Natural variations and genome-wide association studies in crop plants

X Huang, B Han - Annual review of plant biology, 2014 - annualreviews.org
Natural variants of crops are generated from wild progenitor plants under both natural and
human selection. Diverse crops that are able to adapt to various environmental conditions …

Targeted capture in evolutionary and ecological genomics

MR Jones, JM Good - Molecular ecology, 2016 - Wiley Online Library
The rapid expansion of next‐generation sequencing has yielded a powerful array of tools to
address fundamental biological questions at a scale that was inconceivable just a few years …

Using Drosophila melanogaster as a Model for Genotoxic Chemical Mutational Studies with a New Program, SnpSift

P Cingolani, VM Patel, M Coon, T Nguyen… - Frontiers in …, 2012 - frontiersin.org
This paper describes a new program SnpSift for filtering differential DNA sequence variants
between two or more experimental genomes after genotoxic chemical exposure. Here, we …

Multiplexed shotgun genotyping for rapid and efficient genetic mapping

P Andolfatto, D Davison, D Erezyilmaz, TT Hu… - Genome …, 2011 - genome.cshlp.org
We present a new approach to genotyping based on multiplexed shotgun sequencing that
can identify recombination breakpoints in a large number of individuals simultaneously at a …

[HTML][HTML] Genetic manipulation of genes and cells in the nervous system of the fruit fly

KJT Venken, JH Simpson, HJ Bellen - Neuron, 2011 - cell.com
Research in the fruit fly Drosophila melanogaster has led to insights in neural development,
axon guidance, ion channel function, synaptic transmission, learning and memory, diurnal …

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 …

Museum specimens: An overlooked and valuable material for conservation genetics

N Nakahama - Ecological Research, 2021 - Wiley Online Library
Museum specimens include genetic information from when they were collected. This
historical information, which is very difficult to ascertain from samples collected currently …

Library-free methylation sequencing with bisulfite padlock probes

D Diep, N Plongthongkum, A Gore, HL Fung… - Nature …, 2012 - nature.com
Targeted quantification of DNA methylation allows for interrogation of the most informative
loci across many samples quickly and cost-effectively. Here we report improved bisulfite …

Exome-wide DNA capture and next generation sequencing in domestic and wild species

T Cosart, A Beja-Pereira, S Chen, SB Ng, J Shendure… - BMC genomics, 2011 - Springer
Background Gene-targeted and genome-wide markers are crucial to advance evolutionary
biology, agriculture, and biodiversity conservation by improving our understanding of …

A diploid wheat TILLING resource for wheat functional genomics

N Rawat, SK Sehgal, A Joshi, N Rothe, DL Wilson… - BMC plant biology, 2012 - Springer
Background Triticum monococcum L., an A genome diploid einkorn wheat, was the first
domesticated crop. As a diploid, it is attractive genetic model for the study of gene structure …