Questions related to Biological Oceanography
I have a netCDF4 (.nc) file having ocean SST data, with coordinates (lat, lon, time). I want to predict and plot maps for the future. How can I do this using python?
Please recommend a python code for time series forecasting based on this approach.
Artificial intelligence (AI) is a rapidly advancing tool. It is heavily reliant on programming languages, data manipulation and analysis. As colleagues in the field of oceanography, I would like to know your opinions on the use of AI in this field. Furthermore, I would appreciate any recommendations for publications that could support your viewpoints.
It is important to be transparent about the limitations in terms of programming for the diferent subfields of oceanography, such as physical, chemical, biological, ecosystemic, and geological; how the incorporation of AI may lead to new disparities in scientific research; and how careful you would be with the use of these tools.
Thanks for your times!
I am masters student and I will be studying micro plastics on a river system in the UK. I have only found one location that sells Manta nets in USA but I was wondering if anyone knew of one to buy or borrow in the UK.
I am working on fish ecology in an Indian estuary. However, proper identification of species belonging to Mugilidae is very difficult particularly of the genus Mugil and Liza. Most of the references available (FAO identification sheets and some Indian keys) differentiate the species based on the premaxillae shape which is difficult to ascertain in juveniles of the family. Also the family is highly dynamic with many new or updated genus and species. So, are there any recent comprehensive taxonomic keys available for the family from the Eastern or Western Indian Ocean regions?
Currently, microplastics (MPs) occurence researches in coastal and marine animals are performed in huge amounts, but their results concerning MPs abundances are not always given with the same unity.
- From what I can tell from studies I read, most provide data using MPs/individual. There are some studies that sample in pools, and then, after ending samplings, calculate the MPs/individual data. It would be an issue if we compare MPs/individual data of two different studies: one that sampled in each individual and another that sampled in pools?
- Should a specific study provide just the MPs/individual data? I think this study it would be sort of incomplete, considering that this data would not totally reflect the abundance of animals with different sizes, weights, and possibly ages, etc.
- What is the best approach between other unities, such as MPs/g of the whole sample, MPs/g of their dry or wet weight? That are some formulas to convert samples weight for dry and/or wet. This is applicable for MPs?
I know much of that depends on the study's biological samples, and objectives, but I would enjoy reading researchers opinion about it.
I do not have the PAR data. Fluorescence can be detected from dead particles too, but can it be utilized to get an idea about the euphotic depth.
I have downloaded one EO-1 Hyperion image, removed the bad bands, de-stripped the image using THOR De-striping in ENVI and applied the atmospheric correction using FLAASH in ENVI. Now I have the surface reflectance data in my hand. I need to apply some bio-optical algorithm for ocean colour application (IOP and Bathymetry Retrieval). For that I need the Remote Sensing Reflectance as an input. How can I get Remote Sensing Reflectance (Rrs) from Surface Reflectance? What are the procedures?
I have CTD and Chlorophyll data for an upwelling location from two different years (Aug 2017 and Aug 2018). What should I be looking at to get an idea about the age of upwelled waters?
Which grab type would you suggest for sampling marine benthic macroinvertebrates in sandy substrate or maerl? We would like to use it in coastal samplings, often in recreational boats carrying a small winch, by one or two people. So, it shouldn’t be very heavy, and the ideal surface would be around 0.05m2.
In our lab we have a 30-years old Ponar grab (9”x9”) that needs to be replaced. Every time we tried using this specific grab, it had serious issues sampling sufficiently any substrate than mud. In muddy sediments it was capable to collect almost full volumes of samples. However, both in the description from Wildco and references (e.g. Elliot & Drake, 1981), Ponar grab is suggested as the ideal type for sampling coarse material. So, I wonder if the issues in our Ponar are due to old age or maybe poor maintenance.
Has any of you had trouble sampling coarse material with a Ponar grab? Would you suggest another type for this substrate?
Thank you in advance for any suggestions.
This is in relation to the sampling done at various stations along a cruise track at different times of the day. The surface temperature would be affected by the time of the day it was sampled. How can I eliminate that difference to look at the trend?
I am wondering if storing biological samples in ethanol is acceptable, if these organisms are to later be tested for their mercury concentration.
I will be increasing T by 2C every few days and need a heater that can do this accurately for a few gallons of seawater
Seto Inland Sea, the largest semi-enclosed sea in Japan,
Some researchers provide the M2, S2, K1, O1 values of the main strait of the Seto Inland Sea, Some provide the mean surface current of the whole Seto Inland Sea, which one or someone else is the best descriptor of the current speed? I want to investigate the influence of current (speed) on water stability and red tide occurrence.
This far the species are identified as:
1. Diadema setosum
2. Sarcophyton sp
3. Heteractis magnifica
4. Red Mushoom / Stone ? - what is the latin name?
5. some kind of sponge?
7. Zebrasoma scopas
Is there a consensus on the optimal concentration of glutaraldehyde for the preservation of marine phytoplankton? I typically use 1%, but notice that other researchers use from 0.1% to 3%.
