by Rick O'Connor | Oct 25, 2024
In the first article of this series, we discussed whether viruses were truly living organisms. Well, bacteria truly are. They possess all eight characteristics of life but differ from other forms of life in that they lack a true nucleus. Their genetic material just exists in the cytoplasm. This difference is large enough to place them in their own kingdom – Monera.
The spherical cells of the “coccus” bacteria Enterococcus.
Photo: National Institute of Health
Bacteria are single celled creatures, though some “hook” together to form long chains. A single cell will average between 5-10 microns in size. This is much larger than a virus but smaller than many eukaryotic cells (those that possess a nucleus).
To further classify bacteria microbiologists will conduct a gram-stain test. Placing a cultured sample of bacteria on a slide, you “bath” them in what is called Gram-stain. Under the microscope the bacteria that appear “pink” are called gram negative, those that appear “purple” are gram positive. Thus, all bacteria can be quickly grouped into those that are gram negative and those that are gram positive.
After staining, gram negative bacteria appear pink in color; gram positive are purple.
Image: University of Florida
The next level of classification focuses on the shape of their cells. Those that are “rod-shaped” are called bacillus and often have the term in their name – such as Lactobacillus the bacteria found in milk that makes milk smell sour as their populations grow. The “sphere-shaped” bacteria are called coccus – such as Streptococcus (the bacterium that causes strep throat) and Enterococcus (the fecal bacterium used for monitoring water quality in marine waters). And the third group are “spiral-shaped” and are called spirillum – such as Campylobacter and Helicobacter both are human pathogens.
The rod-shaped bacterium known as bacillus.
Image: Wikipedia.
The bacterium known as coccus.
Image: Loyola University
The bacterium known as spirillum.
Image: Lake Superior College.
Bacteria are very abundant in the marine and estuarine waters of the Gulf of Mexico. They can be found floating in the water column, on the surface of the sediment, beneath the surface of the sediment, and on the bodies of marine organisms. When we think of bacteria we think of “dirty” conditions and disease, but many bacteria provide very important ecological benefits to the marine ecosystem and are “good” members of the community.
One important role some bacteria play is the conversion (“fixing”) of nutrients. Animals release toxic waste when they defecate and urinate. One of these is ammonia. Ammonia can bond with oxygen depleting the body of this needed element. Nitrogen fixing bacteria can convert toxic ammonia released into the environment into nitrite. Then another group of nitrogen fixing bacteria will convert nitrite into nitrate – a needed nutrient for plants, and eventually the entire food chain.
Some bacteria are excellent decomposers. When plants and animals die we say they “decay”. What is actually happening is the decomposing bacteria are converting nutrients in their bodies to forms that are usable by living organisms. One byproduct of this decomposition process is hydrogen sulfide – which smells like rotten eggs. In biologically productive ecosystems – like swamps and marshes – the smell of hydrogen sulfide is strong – often called “swamp gas”. It is the smell of nutrient conversion and much needed. Though in high concentrations, hydrogen sulfide is toxic as well – there needs to be a balance. We see this same process happenings when we compost food waste to form fertilizers for our gardens.
One place where the smell of sulfur is very strong is near volcanic vents. If you have been to Yellowstone, or a volcano, the smell is very evident. There are what are termed “extreme bacteria” who can live in these very hot, almost toxic, environments. Just as plants take water and carbon dioxide and convert this to sugar in the process of photosynthesis, bacteria can convert toxic forms of sulfur into usable carbohydrates for other living organisms. In the 1970s marine scientists discovered thermal vents on the bottom of the ocean. These hot “chimneys” spew black clouds of smoke into the water column. Approaching these chimneys carefully they found water temperatures between 700-800°F! Living close to these chimneys they found communities of worms, shrimps, fish, and crabs. The walls of the chimneys are actually composed of sulfur fixing bacteria that are converting volcanic minerals and compounds into sugars in a process called chemosynthesis – which supports these deep-sea communities.
The black smokers – hydrothermal vents – found on the ocean floor.
