Kinesin-associated RNA: RNA co-immunoprecipitated with Kinesin IP vs RNA from Aplysia CNS
Ontology highlight
ABSTRACT:
ORGANISM(S): Aplysia californica
PROVIDER: GSE30386 | GEO | 2013/04/26
SECONDARY ACCESSION(S): PRJNA154843
REPOSITORIES: GEO
Similar Datasets
Project description:Whole genome transcriptional profiling is used to identify ESTs found in RNA co-immunoprecipitated from Aplysia CNS with antibodies against Aplysia Kinesin Heavy Chain (ApKHC) RNA derived from Aplysia CNS served as control in the opposite channel. Custom Aplysia EST array to probe the samples was designed and ordered from Agilent. Two-condition experiment; four biological replicates for each condition were reciprocally hybridized on each two-color array
2013-04-26 | E-GEOD-30386 | biostudies-arrayexpress
Project description:Whole genome transcriptional profiling is used to compare ESTs found in cell bodies and processes of Aplysia sensory neurons RNA samples derived from cell bodies or processes of Aplysia single cultured sensory neurons were hybridized to custom Aplysia EST microarrays.
2013-04-26 | GSE30388 | GEO
Project description:Whole genome transcriptional profiling is used to compare ESTs found in cell bodies and processes of Aplysia motor neurons RNA samples derived from cell bodies or processes of Aplysia single cultured motor neurons were hybridized to custom Aplysia EST microarrays.
2013-04-26 | GSE30387 | GEO
Project description:Specific mRNAs are transported from the cell body to synapses where their translation can modify communication of pre-existing synapses and induce formation of new synaptic connections in response to learning. Little is known, however, about the identity of the RNAs that are actively transported and when and how these RNAs are utilized during learning. By focusing on RNAs that are associated with kinesin, a motor protein that transports gene products from the cell body to synapses, we have now applied microarrays and 454 sequencing to identify actively transported RNAs from the Aplysia central nervous system. Using a library prepared from the kinesin complex immunoprecipitated from the central nervous system (CNS), we have identified thousands of unique transcripts, of which ~600 mRNAs were annotated. Two sample comparison: kinesin IP vs. control.
2013-04-24 | E-GEOD-30440 | biostudies-arrayexpress
Project description:Whole genome transcriptional profiling is used to compare ESTs found in cell bodies and processes of Aplysia sensory neurons RNA samples derived from cell bodies or processes of Aplysia single cultured sensory neurons were hybridized to custom Aplysia EST microarrays. Two-condition experiment; four biological replicates for each condition were reciprocally hybridized on each two-color array
2013-04-26 | E-GEOD-30388 | biostudies-arrayexpress
Project description:Whole genome transcriptional profiling is used to compare ESTs found in cell bodies and processes of Aplysia motor neurons RNA samples derived from cell bodies or processes of Aplysia single cultured motor neurons were hybridized to custom Aplysia EST microarrays. Two-condition experiment; four biological replicates for each condition were reciprocally hybridized on each two-color array
2013-04-26 | E-GEOD-30387 | biostudies-arrayexpress
Project description:Kinesin-associated RNA: RNA co-immunoprecipitated with Kinesin IP vs RNA from Aplysia CNS
| PRJNA154843 | ENA
Project description:Specific mRNAs are transported from the cell body to synapses where their translation can modify communication of pre-existing synapses and induce formation of new synaptic connections in response to learning. Little is known, however, about the identity of the RNAs that are actively transported and when and how these RNAs are utilized during learning. By focusing on RNAs that are associated with kinesin, a motor protein that transports gene products from the cell body to synapses, we have now applied microarrays and 454 sequencing to identify actively transported RNAs from the Aplysia central nervous system. Using a library prepared from the kinesin complex immunoprecipitated from the central nervous system (CNS), we have identified thousands of unique transcripts, of which ~600 mRNAs were annotated.