I am interested in maintaining as many taxonomic features as possible for LM and SEM with the lowest concentration of glutaraldehyde that is acceptable, since I don't like working with this chemical at sea. I typically work in low chlorophyll high nutrient areas of the Southern Ocean, but may find sea-ice blooms from time to time.
I appreciate you thoughts and recommendations :).
i have been collected my samples from Persian gulf, hard bottom, that they were attached to a soft coral.
i think it is a Ophiothrix sp, but i cant identify it in species level
if you know its name, please send me a reference
thanks a lot
I need to control pH and oxygen levels for acidification and hypoxia purpose. It will be carried out in seawater. Anyone has experience on this kind of stuff?
Thanks in advance.
Many gastropods are predators that drill or bore through their prey's body covering (shell, exoskeleton, etc.) using a combination of radular scraping and chemical dissolution. Examples I know well include moon snails (Euspira (= Lunatia) spp. (Naticidae)), "whelks" (e.g., Nucella spp. (Muricidae), Buccinum spp. (Buccinidae)), but I suspect there are many others.
I am gathering information on gastropods that feed in this way, and would like to assemble a list of as many (or all) species that do so as possible. There is a lot of literature on fossil borehole/drilling predation, but I am interested in EXTANT species. Are there any good resources (reviews, book chapters, etc.) that might present such a list? Are there other taxa within the Gastropods beside the Muricidae, Naticidae, and Buccinidae that contain boring/drilling predatory species? Just how many gastropods do this?
working on sparids diet i'm looking for a site or link for identification of preys mainly:
-crustacean, annelids, fish, echinoderms, algae...etc
I am checking the biological production rate in a particular season and hence studying seasonal variability.
These are formations found in the pump house of a salt work near Port Elizabeth, South Africa. The amber-like yellowish-brown substance inside the formation is hard at the edges but still soft in the middle. What is it and what is likely to produce it?
How to rear Macrobrachium rosenbergii larvae? Whether 1 or 2 litre plastic containers are enough? What will be the preferred feed at diff. stages?
Kindly advise me on this
Plotting real tidal data from different regions and different tidal reference stations, it is clear that some tidal datums often have the same relative position.
Trivial examples are the relative positions of the Lowest High Water (LHW) and the Highest High Water (HHW); or of the Mean Lower High Water (MLHW) and the Mean Higher High Water (MHHW) in a semidiurnal cycle.
However, the relative position of some other datums does not appear as trivial, especially when considering the neap-spring synodic cycle.
For example, the Lowest High Water Neap (LHWN) can be lower or higher than the Highest Low Water Neap (HLWN), i.e. the range of the neap high tide can overlap or not with the range of the neap low tide. Another example is the relative position of MLHW and the Mean High Water Neap (MHWN).
I wonder if there is any classification of tidal regimes that describes these types of patterns, that is or might be related to geographic areas, or ecological patterns.
I've read that SST fronts stimulate biological productivity (e.g. Woodson and Litvin 2015, PNAS). But my question is how strong of a SST front is needed to significantly enhance productivity? Of course this will be dependent on a number of factors, but what is a rough estimate? Will a front with 1 ℃ SST change be relevant? Or is this only found with much bigger gradients (e.g. 10 ℃ change)?
I'm particularly interested in the application of this question in the Gulf of California, Mexico.
I use sea surface temperature (SST) from satellites to assess marine mammal and sea turtle bycatch, habitat, and distribution. Recently the primary SST data source that we had been using (Pathfinder SST) has not been updated. So, we are looking for a new satellite SST source. Websites such as JPL's PO.DAAC (http://podaac.jpl.nasa.gov/) have added lot of choices in the last few years for different SST products, many of which blend data from multiple satellites and often interpolate to fill in areas that would other wise be missing data due to cloud cover. Can anyone suggest which data product would be best? We would prefer products with <= 4km resolution that go back a few years, if not many years. One source that seems promising is the G1 SST (http://podaac.jpl.nasa.gov/dataset/JPL_OUROCEAN-L4UHfnd-GLOB-G1SST), though it would be great if it went back further in time. If anyone could offer advice as to which data products are likely to be the most accurate, I would greatly appreciate it.
Hi, I would like to know if any has some insights about colonial stage conservation of P. pouchetii at long term. I stored seawater samples with lugol at 4C for above a year. I was wondering if the colonies could have been disrupted over time. Thank you!
I'm trying to determine some preliminary distribution info for a few soft coral species that may cross over from temperate to tropical waters. I'm particularly interested in Telesto sanguinea, Leptagorgia virgulata, L. hebes. Have you seen them further south than mid-Florida and if so where did you locate them? Also, have you seen them in the Gulf of Mexico?
For modelling of species distribution in North Sea waters, I am looking for the best source for high resolution gridded oceanographic data for the North Sea. Since the North Sea is a small sea, I think the smallest resolution available is best.
