Reinstatement of Dermacentor tricuspis (Schulze, 1933) n. comb., n. stat. (Acari: Ixodidae) as a valid species,synonymization of D. atrosignatus Neumann, 1906 and description of a new species from Indonesia,Malaysia and Thailand

Re-examination of the holotype of Dermacentor atrosignatus Neumann, 1906 (Acari: Ixodidae) stored in the Natural History Museum (London, UK) revealed that this taxon is identical with D. auratus Supino, 1897 and should be treated as a junior synonym of the latter species. A correct name for the distinct species previously identified as D. atrosignatus Neumann, 1906 sensu Wassef & Hoogstraal, 1984 should be D. tricuspis (Schulze, 1933) n. comb., n. stat. Adults of D. tricuspis are redescribed here. Re-examination of extensive holdings of Oriental Dermacentor Koch, 1844 ticks stored in the United States National Tick Collection revealed that a morphologically distinct new species of this genus, namely D. falsosteini D. Apanaskevich, M. Apanaskevich & Nooma n. sp. should be recognized. Adults of D. tricuspis and D. falsosteini n. sp. can be distinguished from other species of Oriental Dermacentor and each other by the colour pattern of the conscutum and scutum, the pattern of punctations on the pseudoscutum and scutum, the shape of female genital structures and spurs on coxa I. Dermacentor tricuspis is recorded from Indonesia, Malaysia, the Philippines and Thailand where the adults were mostly collected from various species of wild pigs (Artiodactyla: Suidae) and vegetation; few adults were available from other mammals (Artiodactyla: Bovidae; Carnivora: Canidae, Felidae, Ursidae; Pholidota: Manidae), as well as humans and reptiles (Squamata: Elapidae, Varanidae). One male was reared from a nymph collected on a rodent (Rodentia: Muridae). Dermacentor falsosteini n. sp. is found in Indonesia, Malaysia and Thailand where the adults were collected from bearded pig, Sus barbatus Müller, wild boar, S. scrofa Linnaeus, unidentified wild pig, Sus sp. (Artiodactyla: Suidae), Malayan tapir, Tapirus indicus Desmarest (Perissodactyla: Tapiridae), human and vegetation.

     

Genome-scale metabolic representation of Amycolatopsis balhimycina

Infection caused by methicillin-resistant Staphylococcus aureus (MRSA) is an increasing societal problem. Typically, glycopeptide antibiotics are used in the treatment of these infections. The most comprehensively studied glycopeptide antibiotic biosynthetic pathway is that of balhimycin biosynthesis in Amycolatopsis balhimycina. The balhimycin yield obtained by A. balhimycina is, however, low and there is therefore a need to improve balhimycin production. In this study, we performed genome sequencing, assembly and annotation analysis of A. balhimycina and further used these annotated data to reconstruct a genome-scale metabolic model for the organism. Here we generated an almost complete A. balhimycina genome sequence comprising 10,562,587 base pairs assembled into 2,153 contigs. The high GC-genome (～ 69%) includes 8,585 open reading frames (ORFs). We used our integrative toolbox called SEQTOR for functional annotation and then integrated annotated data with biochemical and physiological information available for this organism to reconstruct a genome-scale metabolic model of A. balhimycina. The resulting metabolic model contains 583 ORFs as protein encoding genes (7% of the predicted 8,585 ORFs), 407 EC numbers, 647 metabolites and 1,363 metabolic reactions. During the analysis of the metabolic model, linear, quadratic and evolutionary programming algorithms using flux balance analysis (FBA), minimization of metabolic adjustment (MOMA), and OptGene, respectively were applied as well as phenotypic behavior and improved balhimycin production were simulated. The A. balhimycina model shows a good agreement between in silico data and experimental data and also identifies key reactions associated with increased balhimycin production. The reconstruction of the genome-scale metabolic model of A. balhimycina serves as a basis for physiological characterization. The model allows a rational design of engineering strategies for increasing balhimycin production in A. balhimycina and glycopeptide production in general.     

Comparative metabolic capabilities for Micrococcus luteus NCTC 2665, the "Fleming" strain, and actinobacteria

Putative gene predictions of the Gram positive actinobacteria Micrococcus luteus (NCTC 2665, "Fleming strain") was used to construct a genome scale reconstruction of the metabolic network for this organism. The metabolic network comprises 586 reactions and 551 metabolites, and accounts for 21% of the genes in the genome. The reconstruction was based on the annotated genome and available biochemical information. M. luteus has one of the smallest genomes of actinobacteria with a circular chromosome of 2,501,097 base pairs and a GC content of 73%. The metabolic pathways required for biomass production in silico were determined based on earlier models of actinobacteria. The in silico network is used for metabolic comparison of M. luteus with other actinomycetes, and hence provides useful information for possible future biotechnological exploitation of this organism, e.g., for production of biofuels.     

Revealing the beneficial effect of protease supplementation to high gravity beer fermentations using "-omics" techniques

Background  

Addition of sugar syrups to the basic wort is a popular technique to achieve higher gravity in beer fermentations, but it results in dilution of the free amino nitrogen (FAN) content in the medium. The multicomponent protease enzyme Flavourzyme has beneficial effect on the brewer's yeast fermentation performance during high gravity fermentations as it increases the initial FAN value and results in higher FAN uptake, higher specific growth rate, higher ethanol yield and improved flavour profile.