Diluição celular, características do meio de cultura e biorreatores de imersão temporária na diferenciação e regeneração de células em suspensão de bananeira

Altos custos de produção geralmente limitam o uso comercial da micropropagação. O uso de meios de cultura líquidos é considerado uma solução para a automação e redução de custos. Entretanto, dependendo da cultivar de bananeira, esse processo pode mostrar diferentes níveis de dificuldade, e adaptações nos protocolos são necessárias. Neste estudo, experimentos de diferenciação celular e regeneração de plantas foram desenvolvidos em células em suspensão de banana pela avaliação da densidade inicial de células, meios de cultura e sistemas de imersão temporária. Para tanto, uma sequência de três experimentos foi realizada: o primeiro avaliou os efeitos da densidade celular (0,5; 1 e 2 mL), meios de cultura (M1: 1/2MS, 0,1 g.L-1 de ácido ascórbico, 0,1 g.L-1 de L-prolina, 30 g.L-1 de sacarose e 10 µM de 2iP; M2: MS, 30 g.L-1 de sacarose, 2,2 µM de BAP e 11,4 µM de AIA) e períodos de diferenciação celular (40 e 130 dias); o segundo experimento analisou o efeito do tamanho dos propágulos diferenciados em meio líquido (aprox. 2,5; 5 e 10 mm em diâmetro) na formação de embriões somáticos ou na regeneração de plantas; finalmente, um terceiro experimento avaliou o efeito de sistemas de cultivo com papel-filtro cobrindo o meio de cultura semissólido e sistemas de imersão temporários na diferenciação dos propágulos e na regeneração de plantas. Não foram observadas diferenças significativas entre os meios de diferenciação, porém as melhores diluições de células para a diferenciação foram de 1 e 2 mL/30mL de meio de cultura, enquanto diluições de 0,5 mL/30 mL de meio aumentaram a oxidação celular. A extensão do período de diferenciação de 40 para 130 dias foi importante para produzir maior número de calos/propágulos uniformes e com pelo menos de 10 mm de diâmetro, que puderam ser usados em sistemas de imersão temporária (biorreatores) para a diferenciação de embriões somáticos e regeneração de plantas. Considerando todos os sistemas de regeneração, verificou-se que o uso de meios de regeneração de consistência semissólida com papel-filtro na superfície do meio é o mais responsivo para a diferenciação de embriões somáticos e regeneração de plantas.

Family Size Evolution in Drosophila Chemosensory Gene Families: A Comparative Analysis with a Critical Appraisal of Methods

Gene turnover rates and the evolution of gene family sizes are important aspects of genome evolution. Here, we use curated sequence data of the major chemosensory gene families from Drosophila-the gustatory receptor, odorant receptor, ionotropic receptor, and odorant-binding protein families-to conduct a comparative analysis among families, exploring different methods to estimate gene birth and death rates, including an ad hoc simulation study. Remarkably, we found that the state-of-the-art methods may produce very different rate estimates, which may lead to disparate conclusions regarding the evolution of chemosensory gene family sizes in Drosophila. Among biological factors, we found that a peculiarity of D. sechellia's gene turnover rates was a major source of bias in global estimates, whereas gene conversion had negligible effects for the families analyzed herein. Turnover rates vary considerably among families, subfamilies, and ortholog groups although all analyzed families were quite dynamic in terms of gene turnover. Computer simulations showed that the methods that use ortholog group information appear to be the most accurate for the Drosophila chemosensory families. Most importantly, these results reveal the potential of rate heterogeneity among lineages to severely bias some turnover rate estimation methods and the need of further evaluating the performance of these methods in a more diverse sampling of gene families and phylogenetic contexts. Using branch-specific codon substitution models, we find further evidence of positive selection in recently duplicated genes, which attests to a nonneutral aspect of the gene birth-and-death process.

Aggressivity, violence, sociability and conflict resolution: What genes can tell us.

