PURPOSE:Chlorophyll a is a photosynthetic pigment common to aquatic algae, and its measurement can provide an estimate of free-floating algae abundance in an aquatic system. For more than 40 years, the Fisheries and Oceans Canada - Great Lakes Laboratory for Fisheries and Aquatic Sciences (DFO-GLLFAS) office in Sault Ste. Marie Ontario has collected water samples for chlorophyll a spectrophotometric analysis, producing data in the form of mg/m3. The collection of chlorophyll a data was generally conducted to assist in characterizing the aquatic systems level of primary productivity, since that can influence fish abundance. This was a supplementary measure of the quality of fish habitat in these systems for a variety of fish-related projects of relevance to DFO’s mandate. Consistency of data collection was dependent on the duration of each project and funding available. DESCRIPTION:The initial study collected chlorophyll a data from the five lakes in the Turkey Lakes Watershed (TLW – Upper and Lower Batchawana Lakes, Wishart Lake, Little Turkey Lake and Turkey Lake) as well as Quinn Lake which is located outside of the TLW (see Smokorowski et al. 2006) in partnership with Environment and Climate Change Canada (ECCC) and Natural Resources Canada (NRCAN), as part of Canada’s Acid Rain Initiative. The TLW study was established in 1979 to evaluate the impacts of acid rain on terrestrial and aquatic ecosystems. This dataset encompasses chlorophyll a data collected from five lakes in the TLW and Quinn Lake (data also collected by the Canadian Wildlife Service and Environment and Climate Change Canada) from 1983 - 2010 with some gaps of varying duration (Webster et al., 2021). Note that an experimental habitat removal took place in some TLW lakes and Quinn Lake in 1999 and 2000. Specifically, in autumn of 1999, 50% of the coarse woody material was removed from the shorelines of Little Turkey Lake and Quinn Lake, and in autumn of 2000, 50% of the course woody material was removed from Wishart Lake shoreline (details available in Smokorowski et al., 2006). Methods Summary: Sampling was only conducted during the open water season and the frequency and extent of sampling frequency in each waterbody varied and was project- and funding-dependent. There are no chlorophyll a data for the years 1986, 1989 – 1990, 1996 – 1997, 2006-2007 and 2009.Sampling was accomplished by rinsing on site an appropriately-cleaned 1 L, brown-opaque polyethylene bottles at least three times. For hand draw samples, the bottle was immersed sub-surface (less than 0.5 meters) to collect the sample. Composite tube samples were collected using an integrated water sampling tube that collected epilimnion water from the entire water column to a depth of 5 meters. Up to five - 1 L (1000 mL) samples were collected per station and returned to the lab on ice. Each 1 L sample was filtered using glass fiber filters (Whatman GF/C, 42.5 mm) within one day of sampling, and then frozen prior to standard chlorophyll a analysis (American Public Health Association [APHA] 1985). From 1983-1998, Chlorophyll a concentrations (mg/L) was calculated based on APHA 1985; from 1998 to present the calculation was based on APHA (1998). The sample dataset information includes the georeferenced sampling locations, the raw data for chlorophyll a calculations, and the calculated chlorophyll a concentrations using both the APHA (1985) and APHA (1998) methods. This dataset was published in partnership with the Canadian Institute of Ecology and Evolution - Living Data Project, which was funded by a CREATE grant from the Natural Science and Engineering Research Council of Canada. We would like to recognize Caroline Dallstream for her effort in publishing this dataset. SAMPLING METHODS:Methods Summary: Sampling was only conducted during the open water season and the frequency and extent of sampling frequency in each waterbody varied and was project- and funding-dependent. There are no chlorophyll a data for the years 1986, 1989 – 1990, 1996 – 1997, 2006-2007 and 2009. See Sampling was accomplished by rinsing on site an appropriately-cleaned 1 L, brown-opaque polyethylene bottles at least three times. For hand draw samples, the bottle was immersed sub-surface (less than 0.5 meters) to collect the sample. Composite tube samples were collected using an integrated water sampling tube that collected epilimnion water from the entire water column to a depth of 5 meters. Up to five - 1 L (1000 mL) samples were collected per station and returned to the lab on ice. Each 1 L sample was filtered using glass fiber filters (Whatman GF/C, 42.5 mm) within one day of sampling, and then frozen prior to standard chlorophyll a analysis (American Public Health Association [APHA] 1985). From 1983-1998, Chlorophyll a concentrations (mg/L) was calculated based on APHA 1985; from 1998 to present the calculation was based on APHA (1998). The sample dataset information includes the georeferenced sampling locations, the raw data for chlorophyll a calculations, and the calculated chlorophyll a concentrations using both the APHA (1985) and APHA (1998) methods.USE LIMITATION:To ensure scientific integrity and appropriate use of the data, we would encourage you to contact the data custodian.