Photo: Woodshole Oceanographic Institute.
Of course, there are more familiar forms of bacteria that cause disease. Called pathogens – they can be problems for all marine life and sometimes humans. Fecal bacteria associated with human waste are not toxic in themselves at low concentrations. However, if their numbers increase (due to a sewage spill, etc.) these, and other possible pathogenic human bacteria, can be a human health issue. The Florida Department of Health monitors the fecal bacteria levels weekly at beaches where humans like to swim. High concentrations will require the department to issue health advisories. We know that all sorts of bacteria begin to replicate quickly in warmer conditions. This can be a problem with seafood that is not kept cold enough before serving. There are federal regulations on what temperatures commercially harvested seafood must be kept in order to be served or sold to the public. Federal and state agencies can monitor the temperatures of stored seafood as it moves from the fishing vessel to the table. But they cannot monitor it from your fishing rod to your table – that responsibility will fall on you. Pathogenic bacteria is the primary reason we refrigerate and/or freeze much of our food.
Closed due to bacteria.
Photo: Rick O’Connor
Though bacteria in general have a bad name, many species are not harmful to us and are a major player in the health of our estuarine and marine communities.
by Rick O'Connor | Oct 18, 2024
We are going to begin this series of articles with a “creature” that some do not consider alive – viruses. While studying marine science in college, and my early days as a marine science educator, there was a debate as to whether viruses were actually alive and should be included in a biology course. A quick glance at the textbooks of the time shows they were often omitted – though they were included in my microbiology class. Why were they omitted? Why did some consider them “non-living creatures”?
The coronavirus next to a strand of DNA.
Image: Florida International University.
Well, we always began biology 101 with the characteristics of life. Let’s scan these characteristics and see where viruses fit.
- Made of cells. This is not the case for viruses. A typical cell will include a cell membrane filled with cytoplasm and a nucleus, which is filled with genetic material (chromosomes containing DNA and RNA). An examination of a virus you will find it is either DNA or RNA encapsulated in a protein coat. It is “nucleus-like” in nature. Most cells run between 10-20 microns in size. A typical nucleus within a mammal cell will run between 5-10 microns. A typical virus would be 0.1 microns – these are tiny things – MUCH smaller than a cell.
- Process energy. Nope – they do not. Most cells utilize energy during their metabolism. Viruses do not do this.
- Growth and development. Nope again. They “spread”, which we discuss in a moment, but they do not grow. We are now 0-3.
- Homeostasis. Homeostasis is the movement of material and environmental control to remain stable – and viruses do not do this.
- Respond to stimuli. Yes… here is one they do. Studies show that viruses do respond to their chemical and physical environment.
- Metabolism. As mentioned above, this would be a no.
- Adaptation. Studies show that through very rapid reproduction they can adapt to the changing environment they are in.
- Reproduce. This is a sort of “yes/no” answer. They do reproduce (as we say – “spread”) but they do not do this on their own. They invade the nucleus within the cells of their host and replace their genetic material with that of the host creature. Then, during cell replication within the host, new viruses are produced and “spread”.
So, you can see why there is a debate. Of the eight common characteristics of life, viruses possess only three – and one of those can only be achieved with the assistance of a host creature. Now the question would be – do be labeled as a “creature” do you need ALL eight characteristics of life? Or only a few? And if only a few – how many? Because of this most biologists do not consider them alive.
During one class when we were discussing this a student made a comment – “don’t we KILL viruses? If so, then it must be alive first”. Point taken – and we should understand the phrase “kill a viruses” does not mean literally killing. It is a phrase we use. Though some argue we do kill viruses and thus…
Another point we could make here is that all life on the planet has been classified using a system developed by the Swedish botanist Carlos Linnaeus. Each creature is placed in a kingdom, then phylum, class, order, family, genus, and eventually a species name is given. We “name” the creature using its genus and species name – Homo sapiens for example. We do not see this for viruses.
