http://lod.bco-dmo.org/id/dataset/560466
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
2015-06-16
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
MATLAB library to analyze bipartite ecological networks developed in the Wietz lab at Georgia Tech from 2012-2016 (Phage-Bacteria-Nets project)
2015-06-16
publication
2015-06-16
revision
BCO-DMO Linked Data URI
2015-06-16
creation
http://lod.bco-dmo.org/id/dataset/560466
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. (2015) MATLAB library to analyze bipartite ecological networks developed in the Wietz lab at Georgia Tech from 2012-2016 (Phage-Bacteria-Nets project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 16 June 2015) Version Date 2015-06-16 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/560466 [access date]
MATLAB library to analyze bipartite ecological networks. Dataset Description: <p>A MATLAB library to analyze bipartite ecological networks. The main goal of BiMat is to facilitate the analysis of nestedness and modularity of bipartite ecological networks. For more information, instructions, and examples, see the <a href="http://dmoserv3.whoi.edu/data_docs/weitz/bimat_start_guide_v2.pdf" target="_blank">BiMat Start Guide</a> (PDF)</p> Methods and Sampling:
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: 16 June 2015
Unknown
description
link
theme
None, User defined
brief description
external_link
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
oceans
Atlanta, GA
2015-06-16
Theory and modeling project; lab-based, Georgia Tech
0
BCO-DMO catalogue of parameters from MATLAB library to analyze bipartite ecological networks developed in the Wietz lab at Georgia Tech from 2012-2016 (Phage-Bacteria-Nets 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
http://lod.bco-dmo.org/id/dataset-parameter/560474.rdf
Name: description
Units: dimensionless
Description: <p>Brief description of the link.<br />
</p>
http://lod.bco-dmo.org/id/dataset-parameter/560484.rdf
Name: link
Units: dimensionless
Description: <p>Link to external resource.</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
296
https://datadocs.bco-dmo.org/file/LAAGpLDHPAgYnQ/BiMat.csv
BiMat.csv
Primary data file for dataset ID 560466
download
https://osprey.bco-dmo.org/dataset/560466/data/download
download
onLine
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