http://lod.bco-dmo.org/id/dataset/661836
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
2016-10-18
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Virus and Microbial Cell Abundances from Marine Samples; study completed at Georgia Tech by J. Weitz
2016-10-18
publication
2016-10-18
revision
BCO-DMO Linked Data URI
2016-10-18
creation
http://lod.bco-dmo.org/id/dataset/661836
Joshua Weitz
Georgia 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: Weitz, J. (2016) Virus and Microbial Cell Abundances from Marine Samples; study completed at Georgia Tech by J. Weitz. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 18 October 2016) Version Date 2016-10-18 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/661836 [access date]
Virus and Microbial Cell Abundances from Marine Samples Dataset Description: <p>Virus and microbial cell abundances from 25 marine surveys.<br />
<br />
Data is also available via: <a href="http://weitzgroup.github.io/Virus_Microbe_Abundance/" target="_blank">http://weitzgroup.github.io/Virus_Microbe_Abundance/</a></p>
<p>Data are freely available Open source via Creative Commons Attribution 4.0 International License, see: <a href="http://creativecommons.org/licenses/by/4.0/legalcode" target="_blank">http://creativecommons.org/licenses/by/4.0/legalcode</a></p>
<p>The original publication is:<br />
C.H. Wigington et al. 2016.&nbsp;Re-examination of the relationship between marine virus and microbial cell abundances Nature Microbiology 1:15024. doi:<a href="http://dx.doi.org/10.1038/nmicrobiol.2015.24" target="_blank">10.1038/nmicrobiol.2015.24</a></p> Methods and Sampling: <p>Marine virus abundance data were aggregated from 25 studies. A total of 5,671 data points were aggregated. The data collection dates ranged from 1996 to 2012. Data were primarily collected from coastal waters in the northern hemisphere, predominately during the summer months, with the notable exceptions of long-term coastal monthly monitoring sites, that is, the studies USC MO, BATS and MOVE.</p>
<p>See the&nbsp;original publication for more information:<br />
C.H. Wigington et al. 2016.&nbsp;Re-examination of the relationship between marine virus and microbial cell abundances Nature Microbiology 1:15024. doi:<a href="http://dx.doi.org/10.1038/nmicrobiol.2015.24" target="_blank">10.1038/nmicrobiol.2015.24</a></p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1233760 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1233760
completed
Joshua Weitz
Georgia Institute of Technology
404-894-3700
310 Ferst Dr.
Atlanta
GA
30332
USA
jsweitz@gatech.edu
pointOfContact
asNeeded
Dataset Version: 18 October 2016
Unknown
obs
date
study
lon
lat
depth
bacteria
virus
theme
None, User defined
sample identification
date
dataset_id
longitude
latitude
depth
abundance
featureType
BCO-DMO Standard Parameters
lab_Weitz
service
Deployment Activity
Atlanta, GA
place
Locations
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.
Understanding the Effects of Complex Phage-Bacteria Infection Networks on Marine Ecosystems
http://ecotheory.biology.gatech.edu
Understanding the Effects of Complex Phage-Bacteria Infection Networks on Marine Ecosystems
<p><em>Description from NSF award abstract:</em><br />
Bacteria and their viruses (phages) make up two of the most abundant and genetically diverse groups of organisms in the oceans. The extent of this diversity has become increasingly apparent with the advent of environmental sequencing. However, the ongoing discovery of new taxonomic diversity has, thus far, out-paced gains in quantifying the function of and interactions among phages and bacteria. Improved quantitative understanding of how diverse groups of phages exploit bacterial hosts will improve predictions of microbial population dynamics, ecosystem functioning, and the large-scale dynamics of global biogeochemical cycles. This project will develop a theoretical framework for characterizing the effect of complex phage-bacteria interactions on marine ecosystem structure and function. The theoretical framework is grounded in the analysis of cross-infection assays of bacteriophages with their bacterial hosts, termed phage-bacteria infection networks (PBINs). Recent discoveries concerning the structure of PBINs will be combined with a novel eco-evolutionary dynamics modeling framework in the service of the following aims:</p>
<p>Aim 1. Develop theoretical methods to analyze PBINs that include quantitative infection data to characterize complex patterns of cross-infection found in marine ecosystems.</p>
