Microbial diversity in extreme environments

WS Shu, LN Huang - Nature Reviews Microbiology, 2022 - nature.com
A wide array of microorganisms, including many novel, phylogenetically deeply rooted taxa,
survive and thrive in extreme environments. These unique and reduced-complexity …

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

RM Bowers, NC Kyrpides, R Stepanauskas… - Nature …, 2017 - nature.com
We present two standards developed by the Genomic Standards Consortium (GSC) for
reporting bacterial and archaeal genome sequences. Both are extensions of the Minimum …

DRAM for distilling microbial metabolism to automate the curation of microbiome function

M Shaffer, MA Borton, BB McGivern… - Nucleic acids …, 2020 - academic.oup.com
Microbial and viral communities transform the chemistry of Earth's ecosystems, yet the
specific reactions catalyzed by these biological engines are hard to decode due to the …

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life

DH Parks, C Rinke, M Chuvochina, PA Chaumeil… - Nature …, 2017 - nature.com
Challenges in cultivating microorganisms have limited the phylogenetic diversity of currently
available microbial genomes. This is being addressed by advances in sequencing …

Bacterial chemolithoautotrophy via manganese oxidation

H Yu, JR Leadbetter - Nature, 2020 - nature.com
Manganese is one of the most abundant elements on Earth. The oxidation of manganese
has long been theorized—yet has not been demonstrated,–—to fuel the growth of …

Scientific novelty beyond the experiment

JE Hallsworth, Z Udaondo, C Pedrós‐Alió… - Microbial …, 2023 - Wiley Online Library
Practical experiments drive important scientific discoveries in biology, but theory‐based
research studies also contribute novel—sometimes paradigm‐changing—findings. Here, we …

Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy

CMK Sieber, AJ Probst, A Sharrar, BC Thomas… - Nature …, 2018 - nature.com
Microbial communities are critical to ecosystem function. A key objective of metagenomic
studies is to analyse organism-specific metabolic pathways and reconstruct community …

Major new microbial groups expand diversity and alter our understanding of the tree of life

CJ Castelle, JF Banfield - Cell, 2018 - cell.com
The recent recovery of genomes for organisms from phyla with no isolated representative
(candidate phyla) via cultivation-independent genomics enabled delineation of major new …

[HTML][HTML] A new view of the tree of life

LA Hug, BJ Baker, K Anantharaman, CT Brown… - Nature …, 2016 - nature.com
The tree of life is one of the most important organizing principles in biology 1. Gene surveys
suggest the existence of an enormous number of branches 2, but even an approximation of …

Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system

K Anantharaman, CT Brown, LA Hug, I Sharon… - Nature …, 2016 - nature.com
The subterranean world hosts up to one-fifth of all biomass, including microbial communities
that drive transformations central to Earth's biogeochemical cycles. However, little is known …