Results 61 to 70 of about 537,462 (223)

Functional Insights into the Kelp Microbiome from Metagenome-Assembled Genomes

mSystems, 2022
Kelp (brown algae in the order Laminariales ) are foundational species that create essential habitat in temperate and arctic coastal marine ecosystems. These photosynthetic giants host millions of microbial taxa whose functions are relatively unknown, despite their potential importance for ...
Weigel, Brooke L., Miranda, Khashiff K., Fogarty, Emily C., Watson, Andrea R., Pfister, Catherine A.   +4 more
openaire   +4 more sources

MAGNETO: An Automated Workflow for Genome-Resolved Metagenomics

mSystems, 2022
Metagenome-assembled genomes (MAGs) represent individual genomes recovered from metagenomic data. MAGs are extremely useful to analyze uncultured microbial genomic diversity, as well as to characterize associated functional and metabolic potential in ...
Benjamin Churcheward, Maxime Millet, Audrey Bihouée, Guillaume Fertin, Samuel Chaffron   +4 more
doaj   +1 more source

Taxonomy bias in metagenome-assembled genome recovery

Microbial Genomics
The recovery of metagenome-assembled genomes (MAGs) from shotgun metagenomic sequencing is rapidly expanding the availability of representative genomes. However, this practice may skew the representation of specific taxa in real-world datasets.
Daniel J. Nebauer, Tiffanie Nelson, Caitlin Romanis, Brett A. Neilan, Verlaine J. Timms   +4 more
openaire   +3 more sources

Robust taxonomic classification of uncharted microbial sequences and bins with CAT and BAT

Genome Biology, 2019
Current-day metagenomics analyses increasingly involve de novo taxonomic classification of long DNA sequences and metagenome-assembled genomes. Here, we show that the conventional best-hit approach often leads to classifications that are too specific ...
F. A. Bastiaan von Meijenfeldt, Ksenia Arkhipova, Diego D. Cambuy, Felipe H. Coutinho, Bas E. Dutilh   +4 more
doaj   +1 more source

Metagenome assembled genomes of Alnus viridis spp. Fruticose nodules

, 2023
Table1. Sequencing output from nodule metagenomes Table2. Quality metrics for metagenome assembled genomes of Alnus viridis spp. Fruticose nodules.
Neslihan Tas (12964601)
core   +1 more source

Four Lentisphaerae Family Metagenome-Assembled Genomes from the South Atlantic Ocean [PDF]

, 2022
We present four Lentisphaerae metagenome-assembled genomes (MAGs) from the South Atlantic Ocean. The medium-quality genomes, affiliated with the family of Lentisphaeraceae, ranged from 4.86 to 5.46 Mbp and harbored the genetic capacity to produce ...
Bezuidt, Oliver Keoagile Ignatius, Makhalanyane, Thulani P., Makinde, Oluwatayo A., Makhalanyane, Thulani Peter, Bezuidt, Oliver K. I., Lunga, Percy Mutseka   +5 more
core   +1 more source

Deep Learning‐Driven Discovery and Engineering of an Efficient PETase for Depolymerization and Detoxification of PET Microplastics Under Physiological Conditions

Advanced Science, EarlyView.
A deep learning–driven pipeline mining 246 million protein sequences uncovers AhPETase, an evolutionarily distinct PET hydrolase. Engineered variant AhPETaseM1 degrades post‐consumer PET microplastics under physiological conditions and reverses microplasticinduced cytotoxicity in human lung and colon cells, establishing enzymatic microplastic ...
Yuxuan Wang, Shijie He, Yuheng Chang, Sheng Mao, Jianan Canal Li, Binbin Chen, Hongxun Gao, Mingchun Xu, Chenxu Liu, Yajie Wang   +9 more
wiley   +1 more source

Metagenome-assembled genomes of Macrocystis -associated bacteria

Microbiology Resource Announcements
ABSTRACT Microbes are important for the development of kelp, but little is understood about the functions encoded by these microbes. Here, we assembled 1,794 metagenome-associated genomes (MAGs) from bacteria that colonize gametophytes of the giant kelp Macrocystis pyrifera .
Emily G. Aguirre, Julia A. Schwartzman
openaire   +2 more sources

Functional–Taxonomic Scaling Resolves Conflicting Average Genome Size Estimates Across Environmental Gradients

Advanced Science, EarlyView.
Based on genome size‐functional breadth theory, we introduce and validate a framework that adjudicates conflicting average genome size (AGS) estimates by testing which estimate yields a gap between scaled functional diversity and scaled taxonomic diversity that is consistent with the expected positive association between genome size and gene functional
Huanhuan Zhu, Xiaoye Chen, Qiushi Li, Chenyu Sun, Haihua Xia, Yingxin Huang, Cong Wang, Peilin Chen, Cheng Gao   +8 more
wiley   +1 more source

Gut Microbiota‐Derived Indole‐3‐Propionic Acid Alleviates Diabetic Osteoporosis Through Nrf2‐Mediated Ferroptosis Suppression

Advanced Science, EarlyView.
Diabetes‐associated dysbiosis is accompanied by reduced Clostridium abundance, impaired microbial tryptophan metabolism, and lower circulating indole‐3‐propionic acid (IPA). Exogenous IPA improves trabecular microarchitecture and bone formation and restores Nrf2‐associated antioxidant signaling in bone marrow mesenchymal stem cells, limiting iron ...
Jinwu Bai, Qinyong You, Gao Si, Daole Hu, Ao Sun, Shilong Su, Ruideng Wang, Jixing Fan, Shan Gao, Tengjiao Zhu, Chun‐Li Song, Fang Zhou, Yang Lv   +12 more
wiley   +1 more source