Conflicts are inherent to the human condition, as they are for all living beings. Disputes about resources or access to mating partners are among the most common causes of conflict. Conflict is herein defined as a struggle or contest between individuals or parties, and may involve a variety of aggressive behaviours. In humans, aggressiveness, violence and conflicts, including individual predisposal to conflict resolution, have traditionally been said to have deep cultural roots, but recent research in both neuroscience and genetics has shown the influence of genes on such complex behavioural traits. In this paper, recent data on the genetic aspects of these interrelated behaviours will be put together, including the effects of particular genes, the influence of stress and gender on gene regulation, and gene-environment interactions, all of which may influence biological predisposal to conflict resolution. Other genetically influenced behavioural aspects involved in conflicts and conflict resolution, such as sociability, will also be discussed. The importance of taking into account genetic and biological data to provide strategies for conflict resolution will be highlighted.

Desenvolvimento de genótipos de mamoeiro tolerantes à mancha fisiológica

O mamoeiro é uma das fruteiras tropicais de grande impacto na fruticultura brasileira. Os principais entraves à expansão da cultura são a baixa variabilidade genética e a ocorrência de doenças que encarecem a produção. Neste contexto, realizou-se um cruzamento entre os genótipos 'JS12' e 'Golden' na expectativa de se transferir a característica coloração verde-clara da casca dos frutos (característica Golden), associada à tolerância da mancha fisiológica do mamoeiro, do genitor 'Golden' para o genitor 'JS12'. A variação genética entre e dentro das progênies segregantes obtidas foi avaliada na população RC1S1. Três indivíduos possuidores da característica Golden (38RC1S1-11, 30RC1S1-10 e 31RC1S1-10) foram selecionados pela análise de agrupamento. Estas progênies aliam maior proporção genômica do genitor recorrente (JS12) e bons atributos morfoagronômicos, sendo os mais indicados para o avanço das autofecundações e retrocruzamentos em mamoeiro.

Metal dealing at the origin of the Chordata phylum: The metallothionein system and metal overload response in Amphioxus.

Non-vertebrate chordates, specifically amphioxus, are considered of the utmost interest for gaining insight into the evolutionary trends, i.e. differentiation and specialization, of gene/protein systems. In this work, MTs (metallothioneins), the most important metal binding proteins, are characterized for the first time in the cephalochordate subphylum at both gene and protein level, together with the main features defining the amphioxus response to cadmium and copper overload. Two MT genes (BfMT1 and BfMT2) have been identified in a contiguous region of the genome, as well as several ARE (antioxidant response element) and MRE (metal response element) located upstream the transcribed region. Their corresponding cDNAs exhibit identical sequence in the two lancelet species (B. floridae and B. lanceolatum), BfMT2 cDNA resulting from an alternative splicing event. BfMT1 is a polyvalent metal binding peptide that coordinates any of the studied metal ions (Zn, Cd or Cu) rendering complexes stable enough to last in physiological environments, which is fully concordant with the constitutive expression of its gene, and therefore, with a metal homeostasis housekeeping role. On the contrary, BfMT2 exhibits a clear ability to coordinate Cd(II) ions, while it is absolutely unable to fold into stable Cu (I) complexes, even as mixed species. This identifies it as an essential detoxification agent, which is consequently only induced in emergency situations. The cephalochordate MTs are not directly related to vertebrate MTs, neither by gene structure, protein similarity nor metal-binding behavior of the encoded peptides. The closest relative is the echinoderm MT, which confirm proposed phylogenetic relationships between these two groups. The current findings support the existence in most organisms of two types of MTs as for their metal binding preferences, devoted to different biological functions: multivalent MTs for housekeeping roles, and specialized MTs that evolve either as Cd-thioneins or Cu-thioneins, according to the ecophysiological needs of each kind of organisms.

SIMULAÇÃO DA DERIVA DE CLOMAZONE E GLYPHOSATE EM MUDAS DE LARANJEIRA ‘HAMLIN’

