by Mark O. Martin
Matters Microbial is a podcast about the wonders of microbiology, microbiologists, and microbial centrism with Dr. Mark Martin
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8/7/2023
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April 17, 2025
<header class="entry-header clearfix"> <h1 class="entry-title">Matters Microbial #87: Dietary Protein and the Microbiome</h1> <span class="mini-title">April 17, 2025</span></header> <div class="entry-content"> <p>Today, Dr. Manuel Kleiner, Associate Professor of Microbiomes and Complex Microbial Communities at North Carolina State University, joins the #QualityQuorum to discuss how diet can influence the microbiome in fascinating ways.</p> <p>Host: <a href= "https://www.pugetsound.edu/directory/mark-martin"><strong>Mark O. Martin</strong></a></p> <p>Guest: <strong><a title="" href= "https://kleinerlab.cals.ncsu.edu/">Manuel Kleiner</a></strong></p> <p>Subscribe: <strong><a href= "https://podcasts.apple.com/us/podcast/matters-microbial/id1701545625"> Apple Podcasts</a>, <a href= "https://open.spotify.com/show/22BQtkxh56Dy7xRW7yAYvC?si=4c093f07fdaa4e27">Spotify</a></strong></p> <p>Become a <a href= "https://www.microbe.tv/contribute">patron</a> of Matters Microbial!</p> <h3 id="links-for-this-episode" class="wp-block-heading">Links for this episode</h3> <ul class="wp-block-list"> <li>An <a href= "https://microbiologyjournal.org/pink-pigmented-facultative-methylotrophs-ppfms-potential-bioinoculants-for-sustainable-crop-production/">overview</a> of “pink pigmented facultative methylotrophs,” which can lead to wonderful “<a href= "https://link.springer.com/article/10.1007/s00203-025-04280-9">leaf prints</a>.”</li> <li><a href= "https://pubmed.ncbi.nlm.nih.gov/31096878/">Gnotobiotic</a> versus “<a href= "https://pmc.ncbi.nlm.nih.gov/articles/PMC5006193/#:~:text=Figure%201.&text=Germ%2Dfree%20(GF)%20mice,brain%20barrier%20(BBB)%20integrity.">germ-free</a>” animals.</li> <li>A solid review of the <a href= "https://www.nature.com/articles/s41579-020-0433-9">gut microbiome</a> and the relationship to health.</li> <li>An <a href= "https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-019-0704-8">article</a> describing how proteins are digested by the microbiota.</li> <li>A <a href= "https://www.sciencedirect.com/science/article/pii/S1369527422000200">description</a> of glycan degrading enzymes and the gut microbiome.</li> <li>An overview of <a href= "https://pmc.ncbi.nlm.nih.gov/articles/PMC8442341/#:~:text=Mucins%20are%20characterized%20by%20their,family%20nomenclature%20often%20appear%20confusing.">mucin</a>.</li> <li>Description of <a href= "https://journals.asm.org/doi/10.1128/msystems.00115-19">metaproteomics</a> by Dr. Kleiner.</li> <li>Description of <a href= "https://www.ncbi.nlm.nih.gov/books/NBK54011/">metagenomics</a>.</li> <li>Gut microbiota and <a href= "https://pmc.ncbi.nlm.nih.gov/articles/PMC8954387/">dysbiosis</a>.</li> <li>An overview of <a href= "https://www.mayoclinic.org/diseases-conditions/inflammatory-bowel-disease/symptoms-causes/syc-20353315">inflammatory bowel disease</a>.</li> <li>An <a href= "https://www.pharmacytimes.com/view/bacteroidetes-the-jekyll-and-hyde-of-the-human-gut-microbiome">overview</a> of Bacteroides thetaiotaomicron.</li> <li>An <a href= "https://observatoireprevention.org/en/2023/03/27/akkermansia-muciniphila-an-essential-bacterium-for-maintaining-good-health/">overview</a> of Akkermansia muciniphila.