scholarly journals PASSIOMA: Exploring Expressed Sequence Tags during Flower Development inPassifloraspp.

2012 ◽  
Vol 2012 ◽  
pp. 1-11 ◽  
Author(s):  
Lucas Cutri ◽  
Marcelo Carnier Dornelas
Keyword(s):  
Expressed Sequence Tags ◽  
Flower Development ◽  
Agronomic Traits ◽  
Sequence Similarity ◽  
Reproductive Development ◽  
Floral Diversity ◽  
Genomic Tools ◽  
Wide Range ◽  
Expressed Sequence

The genusPassifloraprovides a remarkable example of floral complexity and diversity. The extreme variation ofPassifloraflower morphologies allowed a wide range of interactions with pollinators to evolve. We used the analysis of expressed sequence tags (ESTs) as an approach for the characterization of genes expressed duringPassiflorareproductive development. Analyzing thePassiflorafloral EST database (named PASSIOMA), we found sequences showing significant sequence similarity to genes known to be involved in reproductive development such as MADS-box genes. Some of these sequences were studied using RT-PCR andin situhybridization confirming their expression duringPassifloraflower development. The detection of these novel sequences can contribute to the development of EST-based markers for important agronomic traits as well as to the establishment of genomic tools to study the naturally occurring floral diversity amongPassifloraspecies.

scholarly journals Identification of Differentially Expressed Genes in Axillary Tillers of Perennial Ryegrass

2009 ◽  
Vol 63 (1-2) ◽  
pp. 25-28
Author(s):  
Gintaras Brazauskas ◽  
Izolda Pašakinskienė
Keyword(s):  
Differentially Expressed Genes ◽  
Perennial Ryegrass ◽  
Expressed Sequence Tags ◽  
Sequence Similarity ◽  
Differentially Expressed ◽  
Sequence Length ◽  
Auxin Response ◽  
Suppression Subtractive Hybridisation ◽  
Subtractive Hybridisation ◽  
Expressed Sequence

Identification of Differentially Expressed Genes in Axillary Tillers of Perennial Ryegrass A PCR-based suppression subtractive hybridisation (SSH) technique was used to identify differentially expressed genes in the primary and axillary tillers of a perennial ryegrass (Lolium perenne L.) mutant with enhanced axillary tillering. A total of 310 expressed sequence tags (ESTs) were obtained representing 249 non-redundant sequences. The average EST sequence length was 249 nt and varied from 30 to 508 nt. Putative function was assigned to 152 ESTs by comparing sequences with publicly available databases of NCBI. The remaining 97 ESTs had no sequence similarity matches to any of the known databases. Several ESTs were selected as potential candidates for the control of axillary tiller formation. RUB1 conjugating enzyme and BIG protein were shown to play role in auxin response regulation, SHOOT1 protein was associated with fasciation mutation in soybean (Glycine max L.), and brassinosteroid LRR receptor kinase with brassinosteroid signalling.

scholarly journals Mapping ESTs by Fiber–FISH

1999 ◽  
Vol 9 (1) ◽  
pp. 62-71
Author(s):  
Nina Horelli-Kuitunen ◽  
Johanna Aaltonen ◽  
Marie-Laure Yaspo ◽  
Mervi Eeva ◽  
Maija Wessman ◽  
...  
Keyword(s):  
High Resolution ◽  
Expressed Sequence Tags ◽  
Positional Cloning ◽  
Mapping Technique ◽  
Visual Mapping ◽  
Sensitivity Specificity ◽  
Transcript Map ◽  
Expressed Sequence ◽  
Six Genes

A visual transcript map of six genes was constructed on the chromosome 21q22.3 by high resolution fluorescence in situ hybridization (FISH). Expressed sequence tags (ESTs) from six genes—PWP2, KNP1, AIRE, C21orf3,SMT3A, and C21orf1—were successfully localized by fiber–FISH by use of sensitive tyramide-based detection. The sizes of the ESTs varied between 315 to 956 bp and most of them map within the 3′-untranslated region. The ESTs were assigned to and subsequently ordered within cosmid, PAC, and BAC clones hybridized on DNA fibers. Physical distances between ESTs and known markers were determined. Our results demonstrate the feasibility and accuracy of visual mapping EST sequences in relation to known markers. The main advantage of this approach is that it can be applied to finely map any of the database ESTs for positional cloning efforts. The sensitivity, specificity, and reproducibility of this high-resolution EST mapping technique is evaluated.