All that said, both the National Oceanic and Atmospheric Administration and the National Institute of Health indicate the “most common form of life in the sea are viral-like particles” – with over 10 million in a single drop of seawater. We will leave the debate here. Your thoughts?
by Laura Tiu | Sep 13, 2024
Western Dune Lake Tour
Walton County in the Florida Panhandle has 26 miles of coastline dotted with 15 named coastal dune lakes. Coastal dune lakes are technically permanent bodies of water found within 2 miles of the coast. However, the Walton County dune lakes are a unique geographical feature found only in Madagascar, Australia, New Zealand, Oregon, and here in Walton County.
What makes these lakes unique is that they have an intermittent connection with the Gulf of Mexico through an outfall where Gulf water and freshwater flow back and forth depending on rainfall, storm surge and tides. This causes the water salinity of the lakes to vary significantly from fresh to saline depending on which way the water is flowing. This diverse and distinctive environment hosts many plants and animals unique to this habitat.
There are several ways to enjoy our Coastal Dune Lakes for recreation. Activities include stand up paddle boarding, kayaking, or canoeing on the lakes located in State Parks. The lakes are popular birding and fishing spots and some offer nearby hiking trails.
The state park provides kayaks for exploring the dune lake at Topsail. It can be reached by hiking or a tram they provide.
Walton County has a county-led program to protect our coastal dune lakes. The Coastal Dune Lakes Advisory Board meets to discuss the county’s efforts to preserve the lakes and publicize the unique biological systems the lakes provide. Each year they sponsor events during October, Dune Lake Awareness month. This year, the Walton County Extension Office is hosting a Dune Lake Tour on October 17th. Registration will be available on Eventbrite starting September 17th. You can check out the Walton County Extension Facebook page for additional information.
by Laura Tiu | Aug 10, 2024
My son and his girlfriend were visiting last week and wanted to go fishing. Since she had never been deep sea fishing before, we decided that the best course of action would be to take the short four-hour trip on one of Destin’s party boats.
Party boats, also known as a head boat, are typically large boats from 50 to 100 feet long. They can accommodate many anglers and are an economical choice for first-time anglers, small, and large groups. The boat we went on holds up to 60 anglers, has restrooms, and a galley with snacks and drinks, although you can also bring your own. The cost per angler is usually in the $75 – $100 range and trips can last 4, 6, 8, or 10 hours.
We purchased our tickets through the online website and checked in at the booth 30 minutes before we departed. Everyone gets on and finds a spot next to a fishing pole already placed in a holder on the railing. For the four-hour trip, it is about an hour ride out to the reefs. On the way out, the enthusiastic and ever helpful deckhands explain what is going to happen and pass out a solo cup of bait, usually squid and cut mackerel, to each angler. When you get to the reef, you bait your hooks (two per rod) and the captain says, “start fishing.”
The rods are a bit heavy and there are some tricks you need to learn to correctly drop your bait 100 feet to the bottom of the Gulf. The deckhands are nearby to help any beginners and soon everyone is baiting, dropping, and reeling on their own. There are a few hazards like a sharp hook while baiting, crossing with your neighbor’s line and getting tangled, and the worst one, creating a “birds nest” by not correctly dropping your line. Nothing the deckhands can’t help with.
When you do finally catch a fish, you reel it up quickly and into the boat where a deckhand will measure it to make sure it’s a legal species and size and then use a de-hooker to place the fish in your bucket. After about 30 to 40 minutes, the captain will tell everyone to reel up before proceeding to another reef. At this time, you take your fish to the back of the boat where the deckhands put your fish on a numbered stringer and on ice.
For the four-hour trip, we fished two reefs. We had a lucky day with the three of us catching a total of 16 vermillion snapper, the most popular fish caught on Destin party boats. It’s a relaxing ride back to the harbor during which the deckhands pass the bucket to collect any tips. The recommended tip is 15-20% of your ticket price. These folks work hard and exclusively for tips, so if you had a good time, tip generously.
