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 …

Green giant—a tiny chloroplast genome with mighty power to produce high‐value proteins: history and phylogeny

H Daniell, S Jin, XG Zhu… - Plant biotechnology …, 2021 - Wiley Online Library
Free‐living cyanobacteria were entrapped by eukaryotic cells~ 2 billion years ago, ultimately
giving rise to chloroplasts. After a century of debate, the presence of chloroplast DNA was …

GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes

JJ Jin, WB Yu, JB Yang, Y Song, CW DePamphilis… - Genome biology, 2020 - Springer
GetOrganelle is a state-of-the-art toolkit to accurately assemble organelle genomes from
whole genome sequencing data. It recruits organelle-associated reads using a modified …

GetOrganelle: a simple and fast pipeline for de novo assembly of a complete circular chloroplast genome using genome skimming data

JJ Jian, WB Yu, JB Yang, Y Song, TS Yi, DZ Li - BioRxiv, 2018 - biorxiv.org
Background: Chloroplast genes and genomes are the most important genomic data for plant
phylogeny and DNA barcoding. Since the rapid development of high throughput sequencing …

Testing genome skimming for species discrimination in the large and taxonomically difficult genus Rhododendron

CN Fu, ZQ Mo, JB Yang, J Cai, LJ Ye… - Molecular Ecology …, 2022 - Wiley Online Library
Standard plant DNA barcodes based on 2–3 plastid regions, and nrDNA ITS show variable
levels of resolution, and fail to discriminate among species in many plant groups. Genome …

There and back again; historical perspective and future directions for Vaccinium breeding and research studies

PP Edger, M Iorizzo, NV Bassil… - Horticulture …, 2022 - academic.oup.com
Abstract The genus Vaccinium L.(Ericaceae) contains a wide diversity of culturally and
economically important berry crop species. Consumer demand and scientific research in …

Mimosoid legume plastome evolution: IR expansion, tandem repeat expansions and accelerated rate of evolution in clpP

DV Dugas, D Hernandez, EJM Koenen, E Schwarz… - Scientific reports, 2015 - nature.com
The Leguminosae has emerged as a model for studying angiosperm plastome evolution
because of its striking diversity of structural rearrangements and sequence variation …

The first complete chloroplast genome sequences in Actinidiaceae: genome structure and comparative analysis

X Yao, P Tang, Z Li, D Li, Y Liu, H Huang - PloS one, 2015 - journals.plos.org
Actinidia chinensis is an important economic plant belonging to the basal lineage of the
asterids. Availability of a complete Actinidia chloroplast genome sequence is crucial to …

Completion of the Chloroplast Genomes of Five Chinese Juglans and Their Contribution to Chloroplast Phylogeny

Y Hu, KE Woeste, P Zhao - Frontiers in Plant Science, 2017 - frontiersin.org
Juglans L.(walnuts and butternuts) is an economically and ecologically important genus in
the family Juglandaceae. All Juglans are important nut and timber trees. Juglans regia …

Comparative Analyses of Five Complete Chloroplast Genomes from the Genus Pterocarpus (Fabacaeae)

Z Hong, Z Wu, K Zhao, Z Yang, N Zhang, J Guo… - International Journal of …, 2020 - mdpi.com
Pterocarpus is a genus of trees mainly distributed in tropical Asia, Africa, and South America.
Some species of Pterocarpus are rosewood tree species, having important economic value …