Super-pangenome by integrating the wild side of a species for accelerated crop improvement

AW Khan, V Garg, M Roorkiwal, AA Golicz… - Trends in plant …, 2020 - cell.com
The pangenome provides genomic variations in the cultivated gene pool for a given species.
However, as the crop's gene pool comprises many species, especially wild relatives with …

Sequencing-based analysis of microbiomes

Y Pinto, AS Bhatt - Nature Reviews Genetics, 2024 - nature.com
Microbiomes occupy a range of niches and, in addition to having diverse compositions, they
have varied functional roles that have an impact on agriculture, environmental sciences, and …

1,520 reference genomes from cultivated human gut bacteria enable functional microbiome analyses

Y Zou, W Xue, G Luo, Z Deng, P Qin, R Guo… - Nature …, 2019 - nature.com
Reference genomes are essential for metagenomic analyses and functional characterization
of the human gut microbiota. We present the Culturable Genome Reference (CGR), a …

mcr-1 and mcr-2 (mcr-6.1) variant genes identified in Moraxella species isolated from pigs in Great Britain from 2014 to 2015

M AbuOun, EJ Stubberfield, NA Duggett… - Journal of …, 2017 - academic.oup.com
Objectives To determine the occurrence of mcr-1 and mcr-2 genes in Gram-negative
bacteria isolated from healthy pigs in Great Britain. Methods Gram-negative bacteria (n …

Neurospora intermedia from a traditional fermented food enables waste-to-food conversion

V Maini Rekdal, JM Villalobos-Escobedo… - Nature …, 2024 - nature.com
Fungal fermentation of food and agricultural by-products holds promise for improving food
sustainability and security. However, the molecular basis of fungal waste-to-food upcycling …

A commensal strain of Staphylococcus epidermidis protects against skin neoplasia

T Nakatsuji, TH Chen, AM Butcher, LL Trzoss… - Science …, 2018 - science.org
We report the discovery that strains of Staphylococcus epidermidis produce 6-N-
hydroxyaminopurine (6-HAP), a molecule that inhibits DNA polymerase activity. In culture, 6 …

Integrated genomic selection for accelerating breeding programs of climate-smart cereals

D Sinha, AK Maurya, G Abdi, M Majeed, R Agarwal… - Genes, 2023 - mdpi.com
Rapidly rising population and climate changes are two critical issues that require immediate
action to achieve sustainable development goals. The rising population is posing increased …

Roseobacters in a Sea of Poly- and Paraphyly: Whole Genome-Based Taxonomy of the Family Rhodobacteraceae and the Proposal for the Split of the “Roseobacter Clade” Into …

KYH Liang, FD Orata, YF Boucher… - Frontiers in Microbiology, 2021 - frontiersin.org
The family Rhodobacteraceae consists of alphaproteobacteria that are metabolically,
phenotypically, and ecologically diverse. It includes the roseobacter clade, an informal …

Screening for Fusarium Antagonistic Bacteria From Contrasting Niches Designated the Endophyte Bacillus halotolerans as Plant Warden Against Fusarium

HB Slama, H Cherif-Silini, A Chenari Bouket… - Frontiers in …, 2019 - frontiersin.org
Date palm (Phoenix dactylifera L.) plantations in North Africa are nowadays threatened with
the spread of the Bayoud disease caused by Fusarium oxysporum f. sp. albedinis, already …

First steps in the analysis of prokaryotic pan-genomes

SS Costa, LC Guimarães, A Silva… - … and Biology Insights, 2020 - journals.sagepub.com
Pan-genome is defined as the set of orthologous and unique genes of a specific group of
organisms. The pan-genome is composed by the core genome, accessory genome, and …