Emma Timmins-Schiffman
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Microbes on Ice
My adventures in Antarctica

It's been a while, but the polar science continues!

6/26/2024

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It's very likely that no one is reading this anymore. "Emma made it back safely. Her Seattle life is so boring, what could she have to post about??" The majority of the work I need to do on this project started when my samples arrived at University of Washington. All of my sea ice-bacteria samples are captured on filters, after those hours of melting and filtering in Antarctica. We weren't sure of the best way to get the cells off the filters, so we had to develop and test a protocol on some test samples. We grew a lab strain of cold-loving bacteria, tried to mimic the cell counts we estimate are in our actual samples, and we tested protocols on those samples.
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We used tiny beads and a cell lysis buffer to shear the cells from the filter for protein extractions.
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We had 4 different concentrations of cells in our tests and we tested 3 differed protocols. This plot shows how many proteins we detected for each of those samples.
After those tests, it was time to extract proteins from the samples I collected in Antarctica. I was pretty nervous about this. I can't just go back and get more samples if I mess it up. It took weeks of lab work since there were multiple steps and I had 64 filters, but earlier this week we had all the samples ready and we ran some quick tests on the mass spectrometer to see if we could detect any proteins. Things look promising and we're excited to move forward to collect data on all the samples.
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This looks like nothing to most of you, but we think we see evidence of Antarctic bacterial proteins in this mass spectrometry data. We are very excited!
This is also the week that I will be submitting a grant to the Joint Genome Institute with the hopes of getting approved for full metagenomics sequencing of the other set of samples I brought back from the ice. "Meta" refers to community, and if we get the grant we will sequence the community genomes from all the samples we collected to see how the bacterial community changes as the ice begins to warm during the seasonal transition. Keep your fingers crossed for me!
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We leave tomorrow!

12/5/2023

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The day has finally come! After a 24 hour weather delay, we are set to fly off the continent Wednesday morning. Yesterday and Sunday were blustery and snowy, so aircraft were not able to fly down here. But today was beautiful and our plane arrived from New Zealand. We will fly a C-130 Hercules back to New Zealand, which is smaller than the C-17 we flew down. Only smaller planes come down this time of year, which I've heard is because the snow is slushier and the larger planes damage the ice shelf surface too much. This means a slower ride back to Christchurch, about 7.5 hours.
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We got to experience one last antarctic storm.
The delay gave me an extra 24 hours to say goodbye to friends and even have some new experiences on station. Here's a little tour of how I have spent my last few days here.

Hiking with friends

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Don't be fooled by the sunglasses, we wore them to block the wind.
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Ari taking in the view on Ob Hill.
On Saturday John and I hiked the hut point ridge trail. Our timing wasn't great and the new weather front (the windy, snowy one) blew in while we were on the trail. It was an antarctic adventure! Tonight (Tuesday) evening, Ari and I hiked around Ob Hill and it was clear, calm and warm - about 34°F today! The sweeping views of the sea ice are going to change dramatically over the next 2-3 months as temperatures stay higher and the sea ice transitions to open water.

Eating food, drinking coffee

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Last coffee in the coffee house with Adela and Katarina
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The McMurdo galley
Extra time in McMurdo means extra meals in McMurdo. I fully appreciate all the hard work of the galley staff, but I am very excited to cook again and eat in my kitchen and at restaurants in Seattle.  I will definitely miss having a full dish cleaning crew after every meal (thanks, Ari!).

Gym time!

I've run 35 cumulative miles on the treadmill in the gerbil gym at McMurdo during my time here (3.1 miles outside). I've also done lots of yoga thanks to the yoga classes I downloaded before leaving Seattle. I've been playing volleyball every Sunday, but this week I was able to play on Thursday as well since we had our last field day earlier in the week. I usually miss Thursday volleyball since I work until around 10 pm on Thursdays. I've loved getting back into volleyball and I'll miss the "league" players down here.
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My favorite treadmill is the one on the left, facing the tiny window.

So much packing...

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Delivering our science cargo to Troy
We had to pack up and return so much field gear, lab equipment, comms equipment,...But we did it! All of our samples and the equipment we brought with us will be shipped back to Seattle by Troy's team in Science Cargo (SciCo). Our samples that need to be kept at -80°C will be shipped by air, but the rest of the cargo will depart on the ice breaker that arrives at the end of January and we probably won't see it until March.

Fire station tour!

