Research Article

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Bacteria; Bioinformatics; Fungi; Laccase; Oomycetes; Plant pathogen

To date, research on laccases has mostly been focused on plant and fungal laccases and their current use in biotechnological applications. In contrast, little is known about laccases from plant pathogens, although recent rapid progress in whole genome sequencing of an increasing number of organisms has facilitated their identification and ascertainment of their origins. In this study, a ... more

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Since the first assembled genomes, gene sequences alone have not been sufficient to understand complex metabolic processes involving several genes, each playing distinct roles. To identify their roles, a network of interactions, wherein each gene is a node, should be created. Edges connecting nodes are evidence of interaction, for instance, of gene products coexisting in the same cellular ... more

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Brazil is the third world largest maize producing country, and Paraná state is the second largest producer state of this essential crop in this country. The bacterial microbiota of cereal grains depends on the environment where they were grown, handled, and processed – and it can influence plant growth and food safety. The industrial enzymes market is rapidly ... more

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Helicobacter pylori is a gram-negative bacterium associated with the development of severe gastric pathologies, such as atrophy, metaplasia, and gastric adenocarcinoma. This microorganism is considered a class I carcinogen by the International Agency for Research on Cancer. The virulence genes in the strain causing infection influence the clinical outcome ... more

L.L.L. Silva; A.K.S. Oliveira; A.R. Gama; J.C. Pontes; A.F.P.L. Ramos; A.M.T.C. Silva; D.M.M. Cardoso; A.J.V. Blanco; L.T. Rasmussem; L.C. Carneiro; M.S. Barbosa
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Alternative phylogenies for the genus Streptococcus have been proposed due to uncertainty about the among-species group relationships. Here, we performed a phylogenetic analysis of the genus Streptococcus, considering all the species groups and also the genomic data accumulated by other studies. Seventy-five species were subjected to a Bayesian phylogenetic analysis ... more

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The highly conserved TIFY domain is included in the TIFY protein family of transcription factors, which is important in plant development. Here, 28 TIFY family genes were identified in the Gossypium raimondii genome and classified into JAZ (15 genes), ZML (8), PPD (3), and TIFY (2). The normal (TIF[F/Y]XG) motif was dominant in the TIFY ... more

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morphology; Phylogeny; Salix matsudana; Species concept

The morphological species concept is based on morpho­logical traits, which are often subject to subjectivity or artifact. Molecular evidence is needed to test the reliability of morphological classification of taxa that are controversial and to provide appropriate taxonomic de­limitation. In this study, we used 15 single-copy nuclear loci and 2 chlo­roplast fragments to verify the ... more

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Expression profile; GRAS; Jatropha curcas L.; Phylogeny; Physic nut

GRAS proteins play vital roles in plant growth and development. Physic nut (Jatropha curcas L.) was found to have a total of 48 GRAS family members (JcGRAS), 15 more than those found in Arabidopsis. The JcGRAS genes were divided into 12 subfamilies or 15 ancient monophyletic lineages based on the phylogenetic analysis of GRAS proteins from both flowering and ... more

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Microbiome; Mitis group; Phylogeny; RecN; Streptococcus massiliensis

Streptococcus is a diverse bacterial lineage. Species of this genus occupy a myriad of environments inside humans and other animals. Despite the elucidation of several of these habitats, many remain to be identified. Here, we explore a methodological approach to reveal unknown bacterial environments. Specifically, we inferred the phylogeny of the Mitis group by analyzing the ... more

F. Póntigo; C. Silva; M. Moraga; S.V. Flores
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The complete mitochondrial genome of the Southern catfish (Silurus meridionalis) and the Chinese catfish (S. asotus), was determined using the long and accurate polymerase chain reaction (LA-PCR) method. The mitochondrial DNA nucleotide sequences of S. meridionalis and S. asotus were compared with those of 47 other catfish species in the same order. The ... more

Q.R. Wang; C. Xu; C.R. Xu; R.J. Wang

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