A compendium of reports that provide information about aquatic and terrestrial animals and plants, soils, surface water, groundwater and their accompanying data files and maps

Phytoplankton pigments, determined by high-performance liquid chromatography (HPLC) are measured on DFO cruises three times a year in February, June, and August/September along Line P in the northeast subarctic Pacific. Sampling for phytoplankton pigments started in 2006 at the five main Line P stations and was expanded to sample at all twenty seven stations along the transect in June 2010.

Sexual reproduction is critical to the resilience of seagrass beds impacted by habitat degradation or environmental changes, as robust seed banks allow new shoots to establish each year. Reproductive strategies of seagrass beds range on a continuum from strictly annual to perennial, driven by local environmental conditions. We examined the reproductive dynamics of Zostera marina beds at six sites on the Atlantic coast of Canada to characterize how life history strategies are shaped by the surrounding environment. Sites were categorized as wave protected and wave exposed, where protected sites were warm, shallow, with little water movement and muddy sediments, and exposed sites were either shallow or deep, with cooler water and sandy sediments. While mixed life history strategies were evident at all sites, protected eelgrass beds exhibited both the highest and lowest sexual reproductive effort relative to exposed beds. These beds regularly experienced thermal stress, with higher temperature range and extended warm water events relative to exposed beds. The development of reproductive shoots were similar across sites with comparable Growing Degree-days at the beginning and end of anthesis, but the First Flowering Date was earlier at the protected warmer sites relative to exposed sites. With different reproductive shoot density among sites, seed production, seed retention, and seedling recruitment also varied strongly. Only one site, located in a warm, shallow and protected lagoon, contained a mixed life history population with a high reproductive effort (33.7%), strong seed bank, and high seedling establishment. However, a primarily perennial population with the lowest reproductive effort (0.5%) was identified at the warmest site, suggesting that conditions here could not support high sexual reproduction. Robustness of seed banks was strongly linked to reproductive shoot density, although the role of seed retention, germination and seedling survival require further investigation. Our study provides insights into one key aspect of seagrass resilience, and suggests that resilience assessments should include reproductive shoot density to inform their management and conservation.Cite this data: Vercaemer B. and Wong M. Reproductive ecology of Zostera marina L. (eelgrass) across varying environmental conditions. Published: May 2022. Coastal Ecosystems Science Division, Fisheries and Oceans Canada, Dartmouth, N.S. https://open.canada.ca/data/en/dataset/56cfea6f-aeca-47ed-94ab-c519d9e63c91

Phytoplankton pigments, determined by high-performance liquid chromatography (HPLC) have been measured on DFO La Perouse cruises since 2011. Surface samples are taken along a series of transects off the west coast of Vancouver Island twice a year usually in May/June and early September.