The firefighters are here for town emergencies, but their main job is to support the planes and airfield. On a snowy day with no flights arriving, things are quiet at the firehouse, so I stopped by the other day and Domenic gave me a tour. The engines here are designed for the cold environment, but interestingly the firefighters are not allowed to spray water or foam because it would damage the environment. The engines are also the dirtiest I've seen because they aren't allowed to wash them.
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Dom is the real firefighter...
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...but he let me pretend to be one too!

I became an expert welder

Not really. But I stopped by the Shop this afternoon and John let me tag along. I helped him make a water pump holder for one of the buildings on station. 
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I'm totally ready to go home and see Ro and the kids. I will also really miss being in this incredible place and all the people I've been able to spend time with while I've been here.
Wifi at McMurdo was too slow so I didn't finish this blog post before flying out this morning. The flight on the C-130 was an experience. I'm in New Zealand now and should be back in Seattle Thursday afternoon.
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One of my last views of the sea ice.
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Still finding time for fun in our last days

11/29/2023

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We took a break from packing up the lab today to visit LDB, the long duration balloon project site. To get there we had to catch a shuttle that drove us out of MacTown, past the New Zealand base, and out onto the ice sheet. LDB projects are under the purview of NASA and NSF. The scientists and engineers build payloads, which are gondolas with expensive scientific instruments that are lifted into the stratosphere by huge balloons. We got a tour of payload 2, which is the GUSTO project (www.nasa.gov/event/gusto/). They are launching a kind of telescope in a couple of weeks that will measure the chemical signatures of star formation and life cycle. Antarctica is an ideal location for launch because there are no cities and the winds run reliably counterclockwise around the continent, keeping the balloon aloft for days (they are aiming for at least 55). I am not allowed to share pictures of the actual payload, but I can share some other pictures of the site. (If you want to see pictures of the payload, I can share them with individuals.)
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The payload control center.
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The buildings that house the payloads are the tallest on the continent. They are also on skis so they can be moved off the project site in winter to avoid large drifts of snow.
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The truck is used to launch the payload once the attached balloon is released.
My dorm neighbor, Daniel, is an engineer from Johns Hopkins who works on the payload and he gave us a tour. He explained how temperature is a big concern because it can vary extensively depending on if the telescope is facing towards or away from the sun (or if the mission continues into the time of year when the sun actually sets). The telescope gets its energy from large solar panels that will be attached to the sides and it has about 10 batteries that store the captured solar energy (these batteries actually discharged on the voyage over and they are eagerly awaiting an emergency shipment of new ones).
We were also excited to visit LDB because we had heard that the food is very good. We were not disappointed! Everything was well prepared and delicious and the galley was intimate and cozy. Adela stashed a bunch of double chocolate mint chip cookies to bring back with us.
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After we got back we made a quick trip to one of the field sites that we marked but didn't end up using as a sampling site to retrieve the last of our flags. It was a beautiful afternoon and we enjoyed our last ride out onto the sea ice.
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Katarina enjoying a ritual connection with the sea ice.
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The last field day

11/28/2023

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The flags that marked our field site.
Monday was our last field collection day. I'm in the lab now, at 10 pm on Tuesday, filtering the melted snow that is my last sample from Antarctica. The rest of the week before we leave will be filled with packing and cleaning, which sounds trivial, but will probably take every spare minute of each day left. The sea ice has changed over our weeks here: the ice has gotten warmer and wetter (shifting from phase I to phase II) and there are more bare patches of ice where the snow has melted away. In a few months, the ice will be gone and our field site will be open water.
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Our lady-ice-bug and snowmobiles on the sea ice.
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To mark the end of the collection of my multi-omics samples, Adela snapped a picture of me in my NMDC (microbiomedata.org) sweatshirt on my trusty snowmobile. I have been collecting samples for metagenomics and metaproteomics. The "meta" means that we are looking at a community (specifically, the bacterial community in the sea ice and snow). The metagenomics data will represent all the genes of all the bacteria in each sample and will tell us which bacteria are present and what their biological potential is. The metaproteomics data will represent all the proteins expressed by these bacteria and will tell us what their metabolic priorities are, which gives us insight into their interactions with their environment.
This evening is special not only because it marks the end of my field samples, but also because it really snowed tonight! We haven't had a good snow since we've been here, just a few days when there were small flurries. The air in Antarctica is usually too cold to hold water vapor, so there is very little precipitation here. But I guess with the changing season and warmer air, snow is possible!
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Last, but not least, this looooong day was made possible by our friendly firefighter barista, Dom, who made me an amazing powdered milk latte this morning. Thanks, Dominic!
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Thanksgiving at McMurdo

