Virginia P. Edgcomb

Synonyms:

Ginny

Affiliation:

Woods Hole Oceanographic Institution (WHOI)

Address:

Department of Geology and Geophysics
220 McLean Lab, MS #8
Woods Hole, MA
USA 02543

ORCiD:

0000-0001-6805-381X

Websites:

Edgcomb Lab--Marine Microbial Ecology

Activities reported for Virginia P. Edgcomb:

Program coordination

None

Project coordination

Pickled Protists or Community Uniquely Adapted to Hypersalinity? (Pickled Protists)	Principal Investigator
Investigations into the Physiological State of DHAB Metazoans (DHAB Metazoans)	Co-Principal Investigator
Were Protists the Beginning of the End for Stromatolites? (Protists_Stromatolites)	Co-Principal Investigator
Genetic and Metabolic Signatures of Marine Microorganisms in Oxygen Depleted and Varying Geochemical Seascapes (CariacoMetaOmics)	Principal Investigator, Contact
World-wide exploration of microbial eukaryote diversity and activity in the marine subsurface (Microbial Euk Div Mar Subsurface)	Co-Principal Investigator, Contact
Exploring of the Ecological Role(s) of Marine Fungi in the Deep Subseafloor (Fungal and prokaryotic activity in subseafloor)	Principal Investigator
Collaborative Research: Delineating The Microbial Diversity and Cross-domain Interactions in The Uncharted Subseafloor Lower Crust Using Meta-omics and Culturing Approaches (Subseafloor Lower Crust Microbiology)	Lead Principal Investigator, Contact
Collaborative Research: Hydrothermal Fungi in the Guaymas Basin Hydrocarbon Ecosystem (HOTFUN)	Lead Principal Investigator, Contact
Trojan Horses in the Marine Realm: Protist Parasite-host Dynamics in Coastal Waters (Coastal Parasites)	Co-Principal Investigator, Contact
Collaborative Research: Key Microbial Processes in Oxygen Minimum Zones: From In Situ Community Rate Measurements to Single Cells (MicroPro)	Co-Principal Investigator
Collaborative Research: IODP-enabled Insights into Fungi and Their Metabolic Interactions with Other Microorganisms in Deep Subsurface Hydrothermal Sediments (IODP insights Fungi)	Lead Principal Investigator, Contact

Deployment coordination

Deployment	Platform	Role
AT18-14	Atlantis	Chief Scientist
Hamelin_Pool_Edgcomb	WHOI	Principal Investigator
OC454-02	Oceanus	Chief Scientist

Datasets

Project: Collaborative Research: IODP-enabled Insights into Fungi and Their Metabolic Interactions with Other Microorganisms in Deep Subsurface Hydrothermal Sediments

Dataset	Version Date	Current State
Nutrients measured in porewater from sediments collected at Guaymas Basin from R/V JOIDES Resolution IODP-385 cruise in the Guaymas Basin from September to June, 2019. Principal Investigator	2022-08-12	Final no updates expected
Hydrocarbon compounds identified and measured in sediments and porewaters using gas chromatography from R/V JOIDES Resolution IODP-385 cruise in the Guaymas Basin between September and November, 2019. Principal Investigator	2022-08-12	Final no updates expected

Project: Trojan Horses in the Marine Realm: Protist Parasite-host Dynamics in Coastal Waters

Dataset	Version Date	Current State
Environmental observations and infected host and dinospore counts in Salt Pond, Falmouth, Massachusetts, USA from 2018 through 2019 Co-Principal Investigator, Contact	2020-03-10	Final no updates expected

Project: Collaborative Research: Hydrothermal Fungi in the Guaymas Basin Hydrocarbon Ecosystem

Dataset	Version Date	Current State
Temperature profiles of hydrothermal sediments measured by HOV Alvin’s heat flow probe in Guaymas Basin hydrothermal vents, RV/Atlantis cruise AT42-05, Nov. 2018 Co-Principal Investigator	2022-08-25	Final no updates expected
Sediment delta-13C methane and concentrations from pushcore samples collected at Guaymas Basin hydrothermal vents via Alvin dives on RV/Atlantis cruise AT42-05, Nov. 2018 Principal Investigator	2020-09-21	Final no updates expected
Porewater sulfate and sulfide concentrations in Alvin pushcore samples collected from Guaymas Basin hydrothermal vents during R/V Atlantis cruise AT42-05 in November 2018 and analyzed at UNC Chapel Hill Co-Principal Investigator	2020-06-26	Final with updates expected
Porewater nutrient, sulfide, and sulfate concentrations in Alvin pushcore samples collected from Guaymas Basin hydrothermal vents during R/V Atlantis cruise AT42-05 in November 2018 and analyzed at the Max Planck Institute for Marine Microbiology Co-Principal Investigator	2020-08-21	Final no updates expected
Sediment TN,TC and porewater DOC, DIC, DON concentrations from pushcore samples collected at Guaymas Basin hydrothermal vents via Alvin dives on RV/Atlantis cruise AT42-05, Nov. 2018 Principal Investigator	2019-07-29	Final no updates expected
Sediment hydrocarbon concentrations in Alvin pushcore samples from Guaymas Basin hydrothermal vents, RV/Atlantis cruise AT42-05, Nov. 2018 Principal Investigator	2019-07-15	Final no updates expected
Porewater hydrocarbon concentrations in Alvin pushcore samples from Guaymas Basin hydrothermal vents, RV/Atlantis cruise AT42-05, Nov. 2018 Principal Investigator	2019-07-15	Final no updates expected
Sample log for hydrocarbon pushcore samples from Guaymas Basin hydrothermal vents, RV/Atlantis cruise AT42-05, Nov. 2018 Principal Investigator	2019-07-15	Final no updates expected
Porewater nutrient concentrations (NO3+NO2, NH4, and PO4) from pushcore samples collected at Guaymas Basin hydrothermal vents via Alvin dives on RV/Atlantis cruise AT42-05, Nov. 2018 and reported by Woods Hole Oceanographic Institution Principal Investigator	2019-07-15	Final no updates expected