Na região citrícola do Estado de São Paulo, é comum que a cultura da laranja e da cana-deaçúcar seja vizinha. Por propiciar uma redução de custos, o setor sucroalcooleiro vem procurando otimizar suas aplicações, como, por exemplo, pormeio das aplicações aéreas, prática que aumenta o risco de deriva de produtos em culturas não alvo.Objetivou-se neste trabalho avaliar os danos causados pela deriva de clomazone, na sequência da deriva de glyphosate, sobre o crescimento de plantas jovens de laranjeira ‘Hamlin’. O delineamento experimental utilizado foi o inteiramente casualizado, com os tratamentos dispostos em esquema fatorial 2x8, sendo doisherbicidas (clomazone isolado e glyphosate a 0,75% p.c. + clomazone) e oito doses crescentes do clomazone (0;1,56; 3,12; 6,25; 12,50; 18,75; 25,00 e 50,00% da dose recomendada comercialmente para o controle de plantas daninhas), com 3 repetições. As avaliações foram compostas por diâmetro do caule, comprimento dos ramos e teor relativo de clorofila total, determinados dos 10 aos 90 dias após a aplicação (DAA), e área foliar, matéria seca de folhas e caule, determinados aos 90 DAA. Os resultados obtidos indicaram que houve redução significativa nas características avaliadas, sendo que os efeitos negativos para a cultura ocorremmesmo em doses baixas (1,56%), que foram capazes de prejudicar o crescimento das plantas. Os resultadosobtidos permitem concluir que a deriva de clomazone isolado ou sem sequência do glyphosate causa prejuízos no crescimento inicial das laranjeiras, atuando de forma mais agressiva quando em sequência com a deriva de glyphosate.

Complete genome sequence of the type strain of Bacillus toyonensis BCT-7112T, the active ingredient of the feed additive preparation Toyocerin

Strain BCT-7112, previously identified as Bacillus cereus var. toyoi, is the type strain of the species Bacillus toyonensis, a novel species of the B. cereus group. The complete genome of this strain, which is the active ingredient of the feed additive preparation Toyocerin, has been sequenced and annotated to reveal the genetic properties of this probiotic organism with a long history of safe use in animal nutrition.

Comparative genomics of Hedgehog loci in chordates and the origin of Shh regulatory novelties

The origin and evolution of the complex regulatory landscapes of some vertebrate developmental genes, often spanning hundreds of Kbp and including neighboring genes, remain poorly understood. The Sonic Hedgehog (Shh) genomic regulatory block (GRB) is one of the best functionally characterized examples, with several discrete enhancers reported within its introns, vast upstream gene-free region and neighboring genes (Lmbr1 and Rnf32). To investigate the origin and evolution of this GRB, we sequenced and characterized the Hedgehog (Hh) loci from three invertebrate chordate amphioxus species, which share several early expression domains with Shh. Using phylogenetic footprinting within and between chordate lineages, and reporter assays in zebrafish probing >30 Kbp of amphioxus Hh, we report large sequence and functional divergence between both groups. In addition, we show that the linkage of Shh to Lmbr1 and Rnf32, necessary for the unique gnatostomate-specific Shh limb expression, is a vertebrate novelty occurred between the two whole-genome duplications.

Broken colinearity of the amphioxus Hox cluster.

Background In most eumetazoans studied so far, Hox genes determine the identity of structures along the main body axis. They are usually linked in genomic clusters and, in the case of the vertebrate embryo, are expressed with spatial and temporal colinearity. Outside vertebrates, temporal colinearity has been reported in the cephalochordate amphioxus (the least derived living relative of the chordate ancestor) but only for anterior and central genes, namely Hox1 to Hox4 and Hox6. However, most of the Hox gene expression patterns in amphioxus have not been reported. To gain global insights into the evolution of Hox clusters in chordates, we investigated a more extended expression profile of amphioxus Hox genes. Results Here we report an extended expression profile of the European amphioxus Branchiostoma lanceolatum Hox genes and describe that all Hox genes, except Hox13, are expressed during development. Interestingly, we report the breaking of both spatial and temporal colinearity for at least Hox6 and Hox14, which thus have escaped from the classical Hox code concept. We show a previously unidentified Hox6 expression pattern and a faint expression for posterior Hox genes in structures such as the posterior mesoderm, notochord, and hindgut. Unexpectedly, we found that amphioxus Hox14 had the most divergent expression pattern. This gene is expressed in the anterior cerebral vesicle and pharyngeal endoderm. Amphioxus Hox14 expression represents the first report of Hox gene expression in the most anterior part of the central nervous system. Nevertheless, despite these divergent expression patterns, amphioxus Hox6 and Hox14 seem to be still regulated by retinoic acid. Conclusions Escape from colinearity by Hox genes is not unusual in either vertebrates or amphioxus and we suggest that those genes escaping from it are probably associated with the patterning of lineage-specific morphological traits, requiring the loss of those developmental constraints that kept them colinear.

