Characterization, high-resolution mapping and differential expression of three homologous PAL genes in Coffea canephora Pierre (Rubiaceae)

Lepelley, Maud; Mahesh, V.; McCarthy, John A.; Rigoreau, Michel; Crouzillat, Dominique; Chabrillange, Nathalie; Kochko, Alexandre de; Campa, Claudine

doi:10.1007/s00425-012-1613-2

Cited by 58 publications

(42 citation statements)

References 70 publications

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“…In coffee beans, CcPAL1 and CcPAL3 are associated with a high accumulation of cholorogenic acids (CGA), whereas Cc-PAL2 may contribute more significantly to flavonoid accumulation (Lepelley et al 2012). Similar results were also observed for two Populus tremuloides PAL types, of which PtPAL1 was involved in condensed tannin metabolism and PtPAL2 was associated with monolignol biosynthesis (Kao et al 2002).…”

Section: Discussionsupporting

confidence: 53%

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Hydrogen peroxide might be a downstream signal molecule of hydrogen sulfide in seed germination of mung bean (Vigna radiata)

2015

Biologia

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Phenylalanine ammonia-lyase (PAL) and cinnamate 4-hydroxylase (C4H) are the first and second key enzymes of the phenylpropanoid pathway. Systematic analysis of the DfPAL gene family and DfC4H have not been performed in Dryopteris fragrans (L.) Schott. To date, PAL and C4H genes have been less extensively studied in monilophytes than in angiosperms. Here we report the identification of threeDfPAL and DfC4H fragments using cDNA cloning and sequencing. Bioinformatics and phylogenetic analyses showed that DfPAL1 and DfPAL2 were quite similar at the amino acid level (94.88%), whereas DfPAL3 was relatively low similar to both of the other paralogs. Some important functional domains were conserved in three DfPAL and DfC4H genes. DfPAL3 and DfC4H were highly expressed in gametophytes and petioles of D. fragrans, DfPAL1 had the highest expression in petioles, and DfPAL2 had low expression in leaves and petioles. Only DfPAL2 and DfC4H were induced with 4 • C, 35 • C, and UV treatments, but the time responses were different. These results suggest complexity of the DfPAL-and DfC4H-associated metabolic network in D. fragrans. The results provide a basis for elucidating the role of DfPAL and DfC4H genes in the biosynthesis of bioactive compounds.

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Section: Discussionsupporting

confidence: 53%

“…PAL is encoded by a small multigene family in most plant species. There are four PAL genes in Arabidopsis thaliana (Raes et al 2003), five in Populus trichocarpa (Shi et al 2010), three in Scutellaria baicalensis , seven in Cucumis sativus (Shang et al 2012), and three in Coffea canephora (Lepelley et al 2012).…”

Section: Introductionmentioning

confidence: 99%

Hydrogen peroxide might be a downstream signal molecule of hydrogen sulfide in seed germination of mung bean (Vigna radiata)

2015

Biologia

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“…This causes immense confusion among both sufferers of celiac disease and gluten sensitivityand their health providers, who sometimes differ greatly on whether coffee can be safely included in a GFD. Despite the fact that a considerable amount of protein, ranging from 10% -14% of the dry weight, is found in green and roasted coffee seeds [30][31][32], there is not enough awareness of the fact that both an immune reaction and an allergy to coffee beans is possible. Coffee bean allergens were identified as early as 1978 [33], and diagnostic methodologies for the identification of coffee allergies have been described [34].…”

Section: Cross-reaction Between α-Gliadin and Coffee Proteinsmentioning

confidence: 99%

Cross-Reaction between Gliadin and Different Food and Tissue Antigens

Vojdani¹,

Tarash²

2013

FNS

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A subgroup of coeliac disease patients continues to experience symptoms even on a gluten-free diet (GFD). We attempted to determine whether these symptoms could be due to either cross-contamination with gluten-containing foods or cross-reactivity between α-gliadin and non-gluten foods consumed on a GFD. We measured the reactivity of affinity-purified polyclonal and monoclonal α-gliadin 33-mer peptide antibodies against gliadin and additional food antigens commonly consumed by patients on a GFD using ELISA and dot-blot. We also examined the immune reactivity of these antibodies with various tissue antigens. We observed significant immune reactivity when these antibodies were applied to cow's milk, milk chocolate, milk butyrophilin, whey protein, casein, yeast, oats, corn, millet, instant coffee and rice. To investigate whether there was cross-reactivity between α-gliadin antibody and different tissue antigens, we measured the degree to which this antibody bound to these antigens. The most significant binding occurred with asialoganglioside, hepatocyte, glutamic acid decarboxylase 65, adrenal 21-hydroxylase, and various neural antigens. The specificity of anti-α-gliadin binding to different food and tissue antigens was demonstrated by absorption and inhibition studies. We also observed significant cross-reactivity between α-gliadin 33-mer and various food antigens, but some of these reactions were associated with the contamination of non-gluten foods with traces of gluten. The consumption of cross-reactive foods as well as gluten-contaminated foods may be responsible for the continuing symptoms presented by a subgroup of patients with coeliac disease. The lack of response of some CD patients may also be due to antibody cross-reactivity with non-gliadin foods. These should then be treated as gluten-like peptides and should also be excluded from the diet when the GFD seems to fail.