Project: Collaborative Research: Delineating The Microbial Diversity and Cross-domain Interactions in The Uncharted Subseafloor Lower Crust Using Meta-omics and Culturing Approaches

Dataset	Version Date	Current State
IODP360 - Raman spectra of a core sample taken at the Atlantis Bank Principal Investigator, Contact	2021-11-08	Final no updates expected
Supplementary Table 4C: Statistics of reads retained through bioinformatic processing of iTAG data for the 11 samples and control samples and metatranscriptome data. Principal Investigator, Contact	2020-05-28	Final no updates expected
Supplementary Table 4B: Annotations for contigs within transcriptome libraries for the eleven samples that were manually curated for selected metabolic processes Principal Investigator, Contact	2020-06-22	Final no updates expected
Supplementary Table 4A: Metatranscriptome data summary for cellular activities presented and statistics on sequencing and removal of potential contaminant sequences, FPKM values Principal Investigator, Contact	2020-07-01	Final no updates expected
Supplementary Table 3B: Replicate cell counts for the 11 samples and alkaline phosphatase activity measurements available for any of the 11 samples Principal Investigator, Contact	2020-06-22	Final no updates expected
Supplementary Table 3A: Concentration of archaeal and bacterial lipid biomarkers, ratio of core vs intact polar lipids and average chain length of bacterial dietherglycerol lipids. Principal Investigator, Contact	2020-06-22	Final no updates expected
Supplementary Table 2: Drill fluid contamination testiFMC in drilling. GC mass spectrometry measurements of concentrations of the tracers PFMD and Png fluid and sample materials Principal Investigator, Contact	2020-05-12	Final no updates expected
Supplementary Table 1: Results of CHNS analyses in rock samples at different depths and sample images. Principal Investigator, Contact	2020-05-11	Final no updates expected
Archaeal core lipids, intact polar lipids (IPLs), and bacterial dietherglycerol (DEG) lipids in the drilling mud, subsampled from whole round core 29R3 and selected rock samples. Principal Investigator	2020-02-28	Data not available
Diversity of archaeal intact polar lipids (IPLs) and changes in relative abundance of bacterial dietherglycerol lipids (DEGs) within the selected 11 samples at different depths Principal Investigator	2020-02-28	Data not available
Relative abundances of the diether lipid archaeol and tetraether lipids with zero, one, two and three rings and crenarchaeol from rock samples at different depths. Principal Investigator	2020-02-12	Data not available

Project: Exploring of the Ecological Role(s) of Marine Fungi in the Deep Subseafloor

Dataset	Version Date	Current State
The eukaryotic (poly-A) metatranscriptome for Canterbury Basin from R/V JOIDES Resolution cruise JRES-317 in the Canterbury Basin from 2009-2010 Principal Investigator	2016-08-19	Final no updates expected
Whole community (3 domain) metatranscriptomes for subsurface sediment core samples from R/V JOIDES Resolution cruises JRES-201 and JRES-317 in the Peru Margin and Canterbury Basin in 2002 and 2009-10 Principal Investigator	2016-08-16	Final no updates expected
Fungal iTAG analyses on Peru Margin sediment core samples from R/V JOIDES Resolution cruise JRES-201 in the Peru Margin from January to March 2002 Principal Investigator	2016-08-15	Final no updates expected

Project: World-wide exploration of microbial eukaryote diversity and activity in the marine subsurface

Dataset	Version Date	Current State
Sub-seafloor sediment eukaryotic rRNA collected on R/V JOIDES Resolution Legs 201 and 204, R/V Maria Merian cruise MSM11-1 at North Pond, and R/V Meteor cruise M76-1a at the Benguela Upwelling System from 2002-2009 Co-Principal Investigator, Contact	2015-11-06	Final no updates expected
Sub-seafloor metatranscriptomes from anaerobic Peru Margin sediments collected on R/V JOIDES Resolution Leg 201 in 2002 Co-Principal Investigator, Contact	2015-11-05	Final no updates expected

Project: Genetic and Metabolic Signatures of Marine Microorganisms in Oxygen Depleted and Varying Geochemical Seascapes

