João Batista Teixeira

Brazilian coffee genome project: an EST-based genomic resource

Coffee is one of the most valuable agricultural commodities and ranks second on international trade exchanges. The genus Coffea belongs to the Rubiaceae family which includes other important plants. The genus contains about 100 species but commercial production is based only on two species, Coffea arabica and Coffea canephora that represent about 70 % and 30 % of the total coffee market, respectively. The Brazilian Coffee Genome Project was designed with the objective of making modern genomics resources available to the coffee scientific community, working on different aspects of the coffee production chain. We have single-pass sequenced a total of 214,964 randomly picked clones from 37 cDNA libraries of C. arabica, C. canephora and C. racemosa, representing specific stages of cells and plant development that after trimming resulted in 130,792, 12,381 and 10,566 sequences for each species, respectively. The ESTs clustered into 17,982 clusters and 32,155 singletons. Blast analysis of these sequences revealed that 22 % had no significant matches to sequences in the National Center for Biotechnology Information database (of known or unknown function). The generated coffee EST database resulted in the identification of close to 33,000 different unigenes. Annotated sequencing results have been stored in an online database at http://www.lge.ibi.unicamp.br/cafe. Resources developed in this project provide genetic and genomic tools that may hold the key to the sustainability, competitiveness and future viability of the coffee industry in local and international markets.

Anatomia foliar de plantas micropropagadas de abacaxi

The objective of this work was to study leaf anatomy of pineapple plants in order to improve acclimatization protocols. In vitro plantlets weighting an average of 3.1 g and greenhouse plantlets derived from in vitro stock material, after six and ten months of culture, weighting an average of 50.2 and 65 g, respectively, were used. Stomatal density was determined on the abaxial epidermis, at the basal, median, and apical portions of the leaf, using a completely randomized design under 2x3 factorial (two culture environments and three leaf regions) with six replicates. Thickness of the hypodermis, aquiferous and photosynthetic parenchyma were determined at the median portion of the leaf using a totally randomized design with three treatments and four replicates. The basic structure of the pineapple leaf under in vitro conditions did not change. However, stomatal frequency, cuticular and epidermal wall thickening, shape and sinuosity of the cell walls of aquiferous parenchyma and the presence of papillary cells were verified as a result of environmental conditions during culture, indicating phenotypic plasticity.The objective of this work was to study leaf anatomy of pineapple plants in order to improve acclimatization protocols. In vitro plantlets weighting an average of 3.1 g and greenhouse plantlets derived from in vitro stock material, after six and ten months of culture, weighting an average of 50.2 and 65 g, respectively, were used. Stomatal density was determined on the abaxial epidermis, at the basal, median, and apical portions of the leaf, using a completely randomized design under 2x3 factorial (two culture environments and three leaf regions) with six replicates. Thickness of the hypodermis, aquiferous and photosynthetic parenchyma were determined at the median portion of the leaf using a totally randomized design with three treatments and four replicates. The basic structure of the pineapple leaf under in vitro conditions did not change. However, stomatal frequency, cuticular and epidermal wall thickening, shape and sinuosity of the cell walls of aquiferous parenchyma and the presence of papillary cells were verified as a result of environmental conditions during culture, indicating phenotypic plasticity.

Transcriptional activity, chromosomal distribution and expression effects of transposable elements in Coffea genomes.

Plant genomes are massively invaded by transposable elements (TEs), many of which are located near host genes and can thus impact gene expression. In flowering plants, TE expression can be activated (de-repressed) under certain stressful conditions, both biotic and abiotic, as well as by genome stress caused by hybridization. In this study, we examined the effects of these stress agents on TE expression in two diploid species of coffee, Coffea canephora and C. eugenioides, and their allotetraploid hybrid C. arabica. We also explored the relationship of TE repression mechanisms to host gene regulation via the effects of exonized TE sequences. Similar to what has been seen for other plants, overall TE expression levels are low in Coffea plant cultivars, consistent with the existence of effective TE repression mechanisms. TE expression patterns are highly dynamic across the species and conditions assayed here are unrelated to their classification at the level of TE class or family. In contrast to previous results, cell culture conditions per se do not lead to the de-repression of TE expression in C. arabica. Results obtained here indicate that differing plant drought stress levels relate strongly to TE repression mechanisms. TEs tend to be expressed at significantly higher levels in non-irrigated samples for the drought tolerant cultivars but in drought sensitive cultivars the opposite pattern was shown with irrigated samples showing significantly higher TE expression. Thus, TE genome repression mechanisms may be finely tuned to the ideal growth and/or regulatory conditions of the specific plant cultivars in which they are active. Analysis of TE expression levels in cell culture conditions underscored the importance of nonsense-mediated mRNA decay (NMD) pathways in the repression of Coffea TEs. These same NMD mechanisms can also regulate plant host gene expression via the repression of genes that bear exonized TE sequences.

Race 1 fusarium wilt tolerance on banana plants selected by fusaric acid

SummaryThe selection of tolerant variants to race 1 fusarium wilt of banana was carried out through the effects of fusaric acid onin vitro banana multiple bud clumps (MBCs). The MBCs of Maçã cultivar (Musa sp., AAB, Silk), which is susceptible to the race 1 fusarium wilt, were used. And, Nanicão cultivar (AAA, Cavendish subgroup) was used in the tolerant tests as control of a disease tolerant variety. Firstly, to aim at determining an appropriate concentration of the toxin for the tolerant selection, the MBCs were cultured on the Modified Murashige & Skoog medium supplemented with 0.05 to 1.6 mM fusaric acid. The growth on both cultivars was completely inhibited on the medium containing 0.1 mM fusaric acid.Tolerant variants of ‘Maçã’ were, then, selected with 0.1 mM fusaric acid after chemical mutagen treatment. The results showed an increased tolerance of the selected ‘Maçã’ plants to the race 1 fungus in greenhouse tests. In vitro selection by fusaric acid is a very useful method for obtaining fusarium disease tolerance, although the tolerance mechanism of the selected plants may be different from that of existing tolerant cultivars.

