Results 61 to 70 of about 503,920 (237)

TOFU-MAaPO: fast, scalable and reproducible analysis of large metagenome sequence data from the Sequence Read Archive

Nature Communications
Metagenomic shotgun sequencing data from over 600,000 metagenomes are publicly available in repositories such as NCBI’s Sequence Read Archive (SRA).
Eike Matthias Wacker, Malte Christoph Rühlemann, Andre Franke, David Ellinghaus   +3 more
doaj   +1 more source

Metagenome-Assembled Genome of a Novel Cyclobacteriaceae Epibiont of a Heterotrophic Diazotroph

Microbiology Resource Announcements, 2023
Here, we describe the metagenome-assembled genome (MAG) HetDA_MAG_SS2, in the family Cyclobacteriaceae . It was found in association with a HetDA cyanobiont isolated from a Station ALOHA Trichodesmium colony.
Michelle DeMers, Elaina D. Graham, John F. Heidelberg, Eric A. Webb   +3 more
openaire   +2 more sources

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

Mash Screen: high-throughput sequence containment estimation for genome discovery

Genome Biology, 2019
The MinHash algorithm has proven effective for rapidly estimating the resemblance of two genomes or metagenomes. However, this method cannot reliably estimate the containment of a genome within a metagenome.
Brian D. Ondov, Gabriel J. Starrett, Anna Sappington, Aleksandra Kostic, Sergey Koren, Christopher B. Buck, Adam M. Phillippy   +6 more
doaj   +1 more source

179 high quality metagenome-assembled genomes sequences and annotations

, 2022
We analyzed seven sediment samples collected adjacent to ferromanganese nodules from the Clarion–Clipperton Fracture Zone (CCFZ) in the eastern Pacific Ocean.
Zheng,Jinshui, Li,Xudong, Zhang,Dechao
core   +1 more source

Rainfall Shapes the Diversity of Soil Nitrogen‐Fixing Microorganisms Worldwide

Advanced Science, EarlyView.
This study reveals the distinctive pattern and mechanism of rainfall driving the global biodiversity and biogeography of soil potential N‐fixing microorganisms, and constructs the theoretical framework. The results guide us on how to maintain ecosystem productivity under future climate changes (e.g., whether a specific region needs more N fertilizers ...
Bin Hua, Shuang Pang, Ang Li, Zonghao Hu, Honghui Wu, Shuhan Zhang, Yi Fan, Yi Wu, Wei Yang, Yachao Zhao, Yupeng Guan, Baoming Ji, Deliang Kong, Yong Zhao, Anton A. Goncharov, Anastasia Yu. Korotkevich, Rong Mao, Yang Zhang, Ximei Zhang   +18 more
wiley   +1 more source

Evaluating and improving the representation of bacterial contents in long-read metagenome assemblies

Genome Biology
Background In the metagenomic assembly of a microbial community, abundant species are often thought to assemble well given their deeper sequencing coverage. This conjuncture is rarely tested or evaluated in practice.
Xiaowen Feng, Heng Li
doaj   +1 more source

Recovery of strain-resolved genomes from human microbiome through an integration framework of single-cell genomics and metagenomics

Microbiome, 2021
Background Obtaining high-quality (HQ) reference genomes from microbial communities is crucial for understanding the phylogeny and function of uncultured microbes in complex microbial ecosystems.
Koji Arikawa, Keigo Ide, Masato Kogawa, Tatsuya Saeki, Takuya Yoda, Taruho Endoh, Ayumi Matsuhashi, Haruko Takeyama, Masahito Hosokawa   +8 more
doaj   +1 more source

Chicken cecal metagenome assembled genomes

, 2019
We sequenced DNA from cecal contents samples taken from 24 chickens belonging to either a fast or slower growing breed consuming either a vegetable-only diet or a diet containing fish meal.
Glendinning, Laura; id_orcid, Glendinning, Laura, Royal (Dick) School of Veterinary Studies, Watson, Mick, Watson, Kellie, Pallen, Mark, Stewart, Robert   +6 more
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