Once back in the harbor, your stringer of fish is placed on a board with everyone’s catch and they take the time for anyone that wants to get some pictures with the catch. Then, you can load your fish into your cooler, or the deckhands will clean your fish for you for another tip. If you get your fish filleted, you can take them to several local restaurants that will cook your catch for you along with some fries, hush puppies and coleslaw. It is an awesome way to end your day.
A happy angler after a party boat excursion.
by Rick O'Connor | May 17, 2024
Recently I participated in a local festival to educate the public about the Rice’s Whale – the newly described species in the Gulf of Mexico that is now listed as critically endangered, possibly the most endangered whale in the world’s oceans. I honestly did not know enough about it to provide much education and chose to do terrapin conservation at my table instead (something I know more about) but have since learned much about this new member of the Gulf community.
One of the more frequent comments I heard during the event was “I did not know we even had whales in the Gulf”. This is understandable since we rarely see them – most of us have never seen one. When we think of whales we think of colder climates like Alaska, New England, and the colder waters off California. But many large whales must give birth to their smaller calves in warmer waters – so, they make the trek to tropical locations like Hawaii and Florida to do so. But there are also resident whales in the tropical seas.
You first must understand that the term “whale” does not only mean the large creatures of whale hunting fame, but any member of the mammalian order Cetacea. Cetaceans include both the large baleen whales – like the blue, gray, and right whales – but also the toothed whales – like the sperm, orca, and even the dolphins.
The Right whale is another critically endangered whale found in the Gulf of Mexico. Image: NOAA.
There are 28 cetaceans that have been reported from the Gulf, 21 of those routinely inhabit here. Most exist at and beyond the continental shelf – hence we do not see them. Only two frequent the waters over the shelf – the Atlantic Bottlenose Dolphin and the Atlantic Spotted Dolphin, and only one is routinely seen near shore – the Atlantic Bottlenose Dolphin.
This image shows the location of the continental shelf and thus the location of most of the whales found in the Gulf of Mexico. Image: NOAA.
But offshore, out at the edge of the continental shelf, exists several species of large and small cetaceans. The endangered Sperm, Sei, Fin, Blue, Humpback, and Northern Right whales have been seen. Of those only sperm whales are common. Others include several beaked whales (which resemble dolphins but are much larger), large pods of other species of dolphins, pygmy and dwarf sperm whales, pygmy and false killer whales (as well as the killer whale itself), and other baleen whales such as the Minke and Bryde’s whale.
The Bryde’s whale is one of interest to this story.
The Bryde’s whale (pronounced “brood-duss” – Balaenoptera edeni) is a medium sized baleen whale, reaching lengths of about 50 feet and weighing 30 tons. It is often confused with the larger sei whale. They are found in tropical oceans across the planet and are not thought to make the large migrations of many whales due to the fact it is already here in the tropics for birth, and its food source is here as well. They reside in the northeastern Gulf of Mexico extending from the DeSoto Canyon, off the coast of Pensacola, to the shelf edge near Tampa. They appear to travel alone or in small groups of 2-5 animals. They feed on small schooling fish, such as pilchards, anchovies, sardines, and herring. Their reproductive cycle in the Gulf is not well understood.
The Bryde’s whale was thought to be the only resident baleen whale in the Gulf of Mexico. Photo: NOAA.
Strandings have occurred – as of 2009, 33 have been logged. There are no records of mortality due to commercial fishing line entanglement, but vessel strikes have occurred. Due to their large population across the planet, they were not considered for listing under the Endangered Species Act, but that may change in the Gulf region due to human caused mortality. Between 2006-2010 it was estimated that 0.2 Bryde’s whales died annually due the vessel strikes.
In the 1960s Dr. Dale Rice described the Gulf of Mexico population as a possible subspecies. It is the only baleen whale that regularly inhabits the Gulf of Mexico. And ever since that time scientists examining stranded animals thought they may be dealing with a different species.