</li> <li>The <a href= "https://isappscience.org/episode-32-microbes-and-mucus/#:~:text=Bifidobacteria%20increase%20mucus%20production.,so%20mucus%20production%20is%20suppressed.">possibility</a> of microbes “farming” us for mucus!</li> <li>The wide ranging and deeply fascinating website for Dr. Kleiner’s <a href="https://kleinerlab.cals.ncsu.edu/">research group</a>.</li> <li>Dr. Kleiner’s <a href= "https://cals.ncsu.edu/plant-and-microbial-biology/people/mkleine/">faculty website</a>.</li> </ul> <p>Intro music is by Reber Clark</p> <p>Send your questions and comments to [email protected]</p> </div>
April 10, 2025
<header class="entry-header clearfix"> <h1 class="entry-title">Matters Microbial #86: Intraterrestrials — the Strangest Life on, and in, the Earth</h1> <span class="mini-title">April 10, 2025</span></header> <div class="entry-content"> <p>Today, Dr. Karen Lloyd, Professor of Earth Science at the University of Southern California, joins the #QualityQuorum to discuss her upcoming book Intraterrestrials (Princeton University Press). Dr. Lloyd will describe the 25 year journey she and her coworkers have had exploring microbial life deep underground, and even less likely places.</p> <p>Host: <a href= "https://www.pugetsound.edu/directory/mark-martin"><strong>Mark O. Martin</strong></a></p> <p>Guest: <strong><a title="" href= "https://lloydlab.utk.edu/">Karen Lloyd</a></strong></p> <p>Subscribe: <strong><a href= "https://podcasts.apple.com/us/podcast/matters-microbial/id1701545625"> Apple Podcasts</a>, <a href= "https://open.spotify.com/show/22BQtkxh56Dy7xRW7yAYvC?si=4c093f07fdaa4e27">Spotify</a></strong></p> <p>Become a <a href= "https://www.microbe.tv/contribute">patron</a> of Matters Microbial!</p> <h3 id="links-for-this-episode" class="wp-block-heading">Links for this episode</h3> <ul class="wp-block-list"> <li>The upcoming <a href= "https://press.princeton.edu/books/hardcover/9780691236117/intraterrestrials?srsltid=AfmBOoone62ecMiX37ZrT4wFzdE_ORt42yWIr04nwfHtyOl2hIeq_8UR">book</a>, Intraterrestrials, by Dr. Lloyd.</li> <li>Definition of the term “<a href= "https://www.newscientist.com/article/mg15721245-000/">intraterrestrial</a>.”</li> <li>An interesting <a href= "https://pubmed.ncbi.nlm.nih.gov/10731600/">review article</a> on intraterrestrial microbes.</li> <li>An video <a href= "https://youtu.be/ygutnM6xzRE?si=SYRKd_Slvml7_hPC">overview</a> of extremophiles.</li> <li>An overview of the new field of <a href= "https://www.sciencedirect.com/topics/earth-and-planetary-sciences/geomicrobiology">geomicrobiology</a>.</li> <li>A <a href= "https://citeseerx.ist.psu.edu/document?repid=rep1&type=pdf&doi=0608517311fcade3fae40a722863d198477c47fc">definition</a> of “SLiME”s (subsurface lithoautotrophic microbial ecosystem).</li> <li>An <a href= "https://academic.oup.com/ismej/article/18/1/wrae091/7680289">article</a> on microbial communities found deep underground.</li> <li>An article on “<a href= "https://phys.org/news/2025-04-scientists-microbes-earth-deep-soil.html">just underground</a>” microbial communities that was just published.</li> <li>Remembering <a href= "https://asm.org/articles/2023/august/katrina-edwards-uncovering-microbes-in-the-deep-bi">Dr. Katrina Edwards</a>.</li> <li>Microbial communities in <a href= "https://www.nature.com/articles/s41467-018-05020-y">New Zealand hot springs</a>.</li> <li><a href= "https://www.nature.com/articles/s41467-021-21218-z">Radiolytic</a> microbial communities.