The brown seaweed ectocarpus siliculosus is an emerging model species distributed worldwide in temperate coastal ecosystems. Proteomes ectocarpus siliculosus brown alga conferva siliculosa. The complete dna sequence of the ectocarpus siliculosus virus. The esv1 genome of 335,593 bp contains tandem and dispersed repetitive elements in addition to a large number of open reading frames of which 231 are currently counted as genes. Tfs in the brown algae, cladosiphon okamuranus and ectocarpus siliculosus. The marine brown alga ectocarpus siliculosus dillwyn lyngbye is frequently infected by a latent dna virus that multiplies in modified sporangia and gametangia of the host.
Pdf the ectocarpus genome and the independent evolution. Ec 32 ccap 1004 ectocarpus siliculosus is a filamentous brown alga heterokontophyta. This page was last edited on 29 october 2014, at 11. The ectocarpus siliculosus virus1, esv1, is the typespecies of a genus of phycodnaviridae, the phaeoviruses, infecting marine filamentous brown algae. The recently discovered freshwater ectocarpus siliculosus population from australia has since been shown to tolerate a wider salinity range 0. For further details regarding the biology of ectocarpus and the development of genomic and genetic tools for this organism, see ectocarpus. Central and storage carbon metabolism of the brown alga. Ectocarpus possesses a complete set of enzymes for synthesis of mannitol, laminarin and trehalose. Ectocarpus siliculosus an overview sciencedirect topics. Privacy policy legal notice site map accessibility get adobe reader. To elucidate the molecular mechanisms underlying its capacity to cope with different environmental and biotic stressors. Genome structure of a virus infecting the marine brown alga ectocarpus siliculosus.
Apr 12, 2008 ectocarpus siliculosus virus1 esv1 is a lysogenic dsdna virus belonging to the super family of nucleocytoplasmic large dna viruses ncldv that infect ectocarpus siliculosus, a marine filamentous brown alga. The ectocarpus genome and the independent evolution of. Ectocarpus siliculosus virus1 esv1 is a lysogenic dsdna virus belonging to the super family of nucleocytoplasmic large dna viruses ncldv that infect ectocarpus siliculosus, a marine filamentous brown alga. Lifecycle of ectocarpus siliculosus from naples, italy. This work used whole genome tiling array approach to generate a comprehensive transcriptome map of the filamentous seaweed ectocarpus siliculosus dillwyn lyngbye, a model organism for the brown algae. Aug 15, 2001 the ectocarpus siliculosus virus1, esv1, is the typespecies of a genus of phycodnaviridae, the phaeoviruses, infecting marine filamentous brown algae.
Ectocarpus siliculosus is a small filamentous brown alga. In order to find the integration sites of the viral genome, a genomic library. Genomes pages ectocarpus siliculosus strain ec 32 chromosome lg30 ordered segments from the con entry fn649755 expanded version genome project. Ectocarpus s the only member of this lineage with full siliculosus i genome sequence available. Ectocarpus is a genus of filamentous brown alga that is a model organism for the genomics of multicellularity. Global expression analysis of the brown alga ectocarpus. Plaza download section explore functional clusters documentation data content. The brown alga ectocarpus siliculosus has a haploiddiploid life cycle that involves an alternation between two distinct generations, the sporophyte and the gametophyte. The genome of the brown alga ectocarpus siliculosus. After infection, which occurs in the unicellular spores or gametes, the virus is present latently in all somatic. Capsicarpella elongata bory, probably a synonym of ectocarpus siliculosus. Chapter five the ectocarpus genome and brown algal genomics.
We report the 214 million base pair mbp genome sequence of the filamentous seaweed ectocarpus siliculosus dillwyn lyngbye, a model organism for brown algae25, closely related to the kelps6,7 fig. We describe a polymerase chain reaction pcr procedure for the amplification and detection of viral dna in ectocarpus. In order to find the integration sites of the viral genome, a genomic library from esv1infected. Materials and methods identification and classification of nbs containing proteins. The ectocarpus siliculosus virus1, esv1, is the typespecies of a genus of phycodnaviridae, the phaeoviruses.
