Cody Sheik
@microbesheik.bsky.social
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📥 193
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I’m a geomicrobiologist with a geologically short attention span. AquaticGeomicro.com
[email protected]
is there any curation for the GTDB rRNA database? We found cases where a MAG incorporated into GTDB may have several 16S gene copies that have wildly different taxonomy but are all attributed to the MAGs GTDB taxonomy. Likely missed pre-ncbi contam screen before upload.
7 days ago
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Probably one of the best shipgoo stories so far!
www.interlochenpublicradio.org/podcast/poin...
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A Curious Case of Goo
After a boat captain notices strange black goo on his ship’s rudder, he scoops some of it into a cup. A few months later, that cup ends up in a lab, where scientists make a surprising discovery.
https://www.interlochenpublicradio.org/podcast/points-north/2026-03-17/a-curious-case-of-goo
about 1 month ago
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New manuscript from the lab! Interesting story developing, we didn’t find any Aphanizomenon nitrogenase genes despite being the primary bloom former! Instead, Dolichospermum takes charge of fixing nitrogen during the bloom.
www.sciencedirect.com/science/arti...
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Rare cyanobacteria drive nitrogen-fixation and cyanotoxin production in an Aphanizomenon-dominated bloom
Late summer, recurring cyanobacterial blooms in Lake of the Woods (LOW) are polycyanobacterial and typically dominated by Aphanizomenon flos-aquae. LO…
https://www.sciencedirect.com/science/article/pii/S1568988325001805?dgcid=author
7 months ago
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reposted by
Cody Sheik
Jeffrey Marlow
9 months ago
Oh check it out,
@microbesheik.bsky.social
found some cool microbes in "mysterious goo" from a ship's rudder shaft...and I got to talk about it 😂
www.cnn.com/2025/08/01/s...
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Scientists happened upon black goo on a ship — and discovered it was teeming with life | CNN
A Great Lakes research vessel had goo leaking from its rudder shaft. Scientists later found it contained previously undiscovered microorganisms.
https://www.cnn.com/2025/08/01/science/ship-goo-great-lakes-microbes
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Nice to be out on the water taking samples! Fun teaching students over looked things like backing up a trailer and how to drive a boat! Also rinse those bottles!
@mnseagrant.bsky.social
10 months ago
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reposted by
Cody Sheik
Great Lakes Now
10 months ago
Researchers say the findings will help lead to better monitoring of blooms.
www.greatlakesnow.org/2025/06/rese...
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Research pinpoints type of blue-green algae that may produce toxins in Lake Superior estuary | Great Lakes Now
Researchers say the findings will help lead to better monitoring of blooms.
https://www.greatlakesnow.org/2025/06/research-pinpoints-type-of-blue-green-algae-that-may-produce-toxins-in-lake-superior-estuary/
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reposted by
Cody Sheik
Jay Austin
11 months ago
If you want to keep your gear safe, DO NOT PUT IT IN THE LAKE. One of our buoys was just hit by a vessel (which will remain nameless here).
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reposted by
Cody Sheik
Minnesota Sea Grant (MNSG)
11 months ago
PhD student researcher Abby Smason, supported by
#Minnesota
Sea Grant, presented this week at
#IAGLR25
on preliminary findings of a breakthrough discovery that identifies the bacteria behind toxins in the St. Louis River estuary. 🧪 📢 Get the full story:
z.umn.edu/mnsg_25cyano...
#GreatLakes
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Great work from my graduate student Amanda on the cycling of organic sulfur in subsurface ecosystems! Turns out microbes are poised to use org S and we haven’t been paying attention!
www.nature.com/articles/s41...
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The potential for coupled organic and inorganic sulfur cycles across the terrestrial deep subsurface biosphere - Nature Communications
Organic sulfur compounds are vital to life but often overlooked in the sulfur cycle, especially in the subsurface. Subsurface microbes can metabolize diverse organosulfur compounds, hinting at a more ...
https://www.nature.com/articles/s41467-025-59241-z
about 1 year ago
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Has anyone experienced any metagenome assembly issues with the Aviti reads? Metaspades assemblies are awful compared to megahit but even the megahit assemblies aren’t great.
about 1 year ago
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MAG binning question: do you ignore smaller orphan bins that are likely parts of larger bins, or do you incorporate? If so what are you using?
about 1 year ago
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reposted by
Cody Sheik
Robin Rohwer
over 1 year ago
It has been amazing to continue this long-term research through a PhD with
@quendi.bsky.social
and a postdoc with
@archaeal.bsky.social
. Not everyone gets to see a project through like this as an ECR- thanks to supportive PI's and the NSF-PRFB fellowship that let me design my own postdoc 💙🧪
add a skeleton here at some point
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This paper was over 10 years in the making!! I remember the many zoom and in person discussions! Congrats to all the people that have been a part of this work over the years, especially Rick and Mitch, and a HUGE thanks to
@emilruff.bsky.social
for his tenacity and bringing this to fruition!!
add a skeleton here at some point
over 1 year ago
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Don’t forget abstracts are due Monday! Looking forward to some great microbial chats!
add a skeleton here at some point
over 1 year ago
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reposted by
Cody Sheik
Cameron Thrash
over 1 year ago
The palaeoclimate potential of continental scientific drilling
www.nature.com/articles/s41...
#jcampubs
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The palaeoclimate potential of continental scientific drilling - Nature Geoscience
Nature Geoscience - The palaeoclimate potential of continental scientific drilling
https://www.nature.com/articles/s41561-024-01603-1
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Looking for a session at IAGLR ‘25 to submit your micro focused abstract?? Consider session 17 Microbiology of Earth’s Great Lakes!
over 1 year ago
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Neat paper from my former postdoc on the seasonal turnover of Dolichospermum strains in the nearshore of Lake Superior!
www.sciencedirect.com/science/arti...
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Spatiotemporal dynamics of cyanobacterium Dolichospermum lemmermannii populations in a bloom-prone region of Lake Superior
Cyanobacterial Harmful Algal Blooms (cHABs) are increasingly common in marine and freshwater environments, including the Laurentian Great Lakes (LGL).…
https://www.sciencedirect.com/science/article/pii/S0380133024002211
over 1 year ago
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Excited to see this paper by Chris Schuler on microbe-mineral biofilms at Soudan Underground Mine! Great team of Early Career students driving some great science!
www.sciencedirect.com/science/arti...
about 2 years ago
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Glad to see this out and in review! Postdoc Andrew Wood looked at seasonal strain turnover of Dolichospermum in Lake Superior.
biorxiv.org/cgi/content/...
But not just Doli that has strain turnover!
about 2 years ago
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reposted by
Cody Sheik
Cameron Thrash
about 2 years ago
Spatio-temporal dynamics of cyanobacterium Dolichospermum lemmermannii populations in a bloom-prone region of Lake Superior
www.biorxiv.org/content/10.1...
#jcampubs
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Interested in Organic sulfur? Check out our new manuscript on how organic sulfur influences sediment biochemistry!
aslopubs.onlinelibrary.wiley.com/doi/10.1002/...
over 2 years ago
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@drewsteen.bsky.social
in Duluth giving a great Friday seminar!
over 2 years ago
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Apply to be our next Director of The Large Lakes Observatory!
tinyurl.com/mmxe93dt
scse.d.umn.edu/large-lakes-...
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https://tinyurl.com/mmxe93dt
over 2 years ago
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Some days are better than others being a prof. Today was a good day! #LakeSuperior
over 2 years ago
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