Chloroplast genomes: diversity, evolution, and applications in genetic engineering

H Daniell, CS Lin, M Yu, WJ Chang - Genome biology, 2016 - Springer
Chloroplasts play a crucial role in sustaining life on earth. The availability of over 800
sequenced chloroplast genomes from a variety of land plants has enhanced our …

Phylogenomics and the flowering plant tree of life

C Guo, Y Luo, LM Gao, TS Yi, HT Li… - Journal of Integrative …, 2023 - Wiley Online Library
The advances accelerated by next‐generation sequencing and long‐read sequencing
technologies continue to provide an impetus for plant phylogenetic study. In the past …

Genoty**-by-sequencing (GBS), an ultimate marker-assisted selection (MAS) tool to accelerate plant breeding

J He, X Zhao, A Laroche, ZX Lu, HK Liu… - Frontiers in plant …, 2014 - frontiersin.org
Marker-assisted selection (MAS) refers to the use of molecular markers to assist phenotypic
selections in crop improvement. Several types of molecular markers, such as single …

Scaling up: A guide to high‐throughput genomic approaches for biodiversity analysis

TM Porter, M Hajibabaei - Molecular ecology, 2018 - Wiley Online Library
The purpose of this review is to present the most common and emerging DNA‐based
methods used to generate data for biodiversity and biomonitoring studies. As environmental …

A robust, simple genoty**-by-sequencing (GBS) approach for high diversity species

RJ Elshire, JC Glaubitz, Q Sun, JA Poland… - PloS one, 2011 - journals.plos.org
Advances in next generation technologies have driven the costs of DNA sequencing down
to the point that genoty**-by-sequencing (GBS) is now feasible for high diversity, large …

Genoty**‐by‐sequencing for plant breeding and genetics

JA Poland, TW Rife - The plant genome, 2012 - Wiley Online Library
Rapid advances in “next‐generation” DNA sequencing technology have brought the US
$1000 human (Homo sapiens) genome within reach while providing the raw sequencing …

Plann: A command‐line application for annotating plastome sequences

DI Huang, QCB Cronk - Applications in plant sciences, 2015 - Wiley Online Library
Premise of the study: Plann automates the process of annotating a plastome sequence in
GenBank format for either downstream processing or for GenBank submission by annotating …

From algae to angiosperms–inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes

BR Ruhfel, MA Gitzendanner, PS Soltis… - BMC evolutionary …, 2014 - Springer
Background Next-generation sequencing has provided a wealth of plastid genome
sequence data from an increasingly diverse set of green plants (Viridiplantae). Although …

Navigating the tip of the genomic iceberg: Next‐generation sequencing for plant systematics

SCK Straub, M Parks, K Weitemier… - American journal of …, 2012 - Wiley Online Library
• Premise of the study: Just as Sanger sequencing did more than 20 years ago, next‐
generation sequencing (NGS) is poised to revolutionize plant systematics. By combining …

Target-enrichment strategies for next-generation sequencing

L Mamanova, AJ Coffey, CE Scott, I Kozarewa… - Nature …, 2010 - nature.com
We have not yet reached a point at which routine sequencing of large numbers of whole
eukaryotic genomes is feasible, and so it is often necessary to select genomic regions of …