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Paul Houle🦠 Microbiologists discover new species of methane-producing archaea in the human gut<a href="https://phys.org/news/2025-04-microbiologists-species-methane-archaea-human.html" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://phys.org/news/2025-04-microbiologists-species-methane-archaea-human.html</a><a href="https://mastodon.social/tags/biology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#biology</a> <a href="https://mastodon.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://mastodon.social/tags/microbiome" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiome</a> <a href="https://mastodon.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> <a href="https://mastodon.social/tags/bacteria" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bacteria</a> <a href="https://mastodon.social/tags/methane" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#methane</a>

naturepokerMy lab's incubator bit the dust early on in the Haloarchaea sequencing project, so I've been using an aquarium + reptile heating pad & LED light panel hooked up to a PID. It's been working for 7 sequencing run worth of cultures so far. Just need to remember to sandwich the plates in plastic <a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a>

Dining & CookingHow plant-based, Mediterranean, and Western diets affect gut microbiota and disease <a href="https://www.diningandcooking.com/2044331/how-plant-based-mediterranean-and-western-diets-affect-gut-microbiota-and-disease/" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.diningandcooking.com/2044331/how-plant-based-mediterranean-and-western-diets-affect-gut-microbiota-and-disease/</a> #<a href="https://vive.im/tags/inflammation" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#inflammation</a> <a href="https://vive.im/tags/AntiInflammatory" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#AntiInflammatory</a> <a href="https://vive.im/tags/Archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Archaea</a> <a href="https://vive.im/tags/bacteria" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bacteria</a> <a href="https://vive.im/tags/Bile" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bile</a> <a href="https://vive.im/tags/blood" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#blood</a> <a href="https://vive.im/tags/BloodPressure" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#BloodPressure</a> <a href="https://vive.im/tags/BRAIN" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#BRAIN</a> <a href="https://vive.im/tags/cancer" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#cancer</a> <a href="https://vive.im/tags/cholesterol" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#cholesterol</a> <a href="https://vive.im/tags/chronic" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#chronic</a> <a href="https://vive.im/tags/Colon" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Colon</a> <a href="https://vive.im/tags/Diabetes" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Diabetes</a> <a href="https://vive.im/tags/diet" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#diet</a> <a href="https://vive.im/tags/FattyAcids" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#FattyAcids</a> <a href="https://vive.im/tags/fermentation" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#fermentation</a> <a href="https://vive.im/tags/GutBrainAxis" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#GutBrainAxis</a> <a href="https://vive.im/tags/immunity" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#immunity</a> <a href="https://vive.im/tags/Mediterranean" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Mediterranean</a> <a href="https://vive.im/tags/MediterraneanVeganDiet" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#MediterraneanVeganDiet</a> <a href="https://vive.im/tags/MediterraneanVegetarianRecipes" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#MediterraneanVegetarianRecipes</a> <a href="https://vive.im/tags/Metabolite" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Metabolite</a> <a href="https://vive.im/tags/Metabolites" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Metabolites</a> <a href="https://vive.im/tags/Microbiome" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Microbiome</a> <a href="https://vive.im/tags/nutrients" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#nutrients</a> <a href="https://vive.im/tags/VeganMediterraneanDiet" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#VeganMediterraneanDiet</a> <a href="https://vive.im/tags/VegetarianMediterraneanRecipes" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#VegetarianMediterraneanRecipes</a> <a href="https://vive.im/tags/Vitamins" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Vitamins</a>

Vermont Citizen ScientistScience marches on! We known the importance of the microbiome, but it consists of more than bacteria. Meet the archaeans in your gut: <a href="https://www.the-scientist.com/archaea-inhabit-our-microbiome-but-what-are-they-doing-there-72935" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.the-scientist.com/archaea-inhabit-our-microbiome-but-what-are-they-doing-there-72935</a> <a href="https://sciencemastodon.com/tags/microbiome" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiome</a> <a href="https://sciencemastodon.com/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> <a href="https://sciencemastodon.com/tags/gut" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#gut</a>

naturepokerQuestion for <a href="https://genomic.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> <a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> folks: I'm looking at a specific contig in an Archaeal genome with repeat elements that remain difficult to resolve even with 100~1000x coverage and minimum 10k read length. Anyone else dealt with something similar? What could I even be looking at?

