The mechanisms by which the cell regulates its own activity is pretty amazing actually.
Learned about riboswitches this week, and I must say, #evolution is just brilliant. Absolutely brilliant.
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Just moved to Fosstodon! #introduction
Dad and husband in #Pennsylvania. I teach #biochemistry, #molecularbiology, and #microbiology (and #humanities) in #highered.
Daily #Emacs user since the late 80s, #GNU #Linux on and off since the 90s. Strictly #FreeSoftware since 2010s. #Debian, #GrapheneOS, #OrgMode and #Emacs for teaching and research.
#Japanese #日本語, #francais, y #espanol roto. #DnD and #books. Love #camping #hiking #walking #cycling #coding #elisp
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5/8 
The simulated Kd values for the Evening Complex binding overlapped with the empirical data on its DNA-binding protein LUX 
Simulated CCA1/LHY bound much less tightly than its measured Kd. Likely, the plant regulates these proteins in ways we haven’t modelled: future research directions!
We point to lots specific hypotheses, data and knowledge gaps, see Dataset EV1. We’re not pursuing any of them.
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Almost from the moment of conception, genetic mutations start to occur in our bodies, and they continue to do so through our lives. “Only in recent years has technology been sensitive enough to catalog every genetic booboo. And it’s revealed we’re riddled with errors,” writes Amber Dance for @KnowableMag. Here’s her story on the causes and consequences of these.
https://knowablemagazine.org/content/article/health-disease/2024/we-are-all-genetic-mosaics-clones
Knowable Magazine | Annual ReviewsWe are all mosaicsPicture your body: It’s a collection of cells carrying thousands of genetic mistakes accrued over a lifetime — many harmless, some bad, and at least a few that may be good for you.
Hey yeast researchers,
Do you use frozen competent yeast cells for PCR-mediated integrations? What protocol do you use?
I'm thinking that this might save my lab a lot of time if they work reliably.
We’re hiring!
Join our lab at the Max Planck Institute for Biological Intelligence in Munich. Open positions for Postdocs, PhD students, Master’s students, and Technicians to work on wet lab molecular biology projects exploring gene regulation and neuronal diversity.
More information here: https://mayerlab.net/join-us/
mayerlab.netJoin us – mayerlab
It turns out DNA was much much bigger than we thought. And circular.
#Science #Research #MolecularBiology
Scientists recreate mouse stem cells f. gene older than animal life
https://www.sciencedaily.com/releases/2024/11/241118125716.htm
* unicellular Sox, POU transcription factors
* created mouse stem cells capable of gen. fully dev. mouse
* reshapes understanding of genetic/evol. origins of stem cells
* poss. critical for advent of stem cells, multicellularity
Emergence of Sox & POU transcript. factors predates origins of animal stem cells
https://www.nature.com/articles/s41467-024-54152-x
Memories are not only in the brain
https://www.sciencedaily.com/releases/2024/11/241107193111.htm
* in vitro (cell culture), mouse cells
* Study shows kidney & nerve tissue cells learn & make memories in ways similar to neurons
Massed-spaced learning effect in non-neural human cells
https://www.nature.com/articles/s41467-024-53922-x
Comment:
* neat if true (good university: NYU; top journal)
* aside: I recall reading non-nasal cells contain olfactory receptors, e.g.
https://www.nature.com/articles/d41586-022-01631-0
Researchers challenge longstanding theories in cellular reprogramming
https://www.sciencedaily.com/releases/2024/11/241101123641.htm
* claim: neural crest stem cells = source of reprogrammed neurons found by other researchers
* refutes: any developed cell can be induced to switch identity to completely unrelated cell type thru infusion of transcription factors
Neural crest precursors f. skin are primary source of directly reprogrammed neurons
https://www.cell.com/stem-cell-reports/fulltext/S2213-6711(24)00291-1
Need recommendations for higher level #biology audiobooks!
Particularly, I'm interested in topics like #CellBiology, #MolecularBiology, #Physiology, or biology-focused #medicine. I'm a biology student halway through my bachelor and so I'm not looking for a layman's book that spends lots of time on things I already know, instead I'm seeking something to supplement my university studies.
Glad to see the last work of my PhD, on the protein-protein interaction specificity of the MADS-box transcription factor family, now out in NAR.
