PlantTribes2: Tools for comparative gene family analysis in plant genomics
Plant genome-scale resources are being generated at an increasing rate as sequencing
technologies continue to improve and raw data costs continue to fall; however, the cost of …
technologies continue to improve and raw data costs continue to fall; however, the cost of …
Genome‐wide identification studies–A primer to explore new genes in plant species
I Safder, G Shao, Z Sheng, P Hu, S Tang - Plant Biology, 2022 - Wiley Online Library
Genome data have accumulated rapidly in recent years, doubling roughly after every 6
months due to the influx of next‐generation sequencing technologies. A plethora of plant …
months due to the influx of next‐generation sequencing technologies. A plethora of plant …
PLAZA: a comparative genomics resource to study gene and genome evolution in plants
The number of sequenced genomes of representatives within the green lineage is rapidly
increasing. Consequently, comparative sequence analysis has significantly altered our view …
increasing. Consequently, comparative sequence analysis has significantly altered our view …
Tapping the promise of genomics in species with complex, nonmodel genomes
CN Hirsch, C Robin Buell - Annual review of plant biology, 2013 - annualreviews.org
Genomics is enabling a renaissance in all disciplines of plant biology. However, many plant
genomes are complex and remain recalcitrant to current genomic technologies. The …
genomes are complex and remain recalcitrant to current genomic technologies. The …
GET_PANGENES: calling pangenes from plant genome alignments confirms presence-absence variation
B Contreras-Moreira, S Saraf, G Naamati, AM Casas… - Genome Biology, 2023 - Springer
Crop pangenomes made from individual cultivar assemblies promise easy access to
conserved genes, but genome content variability and inconsistent identifiers hamper their …
conserved genes, but genome content variability and inconsistent identifiers hamper their …
[HTML][HTML] From plant genomes to phenotypes
M Bolger, R Schwacke, H Gundlach, T Schmutzer… - Journal of …, 2017 - Elsevier
Recent advances in sequencing technologies have greatly accelerated the rate of plant
genome and applied breeding research. Despite this advancing trend, plant genomes …
genome and applied breeding research. Despite this advancing trend, plant genomes …
A graph-based pan-genome guides biological discovery
The availability of reference genomes has been the foundation for genomics research in the
last decade. However, as reports of presence/absence variations of sequence and genes …
last decade. However, as reports of presence/absence variations of sequence and genes …
PlantGDB: a resource for comparative plant genomics
J Duvick, A Fu, U Muppirala, M Sabharwal… - Nucleic acids …, 2007 - academic.oup.com
Abstract PlantGDB (http://www. plantgdb. org/) is a genomics database encompassing
sequence data for green plants (Viridiplantae). PlantGDB provides annotated transcript …
sequence data for green plants (Viridiplantae). PlantGDB provides annotated transcript …
JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom
Gene functional descriptions offer a crucial line of evidence for candidate genes underlying
trait variation. Conversely, plant responses to environmental cues represent important …
trait variation. Conversely, plant responses to environmental cues represent important …
Technology-enabled great leap in deciphering plant genomes
L Xie, X Gong, K Yang, Y Huang, S Zhang, L Shen… - Nature Plants, 2024 - nature.com
Plant genomes provide essential and vital basic resources for studying many aspects of
plant biology and applications (for example, breeding). From 2000 to 2020, 1,144 genomes …
plant biology and applications (for example, breeding). From 2000 to 2020, 1,144 genomes …