Species characterization by environmental DNA (eDNA) is a method that allows the use of DNA released into the environment by organisms from various sources (secretions, faeces, gametes, tissues, etc.). It is a complementary tool to standard sampling methods for the identification of biodiversity. This project provides a list of invertebrates species whose DNA has been detected in water samples collected at 2018 using the marker COI.The surveys were carried out in the summer of 2018 from August 11 to 14, between Forestville and Godbout (Haute-Côte-Nord). Sampling was carried out between 9-52 meters depth in 40 stations with one sample par station. Two liters of water were filtered through a 1.2 µm fiberglass filter. DNA extractions were performed with the DNeasy Blood and Tissue extraction kit (Qiagen). Negative field, extraction and PCR controls were added at the different stages of the protocol. Libraries at the COI locus were prepared by Genome Quebec and sequenced on an Illumina MiSeq PE250 system. The bioinformatics analysis of the sequences obtained was carried out using an in-house analysis pipeline as reported in Bourret et al. 2022. A first step made it possible to obtain a molecular operational taxonomic unit table (MOTU) using the cutadapt software for the removal of the adapters and the DADA2 R package for the filtration, fusion, chimera removal and data compilation. The MOTUs table was subsequently corrected by taking into account the negative controls, where the number of observations in the latter was removed from the linked samples. Singleton MOTUs have also been removed. Finally, the taxonomic assignments were carried out on the MOTUs using the IDTAXA classifier (present in the DECIPHIER R package) using a training set trained on the COI reference bank for Golf St-Laurent (GSL-rl v1.0, https://github.com/GenomicsMLI-DFO/MLI_GSL-rl) and a threshold of 40. Detections with an “Unreliable due to gaps” category were reported at the genus level only.The file provided includes generic activity information, including site, station name, date, marker type, assignment types used for taxa identification, and a list of taxa or species. The list of taxa has been verified by a biodiversity expert from the Maurice-Lamontagne Institute.This project was funded by Fisheries and Oceans Canada's Coastal Environmental Baseline Data Program under the Oceans Protection Plan. This initiative aims to acquire baseline environmental data that contributes to the characterization of significant coastal areas and supports evidence-based assessments and management decisions to preserve marine ecosystems.Data are also available on SLGO platform : https://doi.org/10.26071/ogsl-cd4c205b-f63b

A research survey on the common whelk (Buccinum undatum) has been conducted biennially in three sectors of the St. Lawrence Estuary since 2005 to assess the abundance of whelk and benthic species associated with whelk habitat. Only data for benthic species associated with whelk habitat are presented in this dataset. The survey was initiated in 2005 following the intensive fishery of the early 2000s in the Upper North Shore region. The three sectors covered by the survey were based on the distribution of commercial fishing effort from 2001 to 2004.Surveys were conducted between mid-July and early August from 2005 to 2019 on the North Shore of the St. Lawrence Estuary between Portneuf-sur-Mer and Baie-Comeau according to a fixed station sampling design. Three sectors were surveyed at each survey: Forestville (69°03'11"W-48°39'24"N and 68°56'02"W-48°46'16"N), Pointe-aux-Outardes (68°35'53"W-48°59'32"N and 68°25'30"W-49°01'06"N) and Baie-Comeau (68°06'04"W-49°08'40"N and 68°05'10"W-49°12'26"N). Since 2007, the sampling plan consists of 55 stations in Forestville, 26 stations in Pointe-aux-Outardes and 11 stations in Baie-Comeau. The targeted depth interval at the three sectors was approximately 5 to 40 m. Specimens were collected using a Digby-type scallop dredge with a total width of 3.04 m consisting of four 19 mm mesh Vexar™ lined baskets to harvest small individuals. Start and end positions were recorded to calculate the distance traveled at each tow using the geosphere library in R. Since 2011, the average tow distance was approximately 300 m. The area covered at each tow was the product of the dredge width and distance.The three files provided (DarwinCore format) are complementary and are linked by the "eventID" key. The "event_information" file includes generic event information, including date and location. The "additional_information_event_and_occurrence" file includes sample size, sampling protocol and sampling effort, among others. The "taxon_occurrence" file includes the taxonomy of the species observed, identified to the species or lowest possible taxonomic level. For abundance and biomass estimates, contact Virginie Roy (virginie.roy@dfo-mpo.gc.ca).For quality controls, all taxonomic names were checked against the World Register of Marine Species (WoRMS) to match recognized standards. The WoRMS match was placed in the "scientificNameID" field of the occurrence file. Special cases were noted in "identificationRemarks" and selected specimens were confirmed using field photos. Data quality checks were performed using the R obistools and worrms libraries. All sampling locations were spatially validated.

This dataset accompanies the open access article "Improving satellite chlorophyll-a retrieval in the turbid waters of the Bay of Fundy, Canada" published in Estuaries and Coasts (https://doi.org/10.1007/s12237-024-01334-x). A full methods description is provided in the article. Briefly, we processed daily satellite data from the MODerate-resolution Imaging Spectroradiometer (MODIS) on the Aqua satellite from 2003 to 2021 at 300 m resolution to understand and quantify spatial and temporal trends in chlorophyll-a concentration (chl-a, a measure of phytoplankton biomass), and suspended particulate matter concentration (SPM) in the Bay of Fundy surface waters. This dataset provides the median yearly and seasonal climatology of chl-a (mg m-3 ) and SPM (g m-3) from 2003 to 2021 as geotiff layers. Here winter is defined as January to March, spring as April to June, summer as July to September, and fall as October to December. Chl-a was calculated with the OCX-SPMCor algorithm and SPM was calculated with the Nechad et al 2010 algorithm.Cite this data as: Wilson, K., Hilborn, A., Clay, S., Devred, E. Data ofSatellite derived surface chlorophyll-a and suspended particulate matter in the Bay of Fundy from 2003 to 2021. Published February 2024. Ocean Ecosystem Science Division, Fisheries and Oceans Canada, Dartmouth, N.S. https://open.canada.ca/data/en/dataset/272f5cf1-52bb-416b-b92a-8bc9384fc24d

