Main Page: Difference between revisions

Latest revision as of 21:07, 24 February 2026

While still under development, these are some of the exciting entries on models and measurements recently added by community members:
Respiration from oxygen consumption: optodes
Single Turnover Chlorophyll Fluorescence
NifH amplicon sequence
Net community production (NCP) - O₂/Ar
PISCES
Darwin
CMIP
Proteome Allocation Models

Origin Story & Mission

Marine biogeochemistry needs a shared vocabulary between experimentalists and modelers for cross-disciplinary work to advance the field. Yet, to integrate disciplines successfully, researchers need to be vocal about discrepancy and uncertainty, and realize caveats of how values are determined. This community-driven collection of biogeochemical output began at the BioGeoScapes modelling workshop and the following PRiMO session at Woods Hole Oceanographic Institution in September 2025. To highlight cross-discipline implications like What data was particularly helpful to inform a model? or How can a model help constrain experimental parameters?, the idea arose to create a Wiki that provided a central repository for basic information related to interdisciplinary biogeochemistry science. This emerged as a way to address needs that have arisen in conversations specifically:

defining key terms used across disciplines
explain types of data generated by different methods, assumptions, and potential biases
describe different types of models, required data inputs, computational demand, and limitations

Content

OceanWiki is an encyclopedia of marine biogeochemistry, and consists of three components:

Lexicon

A dictionary with definitions from both experimentalists, observationalists, and modelers.

Data Types

Types of data from experimental observations and how they are obtained, grouped by the process they investigate.

Teaching material

This was a suggestion from the BioGeoScapes leadership. If you are interested in leading the effort, please get in contact with one of us (see the bottom of How to contribute).

@@ Line 1: / Line 1: @@
-== Welcome to Ocepedia ==
+{{DISPLAYTITLE:Welcome to OceanWiki}}
-Marine biogeochemistry is lacking a shared vocabulary between experimentalists and modelers, despite cross-disciplinary work having become key to advancing the field. Written output can highlight cross-discipline implications: What data was particularly helpful?; What methods were appreciated?; and How can other groups progress the work?; E.g., how an experimentalist may capitalize on a model. Yet, to integrate disciplines successfully, researchers need to be vocal about discrepancy and uncertainty, and realize caveats of how values are determined (via any of the three categories of work). Ocepedia is set up as an encyclopedia to bride disciplines of marine biogeochemistry, and consists of three main components:
+'''While still under development, these are some of the exciting entries on models and measurements recently added by community members:'''<br>
-==== [[:Category:Lexicon|Lexicon]] ====
+[[Respiration from oxygen consumption: optodes]]<br>
-A dictionary with definitions from both experimentalists, observationalists, and modelers.<br>
+[[Single Turnover Chlorophyll Fluorescence]]<br>
-(Include math, figures, etc. as needed)
+[[NifH amplicon sequence]]<br>
-==== Wiki ====
+[[Net community production (NCP) - O₂/Ar]]<br>
-[[Data Types]] of experimental observations explained including how they are obtained.<br>
+[[PISCES]]<br>
-[[Model Types]] explained with predefined categories.<br>
+[[Darwin]]<br>
-These pages contain definitions, limitations, context, and references.<br>
+[[CMIP]]<br>
-They are populated by us, naming responsible authors for accountability and credit.
+[[Proteome Allocation Models]]
-==== Webseries:? ====
-Videos to compliment the dictionary<br>
+== Origin Story & Mission ==
-- 20 minute discussion on a topic by a BGS expert<br>
+Marine biogeochemistry needs a shared vocabulary between experimentalists and modelers for cross-disciplinary work to advance the field. Yet, to integrate disciplines successfully, researchers need to be vocal about discrepancy and uncertainty, and realize caveats of how values are determined. This community-driven collection of biogeochemical output began at the [https://biogeoscapes.org/ BioGeoScapes] modelling workshop and the following [https://www.primoscorwg.org PRiMO] session at Woods Hole Oceanographic Institution in September 2025. To highlight cross-discipline implications like ''What data was particularly helpful to inform a model?'' or ''How can a model help constrain experimental parameters?'', the idea arose to create a Wiki that provided a central repository for basic information related to interdisciplinary biogeochemistry science. This emerged as a way to address needs that have arisen in conversations specifically:
-Ideally, someone to coordinate this
+*defining key terms used across disciplines
+*explain types of data generated by different methods, assumptions, and potential biases
+*describe different types of models, required data inputs, computational demand, and limitations
+== Content ==
+'''OceanWiki''' is an encyclopedia of '''marine biogeochemistry''', and consists of three components:
+=== [[:Category:Lexicon|Lexicon]] ===
+A dictionary with definitions from both experimentalists, observationalists, and modelers.
+=== [[Data Types]] ===
+Types of data from experimental observations and how they are obtained, grouped by the process they investigate.
+==== Primary Production ====
+[[Photoautotrophy]] | [[Nitrogen Fixation]] | [[Phytoplankton C/N-Based Growth Rates]] | [[Chemoautotrophy]]
+==== Secondary Production ====
+[[Enzyme Activity]] | [[Growth Rate]] | [[Respiration]]
+==== Nutrient Fluxes ====
+[[Nitrogen]] | [[Phosphorous]] | [[Sulfur]] | [[Trace Metals]] | [[Biomineralization]]
+==== Interactions ====
+[[Grazing]] | [[Mixotrophy]] | [[Viruses]] | [[Allelopathy]] | [[Life cycles]]
+=== [[Model Types]] ===
+Types of models explained grouped by the scales they function at.
+==== [[Cellular scale]] ====
+[[Flux Balance Analysis]] | [[Proteome Allocation Models]] | [[Particle Simulation]] | [[Bio Particle Simulation]]
+==== [[Biome scale]] ====
+[[Community Flux Balance Analysis]] | [[GENOME]]
+==== [[Global scale]] ====
+[[CMIP]] | [[MARBL]] | [[Darwin]] | [[AWESOME-OCIM]] | [[PISCES]]
+=== Teaching material ===
+This was a suggestion from the BioGeoScapes leadership. If you are interested in leading the effort, please get in contact with one of us (see the bottom of [[How to contribute]]).