Uncoupling FRUITFULL’s functions through modification of a protein motif identified by co-ortholog analysis: https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae963/7850959
OUP AcademicUncoupling FRUITFULL’s functions through modification of a protein motif identified by co-ortholog analysisAbstract. Many plant transcription factors (TFs) are multifunctional and regulate growth and development in more than one tissue. These TFs can generally a
Creating simplified form of life: How do lifeless molecules form living cells?
https://www.sciencedaily.com/releases/2024/10/241021123151.htm
Synthetic syntrophy for adenine nucleotide cross-feeding betw. metabolically active nanoreactors
* energy conversion, cross-feeding of products between synthetic cells
2. Chemiosmotic nutrient transport in synth. cells powered by electrogenic antiport coupled to decarboxylation
* concentrating & converting nutrients in cells
Dear FisherBrand,
If you sell centrifuge tubes shouldn't they actually fit in a centrifuge?
Our most recent batch, the lids are too large to place next to another in the centrifuge.
I mean you call them centrifuge tubes, not conical tubes so I'm not using the wrong thing?!
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TGF-β-induced DACT1 biomolecular condensates repress Wnt signalling to promote bone metastasis
https://www.nature.com/articles/s41556-021-00641-w
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Understudied protein blobs have global effects on cell biochemistry
https://phys.org/news/2024-09-understudied-protein-blobs-global-effects.html
https://news.ycombinator.com/item?id=41602473
Biomolecular condensates regulate cellular electrochemical equilibria
https://www.cell.com/cell/abstract/S0092-8674(24)00909-7
NatureTGF-β-induced DACT1 biomolecular condensates repress Wnt signalling to promote bone metastasis - Nature Cell BiologyEsposito et al. show that TGF-β-induced DACT1 forms biomolecular condensates that sequester CK2 to repress Wnt signalling and modulate bone metastasis in cancer.
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A Newfound Source of Cellular Order in the Chemistry of Life
Inside cells, droplets of biomolecules called condensates merge, divide and dissolve
Their dance may regulate vital processes
https://www.quantamagazine.org/a-newfound-source-of-cellular-order-in-the-chemistry-of-life-20210107
Quanta Magazine · A Newfound Source of Cellular Order in the Chemistry of LifeInside cells, droplets of biomolecules called condensates merge, divide and dissolve. Their dance may regulate vital processes.
Are you still using methanol in your western blots?
PSA-you can omit it or replace it with ethanol. We omitted it in 2009 and haven't noticed a difference.
PubMed Central (PMC)Comprehensive Optimization of Western BlottingWestern blotting is one of the most extensively used techniques in the biomedical field. However, it is criticized by many researchers due to its considerable time consumption, multiple steps, and low method results. Therefore, we modified the steps of ...
Hi, All. I'm looking to join/nucleate a support accountability group for mid-career molecular biosciences people. Basically, it would be a weekly or more frequent check-in on goals and struggles. Do you have any suggestions?
Prevalence of Problematic Papers in Non-Coding RNA Research
https://www.biorxiv.org/content/10.1101/2024.08.28.607530v1?rss=1
* prevalence of problematic papers in field of non-coding RNA (ncRNA) research
* 1.79% retracted; 5.68% raised concerns on PubPeer
* unreliable papers widely disseminated
* hundreds of thousands citations
* significant threat to research integrity / public health
bioRxiv · Prevalence of Problematic Papers in Non-Coding RNA ResearchThis study examines the prevalence of problematic papers in the rapidly growing field of non-coding RNA (ncRNA) research. Analysis of 153,826 ncRNA papers during 2000-2023 reveals that around 1.79% have been retracted and an additional 5.68% have raised concerns on PubPeer. The number of problematic papers has steadily increased, peaking in 2019 when the concerning and retraction rates reached nearly 10.8% and 3.7%, respectively. These unreliable papers have been widely disseminated, accumulating hundreds of thousands of citations in academic literature, patents, clinical trials, and policy documents, posing a significant threat to research integrity and public health. The main issues identified include image manipulation, data falsification, fake peer reviews, and ethical lapses. The findings call for urgent, comprehensive scrutiny of ncRNA publications and broader reforms to address systemic problems driving the proliferation of problematic research.
### Competing Interest Statement
The authors have declared no competing interest.