Originally published on August 30th, 2011, Climbing Mount Chernobyl is one of my personal favorite posts. It feels appropriate to re-post it today for World Ocean Day.
Continue reading Climbing Mount Chernobyl: a repost for World Ocean Day
Andrew is a post-doctoral researcher in North Carolina focused on population and conservation genetics in hydrothermal vent communities.
David is a graduate student in Florida. He studies the ecology and conservation of sharks. 
Amy is a graduate student in North Carolina studying local ecological knowledge within small scale fisheries. 
Chuck is a graduate student in North Carolina focusing on apex predators and how they interact with fisheries. 
Lyndell is a graduate student in North Carolina, studying the feeding ecology of cownose rays. 
Iris is a graduate student in Washington studying habitat use and feeding habits of juvenile Pacific salmon and herring in Puget Sound. 
Michael is a graduate student in Maryland investigating the visual systems of mantis shrimp. |
Megumi Shimizu is a graduate student aboard the RVIB Nathaniel B. Palmer to collect sediment samples near Antarctic Peninsula as a part of the LARISSA project. She is interested in microorganisms and biogeochemistry of marine sediments; how the metabolism of microorganisms interact with the surrounding environment and the chemical components in sediments. See her first update here.
Some people on the ship joked when they saw me processing my sediment core. Yes, I’m playing with mud in Antarctica. Sampling sediments can tell us a lot, not only what happened across geologic time scales, but also what kind of organisms are living in the sediment, microbiology, and the geochemical conditions. We are serious about collecting mud and playing with mud.  upper panel: the entire view of glove box, lower panel: Liz Bucceri working on sediment sample processing in glove box. Photo by Megumi Shimizu Nathaniel B. Palmer has three pieces of equipment to collect sediment; the megacore, kasten core, and jumbo piston core. The length you can reach below seafloor is different, 40cm, 1.5 to 6m and 24m respectively. Megacore is more suitable for biological studies since it preserves the sediment-water interface better than kasten core and jumbo piston core. Geological studies prefer Kasten core and jumbo piston core so that they can get older data from the sediment. For my microbial lipid biomarker study, I’m taking samples from the megacore and kasten core. Along with microbial lipid and DNA, our team is collecting sediment and porewater (the water in pore spaces of sediments) to analyze geochemical properties of sediments, such as methane, sulfate, sulfide, and dissolved inorganic carbon. To maintain the condition of the sediments as close as the real environment, the sediment cores are processed under the condition of cold (~0C degree) and anoxic (no oxygen). How to make that condition? We have a special room called “The Little Antarctica”, on the ship, which is a big refrigerator containing glove box. A glove box is the transparent container with two pairs of gloves. The inside of the box is kept practically anoxic (less than 1% of oxygen. Atmospheric oxygen is ~20%). Megumi Shimizu is a graduate student studying microorganisms in marine sediment. She is currently on board the RVIB Nathaniel B. Palmer exploring seafloor communities in a once ice-covered region beneath the Larsen Ice Shelf. Over the next month, she will be updating us from the field.
 The RVIB Nathaniel B. Palmer. photo by Megumi Shimizu I’m a PhD student interested in microorganisms and biogeochemistry of marine sediments; how the metabolisms of microorganisms interacting with the surrounding environment, the chemical components in sediments. Microorganisms in subseafloor are universally important because of its large biomass. It is said 50% of prokaryotes are living under the seafloor. This biomass makes large carbon and nutrients reservoir, which are important in biogeochemical cycle. For example, microorganisms play the role of organic carbon decomposition in sediments, as a result, carbon dioxide and methane are produced. In contrast, carbon dioxide and methane are also consumed by microorganisms called chemolithotrophs and methanotrophs in sediments. Therefore, understanding microorganisms in sediments; who they are, what are they doing, is important to reveal the details of global biogeochemical cycle and accurate estimate of budgets (amount of elements converted to different forms of chemicals for example, amount of carbon dioxide converted into organic carbon by carbon fixation). In addition, how microbial community response to environmental changes such as climate warming is also important in terms of the influence of global elemental cycles.
I want to apologize to our regular readers for stating something that should be incredibly obvious. Sharks in in no way connected to the global supply of atmospheric oxygen. If every single species of shark went extinct, there would be a variety of negative ecological effects, but a reduction in the global supply of atmospheric oxygen would not be among them. There is not a shred of scientific evidence supporting the idea that the loss of sharks would affect our oxygen supply- not a single scientific paper, not a single technical report. I’ve attended a dozen scientific conferences focusing on marine ecology or shark biology (including three international conferences) and I’ve never seen or heard of anyone presenting or even discussing this. To the best of my knowledge, not a single person who has authored a scientific paper or technical report supports this idea. Despite the complete lack of any kind of credible evidence, and despite many recent blog posts thoroughly debunking it (see here here here here here here and here ), this pseudoscience just won’t die. The premise of the sharks and oxygen claim is as follows: Continue reading “Sharks create oxygen”: A scientific perspective
 'Hoff' crabs in paradise. Image from ChEss Southern Ocean Consortium The exhaustive author list on this paper reads like a who’s who in hydrothermal vent biogeography. This is the paper that introduced “the Hoff” crab to the world, but the findings are far more significant. Hydrothermal vent systems are sorted into biogeographic provinces, with different regions supporting different communities. The iconic giant tube worms dominate the eastern Pacific, while the western Pacific (prominently featured in Deep Fried Sea) plays host to fist sized snails, and the Atlantic features shrimp as its dominant species. There are several missing gaps in our understanding of how these qualitatively different communities are connected – the Southern Ocean, the south Atlantic, the Indian Ocean, and the Cayman Trough, among others. Filling in these gaps in our knowledge can help us understand the history and evolution of hydrothermal vent ecosystems. Continue reading Updates from the Deep: New and Noteworthy in Hydrothermal Vent Research
 From here, it looks like such a lovely pond. Photo by Andrew David Thaler The murky brown water was still, reflecting, perfectly, the drifting clouds above. Had I not known what it was, an acre-wide manmade pond almost a dozen feet deep filled to the brim with hog feces, I might be tempted to describe it as “beautiful”. Hog lagoons like this are a common sight in North Carolina, though their use is in decline. My lab group arrived at this particular lagoon to take microbial samples, fungi in this case, from the steaming cauldron of organic waste: an ideal culture medium. Carefully, we loaded a small skiff and rowed out into the stink. Near the center, we gingerly dipped our sampling vials, affixed to the end of an old fishing pole, into the dense fluid. It was then that we noticed the rising waterline, the slow trickle at the stern, the shift in balance. We locked the oars and rowed, frantically, towards shore. Our labmates on shore had, thankfully, tied a line to the bow before we departed. The skiff’s gunwales were creeping closer and closer to the water. We were sinking. We were sinking in a lake of pig shit.
