Machine learning and deep learning applications in microbiome research

R Hernández Medina, S Kutuzova… - ISME …, 2022 - academic.oup.com
The many microbial communities around us form interactive and dynamic ecosystems called
microbiomes. Though concealed from the naked eye, microbiomes govern and influence …

[HTML][HTML] Bacteria-driven phthalic acid ester biodegradation: Current status and emerging opportunities

R Hu, H Zhao, X Xu, Z Wang, K Yu, L Shu, Q Yan… - Environment …, 2021 - Elsevier
The extensive use of phthalic acid esters (PAEs) has led to their widespread distribution
across various environments. As PAEs pose significant threats to human health, it is urgent …

[HTML][HTML] Cross-kingdom synthetic microbiota supports tomato suppression of Fusarium wilt disease

X Zhou, J Wang, F Liu, J Liang, P Zhao… - Nature …, 2022 - nature.com
The role of rhizosphere microbiota in the resistance of tomato plant against soil-borne
Fusarium wilt disease (FWD) remains unclear. Here, we showed that the FWD incidence …

[HTML][HTML] The genomic landscape of reference genomes of cultivated human gut bacteria

X Lin, T Hu, J Chen, H Liang, J Zhou, Z Wu… - Nature …, 2023 - nature.com
Culture-independent metagenomic studies have revolutionized our understanding of the gut
microbiota. However, the lack of full genomes from cultured species is still a limitation for in …

[HTML][HTML] A social niche breadth score reveals niche range strategies of generalists and specialists

FAB von Meijenfeldt, P Hogeweg… - Nature Ecology & Evolution, 2023 - nature.com
Generalists can survive in many environments, whereas specialists are restricted to a single
environment. Although a classical concept in ecology, niche breadth has remained …

Metabolomics and genomics in natural products research: complementary tools for targeting new chemical entities

LK Caesar, R Montaser, NP Keller… - Natural product reports, 2021 - pubs.rsc.org
Covering: 2010 to 2021 Organisms in nature have evolved into proficient synthetic chemists,
utilizing specialized enzymatic machinery to biosynthesize an inspiring diversity of …

Metabolic exchanges are ubiquitous in natural microbial communities

C Kost, KR Patil, J Friedman, SL Garcia… - Nature Microbiology, 2023 - nature.com
Microbial communities drive global biogeochemical cycles and shape the health of plants
and animals—including humans. Their structure and function are determined by ecological …

Harnessing the power of model organisms to unravel microbial functions in the coral holobiont

G Puntin, M Sweet, S Fraune, M Medina… - Microbiology and …, 2022 - Am Soc Microbiol
Stony corals build the framework of coral reefs, ecosystems of immense ecological and
economic importance. The existence of these ecosystems is threatened by climate change …

Long-read metagenomics paves the way toward a complete microbial tree of life

M Albertsen - Nature Methods, 2023 - nature.com
Long-read metagenomics paves the way toward a complete microbial tree of life | Nature
Methods Skip to main content Thank you for visiting nature.com. You are using a browser …

Microbiota in tumors: from understanding to application

Y Xie, F Xie, X Zhou, L Zhang, B Yang… - Advanced …, 2022 - Wiley Online Library
Microbes with complex functions have been found to be a potential component in tumor
microenvironments. Due to their low biomass and other obstacles, intratumor microbiota is …