Uncovering the functional constraints underlying the genomic organisation of the Odorant-Binding Protein genes

Animal olfactory systems have a critical role for the survival and reproduction of individuals. In insects, the odorant-binding proteins (OBPs) are encoded by a moderately sized gene family, and mediate the first steps of the olfactory processing. Most OBPs are organized in clusters of a few paralogs, which are conserved over time. Currently, the biological mechanism explaining the close physical proximity among OBPs is not yet established. Here, we conducted a comprehensive study aiming to gain insights into the mechanisms underlying the OBP genomic organization. We found that the OBP clusters are embedded within large conserved arrangements. These organizations also include other non-OBP genes, which often encode proteins integral to plasma membrane. Moreover, the conservation degree of such large clusters is related to the following: 1) the promoter architecture of the confined genes, 2) a characteristic transcriptional environment, and 3) the chromatin conformation of the chromosomal region. Our results suggest that chromatin domains may restrict the location of OBP genes to regions having the appropriate transcriptional environment, leading to the OBP cluster structure. However, the appropriate transcriptional environment for OBP and the other neighbor genes is not dominated by reduced levels of expression noise. Indeed, the stochastic fluctuations in the OBP transcript abundance may have a critical role in the combinatorial nature of the olfactory coding process.

CBS: an open platform that integrates predictive methods and epigenetics information to characterize conserved regulatory features in multiple Drosophila genomes.

Background: Information about the composition of regulatory regions is of great value for designing experiments to functionally characterize gene expression. The multiplicity of available applications to predict transcription factor binding sites in a particular locus contrasts with the substantial computational expertise that is demanded to manipulate them, which may constitute a potential barrier for the experimental community. Results: CBS (Conserved regulatory Binding Sites, http://compfly.bio.ub.es/CBS) is a public platform of evolutionarily conserved binding sites and enhancers predicted in multiple Drosophila genomes that is furnished with published chromatin signatures associated to transcriptionally active regions and other experimental sources of information. The rapid access to this novel body of knowledge through a user-friendly web interface enables non-expert users to identify the binding sequences available for any particular gene, transcription factor, or genome region. Conclusions: The CBS platform is a powerful resource that provides tools for data mining individual sequences and groups of co-expressed genes with epigenomics information to conduct regulatory screenings in Drosophila.

Differential regulation of horizontally acquired and core genome genes by the bacterial modulator H-NS

Horizontal acquisition of DNA by bacteria dramatically increases genetic diversity and hence successful bacterial colonization of several niches, including the human host. A relevant issue is how this newly acquired DNA interacts and integrates in the regulatory networks of the bacterial cell. The global modulator H-NS targets both core genome and HGT genes and silences gene expression in response to external stimuli such as osmolarity and temperature. Here we provide evidence that H-NS discriminates and differentially modulates core and HGT DNA. As an example of this, plasmid R27-encoded H-NS protein has evolved to selectively silence HGT genes and does not interfere with core genome regulation. In turn, differential regulation of both gene lineages by resident chromosomal H-NS requires a helper protein: the Hha protein. Tight silencing of HGT DNA is accomplished by H-NS-Hha complexes. In contrast, core genes are modulated by H-NS homoligomers. Remarkably, the presence of Hha-like proteins is restricted to the Enterobacteriaceae. In addition, conjugative plasmids encoding H-NS variants have hitherto been isolated only from members of the family. Thus, the H-NS system in enteric bacteria presents unique evolutionary features. The capacity to selectively discriminate between core and HGT DNA may help to maintain horizontally transmitted DNA in silent form and may give these bacteria a competitive advantage in adapting to new environments, including host colonization.

