Kog representes functional ID of eukaryotic cluster of genes, Sheet-4, The number of silicate and silaffin related genes in four species, Sheet-5, Genes known to be related to harmful algal blooms in the publications, Sheet-6, Orthologs of HAB genes found in Arabidopsis thaliana, and used in this study, Sheet-7, Orthologs of HAB genes found in Clamydomonas reinhardtii, and used in this study. J Phycol. Regarding Pt, it is known that the putamen is not formed much compared with other diatoms, consequently less number of silicate-related genes seemed reasonable. Genome Res. Most of the bacteria did not affect several diatoms and the dinoflagellate Alexandrium catenella, which suggested specificity for the target species. Nova Hedwigia. The shell of this diatom is a cylinder, about 22 μm in diameter, and is common in the bay and coastal waters. In Korea, the distribution and lethality of algaecidal bacteria against Cochlodinium polykrikoides were studied in a local bay. This work was funded by Grants-in-Aid for Scientific Research (KAKENHI) 17H06399 and Grant for Basic Science Research Projects from the Sumitomo Foundation to AO, and Science and Technology Research Partnership for sustainable Development to SN. Culture media and certain other parameters could vary slightly, but some validation criteria stands in almost all the guidelines: cell density in controls should increase at least 16 times in 72 h and pH value should not vary more than one unit. The big, buoyancy-regulating, stress-tolerant, S-species of diatom (Ethmodiscus) and dinoflagellate (Pyrocystis) are at the culmination of this sequence. Molecular genetic techniques are beginning to be applied to the study of nitrogen cycling processes in marine systems (for review see Zehr and Ward, 2002; Chapter 30 by Zehr and Jenkins, this volume), where species- and group-specific information on the physiological/biochemical responses of marine microbes can be obtained (e.g., Cooksey 1998; Zehr and Voytek, 1999). Tréguer P, Nelson DM, van Bennekom JV, DeMaster DJ, Leynaert A, Quéguiner B. Marine phytoplankton would seem appropriate for first consideration. The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism. Drebes G. Sexuality. The proportion of conserved genes between Sc and Tp that are closest to Sc were about 65.4%, which were a total of Sc-Tp shared genes (4375-STPV, 3301-STP, 634-STV, and 2352-ST) divided by the total number of Sc genes (11,557 + 4741). Part of These tests focus on development and growth during the first 30–90 days of development from the egg. (B) Dinophyceae, Ceratium furca, a worldwide dinoflagellate with a solitary or paired life-form, length between 70 and 200 μm and in width between 30 and 50 μm. Much effort has been devoted to the physiological response of marine diatoms to ambient P change, however, the whole-genome molecular mechanisms are poorly understood. (1975) Brackish-water and fresh-water species of the diatom genus Skeletonema Grev. In this study, we sequenced the whole genome of Sc, and performed a comparative genomic analysis of the constituent species causing harmful algal bloom and out-group, Vitrella brassicaformis (Vb), which is a single-cell organism belonging to chromomers that are close to Stramenopile involving Sc, Tp, and Pt [24]. The estuarine prorocentroids are also conspicuous. Freshwater species used in acute tests include the rainbow trout, Onchorynchus mykiss; brook trout, Salvelinus fontinalis; channel catfish, Ictalurus punctatus; fathead minnow, Pimephales promelas; and bluegill, Lepomis macrochirus; while saltwater fish include the sheepshead minnow, Cyprinodon variegates; mummichog, Fundulus heteroclitus; longnose killifish, Fundulus similis; silverside, Menidia spp. Comparative genome and transcriptome analysis of diatom, Skeletonema costatum, reveals evolution of genes for harmful algal bloom: Other: Skeletonema costatum: 81.8G: 2018-09-14: NAGAHAMA_BIO: 2: SRP042159: SRA166613 SRA166822 SRA167331 SRA168603: Marine Microbial Eukaryote Transcriptome Sequencing Project: Other Information on the response and physiology of specific phytoplankton groups, or breaking open the phytoplankton “black box,” provides a mechanistic understanding of observed rates of biogeochemical transformations. A. thaliana was chosen as they are most closely related to diatoms. (Chlorophyta) and Gelidinium sp (Rhodophyta). Cristiano V.M. (15.1%) and Lumbriculus variegatus (7.4%) (Cesnaitis et al., 2014). The digit indicates the number of orthologous gene groups. Genome Res. Genome Biol. We compared the assembly results with others from the viewpoint of genome size, the number of contigs, the largest contig, total length, GC content, N50, BUSCO assessment for the common eukaryotic genes conservation rate (ECR). Kaeriyama H, Katsuki E, Otsubo M, Yamada M, Ichimi K, Tada K, Harrison PJ. The whole genome of Skeletonema costatum, S c was de- termined by Illumina Hiseq 2000, the next generation Fig. Recent advances in isolating genes and obtaining entire genome sequences have enabled the development of specific gene probes for different members of the phytoplankton community. Bioassay data treatments for microalgae are clearly and substantially discussed in the reference work of Nyholm (1990). 2014;24(8):1384–95. strain MCTG268 was isolated from the cosmopolitan marine diatom Skeletonema costatum and can degrade oil hydrocarbons as sole sources of carbon and energy. J Mol Biol. Imai (1997) examined several strains of Alteromonas sp. Effects of temperature and irradiance on growth of strains belonging to seven Skeletonema species isolate from Dokai Bay, southern Japan. To construct harmful algal bloom gene DB, all genes having homologies to the above categories in A. thaliana and C. reinhardtii were merged, and the redundant genes were excluded. We conducted transcriptome analysis with two biological replicates. Thus, in spite of their limitations, microalgal bioassays in batch cultures can provide useful and comparable information about the toxicity of substances and effluents.
2020 skeletonema costatum genome