The purpose of this study was to characterize the kelp bed at Batture-aux-Alouettes, a preferred food source for the green sea urchin (Strongylocentrotus droebachiensis). The green urchin is fished commercially in Quebec and the fishing effort is concentrated on the Batture-aux-Alouettes near Tadoussac, at the mouth of the Saguenay Fjord. The study was conducted in two separate phases in 2018 and 2019. The main objective of this study was to determine the abundance and biomass of the kelp bed at Batture-aux-Alouettes. The first phase, using a stratified random sampling design, was conducted from August 21th to August 24th, 2018. Sampling of two 50 x 50 cm quadrats, separated by a distance of approximately 30 m, was conducted at eleven sites during twelve dives in the eastern section of the Batture-aux-Alouettes to collect kelp for biomass estimation and macroalgal species richness assessment. In the second phase, a total of 429 stations were first sampled between July 15 and 18, 2019 with a camera system dropped in two 50 x 50 cm quadrats. The presence or absence of kelp, percent macroalgal cover, and substrate type were assessed for each photo. As a result of this underwater photographic analysis, 129 of these stations were identified as having a presence of kelp and 88 of these stations had a presence of other algal species. To ensure equal representation of the different depth strata, the stations with kelp were divided into three depth categories: shallow (-1.7 m to 0 m), medium (0 m to 2 m) and deep (2 m to 5 m). Dives were conducted from August 13 to 15, 2019, at ten of these stations using a stratified random sampling design, taking care to ensure a balanced spatial distribution as well as an equal distribution of the different depth strata (four in the shallow, three in the medium, and two in the deep). Sampling of the 50 x 50 cm dive quadrat took place at three different distances spaced 5 m apart from a transect, i.e. at the 3 m (_3m), 8 m (_8m) and 13 m (_13m) mark. If there was little or no kelp in the quadrat, the quadrat sampling could be repeated for up to four quadrats per distance for a total area of 1 m². Two additional quadrats were conducted (_x) at two stations. Biomass assessment was also done via "cookie cutter" sampling (_CC). Divers took the same 50 x 50 cm quadrat and placed it on a selected (i.e., non-random) plot with 100% kelp cover.The three files provided (DarwinCore format) are complementary and are linked by the "eventID" key. The "event_information" file includes generic information about the event, such as date and location. The "additional_information_event_and_occurrence" file includes sample size, protocol and sampling effort. The "taxon_occurrence" file includes the taxonomy of the species observed, identified to the species or lowest possible taxonomic level. To obtain the abundance and biomass assessment of the kelp bed at Batture-aux-Alouettes, contact Rénald Belley (renald.belley@dfo-mpo.gc.ca).For quality control, the organisms were identified in the field fallowing the guide: Chabot, Robert et Anne Rossignol. 2003. Algues et faune du littoral du Saint-Laurent maritime : Guide d'identification. Institut des Sciences de la mer de Rimouski, Rimouski; Pêches et Océans Canada (Institut Maurice-Lamontagne), Mont-Joli. 113 pages. The taxonomy was checked against the World Register of Marine Species (WoRMS) to match recognized standards and using the R obistools and worrms libraries. The WoRMS match was placed in the "scientificNameID" field of the occurrence file. All sample locations were spatially validated. This project was funded by DFO Coastal Environmental Baseline Program under Canada’s Oceans Protection Plan. This initiative aims to acquire environmental baseline data contributing to the characterization of important coastal areas and to support evidence-based assessments and management decisions for preserving marine ecosystems.

During the period of 1987 to 1994, Robin J. LeBrasseur and N. Brent Hargreaves lead a juvenile salmon predation research project in Alberni Inlet and Barkley Sound BC. This dataset contains the research survey catch data and individual fish examinations data.