scholarly journals Suppressive Subtraction Hybridization on Stimulated Primary Horse Macrophages

2006 ◽  
Vol 75 (3) ◽  
pp. 337-341
Author(s):  
J. Matiašovic ◽  
P. Králík ◽  
L. Leva ◽  
M. Faldyna ◽  
P. Hořín
Keyword(s):  
Expressed Sequence Tags ◽  
Sequence Similarity ◽  
Genetic Resistance ◽  
Macrophage Cell ◽  
Cdna Subtraction ◽  
Subtraction Hybridization ◽  
E Coli ◽  
Suppressive Subtraction Hybridization ◽  
Expressed Sequence ◽  
Overnight Culture

To study genes potentially involved in genetic resistance to infectious diseases in the horse, suppressive subtraction hybridization was used to identify genes expressed in primary horse macrophages after their stimulation with E. coli. Overnight culture of blood monocyte-derived macrophage cells was stimulated with E. coli K12 in ratio 40 E. coli cells to one macrophage cell. After 4 hours of incubation, non-phagocyted bacteria were washed away. Following next 20 hour incubation in MEM alpha containing 5 μg of gentamycin in 1 ml of media, mRNA was isolated and used in Clontech PCR-Select cDNA Subtraction Kit. Expression of several known horse genes, as well as some new ESTs (expressed sequence tags) showing sequence similarity with immunity-related genes from other species was identified.

scholarly journals Data from expressed sequence tags from the organs and embryos of parthenogenetic Haemaphysalis longicornis

2021 ◽  
Vol 14 (1) ◽  
Author(s):  
Rika Umemiya-Shirafuji ◽  
Jinlin Zhou ◽  
Min Liao ◽  
Badgar Battsetseg ◽  
Damdinsuren Boldbaatar ◽  
...  
Keyword(s):  
Salivary Glands ◽  
Expressed Sequence Tags ◽  
Tick Species ◽  
Fat Body ◽  
Cdna Libraries ◽  
Haemaphysalis Longicornis ◽  
Data Resource ◽  
Biological Studies ◽  
Wide Range ◽  
Expressed Sequence

Abstract Objectives Haemaphysalis longicornis is the most important tick species in Japan and has a wide range of vector capacity. Due to its veterinary and medical importance, this tick species has been used as a model for tick/vector biological studies. To identify the key molecules associated with physiological processes during blood feeding and embryogenesis, full-length cDNA libraries were constructed using the fat body, hemocytes-containing hemolymph, midgut, ovary and salivary glands of fed females and embryos of the laboratory colony of parthenogenetic H. longicornis. The sequences of cDNA from the salivary glands had been already released. However, the related information is still poor, and the other expressed sequence tags have not yet been deposited. Data description A total of 39,113 expressed sequence tags were obtained and deposited at the DNA DataBank of Japan. There were 7745 sequences from embryos, 7385 from the fat body, 8303 from the hemolymph including hemocytes, 7385 from the midgut, and 8295 from the ovary. The data, including expressed sequence tags from the salivary glands was summarized into Microsoft Excel files. Sharing this data resource with the tick research community will be valuable for the identification of novel genes and advance the progress of tick research.

scholarly journals Review: Floral resources diversity and vegetation types important for honeybees in Ethiopia

2019 ◽  
Vol 3 (2) ◽  
Author(s):  
Admassu Addi ◽  
Tura Bareke
Keyword(s):  
In Situ Conservation ◽  
Morphological Diversity ◽  
Floral Resources ◽  
Vegetation Types ◽  
Honey Production ◽  
Floral Diversity ◽  
Wide Range ◽  
Bee Plant ◽  
Plant Families

