http://lod.bco-dmo.org/id/dataset/775451 eng; USA utf8 dataset Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact 2019-08-15 ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data ISO 19115-2:2009(E) NCBI accessions and metadata associated with Caribbean sponge metagenomes collected from Curacao, Belize, Cayman Islands and St. Croix, 2009 and 2017-2018 2019-08-15 publication 2019-08-15 revision Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA) 2019-08-19 publication https://doi.org/10.1575/1912/bco-dmo.775451.1 Michael P. Lesser University of New Hampshire principalInvestigator Marc Slattery University of Mississippi principalInvestigator Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. publisher Cite this dataset as: Lesser, M., Slattery, M. (2019) NCBI accessions and metadata associated with Caribbean sponge metagenomes collected from Curacao, Belize, Cayman Islands and St. Croix, 2009 and 2017-2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2019-08-15 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.775451.1 [access date] Sponge holobiont accessions and metadata Dataset Description: &lt;p&gt;This dataset includes NCBI Accessions for Raw sequence data for 16S rRNA amplicon microbiomes.&lt;/p&gt; &lt;p&gt;The NCBI BioProject number is PRJNA555077 which covers 1547 samples of 16S libraries where the metadata are also available but the sequences themselves are still embargoed. [2019-08-15]&lt;/p&gt; &lt;p&gt;Samples were collected at 15 m by SCUBA diving in the Caribbean near Curacao, Belize, Cayman Islands and St. Croix, in 2009 and 2017-2018. Samples were cleaned, frozen whole, or placed in a DNA/RNA preservation buffer and shipped back to the University of New Hampshire where DNA was extracted and metagenetic, shotgun or cDNA sequencing was conducted.&lt;/p&gt; &lt;p&gt;Data was quality controlled and analyzed in spreadsheets for descriptive statistics, and statistical software was used for bioinformatic analyses.&lt;/p&gt; Methods and Sampling: Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1638296 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1638296 completed Michael P. Lesser University of New Hampshire 603-862-3442 Department of Molecular, Cellular and Biomedical Sciences Durham NH 03824 USA mpl@unh.edu pointOfContact Marc Slattery University of Mississippi 662-915-1053 Department of BioMolecular Sciences Oxford MS 38677-1848 USA slattery@olemiss.edu pointOfContact asNeeded Dataset Version: 1 Unknown BioProject BioSample Sample_name sample_type host collection_date geographic_location lat lon source_material_identifiers depth in situ light sensor in situ temperature sensor theme None, User defined accession number sample identification sample description taxon date site latitude longitude depth featureType BCO-DMO Standard Parameters Automated DNA Sequencer Light Meter Thermometer instrument BCO-DMO Standard Instruments otherRestrictions otherRestrictions Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use. Dimensions of Biodiversity http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=503446 Dimensions of Biodiversity (adapted from the NSF Synopsis of Program) Dimensions of Biodiversity is a program solicitation from the NSF Directorate for Biological Sciences. FY 2010 was year one of the program.  [MORE from NSF] The NSF Dimensions of Biodiversity program seeks to characterize biodiversity on Earth by using integrative, innovative approaches to fill rapidly the most substantial gaps in our understanding. The program will take a broad view of biodiversity, and in its initial phase will focus on the integration of genetic, taxonomic, and functional dimensions of biodiversity. Project investigators are encouraged to integrate these three dimensions to understand the interactions and feedbacks among them. While this focus complements several core NSF programs, it differs by requiring that multiple dimensions of biodiversity be addressed simultaneously, to understand the roles of biodiversity in critical ecological and evolutionary processes. Dimensions of Biodiversity largerWorkCitation program Collaborative Research: Dimensions: Evolutionary Ecology of Sponges and Their Microbiome Drives Sponge Diversity on Coral Reefs https://osprey.bco-dmo.org/project/649062 Collaborative Research: Dimensions: Evolutionary Ecology of Sponges and Their Microbiome Drives Sponge Diversity on Coral Reefs <p><em>NSF Award Abstract:</em><br /> Coral reefs, the tropical rain forests of the marine environment, are under significant threat from a variety of stressors such as pollution, overfishing, coastal development and climate change. There is increasing interest by the coral reef research community in the ecology and evolution of other groups of organisms besides corals on coral reefs with sponges being of particular interest. Sponges are a very old group of organisms essential to reef health because of their roles in nutrient cycling, providing food and homes for many other reef organisms, and their ability to synthesize diverse chemical compounds of ecological importance on the reef, and of interest to the biomedical community. Many of these important functions would not be possible without the symbiotic microbes (e.g., bacteria) that live within sponges. In this project, the investigators will examine relationships between the sponge host and its microbiome in the ecological roles described above. Like the human microbiome, understanding the sponge micobiome may be the key to understanding their ecology and biodiversity. The investigators will use a combination of classical ecological approaches combined with sophisticated biochemical and molecular analyses to unravel the role of the symbionts in the ecology and evolution of sponges. Both the University of New Hampshire and the University of Mississippi will provide training opportunities for undergraduate and graduate students as well as veterans and post-doctoral researchers, especially from underrepresented groups. Additionally, the investigators will develop unique outreach programs for public education on the importance of coral reef ecosystems.