Sequence analysis of the cupin gene family in Synechocystis PCC6803

The recently described cupin superfamily of proteins includes the germin and germinlike proteins, of which the cereal oxalate oxidase is the best characterized. This superfamily also includes seed storage proteins, in addition to several microbial enzymes and proteins with unknown function. All these proteins are characterized by the conservation of two central motifs, usually containing two or three histidine residues presumed to be involved with metal binding in the catalytic active site. The present study on the coding regions of Synechocystis PCC6803 identifies a previously unknown group of 12 related cupins, each containing the characteristic two-motif signature. This group comprises 11 single-domain proteins, ranging in length from 104 to 289 residues, and includes two phosphomannose isomerases and two epimerases involved in cell wall synthesis, a member of the pirin group of nuclear proteins, a possible transcriptional regulator, and a close relative-of a cytochrome c551 from Rhodococcus. Additionally, there is a duplicated, two-domain protein that has close similarity to an oxalate decarboxylase from the fungus Collybia velutipes and that is a putative progenitor of the storage proteins of land plants.

Modeling based on the structure of vicilins predicts a histidine cluster in the active site of oxalate oxidase

It is known that germin, which is a marker of the onset of growth in germinating wheat, is an oxalate oxidase, and also that germins possess sequence similarity with legumin and vicilin seed storage proteins. These two pieces of information have been combined in order to generate a 3D model of germin based on the structure of vicilin and to examine the model with regard to a potential oxalate oxidase active site. A cluster of three histidine residues has been located within the conserved beta-barrel structure. While there is a relatively low level of overall sequence similarity between the model and the vicilin structures, the conservation of amino acids important in maintaining the scaffold of the beta-barrel lends confidence to the juxtaposition of the histidine residues. The cluster is similar structurally to those found in copper amine oxidase and other proteins, leading to the suggestion that it defines a metal-binding location within the oxalate oxidase active site. It is also proposed that the structural elements involved in intermolecular interactions in vicilins may play a role in oligomer formation in germin/oxalate oxidase.

Germin and germin-like proteins: evolution, structure, and function

Germin and germin-like proteins (GLPs) are encoded by a family of genes found in all plants. They are part of the cupin superfamily of biochemically diverse proteins, a superfamily that has a conserved tertiary structure, though with limited similarity in primary sequence. The subgroups of GLPs have different enzyme functions that include the two hydrogen peroxide-generating enzymes, oxalate oxidase (OxO) and superoxide dismutase. This review summarizes the sequence and structural details of GLPs and also discusses their evolutionary progression, particularly their amplification in gene number during the evolution of the land plants. In terms of function, the GLPs are known to be differentially expressed during specific periods of plant growth and development, a pattern of evolutionary subfunctionalization. They are also implicated in the response of plants to biotic (viruses, bacteria, mycorrhizae, fungi, insects, nematodes, and parasitic plants) and abiotic (salt, heat/cold, drought, nutrient, and metal) stress. Most detailed data come from studies of fungal pathogenesis in cereals. This involvement with the protection of plants from environmental stress of various types has led to numerous plant breeding studies that have found links between GLPs and QTLs for disease and stress resistance. In addition the OxO enzyme has considerable commercial significance, based principally on its use in the medical diagnosis of oxalate concentration in plasma and urine. Finally, this review provides information on the nutritional importance of these proteins in the human diet, as several members are known to be allergenic, a feature related to their thermal stability and evolutionary connection to the seed storage proteins, also members of the cupin superfamily.

Cupins: the most functionally diverse protein superfamily?

The cupin superfamily of proteins, named on the basis of a conserved β-barrel fold (‘cupa’ is the Latin term for a small barrel), was originally discovered using a conserved motif found within germin and germin-like proteins from higher plants. Previous analysis of cupins had identified some 18 different functional classes that range from single-domain bacterial enzymes such as isomerases and epimerases involved in the modification of cell wall carbohydrates, through to two-domain bicupins such as the desiccation-tolerant seed storage globulins, and multidomain transcription factors including one linked to the nodulation response in legumes. Recent advances in comparative genomics, and the resolution of many more 3-D structures have now revealed that the largest subset of the cupin superfamily is the 2-oxyglutarate-Fe2+ dependent dioxygenases. The substrates for this subclass of enzyme are many and varied and in total amount to probably 50–100 different biochemical reactions, including several involved in plant growth and development. Although the majority of enzymatic cupins contain iron as an active site metal, other members contain either copper, zinc, cobalt, nickel or manganese ions as a cofactor, with each cofactor allowing a different type of chemistry to occur within the conserved tertiary structure. This review discusses the range of structures and functions found in this most diverse of superfamilies.