Dataset	Version Date	Current State
Cariaco Meta-Omics iTAG datasets for samples collected at the CARIACO Basin Time Series Station 10.5˚N, 64.7˚W on CAR212_2 and CAR_216_2 Principal Investigator	2017-10-12
Cariaco metagenomes/metatranscriptomes for samples collected at the CARIACO Basin Time Series Station 10.5˚N, 64.7˚W on CAR212_2 and CAR_216_2 Principal Investigator	2017-10-12
Microscopy data from B/O Hermano Gines cruises in the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics project) Principal Investigator	2016-07-22	Final with updates expected
Radioisotope data from B/O Hermano Gines cruises in the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics project) Principal Investigator	2016-07-22	Final with updates expected
Fluorescent in situ hybridization data from B/O Hermano Gines cruises for the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics project) Principal Investigator	2016-07-22	Final with updates expected
qPCR data from the B/O Hermano Gines cruises in the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics project) Principal Investigator	2016-07-22	Final with updates expected
CTD profiles collected in support of molecular samples from B/O Hermano Gines cruises for the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics project) Co-Principal Investigator	2016-07-22	Final with updates expected
qPCR data from B/O Hermano Gines cruises in the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics project) Principal Investigator	2016-07-22	Final with updates expected

Project: Were Protists the Beginning of the End for Stromatolites?

Dataset	Version Date	Current State
Sequence accession numbers from microbialite mats sampled from R/V F.G. Walton Smith cruise WS1005 in the Bahamas and from Hamelin Pool, Australia from 2010-2011 (Protists_Stromatolites project) Principal Investigator	2013-07-25	Final no updates expected

Project: Investigations into the Physiological State of DHAB Metazoans

Dataset	Version Date	Current State
Metatranscriptome data for pools of 10 nematodes picked from halocline and nearby control sediments from R/V Atlantis cruise AT18-14 in the Eastern Mediterranean in 2011 (DHAB Metazoans project) Co-Principal Investigator	2015-05-27	Final with updates expected
454 pyrotags for Eukaryote taxa in deep hypersaline anoxic basin (DHAB) halocline sediments collected on R/V Atlantis cruise AT18-14 in the Eastern Mediterranean (35.3 N, 21.7 E) in 2011 Principal Investigator	2015-05-22	Final no updates expected
Cruise track data from ship's underway data acquisition system collected during R/V Atlantis cruise AT18-14 in the Eastern Mediterranean; 35.3 N 21.7 E in 2011 (DHAB Metazoans project) Principal Investigator	2011-12-21	Final no updates expected
Scientific sampling event log from R/V Atlantis cruise AT18-14 in the Eastern Mediterranean; 35.3 N 21.7 E (Pickled Protists project, DHAB Metazoans project) Principal Investigator	2011-12-21	Final no updates expected

Project: Pickled Protists or Community Uniquely Adapted to Hypersalinity?

Dataset	Version Date	Current State
Microbial metatranscriptomics: upper and lower halocline water column data from the R/V Oceanus and R/V Urania (OC454-02) in the eastern Mediterranean Sea in 2009 (Pickled Protists project) Principal Investigator	2015-03-19	Final no updates expected
Microbial metatranscriptomics: upper and lower halocline water column data from the R/V Urania cruise in the Mediterranean Sea during 2012 (Pickled Protists project) Principal Investigator	2015-03-19	Final no updates expected
Data on microbial metatranscriptomics: Niskin vs. in situ sampler from the R/V Urania cruise in the Mediterranean Sea during 2012 (Pickled Protists project) Principal Investigator	2015-03-19	Final no updates expected
454 pyrotags for Bacterial and Archaeal taxa in deep hypersaline anoxic basin (DHAB) halocline sediments from the R/V Atlantis AT18-14 cruise in the Eastern Mediterranean; 35.3 N 21.7 E in 2011 (Pickled Protists project) Principal Investigator	2015-03-19	Final no updates expected
454 pyrotags for Eukaryote taxa in deep hypersaline anoxic basin (DHAB) halocline sediments collected on R/V Atlantis cruise AT18-14 in the Eastern Mediterranean (35.3 N, 21.7 E) in 2011 Principal Investigator	2015-05-22	Final no updates expected
CTD profiles collected from the R/V Atlantis cruise AT18-14 from the Eastern Mediterranean Sea in 2011 (Pickled Protists project) Chief Scientist	2012-02-14	Final no updates expected
Scientific sampling event log from R/V Atlantis cruise AT18-14 in the Eastern Mediterranean; 35.3 N 21.7 E (Pickled Protists project, DHAB Metazoans project) Principal Investigator	2011-12-21	Final no updates expected
Cruise track data from ship's underway data acquisition system from R/V Oceanus cruise OC454-02 in the Mediterranean Sea (Pickled Protists project) Principal Investigator	2010-12-23	Final no updates expected
CTD cast temperature, salinity, oxygen, and other measurements from R/V Oceanus cruise OC454-02 in the Mediterranean Sea (Pickled Protists project) Principal Investigator	2011-01-03	Final no updates expected

Database

Contribute Data

Virginia P. Edgcomb

Activities reported for Virginia P. Edgcomb: