Ancient plant genomics in archaeology, herbaria, and the environment

L Kistler, VC Bieker, MD Martin… - Annual review of …, 2020 - annualreviews.org
The ancient DNA revolution of the past 35 years has driven an explosion in the breadth,
nuance, and diversity of questions that are approachable using ancient biomolecules, and …

[HTML][HTML] Genome skimming herbarium specimens for DNA barcoding and phylogenomics

CX Zeng, PM Hollingsworth, J Yang, ZS He, ZR Zhang… - Plant Methods, 2018 - Springer
Background The world's herbaria contain millions of specimens, collected and named by
thousands of researchers, over hundreds of years. However, this treasure has remained …

[HTML][HTML] De novo hybrid assembly of the salvia miltiorrhiza mitochondrial genome provides the first evidence of the multi-chromosomal mitochondrial DNA structure of …

H Yang, H Chen, Y Ni, J Li, Y Cai, B Ma, J Yu… - International Journal of …, 2022 - mdpi.com
Salvia miltiorrhiza has been an economically important medicinal plant. Previously, an S.
miltiorrhiza mitochondrial genome (mitogenome) assembled from Illumina short reads …

Phylogenomics using low‐depth whole genome sequencing: A case study with the olive tribe

JK Olofsson, I Cantera, C Van de Paer… - Molecular ecology …, 2019 - Wiley Online Library
Species trees have traditionally been inferred from a few selected markers, and genome‐
wide investigations remain largely restricted to model organisms or small groups of species …

[HTML][HTML] Herbarium-based science in the twenty-first century

G Besnard, M Gaudeul, S Lavergne, S Muller… - Botany …, 2018 - Taylor & Francis
Herbarium collections are natural history collections and as such, are repositories of plant
biodiversity and have been central to botanical knowledge for over four centuries. The Index …

Conflicting results from mitochondrial genomic data challenge current views of Rubiaceae phylogeny

C Rydin, N Wikström, B Bremer - American Journal of Botany, 2017 - Wiley Online Library
PREMISE OF THE STUDY: Reconstruction of plant phylogeny has heavily relied on single‐
gene or multigene plastid data. New sequencing methods have led to an increasing number …

Herbarium genomics: skimming and plastomics from archival specimens

FT Bakker - Webbia, 2017 - Taylor & Francis
Using massive parallel sequencing, which has become known as second-generation
sequencing, some of the classic roadblocks to using herbarium DNA have been overcome …

[HTML][HTML] Resolving the phylogeny of the olive family (Oleaceae): confronting information from organellar and nuclear genomes

J Dupin, P Raimondeau, C Hong-Wa, S Manzi… - Genes, 2020 - mdpi.com
The olive family, Oleaceae, is a group of woody plants comprising 28 genera and ca. 700
species, distributed on all continents (except Antarctica) in both temperate and tropical …

A comprehensive phylogenomic study of the monocot order Commelinales, with a new classification of Commelinaceae

AR Zuntini, LP Frankel, L Pokorny… - American Journal of …, 2021 - Wiley Online Library
Premise Resolving relationships within order Commelinales has posed quite a challenge,
as reflected in its unstable infra‐familial classification. Thus, we investigated (1) …

Prospects on the evolutionary mitogenomics of plants: A case study on the olive family (Oleaceae)

C Van de Paer, O Bouchez… - Molecular ecology …, 2018 - Wiley Online Library
The mitogenome is rarely used to reconstruct the evolutionary history of plants, contrary to
nuclear and plastid markers. Here, we evaluate the usefulness of mitochondrial DNA for …