http://lod.bco-dmo.org/id/dataset/849357
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
2021-04-19
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
16S rRNA and genomes of particle associated taxa
2021-04-19
publication
2021-04-19
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-04-26
publication
https://doi.org/10.26008/1912/bco-dmo.849357.1
Otto X. Cordero
Massachusetts Institute of Technology
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: Cordero, O. X. (2021) 16S rRNA and genomes of particle associated taxa. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-04-19 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.849357.1 [access date]
16S rRNA and genomes of particle associated taxa Dataset Description: Methods and Sampling: <p>Our study was based on laboratory enrichments with seawater as the sole inoculum and model marine particles as source of carbon and scaffolds for community assembly. Particles were incubated in 1L Nalgene bottles with overhead rotation and subsequently harvested for genomic analysis and isolation. The data here deposited corresponds to the 16S rRNA of the particle-associated community and the genomes of 7 isolates.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1658451 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1658451
completed
Otto X. Cordero
Massachusetts Institute of Technology
617-253-2679
MIT 48-429, 15 Vassar St.
Cambridge
MA
02139
US
ottox@mit.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Accession_number
type
taxon_name
type_of_sample
location
latitude
longitude
theme
None, User defined
accession number
sample description
taxon
site
latitude
longitude
featureType
BCO-DMO Standard Parameters
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.
Microbial interactions on particulate organic matter: from community structure to function
https://osprey.bco-dmo.org/project/734995
Microbial interactions on particulate organic matter: from community structure to function
<p><em>NSF Award Abstract:</em><br />
For marine bacteria the ocean is a vast desert punctuated by hotspots of nutrients originating from fragments of animal and algal tissue rich in organic carbon. Marine bacteria colonize and consume these hotspots, turning them into dissolved nutrients and releasing CO2 to the atmosphere. This process has tremendous implications for the global carbon cycle, but its dynamics and efficiency are fully determined by poorly understood ecological processes that unfold at the scale of those microscopic hotspots. The research aims to identify and quantify those micro-scale ecological processes, in particular with respect to how interactions between species of marine bacteria on nutrient hotspots impact the dynamics and efficiency of carbon turnover in the ocean. To this end, this project will use novel techniques to cultivate marine bacteria that live on nutrient hotspots and to measure their interspecies interactions as well as their effect on ecosystem function. This project will directly train two undergraduate students and one PhD. student. The findings of this project will be communicated to a broad audience via a series of podcasts focused on how the complex life of microbes at micro-scales impact biogeochemical cycles. These will be developed by undergraduate and graduate students at MIT.</p>
<p>The main hypothesis behind this research is that microbial interactions, frequently occurring on nutrient hotspots, have a significant impact on the rate of organic matter turnover, thereby affecting the global carbon cycle. To test this idea, model marine particles composed of biopolymers frequently found in marine environments will be used as scaffolds for natural microbial communities. This technique will allow the researchers to study community dynamics and function in a controlled and quantitative fashion. This work will identify the main ecological species active in the particle-attached communities as well as their functional roles during particle consumption. The research will also determine how interactions between bacteria in the community impact the degradation rate and the efficiency with which organic matter is turned into biomass, CO2 and other forms of dissolved carbon that diffuse into the water column.</p>
MINTPOM
largerWorkCitation
project
eng; USA
oceans
-70.9064
-70.9064
42.4168
42.4168
2021-04-19
0
BCO-DMO catalogue of parameters from 16S rRNA and genomes of particle associated taxa
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/849376.rdf
Name: Accession_number
Units: unitless
Description: <p>NCBI accession number</p>
http://lod.bco-dmo.org/id/dataset-parameter/849377.rdf
Name: type
Units: unitless
Description: <p>description of data type</p>
http://lod.bco-dmo.org/id/dataset-parameter/849378.rdf
Name: taxon_name
Units: unitless
Description: <p>taxon name</p>
http://lod.bco-dmo.org/id/dataset-parameter/849379.rdf
Name: type_of_sample
Units: unitless
Description: <p>description of sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/849380.rdf
Name: location
Units: unitless
Description: <p>name of sampling location</p>
http://lod.bco-dmo.org/id/dataset-parameter/849381.rdf
Name: latitude
Units: decimal degrees
Description: <p>latitude; positive values = North</p>
http://lod.bco-dmo.org/id/dataset-parameter/849382.rdf
Name: longitude
Units: decimal degrees
Description: <p>longitude; positive values = East</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
1235
https://darchive.mblwhoilibrary.org/bitstream/1912/27011/1/dataset-849357_particle-genomes__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.849357.1
download
onLine
dataset
<p>Our study was based on laboratory enrichments with seawater as the sole inoculum and model marine particles as source of carbon and scaffolds for community assembly. Particles were incubated in 1L Nalgene bottles with overhead rotation and subsequently harvested for genomic analysis and isolation. The data here deposited corresponds to the 16S rRNA of the particle-associated community and the genomes of 7 isolates.</p>
Specified by the Principal Investigator(s)
<p>Data were processed using CLC Genomics Workbench 11, CheckM.</p>
<p>BCO-DMO Processing:<br />
- renamed fields to comply with BCO-DMO naming conventions;<br />
- created separate columns for latitude and longitude values;<br />
- replaced 'NA' with 'nd' to indicate 'no data'.</p>
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