Differential regulation of horizontally acquired and core genome genes by the bacterial modulator H-NS

Horizontal acquisition of DNA by bacteria dramatically increases genetic diversity and hence successful bacterial colonization of several niches, including the human host. A relevant issue is how this newly acquired DNA interacts and integrates in the regulatory networks of the bacterial cell. The global modulator H-NS targets both core genome and HGT genes and silences gene expression in response to external stimuli such as osmolarity and temperature. Here we provide evidence that H-NS discriminates and differentially modulates core and HGT DNA. As an example of this, plasmid R27-encoded H-NS protein has evolved to selectively silence HGT genes and does not interfere with core genome regulation. In turn, differential regulation of both gene lineages by resident chromosomal H-NS requires a helper protein: the Hha protein. Tight silencing of HGT DNA is accomplished by H-NS-Hha complexes. In contrast, core genes are modulated by H-NS homoligomers. Remarkably, the presence of Hha-like proteins is restricted to the Enterobacteriaceae. In addition, conjugative plasmids encoding H-NS variants have hitherto been isolated only from members of the family. Thus, the H-NS system in enteric bacteria presents unique evolutionary features. The capacity to selectively discriminate between core and HGT DNA may help to maintain horizontally transmitted DNA in silent form and may give these bacteria a competitive advantage in adapting to new environments, including host colonization.

Espectroscopia de prótons e perfusão por ressonância magnética na avaliação dos tumores do sistema musculoesquelético

OBJETIVO: Avaliar a espectroscopia de prótons e o estudo dinâmico do contraste por ressonância magnética na diferenciação dos tumores musculoesqueléticos benignos e malignos. MATERIAIS E MÉTODOS: Foram estudados 55 pacientes com tumores musculoesqueléticos (27 malignos e 28 benignos). Os exames foram realizados em aparelho de ressonância magnética de 1.5 T com protocolo convencional e espectroscopia de prótons com TE de 135 ms. O estudo dinâmico do contraste foi adquirido pela sequência T1 gradiente-eco após a administração intravenosa de gadolínio. Curvas de intensidade de sinal versus tempo e valores de slope foram calculados. A análise estatística foi realizada pelo teste de Levene, seguido pelo teste t de Student, além dos testes qui-quadrado de Pearson e exato de Fischer. RESULTADOS: A sensibilidade, especificidade e acurácia da espectroscopia de prótons foram, respectivamente, de 87,5%, 92,3% e 90,9% (p < 0,0001). Além disso, houve significativa diferença entre o valor quantitativo da curva entre as lesões benignas (média de 27,5% por minuto) e malignas (média de 110,9% por minuto) (p < 0,0001). CONCLUSÃO: Os estudos quantitativo e qualitativo da análise dinâmica do contraste por ressonância magnética associados à presença do pico de colina são úteis na diferenciação dos tumores musculoesqueléticos em benignos e malignos.

O uso da difusão por ressonância magnética na diferenciação das lesões mamárias benignas e malignas

OBJETIVO: Estudar a utilidade da sequência pesada em difusão na diferenciação das lesões mamárias benignas e malignas. MATERIAIS E MÉTODOS: Quarenta e cinco mulheres (idade média de 46,1 anos) com 52 nódulos de mama foram submetidas a ressonância magnética acrescida da sequência difusão. O coeficiente de difusão aparente (ADC) foi calculado através do mapa de ADC obtido pelo uso de cinco valores de b (0, 250, 500, 750 e 1.000 s/mm²). O valor de ADC médio de cada lesão foi correlacionado com achados de imagem e resultados histopatológicos. Valores de ADC de corte, sensibilidade e especificidade da sequência difusão na diferenciação das lesões benignas e malignas foram calculados. P < 0,05 foi considerado estatisticamente significativo. RESULTADOS: O valor de ADC médio foi significativamente menor para as lesões malignas (0,92 ± 0,26 × 10-3 mm²/s) comparado com as lesões benignas (1,50 ± 0,34 × 10-3 mm²/s) (p < 0,0001). A sequência difusão mostrou altas sensibilidade e especificidade (ambas 92,3%) na diferenciação entre lesões benignas e malignas. CONCLUSÃO: A sequência pesada em difusão representa um recurso potencial como coadjuvante da ressonância magnética das mamas na diferenciação das lesões benignas e malignas. Tal sequência pode ser facilmente inserida no protocolo padrão da ressonância magnética das mamas, sem aumento significativo no tempo de exame.