Genome biology and evolution, volume 12, issue 1, january 2020. Mitochondrial genome analysis and development of dcaps markers. Vegetative structure plant body is macroscopic, multicellular, filamentous, branched and heterotrichous differentiated into. The genome of ectocarpus siliculosis, a model for the study of brown algae. A sequencetagged genetic map for the brown alga ectocarpus siliculosus provides largescale assembly of the genome sequence svenja heesch, ga youn cho, akira f. The ectocarpus genome sequence by wileyblackwell issuu.
In order to allow comparative analyses with other genomes sequenced by the joint genome institute, a copy of this genome is incorporated into the jgi genome portal. Transcription factor families inferred from genome sequences of photosynthetic stramenopiles. Thus, a genome wide investigation on the nbs containing sequences in e. Insights into the evolution of extracellular matrix polysaccharides in eukaryotes insights into the evolution of extracellular matrix polysaccharides in eukaryotes. Ouroboros is a master regulator of the gametophyte to. Ectocarpus is very common on sea shore of atlantic ocean. Accession numbers of all the entries listed below may be downloaded as a text file for use in downloading using the sequence version archive list of available genomes on 5may2015. The ectocarpus genome and brown algal genomics the ectocarpus genome consortium chapter in advances in botanical research 64. The plant grows attached to rocks and stones along coasts. Genome structure of a virus infecting the marine brown. Ectocarpus siliculosus is a filamentous brown alga heterokontophyta. Persistent virus integration into the genome of its algal.
Ectocarpus is wordwide in distribution particulary in colder seas and polar regions. Genome structure ot a virus infecting the marine brown alga ectocarpus siliculosus stefan t. Files are available under licenses specified on their description page. The inner circles show gc content and the positions of the intraspecific polymorphisms detected by this study. Characterization of gdpmannose dehydrogenase from the brown alga ectocarpus siliculosus providing the precursor for the alginate polymer. Ectocarpus siliculosus new york public library digital collections. Insights into the evolution of extracellular matrix polysaccharides in eukaryotes. This licence only allows you to download this work and share it with others as long as you credit the authors, but you cant change the article in any way or use it commercially.
The ectocarpus genome project the ectocarpus genome sequence was obtained using strain ec32, which is a male meiotic offspring of a. We describe a mutant, ouroboros oro, in which the sporophyte generation is converted into a functional, gameteproducing gametophyte. A taxonomic species within the family ectocarpaceae maidens hair, a filamentous brown alga. Ectocarpus siliculosus encyclopedia of puget sound. During an attempt to grow sexual plants of ectocarpus siliculosus in laboratory cultures, some observations were made which are not consistent with the presentday view of the lifecycle of this. May 05, 2015 genomes pages ectocarpus siliculosus strain ec 32 chromosome lg30 ordered segments from the con entry fn649755 expanded version genome project.
Genetic regulation of life cycle transitions in the brown alga ectocarpus. Ectocarpus siliculosus bioinformatics and systems biology. Lcm has been widely used to address various biological questions in both animal and plant systems, however, no attempt. A highresolution transcriptome map of ectocarpus siliculosus. Ectocarpus genes contain many long introns seven per gene on average, with an average size of 704 bp and, in consequence, introns make up an exceptionally large percentage of the genome 40.
Ectocarpus siliculosus brown alga conferva siliculosa uniprot. Unusual patterns of mitochondrial inheritance in the brown. Ectocarpus siliculosus strain ecsil nz ku ccap 10nz1056 was obtained from the culture collection of algae and protozoa ccap at the scottish association for marine science and grown axenically in modified provasolienriched andersen, 2005 scripps pier seawater spsw at 17 c with a 12 h. Previous studies indicated that the viral genome is integrated into the host dna. Citeseerx document details isaac councill, lee giles, pradeep teregowda. Accession numbers of all the entries listed below may be downloaded as a text file for use in downloading using the sequence version archive list of available genomes on 5may.
Ectocarpus fasciculatus grows on the fins of certain fish in sweden. The ectocarpus genome and the independent evolution of multicellularity in the brown algae. The ectocarpus genome and brown algal genomics the. Laser capture microdissection in ectocarpus siliculosus. Pcr analysis of parents and progeny plants confirmed that virus dna passes.
