Mining genomes to illuminate the specialized chemistry of life

MH Medema, T de Rond, BS Moore - Nature Reviews Genetics, 2021 - nature.com
All organisms produce specialized organic molecules, ranging from small volatile chemicals
to large gene-encoded peptides, that have evolved to provide them with diverse cellular and …

Endophytic fungi: hidden treasure chest of antimicrobial metabolites interrelationship of endophytes and metabolites

P Jha, T Kaur, I Chhabra, A Panja, S Paul… - Frontiers in …, 2023 - frontiersin.org
Endophytic fungi comprise host-associated fungal communities which thrive within the
tissues of host plants and produce a diverse range of secondary metabolites with various …

PubChem in 2021: new data content and improved web interfaces

S Kim, J Chen, T Cheng, A Gindulyte, J He… - Nucleic acids …, 2021 - academic.oup.com
Abstract PubChem (https://pubchem. ncbi. nlm. nih. gov) is a popular chemical information
resource that serves the scientific community as well as the general public, with millions of …

The MetaCyc database of metabolic pathways and enzymes-a 2019 update

R Caspi, R Billington, IM Keseler, A Kothari… - Nucleic acids …, 2020 - academic.oup.com
MetaCyc (MetaCyc. org) is a comprehensive reference database of metabolic pathways and
enzymes from all domains of life. It contains 2749 pathways derived from more than 60 000 …

Systems biology and multi-omics integration: viewpoints from the metabolomics research community

FR Pinu, DJ Beale, AM Paten, K Kouremenos… - Metabolites, 2019 - mdpi.com
The use of multiple omics techniques (ie, genomics, transcriptomics, proteomics, and
metabolomics) is becoming increasingly popular in all facets of life science. Omics …

Plant Metabolic Network 15: A resource of genome‐wide metabolism databases for 126 plants and algae

C Hawkins, D Ginzburg, K Zhao… - Journal of integrative …, 2021 - Wiley Online Library
To understand and engineer plant metabolism, we need a comprehensive and accurate
annotation of all metabolic information across plant species. As a step towards this goal, we …

[HTML][HTML] MapMan4: a refined protein classification and annotation framework applicable to multi-omics data analysis

R Schwacke, GY Ponce-Soto, K Krause, AM Bolger… - Molecular plant, 2019 - cell.com
Genome sequences from over 200 plant species have already been published, with this
number expected to increase rapidly due to advances in sequencing technologies. Once a …

[HTML][HTML] The Rosa genome provides new insights into the domestication of modern roses

O Raymond, J Gouzy, J Just, H Badouin… - Nature …, 2018 - nature.com
Roses have high cultural and economic importance as ornamental plants and in the
perfume industry. We report the rose whole-genome sequencing and assembly and …

15 years of GDR: New data and functionality in the Genome Database for Rosaceae

S Jung, T Lee, CH Cheng, K Buble… - Nucleic acids …, 2019 - academic.oup.com
Abstract The Genome Database for Rosaceae (GDR, https://www. rosaceae. org) is an
integrated web-based community database resource providing access to publicly available …

Plant genetic effects on microbial hubs impact host fitness in repeated field trials

B Brachi, D Filiault, H Whitehurst… - Proceedings of the …, 2022 - National Acad Sciences
Although complex interactions between hosts and microbial associates are increasingly well
documented, we still know little about how and why hosts shape microbial communities in …