Bulk segregation analysis in the NGS era: a review of its teenage years

Z Li, Y Xu - The Plant Journal, 2022 - Wiley Online Library
Bulk segregation analysis (BSA) utilizes a strategy of pooling individuals with extreme
phenotypes to conduct economical and rapidly linked marker screening or quantitative trait …

Trehalose metabolism in plants

JE Lunn, I Delorge, CM Figueroa, P Van Dijck… - The Plant …, 2014 - Wiley Online Library
Trehalose is a quantitatively important compatible solute and stress protectant in many
organisms, including green algae and primitive plants. These functions have largely been …

KMC 3: counting and manipulating k-mer statistics

M Kokot, M Długosz, S Deorowicz - Bioinformatics, 2017 - academic.oup.com
Counting all k-mers in a given dataset is a standard procedure in many bioinformatics
applications. We introduce KMC3, a significant improvement of the former KMC2 algorithm …

Rapid gene isolation in barley and wheat by mutant chromosome sequencing

J Sánchez-Martín, B Steuernagel, S Ghosh, G Herren… - Genome biology, 2016 - Springer
Identification of causal mutations in barley and wheat is hampered by their large genomes
and suppressed recombination. To overcome these obstacles, we have developed …

Efficient genome-wide detection and cataloging of EMS-induced mutations using exome capture and next-generation sequencing

IM Henry, U Nagalakshmi, MC Lieberman… - The Plant …, 2014 - academic.oup.com
Chemical mutagenesis efficiently generates phenotypic variation in otherwise
homogeneous genetic backgrounds, enabling functional analysis of genes. Advances in …

Using next-generation sequencing to isolate mutant genes from forward genetic screens

K Schneeberger - Nature Reviews Genetics, 2014 - nature.com
The long-lasting success of forward genetic screens relies on the simple molecular basis of
the characterized phenotypes, which are typically caused by mutations in single genes …

Rice perception of symbiotic arbuscular mycorrhizal fungi requires the karrikin receptor complex

C Gutjahr, E Gobbato, J Choi, M Riemann… - Science, 2015 - science.org
In terrestrial ecosystems, plants take up phosphate predominantly via association with
arbuscular mycorrhizal fungi (AMF). We identified loss of responsiveness to AMF in the rice …

The current developments in medicinal plant genomics enabled the diversification of secondary metabolites' biosynthesis

MM Alami, Z Ouyang, Y Zhang, S Shu, G Yang… - International journal of …, 2022 - mdpi.com
Medicinal plants produce important substrates for their adaptation and defenses against
environmental factors and, at the same time, are used for traditional medicine and industrial …

Identification of rice Allene Oxide Cyclase mutants and the function of jasmonate for defence against Magnaporthe oryzae

M Riemann, K Haga, T Shimizu, K Okada… - The Plant …, 2013 - Wiley Online Library
Two photomorphogenic mutants of rice, coleoptile photomorphogenesis 2 (cpm2) and
hebiba, were found to be defective in the gene encoding allene oxide cyclase (Os AOC) by …

Detection and identification of genome editing in plants: challenges and opportunities

L Grohmann, J Keilwagen, N Duensing… - Frontiers in Plant …, 2019 - frontiersin.org
Conventional genetic engineering techniques generate modifications in the genome via
stable integration of DNA elements which do not occur naturally in this combination …