A molecular and structural characterization of senescing Arabidopsis siliques and comparison of transcriptional profiles with senescing petals and leaves

Senescence of plant organs is a genetically controlled process that regulates cell death to facilitate nutrient recovery and recycling, and frequently precedes, or is concomitant with, ripening of reproductive structures. In Arabidopsis thaliana, the seeds are contained within a silique, which is itself a photosynthetic organ in the early stages of development and undergoes a programme of senescence prior to dehiscence. A transcriptional analysis of the silique wall was undertaken to identify changes in gene expression during senescence and to correlate these events with ultrastructural changes. The study revealed that the most highly up-regulated genes in senescing silique wall tissues encoded seed storage proteins, and the significance of this finding is discussed. Global transcription profiles of senescing siliques were compared with those from senescing Arabidopsis leaf or petal tissues using microarray datasets and metabolic pathway analysis software (MapMan). In all three tissues, members of NAC and WRKY transcription factor families were up-regulated, but components of the shikimate and cell-wall biosynthetic pathways were down-regulated during senescence. Expression of genes encoding ethylene biosynthesis and action showed more similarity between senescing siliques and petals than between senescing siliques and leaves. Genes involved in autophagy were highly expressed in the late stages of death of all plant tissues studied, but not always during the preceding remobilization phase of senescence. Analyses showed that, during senescence, silique wall tissues exhibited more transcriptional features in common with petals than with leaves. The shared and distinct regulatory events associated with senescence in the three organs are evaluated and discussed.

Gene duplication and an accelerated evolutionary rate in 11S globulin genes are associated with higher protein synthesis in dicots as compared to monocots

Background: Seed storage proteins are a major source of dietary protein, and the content of such proteins determines both the quantity and quality of crop yield. Significantly, examination of the protein content in the seeds of crop plants shows a distinct difference between monocots and dicots. Thus, it is expected that there are different evolutionary patterns in the genes underlying protein synthesis in the seeds of these two groups of plants. Results: Gene duplication, evolutionary rate and positive selection of a major gene family of seed storage proteins (the 11S globulin genes), were compared in dicots and monocots. The results, obtained from five species in each group, show more gene duplications, a higher evolutionary rate and positive selections of this gene family in dicots, which are rich in 11S globulins, but not in the monocots. Conclusion: Our findings provide evidence to support the suggestion that gene duplication and an accelerated evolutionary rate may be associated with higher protein synthesis in dicots as compared to monocots.

Produção e qualidade fisiológica de sementes de soja avaliadas na semeadura de inverno

O cultivo da soja fora da época convencional pode ser uma alternativa de rotação de cultura além de proporcionar sementes de melhor qualidade fisiológica, que podem ser utilizadas na semeadura da próxima safra diminuindo o período de armazenamento. O trabalho de pesquisa teve por objetivo avaliar o comportamento de sete cultivares de soja, em três densidades populacionais, quanto ao porte e altura de inserção da primeira vagem, assim como quanto à produção e qualidade fisiológica das sementes, semeadas no período de inverno, na região de Selvíria-MS. O delineamento experimental foi em blocos casualizados, com quatro repetições, dispostos em esquema fatorial 7 ×3. Os tratamentos constaram de sete cultivares (IAC-16, IAC-Foscarin 31, FT-2, IAC-17, IAC-8, Doko e FT-Cristalina) e três densidades de plantas (300, 400 e 500 mil plantas ha-1). O ciclo da soja foi reduzido no cultivo de inverno, principalmente nos cultivares considerados tardios. O fotoperíodo no cultivo de inverno reduziu o período entre o florescimento e a maturação. O cultivar IAC-8 foi o menos sensível ao fotoperíodo, possuindo maturação em época semelhante aos cultivares tardios, e apresentou as melhores características agronômicas para o cultivo no período de inverno. É aconselhável o aumento de densidade de semeadura quando do uso de cultivares precoces em cultivos de inverno. Não é aconselhável armazenar sementes em condições ambientes, principalmente com valores de germinação próximo ao limite inferior desejável (80%).