In the 1990s Dr. Keith Mullin began examining skull differentiation and genetic uniqueness from stranded animals of the Gulf population. Dr. Patricia Rosel and Lynsey Wilcox picked up the torch in 2008. In 2009 a stranded whale, that had died from a vessel strike, was found in Tampa Bay and provided Dr. Rosel more information. In 2019 a stranded whale, that had died from hard plastic in gut in the Everglades, was examined by Dr. Rosel and her team and, with data from this skull, along with past data, determined that it was in fact a different species. The new designation became official in 2019.
The newly described Rice’s whale only exists in the Gulf of Mexico. Photo: NOAA.
The new whale was named the Rice’s whale (Balaenoptera ricei) after Dr. Dale Rice who had first describe it as a subspecies in the 1960s. With this new designation everything changed for this whale. This new species only lives in the Gulf of Mexico, and it was believed there were only about 50 individuals left. Being a marine mammal, it was already protected by the Marine Mammal Protection Act, but with this small population it was listed as critically endangered and protected by the Endangered Species Act.
New reviews and publications began to come out about the biology and ecology of this new whale. Rice’s whales do exist alone or in small groups and currently move between the 100m and 400m depth line along the continental shelf from Pensacola to Tampa. Diet studies suggest that it may feed near the seafloor, unlike their Bryde’s whale cousins. They may have lived all across the Gulf of Mexico at the 100-400m line at one time. They prefer warmer waters and do not seem to conduct long migrations.
The area where the Rice’s whale currently exists. Image: NOAA.
Being listed under the Endangered Species Act, NOAA National Marine Fisheries (NMFS) was required to develop a recovery plan for the whale. NMFS conducted a series of five virtual workshops between October 18 and November 18 in 2021. Workshop participants included marine scientists, experts, stakeholders, and the public. There were challenges identified from the beginning. Much of the natural history of this new whale was not well understood. Current and historic abundance, current and historic distribution, population structure and dynamics, calving intervals and seasonality, diet and prey species, foraging behavior, essential habitat features, factors effecting health, and human mortality rates all needed more research.
At the end of the workshop the needs and recommendations fell into several categories.
Management recommendations
- Create a protected area
- Restrict commercial and recreational fishing in such – require ropeless gear
- Require VMS system on all commercial and recreational vessels
- Require reporting of lost gear and removal of ghost gear
- Risk assessment for aquaculture, renewable energy, ship traffic, etc.
- Prohibit aquaculture in core area and suspected areas
- Reduce burning of fossil fuels
- Prohibit wind farms in core area
- Renewable energy mitigation – reduce sound, night travel, passive acoustic
- Develop spatial tool for energy development and whale habitat use
- Require aquaculture to monitor effluent release
- Develop rapid response focused on water quality issues
- Develop rapid response to stranding events
- Reduce/cease new oil/gas leases
- Reduce microplastics and stormwater waste discharge
- Work with industry to use technologies to reduce noise
- Reduce shipping and seismic sound within the core area
- Restrict speed of vessels
- Maintain 500m distance – require lookouts/observers while in core
- Consider “areas to be avoided”
Monitoring recommendations
- Long-term spatial monitoring
- Long-term prey monitoring
- Electronic monitoring of commercial fishing operations
- Necropsies for pollution and contaminants
Outreach and Engagement are needed
Top Threats to Rice’s Whale from the workshop Include:
- Small population size – vessel collisons
- Noise
- Environmental pollutants
- Prey – Climate change – marine debris
- Entanglement – disease – health
- Offshore renewable energy development
The Endangered Species Act (ESA) requires the designation of critical habitat for listed species. In July 2023 NOAA proposed the area along the U.S. continental shelf between 100-400 meters depth as critical habitat. Comments on this designation were accepted through October 6, 2023.
The proposed protection zone for the Rice’s whale including the core area. Image: NOAA.
Vessel strikes are a top concern. It is understood that the most effective method of reducing them is to keep vessels and whales apart and reduce vessel speeds within the approved critical habitat.
On May 11, 2021, NOAA Fisheries received a petition submitted by five nongovernmental agencies and one public aquarium to establish a year-round 10-knot vessel speed limit in order the protect the Rice’s whale from vessel collisions. The petition included other vessel mitigation measures. On April 7, 2023, NOAA published a formal notice in the Federal Register initiating a 90-day comment period on this petition request. The comment period closed on July 6, 2023, and they received approximately 75,500 comments. After evaluating comments, and other information submitted, NOAA denied the petition on October 27, 2023.