All structured data from the file and property namespaces is available under the creative commons cc0 license. The aim of this project was to obtain a chromosome. Lifecycle of ectocarpus siliculosus from naples, italy nature. The complete dna sequence of the ectocarpus siliculosus virus esv1 genome. After infection, which occurs in the unicellular spores or gametes, the virus is present latently in all somatic cells of the host. The gmd from ectocarpus differs strongly from related enzymes in bacteria and is as distant to the bacterial proteins as it is to the group of udpglucose dehydrogenases. By contrast, the pathways for sucrose, starch and glycogen are completely absent. Brown algae are also one of only a small number of eukaryotic lineages that have evolved complex multicellularity fig.
A mitochondrial genomes of ectocarpus species 7 strain ec32 and ectocarpus siliculosus strain ea1. It is abundantly found throughout the world in cold waters. The genome of ectocarpus subulatus highlights unique. Methodology article open access microarray estimation of. We have identified a candidate gene in the ectocarpus siliculosus genome and expressed it as a recombinant protein in escherichia coli. Marine brown alga found attached to rocks and stones in cold seas. The ectocarpus genome sequence was obtained using strain ec32, which is a male meiotic offspring of a. Chapter five the ectocarpus genome and brown algal. Ectocarpus siliculosus is a filamentous brown alga. The ectocarpus genome yields information about the evolution. This strain was formerly described as ectocarpus siliculosus. Laser capture microdissection lcm facilitates the isolation of individual cells from tissue sections, and when combined with rna amplification techniques, it is an extremely powerful tool for examining genome wide expression profiles in specific celltypes. Genome sequences of 72 bacterial strains isolated from ectocarpus.
Virus multiplication is restricted to cells of the reproductive organs. A haploid system of sex determination in the brown alga. Characterization of gdpmannose dehydrogenase from the. Nov 01, 2011 multicellular organisms from diverse groups across the eukaryotic tree exhibit a variety of life cycles, differing essentially in the relative importance of the diploid and haploid phase. Among possible model organisms in the brown algae, ectocarpus was selected for the relatively small size of its mature thallus and the speed with which it completes its life cycle. Enzyme produced by a virus that enables the integration of viral dna into the host. The ectocarpus genome and the independent evolution of multicellularity in. In june 2004 an international consortium of 34 laboratories, coordinated in roscoff, submitted a whole genome sequencing project to the french sequencing centre genoscope. The genome sequence and gene models of ectocarpus siliculosus have not been determined by the jgi, but were downloaded from ncbi, on october 26, 2017. The complete dna sequence of the ectocarpus siliculosus. Ectocarpus siliculosus is a filamentous brown alga with a worldwide distribution along temperate coastlines.
Its genome was the first brown macroalgal genome to be sequenced, with the expectation that e. Click here to take the annual jgi genome portal 2020 survey. We report here the identification and the genetic and genomic characterization of the u and v. Full exploitation of the genome sequence will require the establishment of a strong bioinformatics and biological infrastructure and this process has been initiated. The brown alga ectocarpus siliculosus frequently carries an endogenous virus, e.
Extensive transcriptome data sanger ests, rnaseq data, small rna sequence data, estbased mircoarray data. In silico analysis of the nbs protein family in ectocarpus. Seaweeds of the genus ectocarpus are found worldwide along temperate coastlines, where they grow on rocky substrates or epiphytically on other algae and seagrass. The project was accepted in september 2004 and sequencing of a 10x coverage of the 214 mbp genome is currently in progress. Some species are epiphytes on other algae like members of fucales and laminaria. Genetic regulation of life cycle transitions in the brown. Ectocarpus siliculosus has been proposed as a genetic and genomic model for the brown algae and the 214 mbp genome of this organism has been sequenced. Reserved analyses include but are not limited to the identification and analysis of complete whole genome sets of genomic features such as genes and gene expression levels, gene families, gene clusters, regulatory elements, repeat structures, gc content, etc. In ectocarpus, sex is expressed during the haploid phase of the life cycle, and both the female u and the male v. The cell wall polysaccharide metabolism of the brown alga ectocarpus siliculosus.
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