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Doubling Down on Known Protein Families
… we’ve already defined.  “A huge percentage — around 30–50% of the protein families that we knew so far — still does … more metagenomes, some of the clusters that have currently 50 members or more will grow to 100 members or more as well. …
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Nitrosococcus watsonii sp. nov., a new species of marine obligate ammonia‐oxidizing bacteria that is not omnipresent in the world's oceans: calls to validate the names ‘Nitrosococcus halophilus’ and ‘Nitrosomonas mobilis’
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A Collaboration to Improve Plant Genome Annotations Across Species
… Gene Atlas in  Nucleic Acids Research . The project spans 15 years and involves more than 17 research groups. The team … targets for plant improvement. Surprisingly, about 16 to 56 percent of plant genes are poorly characterized, meaning … plants did you all look at? Avinash: We started off with 12 plants, which are JGI Flagship Plants, mostly related to …
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Environmental Genomics Group
… into DNA by active microbial populations (Hungate et al. 2015). With the development of high-throughput SIP (Nuccio et … microbiomes. mSystems0:e01744-24. https://doi.org/10.1128/msystems.01744-24 Oliver, T., Varghese, N., Roux, S. et … Sci Data 11 , 966 (2024). https://doi.org/10.1038/s41597-024-03826-8 Nayfach, S., Roux, S., Seshadri, R. et al. A …
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Natural Prodcast Episode 22: Alison Narayan
… beautiful . It’s like, imagine like a conical tube, like a 50 mil Falcon tube, that visually looks like a piece of … using ancestral sequence reconstruction”,  PNAS.  2023,  120, e2218248120. doi : 10.1073/pnas.2218248120 …
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Frequently Asked Questions: Proposal Submission
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A Cost-Efficient Way to Convert Yeast into a Cell Factory for Hydroxyapatite
… $19 to make, and it could be sold in the United States for $50-200, generating a potential profit of $1.4 million … Department of Energy operated under Contract No. DE-AC02-05CH11231. Work at the Molecular Foundry was supported by the …
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Single Cell Research Group
… Anomaly” first described by Stanley and Konopa in 1985, which highlights our skewed understanding of microbial … Bacteria and Archaea has steadily been widening since 2005. This gap is also reflected in the strongly biased … and host interactions through global metagenomics.” Nature 578(7795): 432-436 (2020). Seshadri R., Leahy S. C., Attwood …
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Novel heavy metal resistance gene clusters are present in the genome of Cupriavidus neocaledonicus STM 6070, a new species of Mimosa pudica microsymbiont isolated from heavy-metal-rich mining site soil
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Hiroshi Otani
… H, Udwary DW, Doering DT, Mouncey NJ. Cytochromes P450 involved in bacterial RiPP biosyntheses. J Ind Microbiol Biotechnol. 2023 Feb 17;50(1):kuad005. Otani H, Udwary DW, Mouncey NJ. Comparative and … analysis of the genus Streptomyces. Sci Rep. 2022 Nov 7;12(1):18909. Otani H, Mouncey NJ. RIViT-seq enables …
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Cataloging the Microbes that Manage the Health of River Systems
… Environmental Research (BER) grants DE-SC0023084, DE-SC0021350, and DE-AC02-05CH11231. Partial support by US National Science Foundation …
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Complete genome sequence of the thermophilic, hydrogen-oxidizing Bacillus tusciae type strain (T2T) and reclassification in the new genus, Kyrpidia gen. nov. as Kyrpidia tusciae comb. nov. and emendation of the family Alicyclobacillaceae da Costa and
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