Currently I am downloading the MARSPEC dataset (http://www.marspec.org), which seems one of the highest resolutions available (ESRI raster grids at a 30 arc-second spatial resolution). But they only offer derivations of Bathymetry, Sea Surface Salinity and SS Temperature. I also want to use current velocity and organic matter content (e.g. detritus or POM) in my model.
Can anybody advise me on what source to use?
Other sources I looked at are:
http://www.oracle.ugent.be/ - This is on a much lower resolution than my intended modelling resolution of 1,000x1,000 m.
http://www.aquamaps.org - This has an even lower resolution.
Edit (16-08-2015): http://marine.copernicus.eu - This does offer high resolution data sets for ocean colour (e.g. Chlorophyll content or DOM) but sets on other variables are all >7km.
I am on a study regarding the impact of unregulated fishing practices on stock and biology of yellowfin tuna. I understand biological assessments are used to tell whether or not a body of water can support survival and reproduction of fish.
These are copepod grazing experiments, where the particle size spectra and abundance were measured with a coulter counter particle counter in initial samples, and final control (no grazer) and treatment (with grazers) bottles.
This is a new area for me, any help is greatly appreciated.
If trapezoidal integration method is used, it provides value with units of mg/m2 (which is per area) but I need to know is there any way to get chlorophyll value for entire water column in terms of mg/m3 (which is per volume)?
This "jelly ball" has been saw twice floating in shallow marine waters in Sicily (Mediterranean Sea). Someone suggested that it might be a damaged jelly umbrella but the evident bilateral symmetry suggests that it should not be a jellyfish. Hence the "damaged jellyfish umbrella" seems improbable. It might possibly be part of an organism or even an ooteca (mollusk ooteca?). What's your idea about?
I am mostly interested in species identification. Maybe there is some general book about the biological diversity with photos and drawings?
I have sea surface temperature data from model (numeric model) and in situ measurement (logger). I would like to know quality of my model compare to in situ data. What kind of methods I must used?
Can I have information or links on ecology and biological study of the polychaete species of the Algerian coast, and I would like to have some literature on invasive species and endemic to the Mediterranean Sea. Grazie
Could you suggest any information or links on the ecology and biology of rivers of the Mediterranean sea, especially North Africa (Algeria)
I am working on using normal Digital camera (gopro, CanonSX230) to capture aerial images and analyze it to be able to identify various benthic organism in tropical marine water. Am a little new to the process, can anyone walk me through a simple approach.
Sample image attached
I am working with phylogeny of venus clams, and there are some weeks I am trying to keep contact with any researcher from Senagal or Nigeria. I need go there to examine some Pitar species to put in my morphological matrix. Unfortunatelly, all my efforts failed.
From your knowledge and opinion, what are the most efficient protocols (in term of cost and information quality) to monitor the good environment status of marine benthos (hard substrate) in your marine region and why?
I am correlating pCO2 with fluorescence in the Western basin of the Mediterranean Sea. This basin is oligotrophic, but in the spring blooms can occur. I was expecting during this season the pCO2 to decrease due to the biological activity, but the correlation coefficient is positive. What could be the cause behind that?
Maybe you have already seen this paper of Morabito et al. 2013, they found that ocean acidification affected the osmotic swelling etc of nematocysts. That would hamper their capacity for food capture. This is a really interesting, and devastating, effect that has received very little attention.
Morabito et al. 2013. Sea Water Acidification Affects Osmotic Swelling, Regulatory Volume Decrease and Discharge in Nematocytes of the Jellyfish. Cellular Physiology and Biochemistry 32(suppl 1): 77-85.
I currently identify zooplankton to broad categories such as Echinoderm. I would like to start identifying the echinoderms further to class, but am concerned about being able to tell the difference between the bipinnaria and auricularia larvae. I understand that the main difference is that the bipinnaria larvae have two ciliary bands whereas the auricualria have only one. Can you see this readily with a stereoscope? Is there another way to differentiate the two?
These specimens are collected from North Norway. As I know there is more than one Mytilus species and it is hard to identify those from photos. Here are some of the photos of the specimens collected.
I found this sample(which is attached) along with the phytoplankton samples collected. Suggest me weather its a kind of plankton or some other thing. If its a plankton help me to identify its name.
We found from a recent study on a number of small groups that they appeared to orientate North (hinges South) and wondered if anyone else had come across this?
I'm trying to reconstruct the productivity changes in the southeastern Arabian Sea, during the last glacial period. The foraminiferal proxies suggest an increased glacial productivity in this region. I want to understand the physical forcing, responsible for high surface primary productivity in this region during the last glacial period.
Found it on Pachacamac island, near to the central coast of Perú. It was caught last Friday. A female had 6 spotted-young sharks to a litter. My doubt is that females were plain-coloured and the others had tenuous black spots.
I would like to get an idea of the depth of light penetration using calibrated chl fluorescence (and transmittance if necessary) depth profiles. Casts were performed before dawn yielding poor PAR profiles.
Is there an up to date version of the Morel 1988 equation: Ctot = 4910*Ze-1.34?