Fish Biodiversity of the Vitória-Trindade Seamount Chain, Southwestern Atlantic: An Updated Database

Despite a strong increase in research on seamounts and oceanic islands ecology and biogeography, many basic aspects of their biodiversity are still unknown. In the southwestern Atlantic, the Vitória-Trindade Seamount Chain (VTC) extends ca. 1,200 km offshore the Brazilian continental shelf, from the Vitória seamount to the oceanic islands of Trindade and Martin Vaz. For a long time, most of the biological information available regarded its islands. Our study presents and analyzes an extensive database on the VTC fish biodiversity, built on data compiled from literature and recent scientific expeditions that assessed both shallow to mesophotic environments. A total of 273 species were recorded, 211 of which occur on seamounts and 173 at the islands. New records for seamounts or islands include 191 reef fish species and 64 depth range extensions. The structure of fish assemblages was similar between islands and seamounts, not differing in species geographic distribution, trophic composition, or spawning strategies. Main differences were related to endemism, higher at the islands, and to the number of endangered species, higher at the seamounts. Since unregulated fishing activities are common in the region, and mining activities are expected to drastically increase in the near future (carbonates on seamount summits and metals on slopes), this unique biodiversity needs urgent attention and management.

Fluorescence and levels of chlorophyll in pineapple plants cv. perola submitted to different concentration of ammonium sulphate

The present research aimed to analyze chlorophyll a fluorescence emission as well as chlorophyll levels in Ananas comosus (L. Merril) cv Perola grown under greenhouse conditions and submitted to four concentration of nitrogen, through addition or not of ammonium sulphate according to the following treatments: To= 0.000; T1/2 = 0.015; T1 =0.030; and T2 = 0.060 g/kg soil. Determinations of minimum (F0), maximum (Fm), variable (Fv), and terminal (Ft) fluorescence and maximum photochemical efficiency (Fv/Fm) of dark-adapted leaves were carried out during the day, five days after the second application of ammonium sulphate, carried out 120 days after the transplant. The results showed that the addition of ammonium sulphate affected variable and maximum fluorescence, but not minimum and terminal fluorescence neither the photochemical efficiency. There were significant alterations in relation to the time of the day in which the fluorescence was read. Differences in leaf chlorophyll concentration were significant among treatments in relation to variations of ammonium sulphate concentration, with increase for chlorophyll a, total and to the ratio chlorophyll a/b, but not for chlorophyll b.

Influência da concentração de BAP e AG3 no desenvolvimento in vitro de mandioquinha-salsa

Two experiments were carried out to evaluate the effect of BAP and GA3 concentrations on the in vitro arracacha development. The concentrations tested were 0.0; 0.2 and 0.4 mg L-1 of BAP and 0.0; 0.125 and 0.250 mg L-1 of GA3 in the shoot tips with about 2 mm of arracacha, cultivars Amarela de Senador Amaral and Amarela Comum. The interaction of cultivars x BAP concentration was not significant for any one of the evaluated variables (P>0,0617). The increase in the BAP concentration reduced the callus formation; however, promoted larger reduction in the shoot development. The best BAP concentration was around 0.3 mg L-1, with relatively reduced callus diameter and good development of shoot, with a mean of 4.5 shoots and a height of 43 mm. The interaction of cultivars x GA3 concentration was not significant for any one of the studied variables (P>0,4310). The increase in the GA3 concentration promoted the improvement in the mean and maximum height of the shoots and in callus size. More shoots were observed for Amarela Comum cultivar in both trials.

Efeitos do meio de cultura e da relação BAP/ANA na multiplicação in vitro de clones de Eucalyptus grandis x E. urophylla em biorreator de imersão temporária

Three individual experiments were conducted in order to test different culture media and BAP/ NAA combinations on the multiplication of Eucalyptus grandis x E. urophylla clones using the temporary immersion bioreactor RITA ® . The MS medium and the frequency of immersion every two hours promoted the highest fresh weight and number of shoots per explant. However, cultures growth were different between the two clones evaluated. The combination of 1.0 µM BAP and 0.5 µM NAA promoted the greatest means in relation to fresh weight and number of shoots. The cultures presented high percentages of hyperhydricity and this physiological disorder was a limiting factor in the condition of this study Eucalyptus cultivation in bioreactors.

Harvest of endangered marine invertebrates in a priority area for conservation in Brazil

The harvesting of marine organisms for aquarium and ornamental art crafts is a very common and widespread activity, threatening a number of coral reef species. The goal of this manuscript is to report the intensive harvesting of two marine invertebrate species, the starfish Oreaster reticulatus and the gorgonian Phyllogorgia dilatata, in reef environments of a national priority area for the creation of a Marine Protected Area (MPA) in the Espírito Santo State, central coast of Brazil. These species were present on the 2003 Brazilian Red List of Endangered species as threatened of extinction, but P. dilatata was removed from the most recent 2014 Brazilian Red List, while O. reticulatus is currently considered vulnerable. Neither species have been assessed by IUCN. The harvest of these invertebrates was registered in 17% of the 51 days of monitoring (ten expeditions between March 2005 and February 2006), with catches of up to 24 starfishes and 1000 gorgonians in a single day. Starfishes used to be sold to local traders for US

Quebra de dormência, viabilidade e conservação de sementes de buriti (Mauritia flexuosa)

0.50 each, and each gorgonian for US