Detailed information on the methodology (pdf), including:
Satellite measurements
Assigning Taxonomic Identities to ARISA peaks
Environmental parameter variability
Seasonal variability of microbial community structure
Mantel test approach
Interannual variability of microbial community structure
Alpha diversity:
Variability between depths
Relation to season
Relation to community similarity between depths
Relation to community change
Environmental parameters and community structure: Mantel tests
Temporal dynamics of microbial taxa over time
Transformations
Taxonomic Groups
OTUs
Relevent References:
Beman JM, Steele JA, Fuhrman JA. (2011). Co-occurrence patterns for abundant marine archaeal and bacterial lineages in the deep chlorophyll maximum of coastal California. ISME J 5: 1077-1085.
* Cram JA, Chow C-ET, Sachdeva R, et al. (2014) Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years. The ISME Journal. doi: 10.1038/ismej.2014.153.
Frouin R, Franz BA, Werdell PJ (2003) The SeaWiFS PAR product. Algorithm updates for the fourth SeaWiFS data reprocessing 46-50.
Fuhrman J, Azam F (1982) Thymidine incorporation as a measure of heterotrophic bacterioplankton production in marine surface waters - evaluation and field results. marine biology 66:109-120.
Kirchman D, K’nees E, Hodson R (1985) Leucine incorporation and its potential as a measure of protein synthesis by bacteria in natural aquatic systems. Appl Environ Microbiol 49:599-607.
Morel A, Gentili B (2009) A simple band ratio technique to quantify the colored dissolved and detrital organic material from ocean color remotely sensed data. Remote Sensing of Environment 113:998-1011. doi: 10.1016/j.rse.2009.01.008
Noble RT, Fuhrman JA. (1998). Use of SYBR Green I for rapid epifluorescence counts of marine viruses and bacteria. Aquat. Microb. Ecol 14: 113-118.
Parsons TR (1984) A manual of chemical and biological methods for seawater analysis, 1st ed. Pergamon Press, Oxford [Oxfordshire]; New York
Patel A, Noble RT, Steele JA, Schwalbach MS, Hewson I, Fuhrman JA. (2007). Virus and prokaryote enumeration from planktonic aquatic environments by
epifluorescence microscopy with SYBR Green I. Nat Protoc 2: 269-276.
Stramski D, Reynolds RA, Babin M, et al. (2008) Relationships between the surface concentration of particulate organic carbon and optical properties in the eastern South Pacific and eastern Atlantic Oceans. Biogeosciences 5:171-201.
BCO-DMO Processing:
- added conventional header with dataset name, PI name, version date
- renamed parameters to BCO-DMO standard or more descriptive terms
- replaced na with nd
- reformated data from m/d/yyyy to yyyy-mm-dd
- reduced number of digits for most parameters
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