Abstract. Addi A, Bareke T. 2019. Review: Floral resources diversity and vegetation types important for honeybees in Ethiopia. Asian J For 3: 64-68. The high biodiversity of Ethiopia is attributed to its wide range of altitude and great geo-morphological diversity. This has resulted in the existence of a high diversity of floral resources of which majority of them are visited by honeybees. This paper aimed to review existing studies on bee floral resources in Ethiopia to understand the types of bee plants, floral diversity, flowering period and food source offered by the plants. Over 1500 species of indigenous and exotic plants belonging to 105 bee plant families have been identified. The growth form of bee forage comprises 41.6% herb, 28.7% shrubs, 21.7% trees, and 8% climbers. The majority of bee plant species flower from September to November and April to May, resulting in two major honey flow periods in the country. From this information, Ethiopia has rich bee forage diversity across different vegetation types, however, further collection and documentation of bee flora are required in unaddressed areas of the country. Thus in situ conservation by ecological restoration, and raising and planting of seedlings of bee forages should be promoted for sustainable honey production.

scholarly journals A Genomic Approach to Study Anthocyanin Synthesis and Flower Pigmentation in Passionflowers

2011 ◽  
Vol 2011 ◽  
pp. 1-17 ◽  
Author(s):  
Lilian Cristina Baldon Aizza ◽  
Marcelo Carnier Dornelas
Keyword(s):  
Expressed Sequence Tags ◽  
Anthocyanin Biosynthesis ◽  
Anthocyanin Synthesis ◽  
Biosynthesis Pathway ◽  
Wide Range ◽  
Genomic Approach ◽  
Flower Pigmentation ◽  
Temporal Accumulation ◽  
Expressed Sequence

Most of the plant pigments ranging from red to purple colors belong to the anthocyanin group of flavonoids. The flowers of plants belonging to the genusPassiflora(passionflowers) show a wide range of floral adaptations to diverse pollinating agents, including variation in the pigmentation of floral parts ranging from white to red and purple colors. Exploring a database of expressed sequence tags obtained from flower buds of two divergentPassifloraspecies, we obtained assembled sequences potentially corresponding to 15 different genes of the anthocyanin biosynthesis pathway in these species. The obtained sequences code for putative enzymes are involved in the production of flavonoid precursors, as well as those involved in the formation of particular (“decorated”) anthocyanin molecules. We also obtained sequences encoding regulatory factors that control the expression of structural genes and regulate the spatial and temporal accumulation of pigments. The identification of some of the putativePassifloraanthocyanin biosynthesis pathway genes provides novel resources for research on secondary metabolism in passionflowers, especially on the elucidation of the processes involved in floral pigmentation, which will allow future studies on the role of pigmentation in pollinator preferences in a molecular level.

Methodologies for Plasmopara halstedii Research

Helia ◽  
2019 ◽  
Vol 42 (71) ◽  
pp. 173-186
Author(s):  
Ana Laura Martínez ◽  
Freda Anderson ◽  
Facundo Quiroz ◽  
Antonio Garayalde ◽  
Ignacio Erreguerena ◽  
...  
Keyword(s):  
Expressed Sequence Tags ◽  
High Yield ◽  
Infected Leaf ◽  
Chain Reaction ◽  
Plasmopara Halstedii ◽  
Yield And Quality ◽  
Polymerase Chain ◽  
Expressed Sequence

Abstract The objective of this work was to find practical procedures to overcome methodological drawbacks encountered during studies on sunflower downy mildew. Techniques for recovering living isolates of Plasmopara halstedii from the field and for the preservation of infected leaf samples for further molecular analysis were developed. A Polymerase Chain Reaction (PCR)-based test for the detection of P. halstedii in sunflower leaves and a method to remove azoxystrobin from fungicide-treated seeds are proposed. In situ-inoculations of pre-germinated seeds allowed the recovery of living isolates from the field. Three sample-preservation methods were evaluated (silica, heating and lyophilization) resulting in high yield and quality of the DNA extract. It was detected the presence of the pathogen in symptomless leaves through PCR using molecular markers based on expressed sequence tags. A treatment using sodium hypochlorite is recommended for the removal of azoxystrobin from fungicide treated seeds.

scholarly journals Isolation and Functional Characterization of SOC1-like Genes in Prunus mume

2016 ◽  
Vol 141 (4) ◽  
pp. 315-326 ◽  
Author(s):  
Yushu Li ◽  
Zongda Xu ◽  
Weiru Yang ◽  
Tangren Cheng ◽  
Jia Wang ◽  
...  
Keyword(s):  
Flower Development ◽  
Molecular Mechanisms ◽  
Reproductive Development ◽  
Early Flowering ◽  
Prunus Mume ◽  
Mads Box ◽  
Vegetative Organs ◽  
Expression Levels ◽  
Wide Range ◽  
Mads Box Gene

The MADS-box gene SOC1/TM3 (suppressor of overexpression of constans 1/tomato MADS-box gene 3) integrates multiple flowering signals to regulate the transition from vegetative to reproductive development in arabidopsis (Arabidopsis thaliana). Although SOC1-like genes have been isolated from a wide range of plant species, their orthologs are not well characterized in mei (Prunus mume), an important ornamental and fruit plant in east Asia. To better understand the molecular regulation of flower development in mei, we isolated and characterized three putative orthologs of arabidopsis SOC1, including PmSOC1-1, PmSOC1-2, and PmSOC1-3. The phylogenetic tree revealed that these genes fall into different subgroups within the SOC1-like gene group, suggesting distinct functions. PmSOC1-1 and PmSOC1-3 were mainly expressed in vegetative organs and at low expression levels in floral parts of the plants, whereas PmSOC1-2 was expressed only in vegetative organs. Furthermore, the expression level decreased significantly during flower bud differentiation development, suggesting a role for these genes in the transition from the vegetative to the reproductive phase. Overexpression of PmSOC1-1, PmSOC1-2, and PmSOC1-3 in arabidopsis caused early flowering. Early flowering also increased expression levels of four other flowering promoters, agamous-like 24 (AGL24), leafy (LFY), apetala 1 (AP1), and fruitfull (FUL). Moreover, the overexpression of PmSOC1-1 and PmSOC1-2 resulted in a range of floral phenotype changes such as sepals into leaf-like structures, petal color into green, and petal into filament-like structures. These results suggested that the genes PmSOC1-1, PmSOC1-2, and PmSOC1-3 play an evolutionarily conserved role in promoting flowering in mei, and may have distinct roles during flower development. Our findings will help elucidate the molecular mechanisms involved in the transition from vegetative to reproductive development in mei.

scholarly journals Short note: Development, characterization and cross-amplification of eight EST-derived microsatellites in Salix

2014 ◽  
Vol 63 (1-6) ◽  
pp. 113-115 ◽  
Author(s):  
X. He ◽  
J. Zheng ◽  
M. Serapiglia ◽  
L. Smart ◽  
S. Shi ◽  
...  
Keyword(s):  
Expressed Sequence Tags ◽  
Polymorphic Information Content ◽  
Short Note ◽  
Functional Markers ◽  
Sequence Identity ◽  
Expected Heterozygosity ◽  
Wide Range ◽  
Ssr Loci ◽  
Expressed Sequence ◽  
Simple Sequence

Abstract A set of eight simple sequence repeat (SSR) markers were developed from 707 Salix expressed sequence tags (ESTs) deposited in GenBank. Each of the EST-SSR amplicons was identical to the original EST, with sequence identity 60.90-96.03% and presence of the expected repeat motifs. Of the eight EST-SSR loci, five were polymorphic among 14 individuals of S. eriocephala, with the number of alleles per locus (Na), observed heterozygosity (Ho), expected heterozygosity (He) and polymorphic information content (PIC) being 2-7 (mean 4.8), 0.29-0.85 (mean 0.65), 0.25-0.84 (mean 0.65) and 0.21-0.78 (mean 0.58), respectively. High rates of crossspecies/ genus amplification were also observed within fourteen different species. The primer sequences for the eight EST-SSRs have been deposited in the Probe database of GenBank (IDs Pr031820546 - Pr031820553). The EST-SSRs developed herein would be a valuable addition of functional markers for genetics and breeding applications in a wide range of Salix species.

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