11/25/2023

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McMurdo Thanksgiving is celebrated the Saturday after actual Thanksgiving and almost everyone on station gets the full two day weekend off. Most people here work 6 days a week with only Sunday off, so parties were in full swing to celebrate the longer weekend. We all went to Adela's tango class Friday evening and then I was in the lab with Katarina and Adela until almost 1 am. Saturday morning there was a 5K turkey trot. The weather was not great: very windy and lightly snowing. The first half of the run was uphill and against the wind and it was probably the hardest 1.5 miles I have ever run. I had a buff over my face (and goggles), but my condensed breath and snot (my nose was running like crazy) made my buff freeze solid, which was very hard to breathe through. Once we turned back at the top of the hill and the wind was with us the run was much easier.
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Things were a little frosty after my run.
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These are the clothes that I wore for the 5K. Even when running, the strong wind can make you very cold.
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A vegetarian Thanksgiving feast in Antarctica.
Saturday night was Thanksgiving dinner and the galley staff went all out to make a feast across 4 different seatings (3 pm, 5 pm, 7 pm, and midnight for the people on the overnight shifts). To support the extra work of Thanksgiving, people from other jobs throughout the station have been volunteering to help clean dishes and pots over the last couple of days. Katarina used her alcohol rations to buy some wine at the store for our dinner and we had a really nice time.
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Katarina, Adela, Rachel, Keegan, and Karen
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How I celebrated Thanksgiving in Antarctica

11/23/2023

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By going out on the sea ice, of course! Yesterday (Thanksgiving) we went to Cape Evans, which is the northern end of the sea ice route. We were hoping to find different sea ice as a point of comparison with our regular sampling area, where we still go every week. And we found it! Cape Evans is at the base of Mount Erebus and the ice is snow free with dusty pockets of crushed volcanic rock. The ice was much wetter and softer than the ice at our regular sampling area. We're excited to see if this means different chemistry and biology.
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The ice looked dirty, likely from the volcanic dust blowing down off Mt Erebus.
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An iceberg stuck in the sea ice.
There were several seals right next to the sea ice route yesterday. One was even crossing the road! (Why did the seal cross the road? Submit your responses in the comments section.) When we see seals nearby, we need to swerve out onto the ice to so we don't disturb them. But our snow mobiles are so noisy that they definitely noticed us anyway. Since seals have no land predators here they mostly don't care what the noisy humans are up to because they don't see us as a potential threat.
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The seal at the end of the sea ice route.
The military chaplain at McMurdo, Ben, came with us for some adventure. We taught him how to be a real ice scientist.
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The hut where the members of Robert Falcon Scott's expedition lived is also at Cape Evans. We didn't have permission (or the key) to go inside, but we had a nice view of it. It's amazing how well preserved wooden structures are here, probably because it is so dry. The hut was built in 1911. Scott's expedition to the South Pole did not work out well for him or his group. He was poorly prepared for the environment. He eventually made it to the South Pole (although he was not the first), but he died on the way back.
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Scott's hut at Cape Evans. The hut closer to McMurdo station was mostly used for storage.
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100th ice core!

11/20/2023

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Getting ready to cut the 100th core
My arbitrary milestone for the week is our 100th ice core. Katarina has sequentially numbered each core we have collected this trip and yesterday we surpassed 100. I'm in the lab now, filtering the melted samples from yesterday (another very late night) and I have to admit, this core was just like all the others. But knowing that we have collected and processed over 100 ice cores does drive home the number of samples that we have managed to collect during our time here.
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Karen and Katarina pumping brine
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The pump's tubing descending into the brine-containing hole
In addition to ice, snow, and seawater, we also collect percolate brine. Sea ice is formed from salty sea water. When sea water freezer, all the salt is concentrated into liquid brine channels in the now fresh ice. This is where the microbes we want to find live. At the start of each sampling day, we take a 1 m core and then leave the empty hole covered while we spend the next few hours collecting our other samples. Before we leave, we pump out all the brine that has percolated through the sea ice and collected in the hole. The hope is that this is the medium in which biological signals of interest will be concentrated and easily detectable.
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Better baby seal pics?