 Poor Vindaloo never learned to crow. Photo by Andrew David Thaler. I awoke one morning early last spring to a noise I has been dreading for weeks, the first crow of a chicken that was not supposed to be a rooster. It took me several minutes to fully register what I was hearing. Rather that the classic cock-a-doodle-do we often associate with the rooster’s crow, the sound emanating from my hen house was an awkward, unstable noise not unlike a turkey squawking through a vat of molasses while being vigorously shaken. Over the next several months, two more cocks arrived crowing, in my flock. All three roosters, different breeds from different parents, made noises resembling nothing like a rooster’s crow. There was no pattern; some mornings they would crow off-and-on for a few hours, other mornings they would, for lack of a better word, gargle for half-an-hour straight. I raise my chickens from day-old hatchlings. Those three roosters, from my very first flock, had never met an adult chicken. They imprinted on Amy and me and looked to us for guidance. When we introduced them to new food, new water dispensers, even small changes to their habitat (like a particularly terrifying log), we had to teach them. Instinctively, they would scratch for food, and if left to their own devices, they would attempt to eat everything, but for the most part, we had to show them how to eat, how to drink, how to roost. But we could not teach them how to crow. Which is why Casey B. Mulligan’s Economix article in the New York Times – Species Protection and Technology – which argues that cloning could be an effective tool to restore extinct species (a topic I’ve been thinking about quite a bit in terms of population dynamics), is fatally flawed. Continue reading Better Conservation through Cloning: this cock doesn’t crow
 Bluefin Tuna. Public Domain NOAA Why are we still killing Bluefin Tuna? This question has resonated through the ocean blogosphere recently, as various experts weigh the issues surrounding overfishing and wonder why, when we know how limited the Bluefin Tuna populations are, and how precipitously they’ve declined in the last decade, do they demand record-breaking prices able to support an industry that must range further afield to chase that last, lonely fish? Other conservation writers discuss the recent extinction of not one, but two, rhinoceros species and ponder the fate of large terrestrial mammals. Knowing how rare these rhinoceroses were, why did they continue to be poached? Where does this demand come from? Continue reading Bluefin Tuna, Big Game Hunters, and the Conservation Vortex
 Gobble? image from http://www.public-domain-image.com The noble turkey, a centerpiece of the American Thanksgiving supper. It looms large from its prominent position on the dining room table. The master of ceremonies – or, in my case, the guy who keeps slicing himself open with various sharp objects yet is inexplicably the one people call on when there’s knife-work needs doing – draws a set of fine, honed knives, set aside for this particular task, and carves, delicately yet firmly, into the hefty white meat of the turkey’s breast. Sure, some favor the dark, rich meat around the legs, but this white meat, soaked in gravy and topped with cranberry sauce or stuffing, that is what we crave. “We give thanks,” the benediction may begin, “to Charles Darwin, for determining the underlying mechanism by which a theropod may, over the course of 65 million years, through a process of gradual change by means of the retention of beneficial traits through successive generations, evolve into this delicious, delicious bird.” And then, perhaps, that surly teenager, the one determined to point out the social inequalities inherent in the holiday and the colonialist attitudes which led to the wholesale extermination of America’s native peoples – every family has at least one – will chime in to quip “you know, evolution didn’t shape the turkey. The modern Thanksgiving turkey is the product of an extensive selective breeding program that began in the 1940′s. Commercial turkeys can’t even reproduce naturally, they have to be artificially inseminated.” At which point the older members of your family may blush and/or faint at such an unseemly turn of phrase.
 Coho salmon - public domain image In 2008, a deadly virus decimated Chilean aquaculture facilities, causing $2 billion in damage and crippling an industry. This week, preliminary reports suggest that this same disease may have infected wild salmon in the north Pacific. The internet has been blowing up with news reports of Infectious Salmon Anemia (ISA) detected in wild salmon populations. Reports range from balanced - Deadly Fish Farm Virus Found in Wild Pacific Salmon – to hyperbolic - B.C.’s salmon feedlots need to be closed – but all hinge on the fact that ISA, a lethal salmon-infecting virus previously resigned to aquaculture facilities, has been detected in wild salmon populations in British Columbia. This has the potential to be a very big deal. ISA is 90% lethal and mortality occurs in 10 days or less. The virus is waterborn, but can also be transmitted through handling with contaminated equipment. There is no treatment once a fish is infected. Before I go on, a couple points need to be clarified:
Continue reading Salmon, aquaculture, and the spread of Infectious Salmon Anemia |
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