Recovering complete and draft population genomes from metagenome datasets

N Sangwan, F Xia, JA Gilbert - Microbiome, 2016 - Springer
Assembly of metagenomic sequence data into microbial genomes is of fundamental value to
improving our understanding of microbial ecology and metabolism by elucidating the …

Sounds of silence: synonymous nucleotides as a key to biological regulation and complexity

SA Shabalina, NA Spiridonov… - Nucleic acids research, 2013 - academic.oup.com
Messenger RNA is a key component of an intricate regulatory network of its own. It
accommodates numerous nucleotide signals that overlap protein coding sequences and are …

Unifying the global phylogeny and environmental distribution of ammonia-oxidising archaea based on amoA genes

RJE Alves, BQ Minh, T Urich, A von Haeseler… - Nature …, 2018 - nature.com
Ammonia-oxidising archaea (AOA) are ubiquitous and abundant in nature and play a major
role in nitrogen cycling. AOA have been studied intensively based on the amoA gene …

Life-history strategies of soil microbial communities in an arid ecosystem

Y Chen, JW Neilson, P Kushwaha, RM Maier… - The ISME …, 2021 - academic.oup.com
The overwhelming taxonomic diversity and metabolic complexity of microorganisms can be
simplified by a life-history classification; copiotrophs grow faster and rely on resource …

Revisiting the Taxonomy of the Genus Arcobacter: Getting Order From the Chaos

A Pérez-Cataluña, N Salas-Massó… - Frontiers in …, 2018 - frontiersin.org
Since the description of the genus Arcobacter in 1991, a total of 27 species have been
described, although some species have shown 16S rRNA similarities below 95%, which is …

Codon usage bias and environmental adaptation in microbial organisms

D Arella, M Dilucca, A Giansanti - Molecular Genetics and Genomics, 2021 - Springer
In each genome, synonymous codons are used with different frequencies; this general
phenomenon is known as codon usage bias. It has been previously recognised that codon …

[HTML][HTML] Degradation of host translational machinery drives tRNA acquisition in viruses

JY Yang, W Fang, F Miranda-Sanchez, JM Brown… - Cell Systems, 2021 - cell.com
Viruses are traditionally thought to be under selective pressure to maintain compact
genomes and thus depend on host cell translational machinery for reproduction. However …

Lifestyle transitions in fusarioid fungi are frequent and lack clear genomic signatures

R Hill, RJA Buggs, DT Vu, E Gaya - Molecular Biology and …, 2022 - academic.oup.com
Abstract The fungal genus Fusarium (Ascomycota) includes well-known plant pathogens
that are implicated in diseases worldwide, and many of which have been genome …

[HTML][HTML] Risk assessment and dissemination mechanism of antibiotic resistance genes in compost

Y Xu, L Zhu, S Chen, H Wu, R Li, J Li, J Yuan… - Environment …, 2023 - Elsevier
In recent years, the excessive of antibiotics in livestock and poultry husbandry, stemming
from extensive industry experience, has resulted in the accumulation of residual antibiotics …

Repertoires of tRNAs: the couplers of genomics and proteomics

R Rak, O Dahan, Y Pilpel - Annual review of cell and …, 2018 - annualreviews.org
The pool of transfer RNA (tRNA) molecules in cells allows the ribosome to decode genetic
information. This repertoire of molecular decoders is positioned in the crossroad of the …