2013-04-24 | GSE30440 | GEO
Project description:The marine mollusc Aplysia is a well established experimental system for cellular and systems neuroscience because of the relatively simple organization of its nervous system and the presence within it of the largest nerve cells in the animal kingdom, many of which are uniquely identifiable in every member of the species. Until now, molecular analyses of Aplysia have been seriously handicapped by lack of adequate genomic information, with only 200 sequences publicly available when this project was initiated in 2003. By sequencing cDNA libraries from the central nervous system, we have identified over 175,000 ESTs (expressed sequence tags), of which 19,814 are unique neuronal gene products and 9469 has been annotated. Through comparison with the complete genomic data available for Drosophila and C. elegans, we estimate that we have sequence information for approximately 50-70% of the total transcriptome of the Aplysia nervous system. We also identified 9,223 unique gene products in a modulatory serotonergic cell and about 1,000 unique gene products from its processes. Using gene expression oligoarrays constructed using the Aplysia EST database we also have characterized the transcript profile of sensory and motor neurons. In addition to increasing the amount of publicly available gene sequences of Aplysia by two orders of magnitude, this collection of transcripts is distinctive from a comparative biology point of view. It represents the largest database available for any member of the Lophotrochozoa clade of the animal kingdom. These molecular resources should allow the detailed study of the genomics of identified cells and circuits and provide in Aplysia a much needed bridge between genes, behavior, and learning. This SuperSeries is composed of the SubSeries listed below.
2007-01-05 | GSE4628 | GEO
Project description:The marine opisthobranch mollusk, Aplysia californica, is a powerful experimental system in cellular, molecular, and behavioral neuroscience as well as cell and evolutionary biology because of the distinctive organization of its nervous system, which makes it advantageous for cellular and comparative analysis of a variety of behaviors and learning and memory. Aplysia's large neurons allow examination of neuronal architecture of instinctive and learned behaviors at the level of single characterized cells and defined cellular compartments (e.g., synapses). As a result, many fundamental problems in neurobiology can be analyzed more effectively in Aplysias than in Drosophila, C. elegans, and vertebrates. In a larger sense work on Aplysia is synergistic with these other experimental systems. Here, we are sequencing the genome of Aplysia both to gain access to genomic mechanisms of basic neuronal and other functions and to study these mechanisms in real physiological time with single-neuron resolution. The distinction of Aplysia as a neurobiological and cellular model system is due to the following: (1) Its nervous system has a relatively small number of nerve cells. (2) Many of these cells are large (sometimes gigantic, up to 1 mm in diameter). (3) As a result of their size, pigmentation, and position in the nervous system, many cells can easily be uniquely identified at the single cell level and can be reliably linked to the animal's behavior. (4) The cells provide enough messenger RNA to generate cDNA libraries from single cells. (5) These neurons can be isolated and cultured in vitro and they form circuits which can be explored in detail at molecular and cellular levels. (6) The animal generates a variety of behaviors, many of which can be specified in terms of their underlying circuitry. (7) Some of these behaviors can be modified by different forms of learning. Aplysia are easy to rear in the laboratory from fertilized ova to mature adults and it is possible to obtain an inbred stock of reproducing animals. In 1995, the NIH established a National Resource Center for Aplysia at the University of Miami to meet the growing needs of the biomedical community. This Center supplies over 20,000 cultured Aplysia at all developmental stages annually to the research community throughout the world. This community consists of more than 100 laboratories and over a thousand investigators with overall research budgets of tens of millions of dollars annually. In addition to its value to the neurobiological community, Aplysia is also of interest from a comparative biological perspective. Aplysia is a free-living representative of Mollusca, the second largest animal phylum (after Arthropoda). Members of this phylum have received relatively little genetic study, even though they are of considerable significance for evolutionary and developmental biology and for basic and applied biomedical studies. Aplysia has a stable diploid genome consisting of 17 haploid chromosomes with highly polyploid central neurons. The genome size of about 850 million base pairs is typical for many molluscan species. Expressed sequence tags (ESTs) have already been sequenced, including more than 50,000 unique sequences representing several thousand genes, from the central nervous system of Aplysia – see Moroz et al (2006) . These ESTs have revealed many signaling molecules and pathways, including their key receptors, kinases and substrate proteins, but many rare yet key genes (e.g., ionic channels) have escaped detection so far. To achieve a complete understanding of the biologically important genes and their regulatory elements, a careful annotation and analysis of the sequenced genome is analysis is required. The Aplysia genome project will serve two major functions. First, it will be important for neuroscience by providing a critical resource for facilitating: (a) identification of all genes and regulatory regions of this valuable organism, (b) assembling microarrays and cDNA libraries for global expression studies, including those based on single neurons and their processes, and (c) gene function analysis by RNA interference screens. Second, the Aplysia genome will be important for comparative, developmental and evolutionary biology. Aplysia will serve as a complementary invertebrate/molluscan genomic model from the most diverse and second largest clade of bilaterally symmetrical animals. The Aplysia genome will promote studies of metazoan evolution, developmental biology, neuroscience, and human health, including identifying and validating therapeutic targets for human disorders that are related to aging, cancer, the central nervous system, as well as learning and memory mechanisms.
2022-10-11 | GSE79231 | GEO