using 100 F(2) individuals from a cross between Capsicum annuum 'CM334' and C. annuum 'Chilsungcho'. This linkage map consisted of 202 restriction fragment length polymorphisms (RFLPs), 6 WRKYs and 1 simple sequence repeat (SSR) covering 1482.3 cM, with an average interval marker distance of 7.09 cM. QTL mapping of Phytophthora root rot and damping-off resistance was performed in F(2:3) originated from a cross between resistant Mexican landrace C. annuum 'CM334' and susceptible Korean landrace C. annuum 'Chilsungcho' using composite interval mapping (CIM) analysis. Four QTL explained 66.3% of the total phenotypic variations for root rot resistance and three 44.9% for damping-off resistance. Of these QTL loci, two were located close to RFLP markers CDI25 on chromosome 5 (P5) and CT211A on P9. A bacterial artificial chromosome (BAC) library from C. annuum 'CM334' was screened with these two RFLP probes to obtain sequence information around the RFLP marker loci for development of PCR-based markers. CDI25 and CT211 probes identified seven and eight BAC clones, respectively. Nine positive BAC clones containing probe regions were sequenced and used for cytogenetic analysis. One single-nucleotide amplified polymorphism (SNAP) for the CDI25 locus, and two SSRs and cleaved amplified polymorphic sequence (CAPS) for CT211 were developed using sequences of the positive BAC clones. These markers will be valuable for rapid selection of genotypes and map-based cloning for resistance genes against P. capsici.


Asunto(s)
Capsicum/genética , Mapeo Cromosómico , Polimorfismo de Longitud del Fragmento de Restricción , Sitios de Carácter Cuantitativo , Capsicum/microbiología , Cromosomas Artificiales Bacterianos , Cromosomas de las Plantas , ADN de Plantas/genética , Marcadores Genéticos , Genoma de Planta , Inmunidad Innata , Phytophthora/patogenicidad , Enfermedades de las Plantas/genética , Enfermedades de las Plantas/microbiología , Polimorfismo de Nucleótido Simple
19.
Mol Cells ; 26(3): 250-7, 2008 Sep 30.
Artículo en Inglés | MEDLINE | ID: mdl-18483466

RESUMEN

Microsatellites or simple sequence repeats (SSR) are widely distributed in eukaryotic genomes and are informative genetic markers. Despite many advantages of SSR markers such as a high degree of allelic polymorphisms, co-dominant inheritance, multi-allelism, and genome-wide coverage in various plant species, they also have shortcomings such as low polymorphic rates between genetically close lines, especially in Capsicum annuum. We developed an alternative technique to SSR by normalizing and alternating anchored primers in random amplified microsatellite polymorphisms (RAMP). This technique, designated reverse random amplified microsatellite polymorphism (rRAMP), allows the detection of nucleotide variation in the 3' region flanking an SSR using normalized anchored and random primer combinations. The reproducibility and frequency of polymorphic loci in rRAMP was vigorously enhanced by translocation of the 5' anchor of repeat sequences to the 3' end position and selective use of moderate arbitrary primers. In our study, the PCR banding pattern of rRAMP was highly dependent on the frequency of repeat motifs and primer combinations with random primers. Linkage analysis showed that rRAMP markers were well scattered on an intra-specific pepper map. Based on these results, we suggest that this technique is useful for studying genetic diversity, molecular fingerprinting, and rapidly constructing molecular maps for diverse plant species.


Asunto(s)
Región de Flanqueo 3'/genética , Secuencia de Bases , Capsicum/genética , Repeticiones de Microsatélite/genética , Polimorfismo Genético , Técnica del ADN Polimorfo Amplificado Aleatorio , Mapeo Cromosómico , ADN de Plantas/genética , Ligamiento Genético , Datos de Secuencia Molecular
20.
Biochem Biophys Res Commun ; 371(2): 289-93, 2008 Jun 27.
Artículo en Inglés | MEDLINE | ID: mdl-18435912

RESUMEN

AMP-activated protein kinase (AMPK) is an energy-sensing enzyme that is implicated as a key factor in controlling whole body homeostasis, including fatty acid oxidation and glucose uptake. We report that a synthetic structural isomer of dihydrocapsiate, isodihydrocapsiate (8-methylnonanoic acid 3-hydroxy-4-methoxy benzyl ester) improves type 2 diabetes by activating AMPK through the LKB1 pathway. In L6 myotube cells, phosphorylation of AMPK and acetyl-CoA carboxylase (ACC) and glucose uptake were significantly increased, whereas these effects were attenuated by an AMPK inhibitor, compound C. In addition, increased phosphorylation of AMPK and ACC by isodihydrocapsiate was significantly reduced by radicicol, an LKB1 destabilizer, suggesting that increased glucose uptake in L6 cells with isodihydrocapsiate treatment is predominantly accomplished by a LKB1-mediated AMPK activation pathway. Oral administration of isodihydrocapsiate to diabetic (db/db) mice reduced blood glucose levels by 40% after a 4-week treatment period. Our results support the development of isodihydrocapsiate as a potential therapeutic agent to target AMPK in type 2 diabetes.


Asunto(s)
Glucemia/efectos de los fármacos , Capsaicina/análogos & derivados , Diabetes Mellitus Tipo 2/enzimología , Hipoglucemiantes/farmacología , Complejos Multienzimáticos/metabolismo , Proteínas Serina-Treonina Quinasas/metabolismo , Proteínas Quinasas Activadas por AMP , Acetil-CoA Carboxilasa/metabolismo , Animales , Glucemia/metabolismo , Capsaicina/administración & dosificación , Capsaicina/química , Capsaicina/farmacología , Hipoglucemiantes/administración & dosificación , Hipoglucemiantes/química , Ratones , Ratones Endogámicos , Fosforilación/efectos de los fármacos , Ratas
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