El Pregoner del MetallARCHAEA (Estats Units) presenta nou single: "Future Swayers" <a href="https://mastodon.social/tags/Archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Archaea</a> <a href="https://mastodon.social/tags/Sludge" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Sludge</a> <a href="https://mastodon.social/tags/Stoner" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Stoner</a> <a href="https://mastodon.social/tags/DoomMetal" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#DoomMetal</a> <a href="https://mastodon.social/tags/Abril2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Abril2025</a> <a href="https://mastodon.social/tags/EstatsUnits" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#EstatsUnits</a> <a href="https://mastodon.social/tags/NouSingle" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#NouSingle</a> <a href="https://mastodon.social/tags/Metall" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Metall</a> <a href="https://mastodon.social/tags/Metal" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Metal</a> <a href="https://mastodon.social/tags/M%C3%BAsicaMetal" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#MúsicaMetal</a> <a href="https://mastodon.social/tags/MetalMusic" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#MetalMusic</a>

ISEP<a href="https://mstdn.science/tags/ISEPpapers" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#ISEPpapers</a> 26: October 2024 to March 2025 <a href="https://www.isep-protists.com/post/iseppapers-26" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.isep-protists.com/post/iseppapers-26</a>Your twenty-sixth digest of papers and preprints published by members of the International Society for Evolutionary Protistology is here!<a href="https://mstdn.science/tags/Protists" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Protists</a> <a href="https://mstdn.science/tags/Algae" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Algae</a> <a href="https://mstdn.science/tags/Microbes" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Microbes</a> <a href="https://mstdn.science/tags/Evolution" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Evolution</a> <a href="https://mstdn.science/tags/Bacteria" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bacteria</a> <a href="https://mstdn.science/tags/Archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Archaea</a> <a href="https://mstdn.science/tags/Symbiosis" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Symbiosis</a> <a href="https://mstdn.science/tags/Parasites" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Parasites</a> <a href="https://mstdn.science/tags/TreeOfLife" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#TreeOfLife</a>

Matilda's LabA slightly more unusual drawing for you today. This is Lokiarchaeum ossiferum (named after the good of mischief himself). This is an archaean, the midpoint between bacteria and the cells that make us. An extinct relative of this was recently pegged as a key candidate for making the jump to the cell type that makes up all multicellular life. <a href="https://mstdn.social/tags/lokiarchaeum" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#lokiarchaeum</a> <a href="https://mstdn.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> <a href="https://mstdn.social/tags/loki" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#loki</a>

Mikko TuomiThe origin of the eukaryotic cell corresponded to the most significant increase in <a href="https://scicomm.xyz/tags/complexity" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#complexity</a> in the history of <a href="https://scicomm.xyz/tags/life" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#life</a>'s evolution on Earth.The billions of years that have passed since the fusion of an <a href="https://scicomm.xyz/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> and a <a href="https://scicomm.xyz/tags/bacteria" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bacteria</a> have resulted in a lack of evolutionary intermediates in the phylogenetic tree until the emergence of the <a href="https://scicomm.xyz/tags/eukaryotes" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#eukaryotes</a>.Now researchers present theoretical and observational evidence that a phase transition in genetic complexity was involved.<a href="https://phys.org/news/2025-04-evolutionary-algorithmic-phase-transition-billion.html" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://phys.org/news/2025-04-evolutionary-algorithmic-phase-transition-billion.html</a>

naturepoker2 more Haloarchaea genomes in the bag! We've de-novo closed genomes of 50% of known species in an Archaea genus out of a warehouse lab, along with comprehensive methylation site data.Should these go out as per-genome genome announcements? Or should I compile them together into a single paper?<a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/haloarchaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#haloarchaea</a> <a href="https://genomic.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a>

naturepokerFinished sequencing & assembling new strain of a Haloarchea - here's ANI comparison plot to another genome ostensibly belonging to the same species. Difference between the two is about 10%. This pattern repeats through the genus.Upcoming poster & preprint might be a bit spicy.<a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

Bill Minarik‘We’re All Asgardians’ a talk on the origins of Eukaryotes (us) with implications for our present-day immune systems by Brett Baker, University of Texas, Austin. Dr. Baker inaugurated the EPS Wares Distinguished Public Lecture series.Eukaryotic cells are most closely related to the 'Hod' branch of the Asgard branch of the Archaea.<a href="https://fosstodon.org/tags/Eukaryote" class="mention hashtag" rel="tag">#Eukaryote</a> <a href="https://fosstodon.org/tags/Archaea" class="mention hashtag" rel="tag">#Archaea</a> <a href="https://fosstodon.org/tags/Evolution" class="mention hashtag" rel="tag">#Evolution</a> <a href="https://fosstodon.org/tags/UTAustin" class="mention hashtag" rel="tag">#UTAustin</a> <a href="https://fosstodon.org/tags/McGillIUniversity" class="mention hashtag" rel="tag">#McGillIUniversity</a> <a href="https://fosstodon.org/tags/EarthSystemScience" class="mention hashtag" rel="tag">#EarthSystemScience</a> <a href="https://fosstodon.org/tags/WaresLecture" class="mention hashtag" rel="tag">#WaresLecture</a>

naturepokerFlowcell orders tomorrow! With the last two <a href="https://genomic.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> samples I'd have sequenced and assembled 2/3 of the known members of the genus. Initial methylation call reports from the samples are looking quite interesting too. One would think species of the same genus would show roughly similar profile, right?