</p> <p>The goal of this study is to examine the relationships between marine sponges and their microbiomes, and reveal the phylogenetic, genetic, and functional biodiversity of coral reef sponges across the Caribbean basin. This research will provide a better understanding of sponges as a major functional component of the biodiversity of coral reef communities. This transformative project will examine important paradigms relative to sponge communities worldwide that will provide unique insights into the integrative biodiversity of sponges on coral reefs and enhance our understanding of the ecology and evolution of this extensive, yet understudied, group of marine organisms. This is essential because sponges continue to emerge as the dominant taxon on many coral reefs, particularly following regional declines in coral cover over the last three decades, and their ecological importance to shallow coral reef communities is unequivocal. In addition, many marine sponges host a diverse assemblage of symbiotic microorganisms that play critical functional roles in nutrient cycling within sponges themselves and in the coral reef communities where they reside, and many sponges can potentially transfer photoautotrophically derived energy to higher trophic levels. As shallow coral reefs continue to decline, the phylogenetic, genetic, and functional diversity of coral reefs will increasingly be found in taxa other than scleractinian corals, such as soft corals and sponges. The investigators predict that co-evolution of the sponge host and microbiome leads to emergent functional properties that result in niche diversification and speciation of sponges. To assess this, they will quantify trophic modes (e.g., DOM and POC uptake, photo-autotrophy) of sponges in the Caribbean, as well as the production of chemical defenses. These character states will be analyzed in the context of the phylogenetic composition of the sponge hosts and their microbiomes, and the functional activities of the host and symbionts at the genetic level (i.e., transcriptomics and metatranscriptomics). These data will provide unique insights into the co-evolution of sponges and their microbiomes, and how these symbioses influence the functional attributes of sponges within coral reef communities.</p> DimensionsSponge largerWorkCitation project eng; USA biota oceans -88.0878 -64.673501 12.0828 19.4023 2009-01-01 2018-08-10 Curacao, Belize, Florida, Cayman Islands 0 BCO-DMO catalogue of parameters from NCBI accessions and metadata associated with Caribbean sponge metagenomes collected from Curacao, Belize, Cayman Islands and St. Croix, 2009 and 2017-2018 Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact http://lod.bco-dmo.org/id/dataset-parameter/775489.rdf Name: BioProject Units: unitless Description: <p>NCBI BioProject accession number</p> http://lod.bco-dmo.org/id/dataset-parameter/775490.rdf Name: BioSample Units: unitless Description: <p>NCBI BioSample accession number</p> http://lod.bco-dmo.org/id/dataset-parameter/775491.rdf Name: Sample_name Units: unitless Description: <p>Lab sample name</p> http://lod.bco-dmo.org/id/dataset-parameter/775492.rdf Name: sample_type Units: unitless Description: <p>sample type and genomic analysis</p> http://lod.bco-dmo.org/id/dataset-parameter/775493.rdf Name: host Units: unitless Description: <p>host taxon</p> http://lod.bco-dmo.org/id/dataset-parameter/775494.rdf Name: collection_date Units: unitless Description: <p>date collected</p> http://lod.bco-dmo.org/id/dataset-parameter/775495.rdf Name: geographic_location Units: unitless Description: <p>geographic location of collection</p> http://lod.bco-dmo.org/id/dataset-parameter/775496.rdf Name: lat Units: decimal degrees Description: <p>latitude; north is positive</p> http://lod.bco-dmo.org/id/dataset-parameter/775497.rdf Name: lon Units: decimal degrees Description: <p>longitude; east is positive</p> http://lod.bco-dmo.org/id/dataset-parameter/775498.rdf Name: source_material_identifiers Units: unitless Description: <p>sample identifier</p> http://lod.bco-dmo.org/id/dataset-parameter/775499.rdf Name: depth Units: feet seawater (fsw) or meters Description: <p>collection depth guage measurement</p> GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact 208227 https://darchive.mblwhoilibrary.org/bitstream/1912/24456/1/dataset-775451_sponge-holobiont-accessions-and-metadata__v1.tsv download https://doi.org/10.1575/1912/bco-dmo.775451.1 download onLine dataset &lt;p&gt;&lt;strong&gt;BCO-DMO Processing Notes:&lt;/strong&gt;&lt;br /&gt; - data were downloaded from NCBI BioProject PRJNA555077 on 2019-08-14 [https://www.ncbi.nlm.nih.gov/bioproject/PRJNA555077] and reformatted as a flat table.&lt;br /&gt; - added conventional header with dataset name, PI name, version date&lt;br /&gt; - modified parameter names to conform with BCO-DMO naming conventions&lt;/p&gt; Specified by the Principal Investigator(s) asNeeded 7.x-1.1 Biological and Chemical Oceanography Data Management Office (BCO-DMO) Unavailable 508-289-2009 WHOI MS#36 Woods Hole MA 02543 USA info@bco-dmo.org http://www.bco-dmo.org Monday - Friday 8:00am - 5:00pm For questions regarding this resource, please contact BCO-DMO via the email address provided. pointOfContact PI Supplied Instrument Name: Instrument Name: Automated DNA Sequencer Instrument Short Name:Automated Sequencer Instrument Description: A DNA sequencer is an instrument that determines the order of deoxynucleotides in deoxyribonucleic acid sequences. in situ light sensor in situ light sensor PI Supplied Instrument Name: in situ light sensor Instrument Name: Light Meter Instrument Short Name:Light Meter Instrument Description: Light meters are instruments that measure light intensity. Common units of measure for light intensity are umol/m2/s or uE/m2/s (micromoles per meter squared per second or microEinsteins per meter squared per second). (example: LI-COR 250A) in situ temperature sensor in situ temperature sensor PI Supplied Instrument Name: in situ temperature sensor Instrument Name: Thermometer Instrument Short Name: Instrument Description: A device designed to measure temperature.