<p>Aim 2. Establish eco-evolutionary multi-strain models that incorporate complex PBIN data to evaluate hypotheses regarding how cross-infection within PBINs affects community stability.</p>
<p>Aim 3. Utilize the multi-strain model to predict how PBINs influence: (i) the ratio of viral to bacterial population abundances; and (ii) the flux of carbon and nutrients at the ecosystem level.</p>
<p>The theory developed in this project will improve characterizations of phage- bacteria interactions in marine ecosystems and establish a framework to link phage-bacteria interactions with ecosystem function. First, the project will generalize preliminary findings of multi-scale structure within empirical PBINs by developing novel network theories that can be applied to quantitative infection data. Properties of marine PBINs will be analyzed to assess whether they are hierarchically organized, organized into modules, and/or possess multi-scale structure. The statistical structure of PBINs will be integrated with multi-scale coevolutionary models. These co- evolutionary models will be utilized to evaluate hypotheses regarding how cross-infection structure affects community stability. Finally, these coevolutionary models will be used to consider carbon and nutrient regeneration via viral lysis of bacterial hosts. PBIN structure will be varied to establish a link between cross-infection and key indices of ecosystem structure and function, with specific applications to Roseobacter and Synechococcus hosts. Analytical methods and large-scale simulations will be utilized to achieve these goals, closely linked to empirical datasets.</p>
Phage-Bacteria-Nets
largerWorkCitation
project
eng; USA
biota
oceans
Atlanta, GA
2016-10-18
Theory and modeling project; lab-based, Georgia Tech
0
BCO-DMO catalogue of parameters from Virus and Microbial Cell Abundances from Marine Samples; study completed at Georgia Tech by J. Weitz
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/661839.rdf
Name: obs
Units: unitless
Description: <p>Observation identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/661840.rdf
Name: date
Units: unitless
Description: <p>Date of observation in mm/dd/yyyy format</p>
http://lod.bco-dmo.org/id/dataset-parameter/661841.rdf
Name: study
Units: unitless
Description: <p>Name of the study which made the abundance estimates</p>
http://lod.bco-dmo.org/id/dataset-parameter/661842.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude of the sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/661843.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude of the sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/661844.rdf
Name: depth
Units: meters
Description: <p>Depth of the sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/661845.rdf
Name: bacteria
Units: counts per milliliter (counts/mL)
Description: <p>Bacterial abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/661846.rdf
Name: virus
Units: counts per milliliter (counts/mL)
Description: <p>Viral abundance</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
325958
https://datadocs.bco-dmo.org/file/2GGXP4BiEZBq8J/Marine_VMR.csv
Marine_VMR.csv
Primary data file for dataset ID 661836
download
https://osprey.bco-dmo.org/dataset/661836/data/download
download
onLine
dataset
<p>Marine virus abundance data were aggregated from 25 studies. A total of 5,671 data points were aggregated. The data collection dates ranged from 1996 to 2012. Data were primarily collected from coastal waters in the northern hemisphere, predominately during the summer months, with the notable exceptions of long-term coastal monthly monitoring sites, that is, the studies USC MO, BATS and MOVE.</p>
<p>See the&nbsp;original publication for more information:<br />
C.H. Wigington et al. 2016.&nbsp;Re-examination of the relationship between marine virus and microbial cell abundances Nature Microbiology 1:15024. doi:<a href="http://dx.doi.org/10.1038/nmicrobiol.2015.24" target="_blank">10.1038/nmicrobiol.2015.24</a></p>
Specified by the Principal Investigator(s)
<p>Analyses of the data were performed using R version 3.1.1. Scripts&nbsp;and original data are provided at <a href="https://github.com/WeitzGroup/Virus_Microbe_Abundance" target="_blank">https://github.com/WeitzGroup/Virus_Microbe_Abundance</a></p>
<p>BCO-DMO Processing:<br />
- modified parameter names to conform with BCO-DMO naming conventions;<br />
- formatted dates to mm/dd/yyyy;<br />
- replaced spaces with underscores.</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
Deployment: lab_Weitz
lab_Weitz
Georgia_Tech
laboratory
lab_Weitz
Joshua Weitz
Georgia Institute of Technology
Georgia_Tech
laboratory