Matilda's LabThis is such an interesting story. Physics doesn't bag all of the cool names in science, and Asgard Archaea may be the ancestors of us all. <a href="https://www.eurekalert.org/news-releases/1077605" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.eurekalert.org/news-releases/1077605</a> <a href="https://mstdn.social/tags/sciencenews" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#sciencenews</a> <a href="https://mstdn.social/tags/evolution" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#evolution</a> <a href="https://mstdn.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a>

naturepokerI've been reviewing state of ONT & PacBio <a href="https://genomic.social/tags/Archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Archaea</a> raw data availability in public repos (preprint coming soon). It's not fantastic. Once we upload current reads, our warehouse & partner lab might be THE top uploader in the world in terms of diversity of Archaeal species contribution.We're also covering both <a href="https://genomic.social/tags/ONT" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#ONT</a> and <a href="https://genomic.social/tags/PacBio" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#PacBio</a> for each species - so 2x the count. I'll also upload all ONT raws in blow5 format as well! Down with vendor lock-in.<a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

Niels de WinterExciting work studying the chemical bonds in membrane lipids of <a href="https://mastodon.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> (<a href="https://mastodon.social/tags/marine" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#marine</a> <a href="https://mastodon.social/tags/microbes" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbes</a>) which are often used for <a href="https://mastodon.social/tags/paleoclimate" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#paleoclimate</a> reconstructions suggests improvements to <a href="https://mastodon.social/tags/temperature" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#temperature</a> reconstructions. <a href="https://www.sciencedirect.com/science/article/pii/S0012821X25000925" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.sciencedirect.com/science/article/pii/S0012821X25000925</a>

naturepokerLong evening of streaking out Haloarchaea plates at the lab, another R10 sequencing round coming up soon, PacBio right after!I think I perfected the proper way of sandwich wrapping these plates for long-term growth. <a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a>

naturepokerRegistration and booking done for <a href="https://genomic.social/tags/ASMicrobe2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#ASMicrobe2025</a> woot!I'll be presenting a poster on methylation patterns of an Archaeal genus members with focus on their MGE & rrn operons. It's something I've been tinkering with at the warehouse lab in Queens, hopefully building up to something interesting <a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/asmicrobe2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#asmicrobe2025</a> <a href="https://genomic.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> <a href="https://genomic.social/tags/amateurscience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#amateurscience</a> If anyone wants to talk shop on archaea, evolutionary microbiology, long-read sequencing and etc, drop me a note whenever!

naturepokerReceived invitation to submit a review article to an established academic journal - it'll be on a topic adjacent to long read sequencing analysis and <a href="https://genomic.social/tags/Archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Archaea</a> Not too bad for a warehouse worker sequencing out of an artists' studio, IMHO! I'm feeling pretty nervous though.Any good resources out there for first-time review article writers? <a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> <a href="https://genomic.social/tags/sequencing" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#sequencing</a>

Lukas VFN 🇪🇺Newly discovered <a href="https://scholar.social/tags/microbes" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbes</a> in Amazon peatlands could affect global carbon balance <a href="https://phys.org/news/2025-01-newly-microbes-amazon-peatlands-affect.html" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://phys.org/news/2025-01-newly-microbes-amazon-peatlands-affect.html</a>Functional insights of novel <a href="https://scholar.social/tags/Bathyarchaeia" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bathyarchaeia</a> reveal metabolic versatility in their role in peatlands of the Peruvian Amazon <a href="https://journals.asm.org/doi/10.1128/spectrum.00387-24" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://journals.asm.org/doi/10.1128/spectrum.00387-24</a>"Under stable conditions, they enable <a href="https://scholar.social/tags/peatlands" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#peatlands</a> to act as vast carbon reservoirs, reducing <a href="https://scholar.social/tags/climate" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#climate</a> risks. However, environmental shifts, including drought and warming, can trigger their activity, accelerating <a href="https://scholar.social/tags/ClimateChange" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#ClimateChange</a>." <a href="https://scholar.social/tags/Archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Archaea</a>

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