</li> <li>Photosynthesis by cyanobacteria via <a href= "https://www.pnas.org/doi/10.1073/pnas.0503674102">deep infrared light</a> at hydrothermal vents (without sunlight).</li> <li>Microbes living under extreme acidic conditions: the famed “<a href= "https://www.nature.com/articles/ismej201674">snottites</a>.”</li> <li>Microbes living under extreme alkaline conditions: <a href= "https://pmc.ncbi.nlm.nih.gov/articles/PMC6305446/">NPL-UPL2</a>.</li> <li>How <a href= "https://www.nature.com/articles/s41467-019-08719-8#:~:text=Abstract,to%20survive%20deep%20starvation%20conditions.">slowly</a> can microbes <a href= "https://www.cell.com/trends/microbiology/fulltext/S0966-842X(23)00331-1">divide</a>?</li> <li>A fascinating <a href= "https://www.ted.com/talks/karen_lloyd_the_mysterious_microbes_living_deep_inside_the_earth_and_how_they_could_help_humanity?language=en">video</a> by Dr. Lloyd.</li> <li><a href= "https://dornsife.usc.edu/wrigley/2025/02/27/biogeochemist-karen-lloyd-studies-deep-ocean-microbes-joins-wrigley-institute-usc-faculty/"> Introducing</a> Dr. Lloyd in her new position at the University of Southern California (an excellent overview of her work).</li> <li>Dr. Lloyd’s <a href= "https://dornsife.usc.edu/profile/karen-lloyd/">faculty website</a>.</li> <li>Dr. Lloyd’s <a href="http://lloydlab.utk.edu/">research group website</a>.</li> </ul> <p>Intro music is by Reber Clark</p> <p>Send your questions and comments to [email protected]</p> </div>
April 3, 2025
<header class="entry-header clearfix"> <h1 class="entry-title">Matters Microbial #85: The Microbiomes of Hawai’ian Seascapes</h1> <span class="mini-title">April 3, 2025</span></header> <div class="entry-content"> <p>Today, Dr. Rosie ’Anolani Alegado of the University of Hawai’i at Mānoa joins the #QualityQuorum to discuss how weather, climate, and human intervention impact the microbiota to be found in human related seascapes around Hawai’i.</p> <p>Host: <a href= "https://www.pugetsound.edu/directory/mark-martin"><strong>Mark O. Martin</strong></a></p> <p>Guest: <strong><a title="" href= "https://mee-hawaii-lab.org/">Rosie ’Anolani Alegado</a></strong></p> <p>Subscribe: <strong><a href= "https://podcasts.apple.com/us/podcast/matters-microbial/id1701545625"> Apple Podcasts</a>, <a href= "https://open.spotify.com/show/22BQtkxh56Dy7xRW7yAYvC?si=4c093f07fdaa4e27">Spotify</a></strong></p> <p>Become a <a href= "https://www.microbe.tv/contribute">patron</a> of Matters Microbial!</p> <h3 id="links-for-this-episode" class="wp-block-heading">Links for this episode</h3> <ul class="wp-block-list"> <li>An <a href= "https://www2.hawaii.edu/~dennisk/voyaging_chiefs/discovery.html">overview</a> of how Hawai’i was settled from Polynesia.</li> <li>An <a href= "https://www.americanscientist.org/article/a-hawaiian-renaissance-that-could-save-the-world">essay</a> describing indigenous Hawai’ian culture and its collaborative relationship to the land and sea.</li> <li>A must read <a href= "https://www.amazon.com/Coral-Reefs-Microbial-Forest-Rohwer/dp/0982701209">book</a> “Coral Reefs in a Microbial Sea,” by the late Merry Youle, Forest Rohwer, and Derek Vosten.</li> <li>Here <a href= "https://www.lowellmilkencenter.org/programs/projects/view/dr-isabella-abbott-first-lady-of-limu/hero">are</a> <a href="https://awis.org/historical-women/dr-isabella-aiona-abbott/">several</a> <a href="https://kawaiola.news/hoonaauao/a-campaign-to-recognize-isabella-abbotts-enduring-legacy/">links</a> related to the <a href= "https://hopkinsmarinestation.stanford.edu/about/history/isabella-izzie-abbott-lecture-hall">work</a> of Dr. Isabella Abbott, including <a href= "https://link.springer.com/article/10.1663/0013-0001(2002)056%5B0003:DEB%5D2.0.CO;2">this one</a> from Pacific Science. Again, well worth your reading.