Genome assemblies for two Neotropical trees: Jacaranda copaia and Handroanthus guayacan.

The lack of genomic resources for tropical canopy trees is impeding several research avenues in tropical forest biology. We present genome assemblies for two Neotropical hardwood species, Jacaranda copaia and Handroanthus (formerly Tabebuia) guayacan, that are model systems for research on tropical tree demography and flowering phenology. For each species, we combined Illumina short-read data with in vitro proximity-ligation (Chicago) libraries to generate an assembly. For Jacaranda copaia, we obtained 104X physical coverage and produced an assembly with N50/N90 scaffold lengths of 1.020/0.277 Mbp. For H. guayacan, we obtained 129X coverage and produced an assembly with N50/N90 scaffold lengths of 0.795/0.165 Mbp. J. copaia and H. guayacan assemblies contained 95.8% and 87.9% of benchmarking orthologs, although they constituted only 77.1% and 66.7% of the estimated genome sizes of 799 and 512 Mbp, respectively. These differences were potentially due to high repetitive sequence content (>59.31% and 45.59%) and high heterozygosity (0.5% and 0.8%) in each species. Finally, we compared each new assembly to a previously sequenced genome for Handroanthus impetiginosus using whole-genome alignment. This analysis indicated extensive gene duplication in H. impetiginosus since its divergence from H. guayacan.

O Crescimento de duas espécies florestais pioneiras, pau-de-balsa (Ochroma lagopus Sw.) e caroba (Jacaranda copaia D. Don), usadas para recuperação de áreas degradadas pela agricultura na Amazônia Central, Brasil / Growth of two forest pioneer species, pau-de-balsa (Ochroma lagopus Sw.) e caroba (Jacaranda copaia D. Don), used for rehabilitation of degraded areas from agriculture in Central Amazon, Brazil

O objetivo deste trabalho foi estudar o crescimento das espécies florestais pioneiras pau-de-balsa (Ochroma lagopus Sw.) e caroba (Jacaranda copaia D. Don) para a recuperação de áreas degradadas pela agricultura. Na área, situada no km 120 da BR-174, tinha sido plantado mandioca e banana e abandonada há 8 anos, formando uma capoeira de porte baixo e rala. O experimento foi instalado em maio/98, com e sem gradagem da área. O espaçamento foi de 3x3m, em covas de 20 cm (diâmetro) x 30 cm (profundidade), com adubação de 150g/cova de NPK (4-16-8) e calcário dolomítico na proporção de 3:1. Para a avaliação do crescimento, foram medidas a altura e o diâmetro das plantas aos 2 meses (julho/98) e a cada ano aproximadamente (junho/99, setembro/00 e maio/01). Os dados foram analisados através do delineamento inteiramente casualisado. A sobrevivência do pau-de-balsa foi maior em área gradeada (97,1 por cento) do que em area não gradeada (92,5 por cento), após o primeiro ano do plantio; da caroba, foi cerca de 90 por cento e sem diferenças entre as areas. A altura e diâmetro do pau-de-balsa, foram maiores em área gradeada, a partir do primeiro ano, chegando no terceiro ano a 11,85 m de altura e 11,42 cm de diâmetro. Na caroba, a diferença ocorreu a partir do segundo ano e no terceiro chegou a 8,37 m de altura e 11,18 cm de diâmetro. Além de outros fatores inerentes às espécies, o solo mais friável das áreas gradeadas, possibilitou um maior crescimento em altura e diâmetro das duas espécies estudadas.

The objective of experiment was study the growth of pioneer forest species pau-de-balsa (Ochroma lagopus) and caroba (Jacaranda copaia) to rehabilitate degraded areas from agriculture. The experiment carried out at Br-174, km 120. After the use for cassava and banana plantations the area was abandoned for 8 years. The secondary forest that took place was of low height and sparse trees. The experiment was installed at may/98 and composed by harrowed and no harrowed areas. The seedlings were planted in 3 x 3 m spacing, in 20 cm diameter by 30 cm deep holes, with 150g of fertilizer NPK (4-16-8) and dolomite limestone in the proportion 3:1. To evaluation the growth were measured the height and diameter in july/98 and each year, approximately (June/99, September/00 and May/01). The data were obtained from planted species comparing harrowed and no harrowed areas in a full random design. The survival of pau-de-balsa, was greater in harrowed area (97,1 percent) in relation to no harrowed area (92,5 percent) after one year of planting; and the survival of caroba, was 90 percent after one year of planting and showed no difference when compared the harrowed and no harrowed areas. The height and diameter of pau-de-balsa were greater in harrowed area after one year of planting, reaching 11.85 m and 11.42 cm, respectively. The differences occurred in caroba trees after the second year of planting, and reached, in the third year, 8.37 m of high and 11,18 cm in diameter. Besides other factors inherent to the species, the more friable soil of the harrowed area, facilitated higher growth to two studied species.