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“…These are candidate genes which may control the variability of coffee quality . Genes regulating the main chemical components that are thought to be involved in the flavour and sensory quality of coffee are listed in Table 2.8 (Campa et al, 2003;Denoeud et al, 2014;Geromel et al, 2006;Joët et al, 2009;Kato and Mizuno, 2004;Koshiro et al, 2006;Lepelley et al, 2012;Leroy et al, 2011;Leroy et al, 2005;Mahesh et al, 2006;Mizuno et al, 2014;Mizuno et al, 2003b;Ogawa et al, 2001;Ogita et al, 2004;Perrois et al, 2014;Privat et al, 2011;Privat et al, 2008;Simkin et al, 2006;Uefuji et al, 2003).…”

Section: Gene Identificationmentioning

confidence: 99%

“…canephora CcSUS1, Fatty acid: (1) Privat et al, 2011;(2) Simkin et al, 2006;(3) Denoeud et al 2014; CGAs: (1) Joët et al 2012; (2) Mahesh et al 2006;Lepelley et al 2012;Denoeud et al 2014;Campa et al, 2003;Lepelley et al, 2007).…”

Section: Gene Identificationunclassified

Genomic studies of biochemical compounds determining arabica coffee (Coffea arabica L.) quality

Tran¹

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Coffee is an important crop globally. Improving coffee quality is a primary breeding target that would benefit from understanding of trait inheritance and ancestral genetic information. However, comparatively little information exists on the genetics of quality and the relationships between wild and cultivated coffee genotypes, especially arabica coffee (Coffea arabica L.) which accounts for almost 60% of coffee production globally. The complex polyploidy genome and limited genomic information for C. arabica have impeded the progress of genetic studies. Arabica coffee is among the major organisms that do not have a reference genome. This project aimed to develop and utilise genomic resources in genetic studies of arabica coffee quality. The relationship between coffee species and the position of arabica within the Coffeeae tribe were investigated using complete chloroplast genome sequences to determine the value of these genetic resources in breeding. A draft genome sequence of arabica coffee was developed. Marker-trait associations were studied for caffeine and trigonelline, the two principal compounds known to be related to coffee quality, paving the way for developing new improved varieties with preferred levels of these compounds in the coffee beans.Chloroplast genomes of 16 coffee species were sequenced and their phylogeny constructed. Results support distinct Psilanthus and Coffea clades. It is likely that C. canephora is a hybrid that has a Psilanthus maternal genome but received much of its nuclear genome from Coffea. The maternal genomes of C. arabica and C. canephora are divergent. This result is in agreement with the fact that the chloroplast genome of arabica should be that of the maternal parent i.e. C. eugenioides. There were two species (C. humblotiana and C. tetragona) close to C. arabica and one species (P. ebracteolatus) close to C. canephora containing almost no caffeine. They could serve as important materials in arabica quality breeding and research.For the association study, 232 diverse arabica coffee accessions originating from 27 countries were harvested from the germplasm collection at CATIE (Tropical Agricultural Research and Higher Education Centre), Costa Rica. Substantial variation between genotypes was observed for bean morphology attributes. Non-volatiles including caffeine and trigonelline showed larger variation in range than was previously reported. Results of targeted analysis of 18 volatiles from 35 accessions also showed significant variation. No strong correlation was found between bean morphology and the levels of non-volatile or volatile compounds, implying that it is difficult to select for low or high non-volatile and volatile compounds based on bean physical characteristics. However, it also indicates that breeding for desirable combinations of traits (i.e. large bean size, low caffeine, high trigonelline, and favourable volatiles) is possible.ii The genome of the most popular arabica variety (K7) in Australia was sequenced. Genome assembly was performed using b...

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Characterization, high-resolution mapping and differential expression of three homologous PAL genes in Coffea canephora Pierre (Rubiaceae)

Cited by 58 publications

References 70 publications

Hydrogen peroxide might be a downstream signal molecule of hydrogen sulfide in seed germination of mung bean (Vigna radiata)

Hydrogen peroxide might be a downstream signal molecule of hydrogen sulfide in seed germination of mung bean (Vigna radiata)

Cross-Reaction between Gliadin and Different Food and Tissue Antigens

Genomic studies of biochemical compounds determining arabica coffee (Coffea arabica L.) quality

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