</li> <li>An <a href= "https://mortonarb.org/blog/what-is-ethnobotany/">overview</a> of the field of ethnobotany, championed by Dr. Abbott.</li> <li>Dr. Alegado’s previous research was with the fascinating <a href= "https://www.cell.com/current-biology/fulltext/S0960-9822%2805%2900142-9">choanoflagellates</a>, which can tell us about the evolution of complex life. Here is a <a href= "https://youtu.be/9g_EHfyMHgw?si=590ucp_99Q8TMIcH">video</a> about these ancient relatives of us all. Here is a <a href= "https://pmc.ncbi.nlm.nih.gov/articles/PMC3463246/">article</a> from Dr. Alegado describing a bacterial role in the development of this fascinating organism.</li> <li>An overview of the “<a href= "https://pmc.ncbi.nlm.nih.gov/articles/PMC6630404/">One Health</a>” concept linking human interactions, animals, plants, the land, and the ocean.</li> <li>A <a href= "https://factor.niehs.nih.gov/2023/6/science-highlights/biodiversity-indigenous-lands">focus</a> of Dr. Alegado’s group research involving the indigenous Hawai’ian fishponds.</li> <li>An <a href= "https://www.fisheries.noaa.gov/feature-story/hawaiian-fishponds-providing-physical-and-cultural-sustenance#:~:text=A%20growing%20network%20of%20fishpond,the%20region's%20traditional%20aquaculture%20ponds.&text=Community%20members%20come%20together%20to,of%20a%20traditional%20Hawaiian%20fishpond.">overview</a> of community restoration of these ancient structures.</li> <li>The role of <a href= "http://hbs.bishopmuseum.org/botany/taro/key/HawaiianKalo/Media/Html/whatistaro.html">taro</a> in ethnobotany.</li> <li>A fine <a href= "https://localbiodiversityoutlooks.net/loko-i%CA%BBa-indigenous-aquaculture-and-mariculture-in-hawai%CA%BBi-usa/#:~:text=While%20techniques%20of%20herding%20or,'a%20(fish%20farmer).">description</a> of indigenous Hawai’ian mariculture.</li> <li>The concept of <a href= "https://link.springer.com/article/10.1007/s13752-024-00473-5">dysbiosis</a>.</li> <li><a href= "https://www.nhc.noaa.gov/data/tcr/CP012014_Wali.pdf">Tropical storm Wali</a>, which impacted the Hawai’ian Islands.</li> <li>An overview of <a href= "https://docs.onecodex.com/en/articles/4136553-alpha-diversity">alpha diversity</a> and <a href= "https://docs.onecodex.com/en/articles/4150649-beta-diversity">beta diversity</a> in microbiome studies.</li> <li>A fine <a href= "https://www.amazon.com/Feeling-Organism-10th-Aniversary-McClintock/dp/0805074589">book</a> about <a href="https://www.nature.com/scitable/topicpage/barbara-mcclintock-and-the-discovery-of-jumping-34083/">Dr. Barbara McClintock</a>, “A Feeling for the Organism.”</li> <li>Here is a wonderful <a href= "https://youtu.be/MVI_yEqA2RE?si=9raL50FBW5f2vspg">video</a> in which Dr. Alegado describes the work of her research group and her interests in the fishponds of Hawai’i.</li> <li>Dr. Alegado’s <a href= "https://www.c-maiki.org/rosie-alegado">faculty website</a>.</li> <li>Dr. Alegado’s very interesting <a href= "http://mee-hawaii-lab.org/">research group website</a>.</li> </ul> <p>Intro music is by Reber Clark</p> <p>Send your questions and comments to [email protected]</p> </div>
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