11/16/2023

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Your requests for better pictures of the baby seals have been heard. Unfortunately, the Marine Mammal Protection Act and my lack of an expensive, large zoom lens on my camera make it difficult to get high res close-ups of the babies. But I have attempted to do some photo zooming and cropping and I'm hoping that you can see the pups a bit better in these photos. I'll keep trying!
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New sites, new seals

11/13/2023

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Cuteness alert: this post will contain pictures of adorable baby seals

We wanted to explore some different sites yesterday to see if the chemical bromoform distribution throughout the sea ice is different. If we find something markedly different, we could sample for biology as well to try to better understand how chemistry and biology intersect in the ice. We worked with the field safety team to identify an area near Razorback, past the Erebus Glacier Tongue, that has been snow free, which means that the ice has more light exposure than at our normal, snow-covered site.
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The sea ice at this location was 2 m 74 cm (just under 9 ft) thick and was a beautiful, glacial blue.
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The edge of the Erebus Glacier Tongue (EGT). You can see Mt Erebus among the clouds behind the EGT.
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Razorback
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The apple: a perfect lunch spot
Driving over the snow-free ice was much noisier than on the snow because of the sleds dragging over a harder surface. We also had to stop multiple times to measure sea ice cracks and make sure the ice was thick enough to cross safely. The dynamic ice in this area means that there are openings for seal holes and Razorback was surrounded by Weddell seals, many of which have been tagged already by the seal team from Montana State. Since this area is along the regular seal team route, there was also a seasonal shelter - called an apple - and a refueling station for the seal team's snow mobiles.
You can kind of gauge how old the pups are by the size of the pup and of the mom. The pup in the picture of the very large mom calling to her pup is very young: it is tiny and the mother is still huge. Mother seals will lose a huge amount of their body weight during the weeks of intense pup rearing since they are not eating much/at all and are providing fat-rich milk to their pup. There were also a lot of skuas at Razorback. Skuas are scavenger birds and were probably feeding on pieces of seal placenta, and even seal feces, scattered on the ice.
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Mother seal calling to her new pup. We couldn't get too close to the seals, especially the moms and pups.
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Thick seal blubber makes even sea ice a cozy place for a nap. You can see that these pups are bigger and the moms are smaller.
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Skua
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We are used to silent days on the ice, but the seals were very noisy and it sounded like people were yelling in the distance.
We noticed an interesting starburst patterns all across the ice surface. None of us knew what it was, but we happened to be at a glaciologist's birthday party last night and Sridhar from Penn State explained to us that these are likely caused by small, localized melting. Dust can accumulate on the sea ice surface in certain areas, make the sea ice less reflective (lower its albedo). This will lead to small areas of meltwater just below the ice surface and the starburst is the meltwater moving through the ice.
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Sea ice cracks and pressure ridge
We wanted to see if a relatively new crack, with newer, thinner ice, might be another good sampling location so we stopped by on our way back to McMurdo. The crack has slammed back together, forming a pressure ridge. Again, a good area for seal holes so the entire site was covered in seal poop. This would not make for good bacterial community sampling, which is a huge part of our project, so we abandoned the idea of sampling the new ice in the crack.
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Pressure ridge
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More beautiful days in the field

11/9/2023

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And then there were 4

Shelly took her scheduled flight back towards home on Wednesday so our smaller crew headed out for our first field day without her on Thursday.

I started the day with my usual call to the weather forecasters in Charleston. I talked to Chris that morning and after some discussions of wind speeds and potential gusts, I brought the information to the rest of the group and we decided to give it a try. If it's too windy, then ice shavings and snow blow into the hole while we are coring and can cause the corer to get stuck. Also, it's just a much less pleasant experience to do field work in the wind. Luckily, the weather was gorgeous on the ice. We had a bit of wind, but it was our warmest day yet and our lady ice bug (our pop up tent) provided shelter when we wanted it. The tent shelters our ice cores when we are doing temperature profiles as well as providing shelter for snacks and pee breaks (these all happen at different times).
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Karen and Katarina cutting an ice core in the tent.
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Our smaller but mighty field crew.
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Adela vlogging in front of the lady icebug.
We are having some mysterious contamination issues in our artificial brine that we use to melt our samples. This is slowing us down quite a bit in the lab, meaning some longer hours this week.
I also learned how to weld this week, thanks to John, the welder on station. The results weren't pretty, but it was fun to do something that wasn't watching liters and liters of water filter in the lab.
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Snowmobiles parked at our field site in front of Mt Erebus.
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    I am a marine molecular ecologist at the University of Washington. I'm excited to share my first Antarctica trip with you!

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