Desempenho de sementes de algodão tratadas quimicamente e armazenadas

Considerando que o armazenamento desempenha papel decisivo na manutenção da qualidade da semente, desenvolveu-se este trabalho com o objetivo de avaliar a qualidade fisiológica e fitossanitária de sementes de algodão, tratadas quimicamente e armazenadas por doze meses. Foram utilizados dois lotes de sementes de algodão cv. DeltaPine-AC90, deslintados quimicamente, que foram submetidos aos tratamentos fungicidas e inseticidas: testemunha; Disulfoton + Carboxin + Thiram; Carbofuran + Carboxin + Thiram; Imidacloprid + Tolylfluanid + Pencycuron. As sementes foram armazenadas em armazém sem controle de temperatura e umidade relativa do ar. Foram retiradas amostras de sementes no início do armazenamento e a cada dois meses e avaliadas quanto ao teor de água, à porcentagem de germinação, ao vigor (testes de envelhecimento acelerado e de germinação à baixa temperatura), à sanidade e à emergência das plântulas. O delineamento utilizado foi o inteiramente casualizado, em esquema fatorial, com quatro repetições. Verificou-se redução da germinação e do vigor de sementes em função do armazenamento. A redução da qualidade fisiológica associou-se com o aumento na ocorrência de Aspergillus sp. e Penicillium sp. nas sementes. A manutenção da qualidade de sementes de algodão foi obtida até o oitavo mês de armazenagem, podendo-se concluir que: a eficiência do tratamento químico de sementes de algodão depende da combinação de produtos utilizados; não se deve tratar com fungicida sementes de algodão com baixo nível de vigor; a ocorrência dos fungos Aspergillus sp. e Penicillium sp. aumentou com o período de armazenamento nas sementes sem tratamento e que a manutenção da qualidade de sementes de algodão para comercialização depende da sua qualidade inicial e do período de armazenamento.

Teste de condutividade elétrica em sementes de soja armazenadas sob diferentes temperaturas

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Germinação de sementes de pau-ferro submetidas a diferentes condições de armazenamento, escarificação química, temperatura e luz

Caesalpinia leiostachya (Benth.) Ducke (pau-ferro) é uma planta arbórea nativa do Brasil, cujas sementes possuem dormência causada pela impermeabilidade do tegumento à água. Neste trabalho foram conduzidos dois experimentos, nos quais foram utilizados diferentes períodos de escarificação em ácido sulfúrico concentrado para superar a dormência das sementes. No primeiro experimento, sementes coletadas em agosto de 1997 foram armazenadas por oito meses em ambiente não controlado no interior do próprio fruto, e em câmara seca após serem extraídas dos frutos; a seguir, elas foram imersas em ácido sulfúrico por 0, 10, 20, 40, 60 e 80min e colocadas para germinar nas temperaturas constante de 25ºC e alternada de 20-30°C, sob fotoperíodo de 8h. No segundo experimento, sementes extraídas de frutos recém-coletados em agosto de 1998 foram imersas em ácido sulfúrico por 0, 10, 20, 30, 40 e 60min, seguido do teste de germinação conduzido nas mesmas temperaturas do experimento anterior, na ausência e presença de luz. Foram avaliados a porcentagem final e o índice de velocidade de germinação das sementes. Os resultados mostraram que (a) a manutenção das sementes no interior dos frutos é uma alternativa viável para o armazenamento durante o período adotado; (b) as sementes recém-coletadas são indiferentes à luz, nas duas temperaturas testadas; (c) as sementes recém-coletadas e as armazenadas germinam em maior velocidade a 25ºC; (d) em sementes armazenadas, a imersão em ácido sulfúrico por 10min é suficiente para superar a dormência; (e) em sementes recém-coletadas, a imersão em ácido sulfúrico por 20 a 30min favorece a porcentagem e a velocidade de germinação.