NOAA concluded that fundamental conservation tasks, including finalizing the critical habitat designation, drafting a species recovery plan, and conducting a quantitative vessel risk assessment, are all needed before we consider vessel regulations. NOAA does support an education and outreach effort that would encourage voluntary protection measures before regulatory ones are developed.
On that note, the Bureau of Ocean Energy Management (BOEM) did issue voluntary precautionary measures the industry could adopt to help protect the Rice’s whale. These include:
- Training observers to reduce vessel collisions.
- Documenting and recording all transits for a three-year period.
- All vessels engaged in oil and gas, regardless of size, maintain no more than 10 knots and avoid the core area after dusk and before dawn.
- Maintain 500m (1700 feet) distance from all Rice’s whales.
- Use automatic identification system on all vessels 65’ or larger engaged in oil and gas.
- These suggestions would not apply if the crew/vessel are at safety risk.
So…
This is where the story is at the moment…
This is what is up with the Rice’s whale in the Gulf of Mexico.
We will provide updates as we hear about them.
References
1 An Overview of Protected Species in the Gulf of Mexico. NOAA Fisheries Service, Southeast Regional Office, Protected Resources Division. 2012. https://www.boem.gov/sites/default/files/oil-and-gas-energy-program/GOMR/NMFS-Protected-Species-In-GOM-Feb2012.pdf.
2 Rosel, P.E., Mullin, K.D. Cetacean Species in the Gulf of Mexico. DWH NRDA Marine Mammal Technical Working Group Report. National Marine Fisheries Service. Southeast Fisheries Science Center.
https://www.fws.gov/doiddata/dwh-ar-documents/876/DWH-AR0106040.pdf.
3 A New Species of Baleen Whale in the Gulf of Mexico. 2024. NOAA Fisheries News.
https://www.fisheries.noaa.gov/feature-story/new-species-baleen-whale-gulf-mexico.
4 Rice’s Whale. NOAA Fisheries Species Directory.
https://www.fisheries.noaa.gov/species/rices-whale.
5 Rice’s Whale. Marine Mammal Commission.
https://www.mmc.gov/priority-topics/species-of-concern/rices-whale/.
6 Rice’s Whale: Conservation & Management. NOAA Species Directory. 2024.
https://www.fisheries.noaa.gov/species/rices-whale/conservation-management.
7 BOEM Issues Voluntary Precautionary Measures for Rice’s Whale in the Gulf of Mexico. 2023. U.S. Department of Interior. Bureau of Ocean Energy Management.
https://www.boem.gov/newsroom/notes-stakeholders/boem-issues-voluntary-precautionary-measures-rices-whale-gulf-mexico.
8 NOAA Fisheries Denies Petition to Establish a Mandatory Speed Limit and Other Vessel Mitigation Measures to Protect Endangered Rice’s Whales in the Gulf of Mexico. NOAA Fisheries News. FB23-079. Gulf of Mexico Fishery Bulletin. October 27, 2023.
https://www.fisheries.noaa.gov/bulletin/noaa-fisheries-denies-petition-establish-mandatory-speed-limit-and-other-vessel-0#:~:text=NOAA%20Fisheries%20denied%20a%20petition,with%20rulemaking%20at%20this%20time..
9 Petition to Establish Vessel Speed Measures to Protect Rice’s Whale. NOAA Fisheries. Protected Resources and Actions.
https://www.fisheries.noaa.gov/action/petition-establish-vessel-speed-measures-protect-rices-whale.
10 Denial of Gulf Protections Could Lead to the “Permanent Loss” of Rice’s Whale. Jim Turner. WUSF News. October 31, 2023.
https://www.wusf.org/environment/2023-10-31/denial-of-gulf-protections-could-lead-to-the-permanent-loss-of-rices-whales.