Resistance of stored bean varieties to Acanthoscelides obtectus (Coleoptera : Bruchidae)

During bean seed storage, yield can be lost due to infestations of Acanthoscelides obtectus Say, the bean weevil. The use of resistant varieties has shown promising results in fighting these insects, reducing infestation levels and eliminating chemical residues from the beans. The expression of resistance to A. obtectus in bean varieties is frequently attributed to the presence of phytohemagglutinins, protease inhibitors and alpha-amylase, and especially to variants of the protein arcelin, which reduce the larval viability of these insects. To evaluate the effect of bean seed storage time on the resistance expression of bean varieties to A. obtectus, tests with seeds of three ages (freshly-harvested, 4-month-old, and 8-month-old) were conducted in the laboratory, using four commercial varieties: Carioca Pitoco, Ipa 6, Porrillo 70, Onix; four improved varieties containing arcelin protein: Are. 1, Arc.2, Arc. 3, Arc.4; and three wild varieties also containing arcelin protein: Arc. IS, Arc.3S, and Arc. 5S. The Arc.5S, Arc. IS, and Arc.2 varieties expressed high antibiosis levels against the weevil; Arc. I and Arc3S expressed the same mechanism, but at lower levels. The occurrence of oviposition non-preference was also observed in Arc.5S and Arc. IS. The Arc.3 and Arc. 4 varieties expressed low feeding non-preference levels against A. obtectus. The expression of resistance in arcelin-bearing, wild or improved varieties was affected during the storage of seeds, and was high under some parameters but low in others. The results showed that addition of chemical resistance factors such as protein arcelin via genetic breeding may be beneficial in improving the performance of bean crops.

Efeito da idade e do repouso pós-colheita de frutos de pepino na semente armazenada

Para avaliar os efeitos da idade e do repouso pós-colheita de frutos de pepino (Cucumis sativus L.) de duas cultivares, Pérola (espinhos escuros) e Rubi (espinhos claros), sobre as alterações na qualidade fisiológica das sementes durante o armazenamento, conduziu-se um experimento em Botucatu, SP e Bandeirantes, PR, durante quatro anos. Os frutos foram colhidos desde os 15 ('Rubi') ou 20 ('Pérola') dias até 45 dias após a antese, permanecendo em repouso pós-colheita por 0, 5, 10 e 15 dias, antes da extração das sementes. Antes e após dois e três anos de armazenamento (sacos de papel em ambiente de laboratório), foram retiradas amostras para avaliação do potencial germinativo e do vigor. Os resultados revelaram que sementes imaturas, retiradas de frutos colhidos precocemente (até 30 dias após a antese) e sem repouso pós-colheita, perderam totalmente a capacidade germinativa no segundo ano de armazenamento. Sementes que apresentavam valores iniciais de germinação mais elevados, as colhidas de frutos maduros (com ou sem repouso pós-colheita) ou de imaturos (30 e 35 dias de idade) com 10 a 15 dias de repouso pós-colheita, mantiveram valores acima de 70% após três anos de armazenamento.

Caracterização genética e in situ de Gossypium barbadense na região norte do Brasil

Brazil has been considered one of the diversity centers of Gossypium barbadense species. It is believed that a relatively big erosion genetic process occurs with the species, due to economic, cultural and agricultural problems. A local diagnostic about species situation is the first step for reducing the diversity loss and establishing conservation strategies in situ. This research aimed the identification of the presence of Gossypium populations, characterization, determination of the main risks and collection of the accesses to store in germoplam banks, in Para and Amapa States. Expeditions were conducted in November 2004. An interview was carried out with the plant proprietor for characterizing in situ of G. barbadense species and of the environment where the plants were inserted. On hundred seventy nine plants in 22 municipal districts were collected in Para State and 117 plants in nine municipal districts in Amapa State. The majority of plants belong to G. barbadense species (98% in Amapa and 94% in Para). Plants occur in back yards, beside roads and spontaneously. That ones from back yards were more abundant (97% in Amapa and 95% in Para) and maintained as medicinal plants as the principal reason. Plants in natural environments in both states evaluated were not found, therefore, the creation of reserves and the application of others conventional methods of maintenance in situ are not applicable. The plant proprietors do not use to store or process seeds. Seed storage was reported as a practice by only 1% of the plant proprietors from Para and 11% from Amapa. The most plants collected were from two to three years of age (58% in Amapa and 93% in Para). As conclusions G. barbadense is the species most spread in the two studied states and are found in back yards. In Amapa State the botanical variety barbadense or Quebradinho is predominant, whereas in Para State the predominant variety is brasiliense or Rim-de-boi. Adequate conservation of thestudied species must be carried out in germoplasm collections maintained ex situ

Genetic diversity analysis in the section Caulorrhizae (genus Arachis) using microsatellite markers

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Germinação de Pyrostegia venusta (Bignoniaceae), viabilidade de sementes e desenvolvimento pós-seminal

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)